Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008007.1 Hibiscus syriacus cultivar Beakdansim tig00110469_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: 1953294
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 11
Found at i:386425 original size:28 final size:30
Alignment explanation
Indices: 386376--386438 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 30
386366 ATTTTTCATA
386376 TAATATAATATATAAATTAAACTAACAAAC
1 TAATATAATATATAAATTAAACTAACAAAC
* *
386406 TAATAT-A-ATATAACTTAAACTAACCAAC
1 TAATATAATATATAAATTAAACTAACAAAC
386434 TAATA
1 TAATA
386439 ATTTAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 24 0.77
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (30 bp):
TAATATAATATATAAATTAAACTAACAAAC
Found at i:387192 original size:30 final size:30
Alignment explanation
Indices: 387158--387216 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
387148 TAGGAGTTCG
*
387158 CCCCGACTCCATGGAGACATATTTGCTTCA
1 CCCCGACTCCATGGAGACATACTTGCTTCA
* *
387188 CCCCGACTCCATGGCGACCTACTTGCTTC
1 CCCCGACTCCATGGAGACATACTTGCTTC
387217 GCTTCGCCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.39, G:0.17, T:0.25
Consensus pattern (30 bp):
CCCCGACTCCATGGAGACATACTTGCTTCA
Found at i:387733 original size:10 final size:11
Alignment explanation
Indices: 387660--387742 Score: 52
Period size: 11 Copynumber: 7.8 Consensus size: 11
387650 CATAATGATA
387660 AAATAATAATT
1 AAATAATAATT
387671 AAAGTAATAATTT
1 AAA-TAATAA-TT
*
387684 AAA-CATAA--
1 AAATAATAATT
* *
387692 AAATAAAAATA
1 AAATAATAATT
*
387703 AAATGCA-AA-T
1 AAAT-AATAATT
387713 AAATAATAATT
1 AAATAATAATT
387724 AAATAA-AATT
1 AAATAATAATT
*
387734 AAACAATAA
1 AAATAATAA
387743 GACTAAAATG
Statistics
Matches: 56, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
8 3 0.05
9 4 0.07
10 15 0.27
11 22 0.39
12 7 0.12
13 5 0.09
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (11 bp):
AAATAATAATT
Found at i:388958 original size:3 final size:3
Alignment explanation
Indices: 388944--388981 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
388934 AATTATTTAT
* *
388944 TAA TAA TTA TAA TAA TAA -AA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
388982 AAAAATTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:388967 original size:17 final size:17
Alignment explanation
Indices: 388945--388978 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
388935 ATTATTTATT
388945 AATAATTATAATAATAA
1 AATAATTATAATAATAA
388962 AATAATTATAATAATAA
1 AATAATTATAATAATAA
388979 TAAAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATAATTATAATAATAA
Found at i:388975 original size:20 final size:19
Alignment explanation
Indices: 388952--389000 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
388942 ATTAATAATT
*
388952 ATAATAATAAAATAATTATA
1 ATAATAATAAAAAAATTA-A
388972 ATAATAATAAAAAAATTAA
1 ATAATAATAAAAAAATTAA
388991 A-AA-AATAAAA
1 ATAATAATAAAA
389001 CCGGAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 7 0.25
18 2 0.07
19 2 0.07
20 17 0.61
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
ATAATAATAAAAAAATTAA
Found at i:389436 original size:122 final size:122
Alignment explanation
Indices: 389296--389861 Score: 688
Period size: 122 Copynumber: 4.7 Consensus size: 122
389286 GAATTAAGGC
* * * *
389296 AAGGTTGAACAAATTTTTCTCATTATGAATTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTAC
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTAT
* ***
389361 GAACTCTTCTGGAAATGTTGATGATGATCTATCTCTTTCTGTGATAGCGTCGAGCAA
66 GAACTCTTCTGGAAATGTTGATGCTGATCTATCTCTTTCTGTGATAAAATCGAGCAA
* *
389418 AAGGTTGAACAAGTTTTTCTCATTATGAACTTATTCTCCTTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTAT
