Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 47 of 91
Found at i:16495913 original size:32 final size:31
Alignment explanation
Indices: 16495876--16495944 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 31
16495866 TTAAAATAAA
* *
16495876 AAAATTAGAATAAATATATAACATAAG-AATT
1 AAAATTAAAATAAA-ATAAAACATAAGAAATT
*
16495907 AGAAATTAAAATAAAATAAAATATAAGAAATT
1 A-AAATTAAAATAAAATAAAACATAAGAAATT
16495939 AAAATT
1 AAAATT
16495945 TATATAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 16 0.48
32 17 0.52
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (31 bp):
AAAATTAAAATAAAATAAAACATAAGAAATT
Found at i:16496017 original size:55 final size:55
Alignment explanation
Indices: 16495907--16496044 Score: 124
Period size: 55 Copynumber: 2.5 Consensus size: 55
16495897 CATAAGAATT
* * * **
16495907 AGAAATTAAAATAAAATAAAATATAAGAAATTAAAATTTATATAATATAGGTAAA
1 AGAAATTAAAATAAAATAAAATATAAAAAATTAAAATTTAAAGAATATAAATAAA
*
16495962 AGAAATTAAAATAAAATATATAATATAAAAAATT-ATA-TTAAAGAA-ATGAAATAAA
1 AGAAATTAAAATAAAATA-A-AATATAAAAAATTAAAATTTAAAGAATAT-AAATAAA
* * *
16496017 ATAAA-TAATATTATAATAAAA-ATAAAAA
1 AGAAATTAA-AATAAAATAAAATATAAAAA
16496045 TAGAATATAT
Statistics
Matches: 70, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
52 7 0.10
53 2 0.03
54 6 0.09
55 40 0.57
56 3 0.04
57 12 0.17
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (55 bp):
AGAAATTAAAATAAAATAAAATATAAAAAATTAAAATTTAAAGAATATAAATAAA
Found at i:16496286 original size:15 final size:15
Alignment explanation
Indices: 16496266--16496321 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
16496256 CTATTTTCTC
* *
16496266 TGCAATCACTTTGCT
1 TGCAATCACATTACT
16496281 TGCAATCACATTACT
1 TGCAATCACATTACT
*
16496296 TGCAATCACATTACC
1 TGCAATCACATTACT
*
16496311 TGTAATCACAT
1 TGCAATCACAT
16496322 CGCATTGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (15 bp):
TGCAATCACATTACT
Found at i:16497234 original size:11 final size:11
Alignment explanation
Indices: 16497220--16497244 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16497210 ACGTAATAAA
16497220 TTAATAATATT
1 TTAATAATATT
16497231 TTAATAATATT
1 TTAATAATATT
16497242 TTA
1 TTA
16497245 TTAAGGTCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTAATAATATT
Found at i:16499476 original size:31 final size:30
Alignment explanation
Indices: 16499440--16499502 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 30
16499430 CCACGATATG
16499440 TGATATATATATACGTGGCAAGGCCACGGGA
1 TGATATA-ATATACGTGGCAAGGCCACGGGA
16499471 TG-----ATATACGTGGCAAGGCCACGGGA
1 TGATATAATATACGTGGCAAGGCCACGGGA
16499496 TGATATA
1 TGATATA
16499503 CGTGGCTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 11
0.71 0.00 0.29
Matches are distributed among these distances:
25 25 0.93
31 2 0.07
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (30 bp):
TGATATAATATACGTGGCAAGGCCACGGGA
Found at i:16499482 original size:25 final size:25
Alignment explanation
Indices: 16499448--16499532 Score: 134
Period size: 25 Copynumber: 3.4 Consensus size: 25
16499438 TGTGATATAT
16499448 ATATACGTGGCAAGGCCACGGGATG
1 ATATACGTGGCAAGGCCACGGGATG
16499473 ATATACGTGGCAAGGCCACGGGATG
1 ATATACGTGGCAAGGCCACGGGATG
* ** *
16499498 ATATACGTGGCTAGGCCACCAGTTG
1 ATATACGTGGCAAGGCCACGGGATG
16499523 ATATACGTGG
1 ATATACGTGG
16499533 TTGCGACCAC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.27, C:0.20, G:0.33, T:0.20
Consensus pattern (25 bp):
ATATACGTGGCAAGGCCACGGGATG
Found at i:16501094 original size:23 final size:23
Alignment explanation
Indices: 16501064--16501122 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
16501054 GCACATGAGC
16501064 TGATGATGATGGGATAGTGTGCA
1 TGATGATGATGGGATAGTGTGCA
*
16501087 TGATGATGATGGGATGGTGTGCA
1 TGATGATGATGGGATAGTGTGCA
16501110 TGATGATGATGGG
1 TGATGATGATGGG
16501123 TACATATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.24, C:0.03, G:0.42, T:0.31
Consensus pattern (23 bp):
TGATGATGATGGGATAGTGTGCA
Found at i:16508498 original size:11 final size:11
Alignment explanation
Indices: 16508482--16508509 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
16508472 CACTGTAAAT
16508482 TTTAAAACAAC
1 TTTAAAACAAC
16508493 TTTAAAACAAC
1 TTTAAAACAAC
16508504 TTTAAA
1 TTTAAA
16508510 CCCAAAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:16515608 original size:25 final size:25
Alignment explanation
Indices: 16515576--16515632 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
16515566 CATGGTCCGT
16515576 GATG-TATACGTGCCAAGGCCAAGG
1 GATGATATACGTGCCAAGGCCAAGG
* * *
16515600 GATGATATACGTGGCTAGGCCATGG
1 GATGATATACGTGCCAAGGCCAAGG
16515625 G-TGATATA
1 GATGATATA
16515633 TGCGGTTGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.23
Consensus pattern (25 bp):
GATGATATACGTGCCAAGGCCAAGG
Found at i:16520120 original size:43 final size:43
Alignment explanation
Indices: 16520073--16520195 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
16520063 CATCATCCCA
* * **
16520073 TCATCCCTAACTCATGCGCACTCCCTACTCGCACATGGCTAG-G
1 TCATCCCTGACTTATGCGCACTCCCTACTCGCACAT-AATAGAG
** *
16520116 TCATCACC-GGGTTATGCGCACTCCCTACTCGCACATAATCGAG
1 TCATC-CCTGACTTATGCGCACTCCCTACTCGCACATAATAGAG
**
16520159 TCATCATTGACTTATGCGCACTCCCTACTCGCACATA
1 TCATCCCTGACTTATGCGCACTCCCTACTCGCACATA
16520196 GCCAAGTCAA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 2 0.03
43 62 0.94
44 2 0.03
ACGTcount: A:0.23, C:0.37, G:0.15, T:0.25
Consensus pattern (43 bp):
TCATCCCTGACTTATGCGCACTCCCTACTCGCACATAATAGAG
Found at i:16520204 original size:43 final size:43
Alignment explanation
Indices: 16520086--16520204 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 43
16520076 TCCCTAACTC
* * * **
16520086 ATGCGCACTCCCTACTCGCACATGGCTAGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAGCCAAGTCATCACCGACTT
** * **
16520129 ATGCGCACTCCCTACTCGCACATAATCGAGTCATCATTGACTT
1 ATGCGCACTCCCTACTCGCACATAGCCAAGTCATCACCGACTT
16520172 ATGCGCACTCCCTACTCGCACATAGCCAAGTCA
1 ATGCGCACTCCCTACTCGCACATAGCCAAGTCA
16520205 ATGTCATTAC
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAGCCAAGTCATCACCGACTT
Found at i:16522977 original size:20 final size:19
Alignment explanation
Indices: 16522952--16523016 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 19
16522942 TAAAAAATAT
16522952 CAAAAGCAAGAAAAGAGAAA
1 CAAAAGCAAGAAAAGA-AAA
*
16522972 CAAAAGAACAAAAAAAGAACAA
1 CAAAAG--CAAGAAAAGAA-AA
* * *
16522994 CAAGAGAAAGAGAAGAAAA
1 CAAAAGCAAGAAAAGAAAA
16523013 CAAA
1 CAAA
16523017 GATAGGGTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
19 5 0.14
20 14 0.39
21 1 0.03
22 16 0.44
ACGTcount: A:0.72, C:0.11, G:0.17, T:0.00
Consensus pattern (19 bp):
CAAAAGCAAGAAAAGAAAA
Found at i:16523441 original size:39 final size:39
Alignment explanation
Indices: 16523361--16523494 Score: 114
Period size: 39 Copynumber: 3.5 Consensus size: 39
16523351 AGGCATTTGG
* *
16523361 TTGTAAAGGTTGTGCTTGATCTTAAAAAGGCAGTGACTT
1 TTGTAAAGGTTGTGCTTGATCCTAAAAAGGCAGTAACTT
* * *
16523400 TTGTAGAGGTTGTGCTTGATCCTAAAAATGCTA-TAATTT
1 TTGTAAAGGTTGTGCTTGATCCTAAAAAGGC-AGTAACTT
* * * * **
16523439 TTGTAAAAGTTATGCTTAATCCTTGAAAA-GCAGTGGC--
1 TTGTAAAGGTTGTGCTTGATCC-TAAAAAGGCAGTAACTT
*
16523476 TTGTAAAGGTTGTACTTGA
1 TTGTAAAGGTTGTGCTTGA
16523495 ATCTGTGTTA
Statistics
Matches: 75, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
37 15 0.20
38 1 0.01
39 53 0.71
40 6 0.08
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.37
Consensus pattern (39 bp):
TTGTAAAGGTTGTGCTTGATCCTAAAAAGGCAGTAACTT
Found at i:16527849 original size:20 final size:20
Alignment explanation
Indices: 16527824--16527864 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
16527814 ATAAGCCTTG
*
16527824 TTGATTTTTATGAAATGAAA
1 TTGATTTATATGAAATGAAA
16527844 TTGATTTATATGAAATGAAA
1 TTGATTTATATGAAATGAAA
16527864 T
1 T
16527865 GAGATTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (20 bp):
TTGATTTATATGAAATGAAA
Found at i:16527880 original size:25 final size:25
Alignment explanation
Indices: 16527833--16527882 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
16527823 GTTGATTTTT
*
16527833 ATGAAATGAAATTGATTTATATGAA
1 ATGAAATGAAATTGATGTATATGAA
*
16527858 ATGAAATGAGATTTGATGT-TATGAA
1 ATGAAATGA-AATTGATGTATATGAA
16527883 TCATATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (25 bp):
ATGAAATGAAATTGATGTATATGAA
Found at i:16528256 original size:13 final size:13
Alignment explanation
Indices: 16528238--16528264 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16528228 AAGAAAATAA
16528238 AATATTTTTATTT
1 AATATTTTTATTT
16528251 AATATTTTTATTT
1 AATATTTTTATTT
16528264 A
1 A
16528265 GTTTGATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
AATATTTTTATTT
Found at i:16530861 original size:43 final size:43
Alignment explanation
Indices: 16530738--16531025 Score: 312
Period size: 43 Copynumber: 6.7 Consensus size: 43
16530728 TGTTGATGTG
* * *
16530738 GACCCGGCTATGTGTGAGTA-GGAGTGCACATAAGCCATT-ACT
1 GACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGTTGA-T
* *
16530780 GACCCGGCTATGTGCGAGTA-GGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGTTGAT
*
16530822 GACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGTTGAT
* * * *