* * * *
389483 GAACACCTCTGGAAATGTTGATGCTGATTTATCT-TCTTCTGTGATAAAATCAAGCAA
66 GAACTCTTCTGGAAATGTTGATGCTGATCTATCTCT-TTCTGTGATAAAATCGAGCAA
** * *
389540 AAATTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATAAGTTCTTTTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTAT
* * * *
389605 GAACACCTCTGGAAATGTTGATGCTGATTTATCTCCTTCTGTGATAAAATCGAGCAA
66 GAACTCTTCTGGAAATGTTGATGCTGATCTATCTCTTTCTGTGATAAAATCGAGCAA
** * * *
389662 AAATTTGAACAAGTTCTTCTCATTATGAACTCCTTCTCCTTCTTCAGATAAGTTCTTCTTATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTAT
* * ** * * *
389727 GAACTTTCTCTGGAAA---T-A--CTGATCCA--TC---GAGTGATGAATTTGAGCAA
66 GAACTCT-TCTGGAAATGTTGATGCTGATCTATCTCTTTCTGTGATAAAATCGAGCAA
* * *
389774 AAGGTTGAACATGTTCTTCTCATTATGAACTTCTTCTTCCATCTTCAAATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTCATTA
389839 TGAACTCTTCTGGAAATGTTGAT
65 TGAACTCTTCTGGAAATGTTGAT
389862 CCATTGAGTG
Statistics
Matches: 393, Mismatches: 42, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
112 54 0.14
113 31 0.08
115 3 0.01
116 1 0.00
117 6 0.02
119 1 0.00
120 1 0.00
121 1 0.00
122 287 0.73
123 8 0.02
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (122 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTAT
GAACTCTTCTGGAAATGTTGATGCTGATCTATCTCTTTCTGTGATAAAATCGAGCAA
Found at i:389851 original size:112 final size:112
Alignment explanation
Indices: 389656--389871 Score: 308
Period size: 112 Copynumber: 1.9 Consensus size: 112
389646 TGATAAAATC
* * *
389656 GAGCAAAAATTTGAACAAGTTCTTCTCATTATGAACTCCTTCTCCTTCTTCAGATAAGTTCTTCT
1 GAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTCCTTCTCCATCTTCAAATAAGTTCTTCT
* *
389721 TATTATGAACTTTCTCTGGAAATACTGATCCATCGAGTGATGAATTT
66 CATTATGAACTCTCTCTGGAAATACTGATCCATCGAGTGATGAATTT
* * * *
389768 GAGCAAAAGGTTGAACATGTTCTTCTCATTATGAACTTCTTCTTCCATCTTCAAATGAGTTCTTC
1 GAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTCCTTC-TCCATCTTCAAATAAGTTCTTC
** *
389833 TCATTATGAACTCT-TCTGGAAATGTTGATCCATTGAGTG
65 TCATTATGAACTCTCTCTGGAAATACTGATCCATCGAGTG
389872 TATGGATTCA
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
112 60 0.66
113 31 0.34
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (112 bp):
GAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTCCTTCTCCATCTTCAAATAAGTTCTTCT
CATTATGAACTCTCTCTGGAAATACTGATCCATCGAGTGATGAATTT
Found at i:390266 original size:22 final size:22
Alignment explanation
Indices: 390232--390304 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
390222 AAATCCAATA
* *
390232 AATCTTTCTTCTTTGAAAAGAG
1 AATCTATCATCTTTGAAAAGAG
* *
390254 AATGTATCATCTTTGAAGAGAG
1 AATCTATCATCTTTGAAAAGAG
390276 AATCTATCATCTTTGAAAAGAG
1 AATCTATCATCTTTGAAAAGAG
390298 AATCTAT
1 AATCTAT
390305 TATTTTTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (22 bp):
AATCTATCATCTTTGAAAAGAG
Found at i:390714 original size:24 final size:24
Alignment explanation
Indices: 390687--390735 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
390677 CACTTGACAA
* *
390687 CACATTCATCATTTCTTGTGTCTT
1 CACATTCATCATTTCCTGTGACTT
390711 CACATTCATCATTTCCTGTGACTT
1 CACATTCATCATTTCCTGTGACTT
390735 C
1 C
390736 TGCACAGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.18, C:0.29, G:0.08, T:0.45
Consensus pattern (24 bp):
CACATTCATCATTTCCTGTGACTT
Found at i:390798 original size:54 final size:54
Alignment explanation
Indices: 390711--391016 Score: 362
Period size: 54 Copynumber: 5.7 Consensus size: 54
390701 CTTGTGTCTT
* * *
390711 CACATTCATCATTTCCTGTGACTTCTGCACAGATGTTCGTAAAGCATTTGACAA
1 CACATTCATCATTTCTTGTGGCTTCTGCACAGATGTTCGTAAAACATTTGACAA
* * * * *