16530865 GACCCGACTATGTGCAAGTAGGGAGTGTGCATAAGCCGATGAT
1 GACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGTTGAT
*** * * * *
16530908 GACCCAATTATGTGTGAGTAGGAAGTGCGCATAACCCGGTGAT
1 GACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGTTGAT
*** * * *
16530951 GACCCAATTATGTGCAAGTAGGGAGTGCGCATAACCCGGTGAT
1 GACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGTTGAT
** *
16530994 GACCTAGCCATGTGCGAGTAGGGAGTGCGCAT
1 GACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
16531026 GAGCTGGGAA
Statistics
Matches: 219, Mismatches: 25, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
42 58 0.26
43 161 0.74
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.22
Consensus pattern (43 bp):
GACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGTTGAT
Found at i:16563050 original size:15 final size:15
Alignment explanation
Indices: 16563030--16563069 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
16563020 TTCTTAAAAC
16563030 AACTTTAAAATCAAA
1 AACTTTAAAATCAAA
*
16563045 AACTTTAAAATCCAA
1 AACTTTAAAATCAAA
*
16563060 AGCTTTAAAA
1 AACTTTAAAA
16563070 CTAAAATCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.28
Consensus pattern (15 bp):
AACTTTAAAATCAAA
Found at i:16564421 original size:13 final size:13
Alignment explanation
Indices: 16564403--16564428 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16564393 TTCTAGAAAA
16564403 TTTATAAAATCAT
1 TTTATAAAATCAT
16564416 TTTATAAAATCAT
1 TTTATAAAATCAT
16564429 ACTTTTTCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:16569666 original size:22 final size:22
Alignment explanation
Indices: 16569624--16569664 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
16569614 TACCTTTTGT
*
16569624 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
16569646 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
16569665 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:16572496 original size:6 final size:6
Alignment explanation
Indices: 16572485--16572521 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
16572475 AAGACATCAA
16572485 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT T
1 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT T
16572522 TGGGTATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TATAAT
Found at i:16574041 original size:4 final size:4
Alignment explanation
Indices: 16574024--16574070 Score: 71
Period size: 4 Copynumber: 12.2 Consensus size: 4
16574014 AGAATGTGTC
*
16574024 TATG TAT- T-TG TATG TATG TATG TATG TATG TATG TATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
16574070 T
1 T
16574071 GTGCATACAC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 1 0.03
3 2 0.05
4 36 0.92
ACGTcount: A:0.23, C:0.02, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:16583426 original size:4 final size:4
Alignment explanation
Indices: 16583411--16583449 Score: 69
Period size: 4 Copynumber: 9.5 Consensus size: 4
16583401 AAAAAATCAC
16583411 TATG TAATG TATG TATG TATG TATG TATG TATG TATG TA
1 TATG T-ATG TATG TATG TATG TATG TATG TATG TATG TA
16583450 ACCCCATCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 30 0.88
5 4 0.12
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:16591312 original size:16 final size:17
Alignment explanation
Indices: 16591291--16591324 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16591281 GAACCAATCT
16591291 TCCTCCTCCTT-TCCAC
1 TCCTCCTCCTTGTCCAC
*
16591307 TCCTCCTCTTTGTCCAC
1 TCCTCCTCCTTGTCCAC
16591324 T
1 T
16591325 TCCTGATGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.06, C:0.50, G:0.03, T:0.41
Consensus pattern (17 bp):
TCCTCCTCCTTGTCCAC
Found at i:16592627 original size:12 final size:12
Alignment explanation
Indices: 16592612--16592644 Score: 59
Period size: 11 Copynumber: 2.8 Consensus size: 12
16592602 CTTGTTTTGA
16592612 TTTTCCTTTTTT
1 TTTTCCTTTTTT
16592624 TTTT-CTTTTTT
1 TTTTCCTTTTTT
16592635 TTTTCCTTTT
1 TTTTCCTTTT
16592645 ACTTGTGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTCCTTTTTT
Found at i:16600512 original size:3 final size:3
Alignment explanation
Indices: 16600498--16600531 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
16600488 ACACCTCATC
* *
16600498 AAT AAT ATT AAT AAT AAT AAT TAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16600532 TAGCTGTGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:16601448 original size:19 final size:20
Alignment explanation
Indices: 16601411--16601449 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
16601401 TTAGACATAA
*
16601411 TATTCAAAAAAGTCCTTAAAC
1 TATTCAAAAAAAT-CTTAAAC
16601432 TATTCAAAAAAAT-TTAAA
1 TATTCAAAAAAATCTTAAA
16601450 TAAATCTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
21 12 0.71
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.31
Consensus pattern (20 bp):
TATTCAAAAAAATCTTAAAC
Found at i:16602976 original size:22 final size:22
Alignment explanation
Indices: 16602919--16602966 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
16602909 TAATCACTGT
**
16602919 GTGACTAGTTTTTAGGTATTAC
1 GTGACTAGTTTTTAGACATTAC
16602941 GTGACTAGTTTTTAGACATTAC
1 GTGACTAGTTTTTAGACATTAC
16602963 GTGA
1 GTGA
16602967 TTGATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (22 bp):
GTGACTAGTTTTTAGACATTAC
Found at i:16603039 original size:26 final size:26
Alignment explanation
Indices: 16602988--16603293 Score: 268
Period size: 26 Copynumber: 12.4 Consensus size: 26
16602978 GTAATGCCTA
*
16602988 AGTCACGCAATGCCTTA-C--TAACT
1 AGTCACGCAATGCCTTATCAAAAACT
* * *
16603011 AGTCATGCAATGCTTTATCATAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
*
16603037 AGTCACGCAATACCTTATCAAAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
** **
16603063 AGTCGTGCAATG-C---TC-AAAGTT
1 AGTCACGCAATGCCTTATCAAAAACT
* *
16603084 AGTCACGCAATGCTTTATCAGAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
*
16603110 AGTCATGCAATGCCTTATCAAAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
** **
16603136 AGTCGTGCAATGCC----C-AAAGTT
1 AGTCACGCAATGCCTTATCAAAAACT
* * *
16603157 AGTCATGCAATGCTTTATCAGAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
* *
16603183 AGTTACGCAATGCCTTATTAAAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
16603209 AGTCACGCAATGCC-TATC---AACT
1 AGTCACGCAATGCCTTATCAAAAACT
* *
16603231 AGTCACGTAATGCGTTATCAAAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
*
16603257 AGTCACGCAATGCCTTATCAAAAATT
1 AGTCACGCAATGCCTTATCAAAAACT
*
16603283 AGTCAAGCAAT
1 AGTCACGCAAT
16603294 ACCCAAAGTC
Statistics
Matches: 224, Mismatches: 42, Indels: 31
0.75 0.14 0.10
Matches are distributed among these distances:
21 30 0.13
22 19 0.08
23 19 0.08
24 1 0.00
25 7 0.03
26 148 0.66
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (26 bp):
AGTCACGCAATGCCTTATCAAAAACT
Found at i:16603129 original size:73 final size:73
Alignment explanation
Indices: 16603010--16603314 Score: 396
Period size: 73 Copynumber: 4.2 Consensus size: 73
16603000 CCTTACTAAC
* * * *
16603010 TAGTCATGCAATGCTTTATCATAAACTAGTCACGCAATACCTTATCAAAAACTAGTCGTGCAATG
1 TAGTCACGCAATGCTTTATCAGAAACTAGTCACGCAATGCCTTATCAAAAACTAGTCATGCAATG
*
16603075 CTCAAAGT
66 CCCAAAGT
* *
16603083 TAGTCACGCAATGCTTTATCAGAAACTAGTCATGCAATGCCTTATCAAAAACTAGTCGTGCAATG
1 TAGTCACGCAATGCTTTATCAGAAACTAGTCACGCAATGCCTTATCAAAAACTAGTCATGCAATG
16603148 CCCAAAGT
66 CCCAAAGT
* * * *
16603156 TAGTCATGCAATGCTTTATCAGAAACTAGTTACGCAATGCCTTATTAAAAACTAGTCACGCAATG
1 TAGTCACGCAATGCTTTATCAGAAACTAGTCACGCAATGCCTTATCAAAAACTAGTCATGCAATG
* *
16603221 CCTATCAA-C
66 CCCA--AAGT
* * * * * *
16603230 TAGTCACGTAATGCGTTATCAAAAACTAGTCACGCAATGCCTTATCAAAAATTAGTCAAGCAATA
1 TAGTCACGCAATGCTTTATCAGAAACTAGTCACGCAATGCCTTATCAAAAACTAGTCATGCAATG
16603295 CCCAAAGT
66 CCCAAAGT
* *
16603303 CAGTAACGCAAT
1 TAGTCACGCAAT
16603315 ATCCAAAGTC
Statistics
Matches: 202, Mismatches: 27, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
72 2 0.01
73 139 0.69
74 59 0.29
75 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (73 bp):
TAGTCACGCAATGCTTTATCAGAAACTAGTCACGCAATGCCTTATCAAAAACTAGTCATGCAATG
CCCAAAGT
Found at i:16603254 original size:48 final size:49
Alignment explanation
Indices: 16602988--16603277 Score: 217
Period size: 47 Copynumber: 6.0 Consensus size: 49
16602978 GTAATGCCTA
* * *
16602988 AGTCACGCAATGCCTTA-C--TAACTAGTCATGCAATGCTTTATCATAAACT
1 AGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCTTATC---AACT
* ** * *
16603037 AGTCACGCAATACCTTATCAAAAACTAGTCGTGCAATG-CTCA--AAGTT
1 AGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCTTATCAA-CT
* * *
16603084 AGTCACGCAATGCTTTATCAGAAACTAGTCATGCAATGCCTTATCAAAAACT
1 AGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCTTATC---AACT
** ** * *
16603136 AGTCGTGCAATGCC----C-AAAGTTAGTCATGCAATGCTTTATCAGAAACT
1 AGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCTTATC---AACT
* *
16603183 AGTTACGCAATGCCTTATTAAAAACTAGTCACGCAATGCC-TATCAACT
1 AGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCTTATCAACT
* *
16603231 AGTCACGTAATGCGTTATCAAAAACTAGTCACGCAATGCCTTATCAA
1 AGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCTTATCAA
16603278 AAATTAGTCA
Statistics
Matches: 193, Mismatches: 32, Indels: 32
0.75 0.12 0.12
Matches are distributed among these distances:
46 2 0.01
47 73 0.38
48 44 0.23
49 22 0.11
50 1 0.01
51 6 0.03
52 43 0.22
53 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.27
Consensus pattern (49 bp):
AGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCTTATCAACT
Found at i:16603313 original size:21 final size:21
Alignment explanation
Indices: 16603289--16603338 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
16603279 AATTAGTCAA
16603289 GCAATACCCAAAGTCAGTAAC
1 GCAATACCCAAAGTCAGTAAC
* *
16603310 GCAATATCCAAAGTCAGTCAC
1 GCAATACCCAAAGTCAGTAAC
*
16603331 ACAATACC
1 GCAATACC
16603339 TAAAAACTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.30, G:0.12, T:0.16
Consensus pattern (21 bp):
GCAATACCCAAAGTCAGTAAC
Found at i:16610841 original size:20 final size:20
Alignment explanation
Indices: 16610816--16610861 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
16610806 TTTTGGCCCC
*
16610816 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGAAGTATA
*
16610836 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
16610856 ATTTGA
1 ATTTGA
16610862 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:16610937 original size:28 final size:27
Alignment explanation
Indices: 16610906--16610958 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
16610896 TTTGGAGTAT
*
16610906 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
16610934 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
16610959 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:16610964 original size:28 final size:28
Alignment explanation
Indices: 16610906--16610964 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
16610896 TTTGGAGTAT
* *
16610906 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
16610934 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
16610962 AGG
1 AGG
16610965 ATATTTTTTN
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:16630226 original size:15 final size:15
Alignment explanation
Indices: 16630206--16630235 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16630196 CAATATCAAT
*
16630206 AATGAAGAAGATGAA
1 AATGAAGAAAATGAA
16630221 AATGAAGAAAATGAA
1 AATGAAGAAAATGAA
16630236 TTCACTTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.23, T:0.13
Consensus pattern (15 bp):
AATGAAGAAAATGAA
Found at i:16640083 original size:85 final size:84
Alignment explanation
Indices: 16639991--16640159 Score: 320
Period size: 85 Copynumber: 2.0 Consensus size: 84
16639981 TTCTAGATAT
16639991 ACTTGGGTGTATTTTCTTGCTCATAAGCATGATGCTCTGCAAGCATTCTTAATTCATTGTAAGAA
1 ACTTGGGTGTATTTTCTTGCTCATAAGCATGATGCTCTGCAAGCATTCTTAATTCATTGTAAGAA
*
16640056 AGTAGAAAATTAAAAAGGA
66 AGTAGAAAATGAAAAAGGA
16640075 NACTTGGGTGTATTTTCTTGCTCATAAGCATGATGCTCTGCAAGCATTCTTAATTCATTGTAAGA
1 -ACTTGGGTGTATTTTCTTGCTCATAAGCATGATGCTCTGCAAGCATTCTTAATTCATTGTAAGA
16640140 AAGTAGAAAATGAAAAAGGA
65 AAGTAGAAAATGAAAAAGGA
16640160 CTAGCCATAG
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (84 bp):
ACTTGGGTGTATTTTCTTGCTCATAAGCATGATGCTCTGCAAGCATTCTTAATTCATTGTAAGAA
AGTAGAAAATGAAAAAGGA
Found at i:16649499 original size:2 final size:2
Alignment explanation
Indices: 16649487--16649526 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
16649477 ACCATATACC
* *
16649487 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16649527 CAATCATCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (2 bp):
AT
Found at i:16649619 original size:42 final size:42
Alignment explanation
Indices: 16649567--16649687 Score: 170
Period size: 42 Copynumber: 2.9 Consensus size: 42
16649557 CATCTCATAT
* *
16649567 GCAATGGCTTATGCGCACTCCCACTCGCACATAGCCGCGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGCGTCA
* * *
16649609 GTAACGGCTTATGTGCACTCCCACTCGCACATAGTCGGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGCGTCA
* * *
16649651 GCAACGACTTATGTGCACTCCTACTTGCACATAGCCG
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCG
16649688 AGTCCACATC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.22, C:0.34, G:0.21, T:0.22
Consensus pattern (42 bp):
GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGCGTCA
Found at i:16653618 original size:2 final size:2
Alignment explanation
Indices: 16653611--16653651 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
16653601 TATAATGTTG
16653611 AT AT AT AT 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 AT AT AT AT A
16653652 CACTATGTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16653781 original size:61 final size:61
Alignment explanation
Indices: 16653686--16654091 Score: 659
Period size: 61 Copynumber: 6.7 Consensus size: 61
16653676 GTGTGACAAA
* *
16653686 TGCATGTGCGGAGTGGGTAGTGCACATGCCGGTAATGATGCTGTGGTGATAATTACAACCG
1 TGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTACAACCG
* *
16653747 TGCATGTGCGGAGTGGGTAGTGCACATGCTGGTAATGATGCTGTCGTGATAATTACAACCG
1 TGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTACAACCG
* * * *
16653808 TGCATGTGCTGAGTGGGAAGTGCACATGTCAGTAATGATGCTGTCGTGATAATTACAACCG
1 TGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTACAACCG
* * *
16653869 TGCATGTGCGGAGTGGGCAGTGCACATGCCAGTAATGATGCTGTAGTGATAGTTACAACCG
1 TGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTACAACCG
* * * *
16653930 TGCATGTGCAGAGTAGGCAGTGCACATGCCGGTAATGATGATGTCGTGATAATTACAACTG
1 TGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTACAACCG
*
16653991 TGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTACATCCG
1 TGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTACAACCG
*
16654052 TGCATGTGCGGAGTGGGCAGTGCACATGCCGGTGATGATG
1 TGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATG
16654092 TACATGAGCT
Statistics
Matches: 320, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 320 1.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (61 bp):
TGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTACAACCG
Found at i:16662011 original size:19 final size:20
Alignment explanation
Indices: 16661984--16662029 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
16661974 AGGAGACAAG
*
16661984 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
16662003 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
16662022 ATAATATT
1 ATAATATT
16662030 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:16673637 original size:60 final size:60
Alignment explanation
Indices: 16673517--16673739 Score: 314
Period size: 60 Copynumber: 3.8 Consensus size: 60
16673507 AGACATCATC
* * *
16673517 ACCTACTCGTGGGAACTGCCCACGCCACC--ATATGAATCGGGGCTTCAGGTCCCCCTTT
1 ACCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCCTTT
* *
16673575 ACCTACTCGTGGGAATTACCCACGTCACCAAATATAAATCGGAGCTTCAGGTCCCCCTTT
1 ACCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCCTTT
* *
16673635 ACCTACTCGTGGGAACTACCCATGTCACCAAATATTAATCGGGGCTTCAGGT----CTTT
1 ACCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCCTTT
* * *
16673691 GCCTACTCGTGGGAACTATCCACATCACCAAATATAAATCGGGGCTTCA
1 ACCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCA
16673740 AGTTTCCCTT
Statistics
Matches: 149, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
56 48 0.32
58 26 0.17
60 75 0.50
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (60 bp):
ACCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCCTTT
Found at i:16673723 original size:116 final size:115
Alignment explanation
Indices: 16673517--16673739 Score: 313
Period size: 116 Copynumber: 1.9 Consensus size: 115
16673507 AGACATCATC
*
16673517 ACCTACTCGTGGGAACTGCCCACGCCACCATATGAATCGGGGCTTCAGGTCCCCCTTTACCTACT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATGAATCGGGGCTTCAGGT---CCTTTACCTACT
* *
16673582 CGTGGGAATTACCCACGTCACCAAATATAAATCGGAGCTTCAGGTCCCCCTTT
63 CGTGGGAACTACCCACATCACCAAATATAAATCGGAGCTTCAGGTCCCCCTTT
* * * *
16673635 ACCTACTCGTGGGAACTACCCATGTCACCAAATATTAATCGGGGCTTCAGGT-CTTTGCCTACTC
1 ACCTACTCGTGGGAACTACCCACGCCACC--ATATGAATCGGGGCTTCAGGTCCTTTACCTACTC
* *
16673699 GTGGGAACTATCCACATCACCAAATATAAATCGGGGCTTCA
64 GTGGGAACTACCCACATCACCAAATATAAATCGGAGCTTCA
16673740 AGTTTCCCTT
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
116 48 0.51
118 26 0.28
120 20 0.21
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (115 bp):
ACCTACTCGTGGGAACTACCCACGCCACCATATGAATCGGGGCTTCAGGTCCTTTACCTACTCGT
GGGAACTACCCACATCACCAAATATAAATCGGAGCTTCAGGTCCCCCTTT
Found at i:16674124 original size:2 final size:2
Alignment explanation
Indices: 16674117--16674184 Score: 104
Period size: 2 Copynumber: 35.0 Consensus size: 2
16674107 AAACATGTAG
16674117 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
16674157 AA AN 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
16674185 TTTATTCCTT
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
1 2 0.03
2 59 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16675506 original size:60 final size:60
Alignment explanation
Indices: 16675433--16675676 Score: 357
Period size: 61 Copynumber: 4.0 Consensus size: 60
16675423 AGACATCATC
*
16675433 ACCTACTCGTGGGAACTACCCACGCCA-CCATATATAAATCAGGGCTTCAGGTCCCCTTTT
1 ACCTACTCGTGGGAACTGCCCACGCCACCCA-ATATAAATCAGGGCTTCAGGTCCCCTTTT
* * *
16675493 ACCTACTCATGGGATCTGCCCACGCCACCCAATATAAATC-GAGGCTTCAGGTCCCTTTTTT