390765 CATATTCATCTTTTCTTGTGGCTTTTGCCCAGATGTTCATAAAACATTTGACAA
1 CACATTCATCATTTCTTGTGGCTTCTGCACAGATGTTCGTAAAACATTTGACAA
** * * *
390819 CACATTCATCATTTCTTGTGGCTTCTGCTTAAATGTTCTTAAAACATTCGACAA
1 CACATTCATCATTTCTTGTGGCTTCTGCACAGATGTTCGTAAAACATTTGACAA
* * ** * *
390873 CACATTCATCCTTTCCTGTAACTTCTGCACAGATGTTCGTAAAGCATTTGAAAA
1 CACATTCATCATTTCTTGTGGCTTCTGCACAGATGTTCGTAAAACATTTGACAA
* * * *
390927 CACATTCAT-ATTTTCTTGTGGCTTTTTCCCAGATGTTCTTAAAACATTTGACAA
1 CACATTCATCA-TTTCTTGTGGCTTCTGCACAGATGTTCGTAAAACATTTGACAA
* * *
390981 CACATTCATCCTTTCTTGTGGCTTTTGCTCAGATGT
1 CACATTCATCATTTCTTGTGGCTTCTGCACAGATGT
391017 CTGGTCAATG
Statistics
Matches: 210, Mismatches: 40, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
54 210 1.00
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.39
Consensus pattern (54 bp):
CACATTCATCATTTCTTGTGGCTTCTGCACAGATGTTCGTAAAACATTTGACAA
Found at i:390978 original size:162 final size:162
Alignment explanation
Indices: 390711--391009 Score: 517
Period size: 162 Copynumber: 1.8 Consensus size: 162
390701 CTTGTGTCTT
* * * *
390711 CACATTCATCATTTCCTGTGACTTCTGCACAGATGTTCGTAAAGCATTTGACAACATATTCATCT
1 CACATTCATCATTTCCTGTAACTTCTGCACAGATGTTCGTAAAGCATTTGAAAACACATTCATAT
390776 TTTCTTGTGGCTTTTGCCCAGATGTTCATAAAACATTTGACAACACATTCATCATTTCTTGTGGC
66 TTTCTTGTGGCTTTTGCCCAGATGTTCATAAAACATTTGACAACACATTCATCATTTCTTGTGGC
390841 TTCTGCTTAAATGTTCTTAAAACATTCGACAA
131 TTCTGCTTAAATGTTCTTAAAACATTCGACAA
*
390873 CACATTCATCCTTTCCTGTAACTTCTGCACAGATGTTCGTAAAGCATTTGAAAACACATTCATAT
1 CACATTCATCATTTCCTGTAACTTCTGCACAGATGTTCGTAAAGCATTTGAAAACACATTCATAT
* * *
390938 TTTCTTGTGGCTTTTTCCCAGATGTTCTTAAAACATTTGACAACACATTCATCCTTTCTTGTGGC
66 TTTCTTGTGGCTTTTGCCCAGATGTTCATAAAACATTTGACAACACATTCATCATTTCTTGTGGC
*
391003 TTTTGCT
131 TTCTGCT
391010 CAGATGTCTG
Statistics
Matches: 128, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
162 128 1.00
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.39
Consensus pattern (162 bp):
CACATTCATCATTTCCTGTAACTTCTGCACAGATGTTCGTAAAGCATTTGAAAACACATTCATAT
TTTCTTGTGGCTTTTGCCCAGATGTTCATAAAACATTTGACAACACATTCATCATTTCTTGTGGC
TTCTGCTTAAATGTTCTTAAAACATTCGACAA
Found at i:398429 original size:18 final size:19
Alignment explanation
Indices: 398401--398436 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
398391 ACAAACATAA
398401 AAAAATGAAAAATGCAAAT
1 AAAAATGAAAAATGCAAAT
398420 AAAAAT-AAAAATGCAAA
1 AAAAATGAAAAATGCAAA
398437 GATGCAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.72, C:0.06, G:0.08, T:0.14
Consensus pattern (19 bp):
AAAAATGAAAAATGCAAAT
Found at i:399395 original size:46 final size:47
Alignment explanation
Indices: 399332--399424 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 47
399322 TGGTATAAAT
* * *
399332 CCTAACATCATGCTTTCTAGTTCTATACTTTGTTTG-GAAAAATTAA
1 CCTAACATCATGATTTCTAGTTCCATACTTTGTTTGAAAAAAATTAA
**
399378 CCTAAC-TACATGATTTCTAGTTCCATGTTTTGTTTGAAAAAAATTAA
1 CCTAACAT-CATGATTTCTAGTTCCATACTTTGTTTGAAAAAAATTAA
399425 ATCAAATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
45 1 0.03
46 30 0.75
47 9 0.22
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (47 bp):
CCTAACATCATGATTTCTAGTTCCATACTTTGTTTGAAAAAAATTAA
Found at i:400137 original size:16 final size:17
Alignment explanation
Indices: 400116--400153 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
400106 ACTTGGCGAG
400116 AAAAATAATGTTGA-TA
1 AAAAATAATGTTGATTA
* *
400132 AAAAATGATTTTGATTA
1 AAAAATAATGTTGATTA
400149 AAAAA
1 AAAAA
400154 AATTTTGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (17 bp):
AAAAATAATGTTGATTA
Found at i:400762 original size:10 final size:11
Alignment explanation
Indices: 400689--400771 Score: 52