1 ACCTACTCGTGGGAACTGCCCACGCCACCCAATATAAATCAG-GGCTTCAGGTCCC-CTTTT
* *
16675554 ACCTACTCGTGGGAACTGCCCATGCCACCCAATATAAATCGGGGCTTCAGGTCCCCCTTTT
1 ACCTACTCGTGGGAACTGCCCACGCCACCCAATATAAATCAGGGCTTCAGGT-CCCCTTTT
* * *
16675615 ACCTACTCGTGGGAACTGCCCACGCCACCCAATATAAATTAGGGCTTCAAGTCCCCCTTT
1 ACCTACTCGTGGGAACTGCCCACGCCACCCAATATAAATCAGGGCTTCAGGTCCCCTTTT
16675675 AC
1 AC
16675677 AATCAAATAT
Statistics
Matches: 166, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
59 1 0.01
60 55 0.33
61 106 0.64
62 4 0.02
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.25
Consensus pattern (60 bp):
ACCTACTCGTGGGAACTGCCCACGCCACCCAATATAAATCAGGGCTTCAGGTCCCCTTTT
Found at i:16676382 original size:63 final size:63
Alignment explanation
Indices: 16676273--16676416 Score: 184
Period size: 63 Copynumber: 2.3 Consensus size: 63
16676263 TATCTAGCTA
* * *** **
16676273 TTCTTTTTTTTCTTTTTTCCCTCTCTTTCTTCTCCTCTGTTGCTGCTTTTTCTCTCCTTCTTT
1 TTCTTTTTTTTCTTTCTTCCCTCTCCTTCTTCTCCTCTGCCACTGCTCCTTCTCTCCTTCTTT
*
16676336 TGT-TTTTTTTTCTTTCTTCCCTCTCCTTCTTCTCCTTTGCCACTGCTCCTTCTCTCCTTCTTT
1 T-TCTTTTTTTTCTTTCTTCCCTCTCCTTCTTCTCCTCTGCCACTGCTCCTTCTCTCCTTCTTT
*
16676399 TTCTTTTTCTT-TTTCTTC
1 TTCTTTTTTTTCTTTCTTC
16676417 TTTCTTCCTT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
62 8 0.11
63 61 0.87
64 1 0.01
ACGTcount: A:0.01, C:0.32, G:0.04, T:0.63
Consensus pattern (63 bp):
TTCTTTTTTTTCTTTCTTCCCTCTCCTTCTTCTCCTCTGCCACTGCTCCTTCTCTCCTTCTTT
Found at i:16676412 original size:7 final size:6
Alignment explanation
Indices: 16676393--16676422 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
16676383 CCTTCTCTCC
16676393 TTCTTT TTCTTT TTCTTT TTCTTCT TTCTT
1 TTCTTT TTCTTT TTCTTT TTCTT-T TTCTT
16676423 CCTTTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTCTTT
Found at i:16676549 original size:17 final size:17
Alignment explanation
Indices: 16676511--16676549 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
16676501 ACGCCACTCC
16676511 CCCTCTCTCCTTTTCTT
1 CCCTCTCTCCTTTTCTT
*
16676528 TCCTCTCTCC-TTTCTCT
1 CCCTCTCTCCTTTTCT-T
16676545 CCCTC
1 CCCTC
16676550 GGGTCCCCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (17 bp):
CCCTCTCTCCTTTTCTT
Found at i:16676586 original size:12 final size:12
Alignment explanation
Indices: 16676563--16676600 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
16676553 TCCCCCACTC
16676563 TCTTCCTTCTCTT
1 TCTT-CTTCTCTT
16676576 TCCTT-TTCTCTT
1 T-CTTCTTCTCTT
16676588 TCTTCTTCTCTT
1 TCTTCTTCTCTT
16676600 T
1 T
16676601 TCTCTTGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 3 0.13
12 16 0.70
13 1 0.04
14 3 0.13
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (12 bp):
TCTTCTTCTCTT
Found at i:16676600 original size:19 final size:19
Alignment explanation
Indices: 16676574--16676616 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
16676564 CTTCCTTCTC
16676574 TTTC-CTTTTCTCTT-TCT
1 TTTCTCTTTTCTCTTGTCT
16676591 TCTTCTCTTTTCTCTTGTCT
1 T-TTCTCTTTTCTCTTGTCT
16676611 TTTCTC
1 TTTCTC
16676617 CCTTTTGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.04
18 3 0.13
19 15 0.65
20 4 0.17
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTCTCTTTTCTCTTGTCT
Found at i:16676606 original size:12 final size:12
Alignment explanation
Indices: 16676568--16676616 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
16676558 CACTCTCTTC
*
16676568 CTTCTCTTTCCT
1 CTTCTCTTTTCT
*
16676580 TTTCTC-TTTCTT
1 CTTCTCTTTTC-T
16676592 CTTCTCTTTTCT
1 CTTCTCTTTTCT
*
16676604 CTTGTCTTTTCT
1 CTTCTCTTTTCT
16676616 C
1 C
16676617 CCTTTTGGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 3 0.10
12 24 0.77
13 4 0.13
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (12 bp):
CTTCTCTTTTCT
Found at i:16676611 original size:24 final size:25
Alignment explanation
Indices: 16676563--16676612 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
16676553 TCCCCCACTC
*
16676563 TCTTCCTTCTCTTTCCTTTTCTCTT
1 TCTTCCTTCTCTTTCCTCTTCTCTT
* *
16676588 TCTT-CTTCTCTTTTCTCTTGTCTT
1 TCTTCCTTCTCTTTCCTCTTCTCTT
16676612 T
1 T
16676613 TCTCCCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.00, C:0.32, G:0.02, T:0.66
Consensus pattern (25 bp):
TCTTCCTTCTCTTTCCTCTTCTCTT
Found at i:16676703 original size:12 final size:12
Alignment explanation
Indices: 16676683--16676733 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
16676673 CGACCCCCCC
*
16676683 TTTTCTTCTTCT
1 TTTTTTTCTTCT
16676695 TTTTTTTCTTCT
1 TTTTTTTCTTCT
*
16676707 TTCTTTTC-TCT
1 TTTTTTTCTTCT
* * *
16676718 TCTCTTTCATCT
1 TTTTTTTCTTCT
16676730 TTTT
1 TTTT
16676734 CCTTTCCTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
11 8 0.26
12 23 0.74
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTTTCTTCT
Found at i:16676703 original size:15 final size:16
Alignment explanation
Indices: 16676683--16676751 Score: 56
Period size: 16 Copynumber: 4.5 Consensus size: 16
16676673 CGACCCCCCC
16676683 TTTTCTTC-TTCTTTT
1 TTTTCTTCTTTCTTTT
16676698 TTTTCTTCTTTCTTTT
1 TTTTCTTCTTTCTTTT
* * *
16676714 CTCTTC-TCTTTCATCT
1 -TTTTCTTCTTTCTTTT
*
16676730 TTTTC--CTTTCCTTT
1 TTTTCTTCTTTCTTTT
*
16676744 TTCTCTTC
1 TTTTCTTC
16676752 ACATGCCGGC
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
14 11 0.26
15 12 0.28
16 16 0.37
17 4 0.09
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTCTTCTTTCTTTT
Found at i:16676730 original size:26 final size:26
Alignment explanation
Indices: 16676682--16676750 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
16676672 CCGACCCCCC
* **
16676682 CTTTTCTTCTTCTTTTTTTTCTTCTTT
1 CTTTTCTTCTTCTCTTTCATCTT-TTT
16676709 CTTTTC-TCTTCTCTTTCATCTTTTT
1 CTTTTCTTCTTCTCTTTCATCTTTTT
* *
16676734 CCTTTCCTTTTTCTCTT
1 -CTTTTCTTCTTCTCTT
16676751 CACATGCCGG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.09
26 18 0.51
27 14 0.40
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (26 bp):
CTTTTCTTCTTCTCTTTCATCTTTTT
Found at i:16678169 original size:22 final size:22
Alignment explanation
Indices: 16678141--16678184 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
16678131 CTTGGTGGCA
16678141 ACATGTAAA-TGAGAATAGTGTT
1 ACATGTAAACTGAGAA-AGTGTT
*
16678163 ACATGTAAACTTAGAAAGTGTT
1 ACATGTAAACTGAGAAAGTGTT
16678185 TGACGGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (22 bp):
ACATGTAAACTGAGAAAGTGTT
Found at i:16678936 original size:41 final size:41
Alignment explanation
Indices: 16678878--16679247 Score: 509
Period size: 41 Copynumber: 9.1 Consensus size: 41
16678868 AGAAGTGTGG
* *
16678878 ATGATGATATTGCTTGTGCACGATGTGGGGGGATTCACACG
1 ATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACACA
* *
16678919 ATGATGATATTGTTTGTGCATGATGTGGGGGGATGCACACA
1 ATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACACA
**
16678960 ATGATGATATTGCTTGTGCATTATGTGGGGGGATGCACACA
1 ATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACACA
* **
16679001 ATGATG-TCATTGTTTGTGCACGATGTAAGGGGATGCACACA
1 ATGATGAT-ATTGCTTGTGCACGATGTGGGGGGATGCACACA
*
16679042 ATGATGATATTGTTTGTGCACGATGTGGGGGGATGCACACA
1 ATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACACA
**
16679083 ATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACATG
1 ATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACACA
** ** *
16679124 ATGATG-TCATTATTTGTGCACGATGTATGGGGATGCAAACA
1 ATGATGAT-ATTGCTTGTGCACGATGTGGGGGGATGCACACA
16679165 ATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACACA
1 ATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACACA
*
16679206 ATG--G-TATTAGC-TGTGCACGATGTGGGGGGATGCACACG
1 ATGATGATATT-GCTTGTGCACGATGTGGGGGGATGCACACA
16679244 ATGA
1 ATGA
16679248 CTCCGACTAT
Statistics
Matches: 294, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
38 33 0.11
39 3 0.01
40 2 0.01
41 254 0.86
42 2 0.01
ACGTcount: A:0.25, C:0.13, G:0.33, T:0.29
Consensus pattern (41 bp):
ATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACACA
Found at i:16679097 original size:123 final size:123
Alignment explanation
Indices: 16678877--16679247 Score: 563
Period size: 123 Copynumber: 3.0 Consensus size: 123
16678867 CAGAAGTGTG
* ** * * *
16678877 GATGATGAT-ATTGCTTGTGCACGATGTGGGGGGATTCACACGATGATGATATTGTTTGTGCATG
1 GATGATG-TCATTGTTTGTGCACGATGTAAGGGGATGCACACAATGATGATATTGTTTGTGCACG
**
16678941 ATGTGGGGGGATGCACACAATGATGATATTGCTTGTGCATTATGTGGGGGGATGCACAC
65 ATGTGGGGGGATGCACACAATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACAC
*
16679000 AATGATGTCATTGTTTGTGCACGATGTAAGGGGATGCACACAATGATGATATTGTTTGTGCACGA
1 GATGATGTCATTGTTTGTGCACGATGTAAGGGGATGCACACAATGATGATATTGTTTGTGCACGA
*
16679065 TGTGGGGGGATGCACACAATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACAT
66 TGTGGGGGGATGCACACAATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACAC
* * * *
16679123 GATGATGTCATTATTTGTGCACGATGTATGGGGATGCAAACAATGATGATATTGCTTGTGCACGA
1 GATGATGTCATTGTTTGTGCACGATGTAAGGGGATGCACACAATGATGATATTGTTTGTGCACGA
16679188 TGTGGGGGGATGCACACAATG--G-TATTAGC-TGTGCACGATGTGGGGGGATGCACAC
66 TGTGGGGGGATGCACACAATGATGATATT-GCTTGTGCACGATGTGGGGGGATGCACAC
16679243 GATGA
1 GATGA
16679248 CTCCGACTAT
Statistics
Matches: 230, Mismatches: 16, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
120 34 0.15
121 3 0.01
122 1 0.00
123 192 0.83
ACGTcount: A:0.25, C:0.13, G:0.33, T:0.29
Consensus pattern (123 bp):
GATGATGTCATTGTTTGTGCACGATGTAAGGGGATGCACACAATGATGATATTGTTTGTGCACGA
TGTGGGGGGATGCACACAATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACAC
Found at i:16684783 original size:21 final size:19
Alignment explanation
Indices: 16684757--16684797 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
16684747 AATTTAAAAC
16684757 AAAATAACATAAAATTTAACT
1 AAAATAAC-TAAAA-TTAACT
*
16684778 AAAATAACTTAAATTAACT
1 AAAATAACTAAAATTAACT
16684797 A
1 A
16684798 CTCAACATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATAACTAAAATTAACT
Found at i:16691808 original size:23 final size:23
Alignment explanation
Indices: 16691778--16691837 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
16691768 TATACGTATA
*
16691778 CCCATCATCATCATGCACACCAT
1 CCCATCATCATCATACACACCAT
16691801 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATACACACCAT
* *
16691824 CACATAATCATCAT
1 CCCATCATCATCAT
16691838 CATCACCGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.35, C:0.40, G:0.02, T:0.23
Consensus pattern (23 bp):
CCCATCATCATCATACACACCAT
Found at i:16691886 original size:43 final size:43
Alignment explanation
Indices: 16691836--16691959 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 43
16691826 CATAATCATC
* ** *
16691836 ATCATCACCGGGTTATGCGCACTCTCTACTCGCACATGGCTAG
1 ATCATCACCGGGTTATGCGCACTCCCTACTCGCACATAACCAG
* *
16691879 GTCATCACCGGGTTATGCACACTCCCTACTCGCACATAACCAG
1 ATCATCACCGGGTTATGCGCACTCCCTACTCGCACATAACCAG
* *
16691922 ATCATC-CTCGGCTTATGCGCACTCCCTACTCACACATA
1 ATCATCAC-CGGGTTATGCGCACTCCCTACTCGCACATA
16691960 GCCGAGTCAA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 69 0.99
ACGTcount: A:0.23, C:0.36, G:0.16, T:0.24
Consensus pattern (43 bp):
ATCATCACCGGGTTATGCGCACTCCCTACTCGCACATAACCAG
Found at i:16693807 original size:39 final size:40
Alignment explanation
Indices: 16693723--16693807 Score: 90
Period size: 39 Copynumber: 2.2 Consensus size: 40
16693713 GTTTTTATTC
* *
16693723 GATTTTATGATTTTATGGAAAATGAGTTTAAATGGCAAAT
1 GATTTTATGATTTTATGCAAAATGAGATTAAATGGCAAAT
*
16693763 -A-TTTATG-TTTTATAAGCAAAATGTGATTAAAT-G-AAAT
1 GATTTTATGATTTTAT--GCAAAATGAGATTAAATGGCAAAT
16693800 GATTTTAT
1 GATTTTAT
16693808 AAAATTTTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
37 10 0.26
38 8 0.21
39 20 0.53
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.42
Consensus pattern (40 bp):
GATTTTATGATTTTATGCAAAATGAGATTAAATGGCAAAT
Found at i:16698173 original size:28 final size:28
Alignment explanation
Indices: 16698132--16698190 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
16698122 TAAGACAAAA
* *
16698132 AAATATTTTATCTTATCTAAATTGAGAC
1 AAATATTTTATCTTAACTAAATTAAGAC
16698160 AAATATGTTT-TCTTAACTAAATTAAGAC
1 AAATAT-TTTATCTTAACTAAATTAAGAC
16698188 AAA
1 AAA
16698191 AAATATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 25 0.89
29 3 0.11
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (28 bp):
AAATATTTTATCTTAACTAAATTAAGAC
Found at i:16698212 original size:59 final size:60
Alignment explanation
Indices: 16698119--16698246 Score: 152
Period size: 59 Copynumber: 2.1 Consensus size: 60
16698109 TCTTGTCTGT
* * * *
16698119 AATTAAGACAAAAAAATATTTTATCTTATCTAAATTGAGACAAATATGTTTTCTTAACTA
1 AATTAAGACAAAAAAATATTTTATCGTATCTAAATTAAGACAAACATATTTTCTTAACTA
* ** **
16698179 AATTAAGAC-AAAAAATATTTT-TCGTGTCTTAAATTAAGGGAAACATATTTTCTTGTCTA
1 AATTAAGACAAAAAAATATTTTATCGTATC-TAAATTAAGACAAACATATTTTCTTAACTA
16698238 AATTAAGAC
1 AATTAAGAC
16698247 CGAACATGTT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
58 5 0.09
59 44 0.76
60 9 0.16
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (60 bp):
AATTAAGACAAAAAAATATTTTATCGTATCTAAATTAAGACAAACATATTTTCTTAACTA
Found at i:16698252 original size:29 final size:29
Alignment explanation
Indices: 16698109--16698281 Score: 109
Period size: 29 Copynumber: 5.9 Consensus size: 29
16698099 TTAAGATAAC
* * *
16698109 TCTTGTCTGTAATTAAGACAAAAAAATATTTT
1 TCTTGTCT-AAATTAAGAC-AGAACATA-TTT
* * * *
16698141 ATCTTATCTAAATTGAGACA-AATATGTTT
1 -TCTTGTCTAAATTAAGACAGAACATATTT
** * *
16698170 TCTTAACTAAATTAAGACAAAAAATATTTT
1 TCTTGTCTAAATTAAGACAGAACATA-TTT
* **
16698200 TCGTGTCTTAAATTAAGGGA-AACATATTT
1 TCTTGTC-TAAATTAAGACAGAACATATTT
* *
16698229 TCTTGTCTAAATTAAGACCGAACATGTTT
1 TCTTGTCTAAATTAAGACAGAACATATTT
* *
16698258 TCCTGTCTAAATTAAAACA-AACAT
1 TCTTGTCTAAATTAAGACAGAACAT
16698282 GTCAAAGCTG
Statistics
Matches: 113, Mismatches: 23, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
28 31 0.27
29 40 0.35
30 16 0.14
31 11 0.10
32 8 0.07
33 7 0.06
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.38
Consensus pattern (29 bp):
TCTTGTCTAAATTAAGACAGAACATATTT
Found at i:16704852 original size:20 final size:21
Alignment explanation
Indices: 16704811--16704869 Score: 93
Period size: 20 Copynumber: 2.9 Consensus size: 21
16704801 CCATAAACAT
*
16704811 ATCATTCTTTGTCATGAAGGC
1 ATCAATCTTTGTCATGAAGGC
16704832 ATCAATCTTTGTCAT-AAGGC
1 ATCAATCTTTGTCATGAAGGC
*
16704852 ATCAGTCTTTGTCATGAA
1 ATCAATCTTTGTCATGAA
16704870 TTGCATGAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 19 0.54
21 16 0.46
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (21 bp):
ATCAATCTTTGTCATGAAGGC
Found at i:16706388 original size:2 final size:2
Alignment explanation
Indices: 16706381--16706421 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
16706371 CTGAATATTT
16706381 TC TC TC TC TC TC TC TC TC TC TC TC TC T- TC TC TC T- TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
16706421 T
1 T
16706422 TGAATATGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:16716778 original size:7 final size:7
Alignment explanation
Indices: 16716735--16716782 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
16716725 TTTTATATTT
16716735 TTAAT-A
1 TTAATAA
16716741 TTAATAA
1 TTAATAA
*
16716748 TTTATAA
1 TTAATAA
16716755 TTAATTAA
1 TTAA-TAA
16716763 --AAT-A
1 TTAATAA
16716767 TTAATAA
1 TTAATAA
16716774 TTAATAA
1 TTAATAA
16716781 TT
1 TT
16716783 NNNNNNNNNN
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
4 1 0.03
5 1 0.03
6 10 0.29
7 20 0.57
8 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
TTAATAA
Found at i:16716925 original size:28 final size:26
Alignment explanation
Indices: 16716875--16716940 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
16716865 NNNNAATATT
*
16716875 TTAATATTTT-AATCATAT-T-AATA
1 TTAATATTTTAAATTATATATAAATA
16716898 TTAATAATGTTTAAATTATATATAAATA
1 TTAAT-AT-TTTAAATTATATATAAATA
16716926 TTAATATTTTAAATT
1 TTAATATTTTAAATT
16716941 TACAAATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
23 5 0.14
24 2 0.05
25 3 0.08
26 15 0.41
27 3 0.08
28 9 0.24
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
TTAATATTTTAAATTATATATAAATA
Found at i:16716961 original size:8 final size:8
Alignment explanation
Indices: 16716950--16716992 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
16716940 TTACAAATAA
16716950 TTTTTCTTT
1 TTTTTC-TT
16716959 TTTATTCTAT
1 TTT-TTCT-T
*
16716969 TTTTTCTC
1 TTTTTCTT
16716977 TTTTTCTT
1 TTTTTCTT
16716985 TTTTTCTT
1 TTTTTCTT
16716993 CTTCATGGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 15 0.50
9 8 0.27
10 7 0.23
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTCTT
Found at i:16719243 original size:13 final size:13
Alignment explanation
Indices: 16719225--16719249 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16719215 TTCCAGAAAA
16719225 TTTATAAAATCAT
1 TTTATAAAATCAT
16719238 TTTATAAAATCA
1 TTTATAAAATCA
16719250 CAATTTCTTT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:16722168 original size:2 final size:2
Alignment explanation
Indices: 16722149--16722198 Score: 61
Period size: 2 Copynumber: 25.5 Consensus size: 2
16722139 TAATTAATAC
16722149 AT AT AT A- AT AT AGT -T AT AT AGT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
16722190 AT AT AT AT A
1 AT AT AT AT A
16722199 GACTATCTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
1 3 0.07
2 38 0.88
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16722358 original size:54 final size:54
Alignment explanation
Indices: 16722295--16722406 Score: 179
Period size: 54 Copynumber: 2.1 Consensus size: 54
16722285 GAGGGAGATG
*
16722295 GATGAGATGTTCGGCTATGTGCACGATGTGGTGGGATACACATGAGCTAGGTGA
1 GATGAGATGTCCGGCTATGTGCACGATGTGGTGGGATACACATGAGCTAGGTGA
* * * *
16722349 GATGGGATGTCCGGCTATGTGCATGATGTGGTGGGATGCACATGAGCTGGGTGA
1 GATGAGATGTCCGGCTATGTGCACGATGTGGTGGGATACACATGAGCTAGGTGA
16722403 GATG
1 GATG
16722407 CACATAATGA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.21, C:0.12, G:0.40, T:0.26
Consensus pattern (54 bp):
GATGAGATGTCCGGCTATGTGCACGATGTGGTGGGATACACATGAGCTAGGTGA
Found at i:16724038 original size:19 final size:19
Alignment explanation
Indices: 16724016--16724075 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
16724006 ATATGTAAAT
16724016 ATTAGAATAATAGTACCTA
1 ATTAGAATAATAGTACCTA
* * * *
16724035 ATTAAAAAAATCTGTA--AA
1 ATTAGAATAAT-AGTACCTA
16724053 GATTAGAATAATAGTACCTA
1 -ATTAGAATAATAGTACCTA
16724073 ATT
1 ATT
16724076 GTTGAATACT
Statistics
Matches: 29, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
18 4 0.14
19 21 0.72
20 4 0.14
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.32
Consensus pattern (19 bp):
ATTAGAATAATAGTACCTA
Found at i:16724051 original size:38 final size:38
Alignment explanation
Indices: 16723999--16724075 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
16723989 TAAATTAAAG
*
16723999 TAAAAAAATATGTAAATATTAGAATAATAGTACCTAAT
1 TAAAAAAATATGTAAAGATTAGAATAATAGTACCTAAT
*
16724037 TAAAAAAATCTGTAAAGATTAGAATAATAGTACCTAAT
1 TAAAAAAATATGTAAAGATTAGAATAATAGTACCTAAT
16724075 T
1 T
16724076 GTTGAATACT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.31
Consensus pattern (38 bp):
TAAAAAAATATGTAAAGATTAGAATAATAGTACCTAAT
Found at i:16724632 original size:17 final size:17
Alignment explanation
Indices: 16724599--16724632 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16724589 TTATTTTTAC
* *
16724599 TTTTATATTTTTTTAAT
1 TTTTATATATTTATAAT
16724616 TTTTATATATTTATAAT
1 TTTTATATATTTATAAT
16724633 ATAATTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATATATTTATAAT
Found at i:16724644 original size:15 final size:14
Alignment explanation
Indices: 16724626--16724660 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
16724616 TTTTATATAT
16724626 TTATAATATAATTAA
1 TTATAATATAATT-A
*
16724641 TTATATTATAATTA
1 TTATAATATAATTA
16724655 TTATAA
1 TTATAA
16724661 AATTATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTATAATATAATTA
Found at i:16735255 original size:17 final size:17
Alignment explanation
Indices: 16735225--16735268 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
16735215 TTTTATTAAT
* *
16735225 TATTTTTTACTTTTATA
1 TATTTTTAATTTTTATA
*
16735242 TTTTTTTAATTTTTATA
1 TATTTTTAATTTTTATA
16735259 TATTTTTAAT
1 TATTTTTAAT
16735269 ATAATTAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTTTTAATTTTTATA
Found at i:16737241 original size:2 final size:2
Alignment explanation
Indices: 16737234--16737266 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
16737224 TTGAAGCTGA
16737234 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
16737267 GCAATCAACT
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:16737862 original size:18 final size:18
Alignment explanation
Indices: 16737839--16737875 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
16737829 TGTTACTTAG
16737839 CTTCTAGATGGAATGGCC
1 CTTCTAGATGGAATGGCC
16737857 CTTCTAGATGGAATGGCC
1 CTTCTAGATGGAATGGCC
16737875 C
1 C
16737876 CTTTCTATTC
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:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (18 bp):
CTTCTAGATGGAATGGCC
Found at i:16742077 original size:19 final size:19
Alignment explanation
Indices: 16742026--16742069 Score: 81
Period size: 18 Copynumber: 2.4 Consensus size: 19
16742016 CCATCATAGC
16742026 TTTACTTTATATCAATTTA
1 TTTACTTTATATCAATTTA
16742045 -TTACTTTATATCAATTTA
1 TTTACTTTATATCAATTTA
16742063 TTTACTT
1 TTTACTT
16742070 ATTGTCAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTACTTTATATCAATTTA
Found at i:16752720 original size:26 final size:26
Alignment explanation
Indices: 16752660--16752721 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
16752650 ACCATATACC
*
16752660 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
*
16752686 CATCATCATCATGCACATCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
16752712 CATCATCATC
1 CATCATCATC
16752722 TCATATGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.32, C:0.40, G:0.03, T:0.24
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:16753014 original size:42 final size:42
Alignment explanation
Indices: 16752956--16753078 Score: 210
Period size: 42 Copynumber: 2.9 Consensus size: 42
16752946 ATGGGGGCAA
* *
16752956 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
1 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAG
* *
16752998 CAACGGCTTATATGCACTCCTACTCGCACATAGTCGGGTCAG
1 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAG
16753040 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGT
1 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGT
16753079 TCAAATCAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (42 bp):
CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAG
Found at i:16771078 original size:20 final size:20
Alignment explanation
Indices: 16771053--16771098 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
16771043 TTTTGACCTC
16771053 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
16771073 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
16771093 ATTTGA
1 ATTTGA
16771099 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:16771200 original size:28 final size:28
Alignment explanation
Indices: 16771143--16771201 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
16771133 TTTGGAGTAT
* *
16771143 AGGGGTAAAATGGTAATTTTGCCATCCC
1 AGGGGCAAAATGGTAATTTTGCCATACC
*
16771171 AGGGGCAAAATTGTAATTTT-CCACTACC
1 AGGGGCAAAATGGTAATTTTGCCA-TACC
16771199 AGG
1 AGG
16771202 ATATTTTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 3 0.11
28 24 0.89
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCATACC
Found at i:16778432 original size:91 final size:91
Alignment explanation
Indices: 16778277--16778461 Score: 343
Period size: 91 Copynumber: 2.0 Consensus size: 91
16778267 ACATTTTGAA
* * *
16778277 TTTCAGTGTACATTGAGGATTCTAATGATATGATGAAATAGCTAAGCCAATTGATGAGCTAAATT
1 TTTCAGTGCACATTAAGGATTCTAATGATATGATGAAATAGCTAAGCCAATTGATAAGCTAAATT
16778342 GAATTTTTGGTGTATATGTTTAAGAG
66 GAATTTTTGGTGTATATGTTTAAGAG
16778368 TTTCAGTGCACATTAAGGATTCTAATGATATGATGAAATAGCTAAGCCAATTGATAAGCTAAATT
1 TTTCAGTGCACATTAAGGATTCTAATGATATGATGAAATAGCTAAGCCAATTGATAAGCTAAATT
16778433 GAATTTTTGGTGTATATGTTTAAGAG
66 GAATTTTTGGTGTATATGTTTAAGAG
16778459 TTT
1 TTT
16778462 AAGAGTATGC
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (91 bp):
TTTCAGTGCACATTAAGGATTCTAATGATATGATGAAATAGCTAAGCCAATTGATAAGCTAAATT
GAATTTTTGGTGTATATGTTTAAGAG
Found at i:16782950 original size:217 final size:217
Alignment explanation
Indices: 16782570--16783002 Score: 767
Period size: 217 Copynumber: 2.0 Consensus size: 217
16782560 TCTAAGCCAA
* *
16782570 ATGTATCGATACATTAATAAATGTATTGATACATTCTTGGTAGGATGAACATCTATCGATACATT
1 ATGTATCGATACATTAACAAATGTACTGATACATTCTTGGTAGGATGAACATCTATCGATACATT
*
16782635 GTCCAAATGTATTAATAGATTTAAAGCAGGGGACATTATGTGGGAAAAAGTATCGGTAGATTCCC
66 GTCCAAATGTATTAATAGATTTAAAGCAGGGGACATTATGTGGGAAAAAGTAGCGGTAGATTCCC
* *
16782700 AAATCTATCTATACATTTTAAGCAGAAAGCAATCTGAATAAAATGTATCGATACATGGCTTCATG
131 AAATCTATCGATACATTTTAAGCAGAAAGCAATCTGAATAAAATGTATCGATACATGGCGTCATG
*
16782765 TATCGATAGATTTGAGGGAAAG
196 TATCGATAGATTTAAGGGAAAG
16782787 ATGTATCGATACATTAACAAATGTACTGATACATTCTTGGTAGGATGAACATCTATCGATACATT
1 ATGTATCGATACATTAACAAATGTACTGATACATTCTTGGTAGGATGAACATCTATCGATACATT
*
16782852 GTCCAAATGTATTGATAGATTTAAAGCAGGGGACATTATGTGGGAAAAAGTAGCGGTAGATTCCC
66 GTCCAAATGTATTAATAGATTTAAAGCAGGGGACATTATGTGGGAAAAAGTAGCGGTAGATTCCC
* * * *
16782917 AAATCTATCGATACATTTTAGGCAGAGAGCAATCTGAATAGAATGTATCTATACATGGCGTCATG
131 AAATCTATCGATACATTTTAAGCAGAAAGCAATCTGAATAAAATGTATCGATACATGGCGTCATG
16782982 TATCGATAGATTTAAGGGAAA
196 TATCGATAGATTTAAGGGAAA
16783003 TTTGTTAAGA
Statistics
Matches: 205, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
217 205 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.30
Consensus pattern (217 bp):
ATGTATCGATACATTAACAAATGTACTGATACATTCTTGGTAGGATGAACATCTATCGATACATT
GTCCAAATGTATTAATAGATTTAAAGCAGGGGACATTATGTGGGAAAAAGTAGCGGTAGATTCCC
AAATCTATCGATACATTTTAAGCAGAAAGCAATCTGAATAAAATGTATCGATACATGGCGTCATG
TATCGATAGATTTAAGGGAAAG
Found at i:16783421 original size:18 final size:18
Alignment explanation
Indices: 16783378--16783420 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
16783368 TAAGCATGTA
16783378 TATT-AAAA-TTGGGTAT
1 TATTGAAAAGTTGGGTAT
*
16783394 TTTTGAAAAGTTGGGATAT
1 TATTGAAAAGTTGGG-TAT
16783413 TATTGAAA
1 TATTGAAA
16783421 GCTAGGATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 3 0.14
17 4 0.18
18 5 0.23
19 10 0.45
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (18 bp):
TATTGAAAAGTTGGGTAT
Found at i:16784537 original size:2 final size:2
Alignment explanation
Indices: 16784530--16784554 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16784520 CACTAGCTGT
16784530 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
16784555 TTTCCCTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16785191 original size:38 final size:38
Alignment explanation
Indices: 16785139--16785223 Score: 134
Period size: 38 Copynumber: 2.2 Consensus size: 38
16785129 TATCATTGTG
* * *
16785139 TGATGAGATTGAAATGTGCGAGTAGGGAGAGCACATGA
1 TGATGATATGGAAATGTGCAAGTAGGGAGAGCACATGA
*
16785177 TGATGATATGGAAATGTGCAAGTAGGGAGAGCATATGA
1 TGATGATATGGAAATGTGCAAGTAGGGAGAGCACATGA
16785215 TGATGATAT
1 TGATGATAT
16785224 TGCCTTGAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.35, C:0.06, G:0.34, T:0.25
Consensus pattern (38 bp):
TGATGATATGGAAATGTGCAAGTAGGGAGAGCACATGA
Found at i:16786569 original size:20 final size:20
Alignment explanation
Indices: 16786534--16786575 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
16786524 AAAGTACGTA
*
16786534 CTTTTCTTTTCTTTAAATCT
1 CTTTTCTTTTCTTTAAAACT
16786554 CTTTTCTTTT-TATTAAAACT
1 CTTTTCTTTTCT-TTAAAACT
16786574 CT
1 CT
16786576 AGCCTCAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (20 bp):
CTTTTCTTTTCTTTAAAACT
Found at i:16786966 original size:28 final size:28
Alignment explanation
Indices: 16786904--16787104 Score: 222
Period size: 28 Copynumber: 7.0 Consensus size: 28
16786894 TTAAGATAAC
* * *
16786904 TCTTGTCTTTAATTAAGACAAAAATATATT
1 TCTTGTC-TAAATTAAGACAAACATGT-TT
** *
16786934 ATCTTGTCTAAATCGAGACAAATATGTTT
1 -TCTTGTCTAAATTAAGACAAACATGTTT
* * *
16786963 TCTTGTCTAGATTAAGACAAAAATATTTT
1 TCTTGTCTAAATTAAGACAAACAT-GTTT
*
16786992 TCTTGTCTTAAATTAAGACAAACATCTTT
1 TCTTGTC-TAAATTAAGACAAACATGTTT
* * *
16787021 TCTTGTCTAAGTTTAGATCAAACATGATT
1 TCTTGTCTAAATTAAGA-CAAACATGTTT
16787050 TCTTGTCTAAATTAAGACAAACATGTTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
*
16787078 TTTTGTCTAAATTAAGACAAACATGTT
1 TCTTGTCTAAATTAAGACAAACATGTT
16787105 AAAGCTGTTA
Statistics
Matches: 146, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
28 64 0.44
29 46 0.32
30 29 0.20
31 7 0.05
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATGTTT
Found at i:16787004 original size:58 final size:56
Alignment explanation
Indices: 16786904--16787098 Score: 223
Period size: 58 Copynumber: 3.4 Consensus size: 56
16786894 TTAAGATAAC
* ** *
16786904 TCTTGTCTTTAATTAAGACAAAAATATATTATCTTGTCTAAATCGAGACAAATATGTTT
1 TCTTGTC--TAATTAAGACAAAAATAT-TTTTCTTGTCTAAATTAAGACAAACATGTTT
*
16786963 TCTTGTCTAGATTAAGACAAAAATATTTTTCTTGTCTTAAATTAAGACAAACATCTTT
1 TCTTGTCTA-ATTAAGACAAAAATATTTTTCTTGTC-TAAATTAAGACAAACATGTTT
* *
16787021 TCTTGTCTAAGTTTAGATCAAACATGA--TTTCTTGTCTAAATTAAGACAAACATGTTT
1 TCTTGTCTAA-TTAAGA-CAAAAAT-ATTTTTCTTGTCTAAATTAAGACAAACATGTTT
*
16787078 TTTTGTCTAAATTAAGACAAA
1 TCTTGTCT-AATTAAGACAAA
16787099 CATGTTAAAG
Statistics
Matches: 120, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
56 4 0.03
57 44 0.37
58 58 0.48
59 13 0.11
60 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (56 bp):
TCTTGTCTAATTAAGACAAAAATATTTTTCTTGTCTAAATTAAGACAAACATGTTT
Found at i:16794671 original size:19 final size:19
Alignment explanation
Indices: 16794647--16794684 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16794637 CTGCCAAACC
*
16794647 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
16794666 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
16794685 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:16797324 original size:19 final size:19
Alignment explanation
Indices: 16797289--16797328 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
16797279 ATAAAGAATA
*
16797289 TAATTACTATTATATATAT
1 TAATTACTAATATATATAT
16797308 TAATTACTAAATAATATATAT
1 TAATTACT-AAT-ATATATAT
16797329 ACCTTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 2 0.11
21 8 0.44
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
TAATTACTAATATATATAT
Found at i:16802609 original size:20 final size:20
Alignment explanation
Indices: 16802564--16802601 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
16802554 TTTTGGCCCC
16802564 ATTTGAATTATTGGAGTATA
1 ATTTGAATTATTGGAGTATA
*
16802584 ATTTGACTTATTGGAGTA
1 ATTTGAATTATTGGAGTA
16802602 AGATTTGAGG
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:0.32, C:0.03, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGAATTATTGGAGTATA
Found at i:16830144 original size:19 final size:19
Alignment explanation
Indices: 16830120--16830157 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
16830110 CCATTTGACT
16830120 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
16830139 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
16830158 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:16833398 original size:13 final size:14
Alignment explanation
Indices: 16833375--16833407 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
16833365 ATTATAACAT
*
16833375 AGCATATTGATATG
1 AGCATAATGATATG
16833389 A-CATAATGATATG
1 AGCATAATGATATG
16833402 AGCATA
1 AGCATA
16833408 TAGTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.30
Consensus pattern (14 bp):
AGCATAATGATATG
Found at i:16834578 original size:21 final size:20
Alignment explanation
Indices: 16834528--16834578 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
16834518 TTATTTTTTT
16834528 ATTT-TTTAAAATATTTTAAA
1 ATTTATTTAAAATA-TTTAAA
16834548 ATTTATTTAAAATA-TTAATA
1 ATTTATTTAAAATATTTAA-A
16834568 ATTTATATTAA
1 ATTTAT-TTAA
16834579 TNATAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.14
20 11 0.39
21 13 0.46
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTATTTAAAATATTTAAA
Found at i:16834626 original size:16 final size:16
Alignment explanation
Indices: 16834553--16834628 Score: 56
Period size: 16 Copynumber: 5.1 Consensus size: 16
16834543 TTAAAATTTA
*
16834553 TTTAAAATATTAATAA
1 TTTAAAATATTAATAT
* * * * *
16834569 TTTATATTAATNATAA
1 TTTAAAATATTAATAT
16834585 TTT-AAATATTAATAT
1 TTTAAAATATTAATAT
16834600 TTT---AT-TT-ATAT
1 TTTAAAATATTAATAT
16834611 TTTAAAATATTAATAT
1 TTTAAAATATTAATAT
16834627 TT
1 TT
16834629 AATTTAATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
11 7 0.15
12 2 0.04
13 2 0.04
14 2 0.04
15 12 0.26
16 21 0.46
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTAAAATATTAATAT
Found at i:16834649 original size:27 final size:27
Alignment explanation
Indices: 16834553--16834646 Score: 97
Period size: 27 Copynumber: 3.4 Consensus size: 27
16834543 TTAAAATTTA
*
16834553 TTTAAAATATTAATAATTTATATTAATNATAA
1 TTTAAAATATTAAT-ATTTA-ATT--T-ATAT
*
16834585 TTT-AAATATTAATATTTTATTTATAT
1 TTTAAAATATTAATATTTAATTTATAT
16834611 TTTAAAATATTAATATTTAATTTA-A-
1 TTTAAAATATTAATATTTAATTTATAT
16834636 TTT-AAATATTA
1 TTTAAAATATTA
16834647 TTATGATCAA
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
24 8 0.14
25 3 0.05
26 7 0.12
27 20 0.34
29 3 0.05
30 4 0.07
31 10 0.17
32 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TTTAAAATATTAATATTTAATTTATAT
Found at i:16834701 original size:27 final size:28
Alignment explanation
Indices: 16834549--16834718 Score: 86
Period size: 27 Copynumber: 5.8 Consensus size: 28
16834539 TATTTTAAAA
16834549 TTTATTTAAAATATTAATAATTTATATTAAT
1 TTTATTTAAAATATTAATAA-TTAT-TT-AT
* *
16834580 NATAATTT-AAATATTAAT-A-T-TTTAT
1 -TTTATTTAAAATATTAATAATTATTTAT
*
16834605 TTATATTTTAAAATATTAAT-A-T-TTAAT
1 TT-TA-TTTAAAATATTAATAATTATTTAT
*
16834632 TTAATTTAAATATTATTATGATCAATTATTTTAT
1 TTTATTTAAA-A-TATTA--AT-AATTA-TTTAT
*
16834666 TTTATTTTATTTTAAAAATTAATAATTATTTA-
1 TTTA-TTTA----AAATATTAATAATTATTTAT
16834698 TTTATTTAAAATATTAATAAT
1 TTTATTTAAAATATTAATAAT
16834719 AGATAATTTA
Statistics
Matches: 111, Mismatches: 10, Indels: 39
0.69 0.06 0.24
Matches are distributed among these distances:
24 1 0.01
25 9 0.08
26 7 0.06
27 36 0.32
28 1 0.01
29 2 0.02
30 1 0.01
31 15 0.14
32 10 0.09
33 4 0.04
34 12 0.11
35 6 0.05
37 4 0.04
38 1 0.01
39 2 0.02
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (28 bp):
TTTATTTAAAATATTAATAATTATTTAT
Found at i:16834757 original size:24 final size:24
Alignment explanation
Indices: 16834663--16834759 Score: 81
Period size: 27 Copynumber: 4.0 Consensus size: 24
16834653 TCAATTATTT
*
16834663 TATTTTATTTTATTTTAAAAATTAA
1 TATTTTA-TTTATTTTAAATATTAA
*
16834688 TAATTATTTATTTATTTAAAATATTAA
1 T-A-T-TTTATTTATTTTAAATATTAA
* ** * *
16834715 TA--ATAGATAATTTACATATTAA
1 TATTTTATTTATTTTAAATATTAA
16834737 TATTTTATTTATTTTAAATATTA
1 TATTTTATTTATTTTAAATATTA
16834760 TTATGATTAA
Statistics
Matches: 54, Mismatches: 13, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
22 16 0.30
24 14 0.26
25 1 0.02
26 2 0.04
27 17 0.31
28 4 0.07
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (24 bp):
TATTTTATTTATTTTAAATATTAA
Found at i:16834834 original size:117 final size:116
Alignment explanation
Indices: 16834616--16834991 Score: 407
Period size: 117 Copynumber: 3.3 Consensus size: 116
16834606 TATATTTTAA
* *
16834616 AATATTAATATTTAATTTAATTTAAATATTATTATGATCAA---TTATTTTATTTTATTTTA-TT
1 AATATTAATATTTTATTTAATTTAAATATTATTATGATTAATTTTTATTTTATTTTATTTTATTT
* * * *
16834677 TTAAAAATTAATAATTATTTATTTATTTAAAATATTAATAATAGATAATTT
66 TTAAATATTAATAATTAATAATTTATTTAAAATATTAATAATTGATAATTT
*
16834728 ACATATTAATATTTTATTTATTTTAAATATTATTATGATTAATTTTTATTTTATTTTATTTTATT
1 A-ATATTAATATTTTATTTAATTTAAATATTATTATGATTAATTTTTATTTTATTTTATTTTATT
** * *
16834793 TTTAAATATTAATAATTGGTAATGTATTTAAAATATTAATAATTGATGATTT
65 TTTAAATATTAATAATTAATAATTTATTTAAAATATTAATAATTGATAATTT
* * * *
16834845 AATTATTAATATTATTTATATAATTTAAATGA-TATTTATG-TTTATTTAT-TTTTAATTTATTT
1 AA-TATTAATA-T-TTTATTTAATTTAAAT-ATTA-TTATGATTAATTTTTATTTTATTTTATTT
* ** * *
16834907 TGTTTTTAAATAGGAATAATTTATAATTTATTT----TATTAATAATTGATCATTT
61 TATTTTTAAATATTAATAATTAATAATTTATTTAAAATATTAATAATTGATAATTT
16834959 AAATATTAATATTTTATTTATACTTT-AATATTA
1 -AATATTAATATTTTATTTA-A-TTTAAATATTA
16834992 ATATTTTAAA
Statistics
Matches: 227, Mismatches: 23, Indels: 27
0.82 0.08 0.10
Matches are distributed among these distances:
112 9 0.04
113 44 0.19
114 29 0.13
115 2 0.01
116 19 0.08
117 55 0.24
118 40 0.18
119 23 0.10
120 6 0.03
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (116 bp):
AATATTAATATTTTATTTAATTTAAATATTATTATGATTAATTTTTATTTTATTTTATTTTATTT
TTAAATATTAATAATTAATAATTTATTTAAAATATTAATAATTGATAATTT
Found at i:16834977 original size:19 final size:19
Alignment explanation
Indices: 16834955--16835026 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 19
16834945 ATAATTGATC
16834955 ATTTAAATATTAATATTTT
1 ATTTAAATATTAATATTTT
* *
16834974 ATTTATACT-TTAATATTAAT
1 ATTTA-AATATTAATATT-TT
16834994 ATTTTAAAATATTAATATTTT
1 A-TTT-AAATATTAATATTTT
*
16835015 A-TTAAAAATTAA
1 ATTTAAATATTAA
16835027 AATCAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
18 8 0.19
19 15 0.35
20 4 0.09
21 7 0.16
22 9 0.21
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTAAATATTAATATTTT
Found at i:16835006 original size:16 final size:16
Alignment explanation
Indices: 16834985--16835015 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
16834975 TTTATACTTT
16834985 AATATTAATATTTTAA
1 AATATTAATATTTTAA
16835001 AATATTAATATTTTA
1 AATATTAATATTTTA
16835016 TTAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATATTAATATTTTAA
Found at i:16844738 original size:12 final size:12
Alignment explanation
Indices: 16844719--16844755 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
16844709 GAGAGGAGAG
16844719 ACAAAAAAAGAA
1 ACAAAAAAAGAA
*
16844731 AGAAAAAAA-AA
1 ACAAAAAAAGAA
16844742 ACAAAAAAAGAA
1 ACAAAAAAAGAA
16844754 AC
1 AC
16844756 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (12 bp):
ACAAAAAAAGAA
Found at i:16845641 original size:29 final size:30
Alignment explanation
Indices: 16845608--16845673 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
16845598 AAAATTATCT
16845608 AAATAAATTTTTT-ATTCTTTA-TTAAATTC
1 AAATAAATTTTTTAATTCTTTATTTAAA-TC
*
16845637 AAAT-AATTTTTTAATTTTTTATTTAAATC
1 AAATAAATTTTTTAATTCTTTATTTAAATC
16845666 AAATAAAT
1 AAATAAAT
16845674 CCTTAAACTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 8 0.24
29 17 0.52
30 8 0.24
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (30 bp):
AAATAAATTTTTTAATTCTTTATTTAAATC
Found at i:16847386 original size:15 final size:16
Alignment explanation
Indices: 16847366--16847396 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16847356 TGCTTCTTTT
16847366 TCTTTT-TTTTTTCTC
1 TCTTTTCTTTTTTCTC
16847381 TCTTTTCTTTTTTCTC
1 TCTTTTCTTTTTTCTC
16847397 AAATCCCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TCTTTTCTTTTTTCTC
Found at i:16855890 original size:9 final size:8
Alignment explanation
Indices: 16855874--16855923 Score: 64
Period size: 9 Copynumber: 5.9 Consensus size: 8
16855864 AAGTAATCTA
16855874 AAAAAAAG
1 AAAAAAAG
16855882 AAAAGAAAG
1 AAAA-AAAG
16855891 AAAGAAAAG
1 AAA-AAAAG
*
16855900 AAAGAAAG
1 AAAAAAAG
16855908 AAAAAAAGG
1 AAAAAAA-G
16855917 AAAAAAA
1 AAAAAAA
16855924 ATTGAATTGC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
8 14 0.38
9 22 0.59
10 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:16855919 original size:13 final size:13
Alignment explanation
Indices: 16855878--16855915 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
16855868 AATCTAAAAA
16855878 AAAGAAAAGAAAG
1 AAAGAAAAGAAAG
16855891 AAAGAAAAGAAAG
1 AAAGAAAAGAAAG
16855904 AAAGAAAA-AAAG
1 AAAGAAAAGAAAG
16855916 GAAAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAGAAAAGAAAG
Found at i:16859381 original size:377 final size:377
Alignment explanation
Indices: 16858687--16859444 Score: 1471
Period size: 377 Copynumber: 2.0 Consensus size: 377
16858677 CTTATAAAAT
*
16858687 CTCATAAACTCTTTCTAAGGGGTGAGCAGTCAATGGATTGTTGGGCTGCTTCATTGATAAACGTA
1 CTCATAAACTCTTTCTAAAGGGTGAGCAGTCAATGGATTGTTGGGCTGCTTCATTGATAAACGTA
16858752 TGTATGTAGCAAACTATCTAGGATTGTCCCTATAGCCCTATGATGGCATGTCTTGGTTCCTATGT
66 TGTATGTAGCAAACTATCTAGGATTGTCCCTATAGCCCTATGATGGCATGTCTTGGTTCCTATGT
*
16858817 ACTCATTTTCATATTAATAAAATATTTTTCTTTATATGGCTTCAGTGGTTGCATGTATAGCATTC
131 ACTCATTTTCATATTAATAAAATATTTTTCTTTATATGACTTCAGTGGTTGCATGTATAGCATTC
*
16858882 GATATGCCTTATTATTTCGATGTGTGTTGTTTTAATCTAATTTATGGTTGTTGTTGATGTTTGTT
196 GATATGCCTTATTATTTCGATGTGTGTTGTTTTAATCTAATTTATGGTTATTGTTGATGTTTGTT
16858947 CAGATCTAGACTATTTATTGGCTAGCTTGCGTGGAAGCATCCATTTAAGTGCTATACAGACTATT
261 CAGATCTAGACTATTTATTGGCTAGCTTGCGTGGAAGCATCCATTTAAGTGCTATACAGACTATT
* *
16859012 GCATTCTTAAGTGAAAGAGCGTAGTCCGTAACACTAGGCATAGCAGTAGAGA
326 GCATTCTTAAGTGAAAGAGCGTAGTCCGTAACACTAGGCATAACAGTAAAGA
16859064 CTCATAAACTCTTTCTAAAGGGTGAGCAGTCAATGGATTGTTGGGCTGCTTCATTGATAAACGTA
1 CTCATAAACTCTTTCTAAAGGGTGAGCAGTCAATGGATTGTTGGGCTGCTTCATTGATAAACGTA
16859129 TGTATGTAGCAAACTATCTAGGATTGTCCCTATAGCCCTATGATGGCATGTCTTGGTTCCTATGT
66 TGTATGTAGCAAACTATCTAGGATTGTCCCTATAGCCCTATGATGGCATGTCTTGGTTCCTATGT
16859194 ACTCATTTTCATATTAATAAAATATTTTTCTTTATATGACTTCAGTGGTTGCATGTATAGCATTC
131 ACTCATTTTCATATTAATAAAATATTTTTCTTTATATGACTTCAGTGGTTGCATGTATAGCATTC
16859259 GATATGCCTTATTATTTCGATGTGTGTTGTTTTAATCTAATTTATGGTTATTGTTGATGTTTGTT
196 GATATGCCTTATTATTTCGATGTGTGTTGTTTTAATCTAATTTATGGTTATTGTTGATGTTTGTT
16859324 CAGATCTAGACTATTTATTGGCTAGCTTGCGTGGAAGCATCCATTTAAGTGCTATACAGACTATT
261 CAGATCTAGACTATTTATTGGCTAGCTTGCGTGGAAGCATCCATTTAAGTGCTATACAGACTATT
16859389 GCATTCTTAAGTGAAAGAGCGTAGTCCGTAACACTAGGCATAACAGTAAAGA
326 GCATTCTTAAGTGAAAGAGCGTAGTCCGTAACACTAGGCATAACAGTAAAGA
16859441 CTCA
1 CTCA
16859445 ACTGCCATGA
Statistics
Matches: 376, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
377 376 1.00
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (377 bp):
CTCATAAACTCTTTCTAAAGGGTGAGCAGTCAATGGATTGTTGGGCTGCTTCATTGATAAACGTA
TGTATGTAGCAAACTATCTAGGATTGTCCCTATAGCCCTATGATGGCATGTCTTGGTTCCTATGT
ACTCATTTTCATATTAATAAAATATTTTTCTTTATATGACTTCAGTGGTTGCATGTATAGCATTC
GATATGCCTTATTATTTCGATGTGTGTTGTTTTAATCTAATTTATGGTTATTGTTGATGTTTGTT
CAGATCTAGACTATTTATTGGCTAGCTTGCGTGGAAGCATCCATTTAAGTGCTATACAGACTATT
GCATTCTTAAGTGAAAGAGCGTAGTCCGTAACACTAGGCATAACAGTAAAGA
Found at i:16860482 original size:19 final size:19
Alignment explanation
Indices: 16860458--16860498 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
16860448 GGTTGTCTTT
* *
16860458 TGATAAAAAATAATAATAA
1 TGATAAAAAACAAAAATAA
*
16860477 TGATAAAAGACAAAAATAA
1 TGATAAAAAACAAAAATAA
16860496 TGA
1 TGA
16860499 GTTAGAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (19 bp):
TGATAAAAAACAAAAATAA
Found at i:16860796 original size:15 final size:15
Alignment explanation
Indices: 16860773--16860814 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
16860763 GCATTAGAAC
16860773 AAAAA-AATAATATA
1 AAAAATAATAATATA
*
16860787 AAAAATAATAATATT
1 AAAAATAATAATATA
* *
16860802 AATAATGATAATA
1 AAAAATAATAATA
16860815 AACACAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (15 bp):
AAAAATAATAATATA
Found at i:16863834 original size:16 final size:17
Alignment explanation
Indices: 16863813--16863845 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
16863803 ACAATTACTC
16863813 GCTTATAT-TTTTTTTA
1 GCTTATATATTTTTTTA
16863829 GCTTATATATTTTTTTA
1 GCTTATATATTTTTTTA
16863846 TTATTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.67
Consensus pattern (17 bp):
GCTTATATATTTTTTTA
Found at i:16864414 original size:16 final size:17
Alignment explanation
Indices: 16864390--16864424 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
16864380 TATTTTGTGT
16864390 TAACATTATAAAAATTA
1 TAACATTATAAAAATTA
16864407 TAAC-TTATAAAAATTA
1 TAACATTATAAAAATTA
16864423 TA
1 TA
16864425 TTTTTTGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (17 bp):
TAACATTATAAAAATTA
Found at i:16864514 original size:40 final size:40
Alignment explanation
Indices: 16864431--16864569 Score: 179
Period size: 40 Copynumber: 3.5 Consensus size: 40
16864421 TATATTTTTT
* * *
16864431 GTTATTTAAGTTTATGTTATTTGTTTGGATCTTTGTGTTTA
1 GTTATTTAAGTTTATGTT-GTTGTTTGGATATTTATGTTTA
* *
16864472 GTTATTTAAGTTTATGTTGTTATTTGGATATTTATGTATA
1 GTTATTTAAGTTTATGTTGTTGTTTGGATATTTATGTTTA
* * * * *
16864512 GTTATTTAAGTTTATATCGTTGTATGAATATTTATTTTTA
1 GTTATTTAAGTTTATGTTGTTGTTTGGATATTTATGTTTA
16864552 GTTATTTAAGTTTATGTT
1 GTTATTTAAGTTTATGTT
16864570 TAAGATCTTT
Statistics
Matches: 84, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 66 0.79
41 18 0.21
ACGTcount: A:0.23, C:0.01, G:0.17, T:0.59
Consensus pattern (40 bp):
GTTATTTAAGTTTATGTTGTTGTTTGGATATTTATGTTTA
Found at i:16864518 original size:22 final size:21
Alignment explanation
Indices: 16864441--16864518 Score: 65
Period size: 22 Copynumber: 3.8 Consensus size: 21
16864431 GTTATTTAAG
* * *
16864441 TTTATGTTATTTGTTTGGATC
1 TTTATGTTAGTTATTTGGATA
*
16864462 TTTGTGTTTAGTTATTT--A-A
1 TTTATG-TTAGTTATTTGGATA
16864481 GTTTATGTT-GTTATTTGGATA
1 -TTTATGTTAGTTATTTGGATA
16864502 TTTATGTATAGTTATTT
1 TTTATGT-TAGTTATTT
16864519 AAGTTTATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
18 7 0.16
19 2 0.04
20 14 0.31
21 7 0.16
22 15 0.33
ACGTcount: A:0.19, C:0.01, G:0.18, T:0.62
Consensus pattern (21 bp):
TTTATGTTAGTTATTTGGATA
Found at i:16868541 original size:3 final size:3
Alignment explanation
Indices: 16868533--16868566 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
16868523 TAAGATTAAC
16868533 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
16868567 AGAATAAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Done.