Period size: 11 Copynumber: 7.8 Consensus size: 11
400679 CATAATGATA
400689 AAATAATAATT
1 AAATAATAATT
400700 AAAGTAATAATTT
1 AAA-TAATAA-TT
*
400713 AAA-CATAA--
1 AAATAATAATT
* *
400721 AAATAAAAATA
1 AAATAATAATT
*
400732 AAATGCA-AA-T
1 AAAT-AATAATT
400742 AAATAATAATT
1 AAATAATAATT
400753 AAATAA-AATT
1 AAATAATAATT
*
400763 AAACAATAA
1 AAATAATAA
400772 GATTAAAATG
Statistics
Matches: 56, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
8 3 0.05
9 4 0.07
10 15 0.27
11 22 0.39
12 7 0.12
13 5 0.09
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (11 bp):
AAATAATAATT
Found at i:401984 original size:3 final size:3
Alignment explanation
Indices: 401976--402028 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
401966 TAAAATTATT
* *
401976 TAA TAA TAA TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA AAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
402023 TAA TAA
1 TAA TAA
402029 AACCGGAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:403386 original size:14 final size:15
Alignment explanation
Indices: 403353--403398 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
403343 TTTTCTTCGA
*
403353 TATTGAAAAATAAA-
1 TATTTAAAAATAAAT
*
403367 TA-TT-AAAATAATT
1 TATTTAAAAATAAAT
403380 TATTTAAAAATAAAT
1 TATTTAAAAATAAAT
403395 TATT
1 TATT
403399 ATTTATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 7 0.27
13 3 0.12
14 4 0.15
15 12 0.46
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
TATTTAAAAATAAAT
Found at i:404817 original size:12 final size:13
Alignment explanation
Indices: 404802--404834 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
404792 TATATATTAT
404802 TATATTTATTT-A
1 TATATTTATTTAA
*
404814 TATATGTATTTAA
1 TATATTTATTTAA
404827 TATATTTA
1 TATATTTA
404835 ATAATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (13 bp):
TATATTTATTTAA
Found at i:404841 original size:3 final size:3
Alignment explanation
Indices: 404833--404940 Score: 189
Period size: 3 Copynumber: 36.0 Consensus size: 3
404823 TTAATATATT
*
404833 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
404881 TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
404929 TAA TAA TAA TAA
1 TAA TAA TAA TAA
404941 ATCAATATGG
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 99 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:405487 original size:116 final size:113
Alignment explanation
Indices: 405266--405720 Score: 578
Period size: 113 Copynumber: 4.0 Consensus size: 113
405256 ATAGAATTAT
* * *
405266 GCAAAAAGTTAAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * *
405331 ATTATGAACTTTCTCTGGAAAAGCTGCTCCATTAAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATAGATTTGA
* * *
405379 GCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTT
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTT
* * * **
405444 CTCAGTATGAACTCTAC-CTGGAAATG-TCGATCCATCAAATGAT-GAATTCAA
63 CTCATTATGAACT-TTCTCTGGAAAAGCT-GATCCATCAAATGATAG-ATTTGA
* * *
405495 ACAAAAAGTTGAACAAGTTCTCCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
405560 ATTATGAACTTTCTCTGGAAAAGCTGATCCGTCAAGTAATAGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATAGATTTGA
* *
405608 GCAAAAGGTTGAACAAATTCTTCTCATTATGATA-TTCTTCTTCCTTCTTCATATGAGTTCTTCT
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGA-ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *
405672 CATTATGAACTTTCTCTGGAAATG-TCAATCCATCAAATGATAGATTTGA
65 CATTATGAACTTTCTCTGGAAAAGCT-GATCCATCAAATGATAGATTTGA
405721 ATCTTTGCTA
Statistics
Matches: 295, Mismatches: 36, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
112 3 0.01
113 193 0.65
114 3 0.01
115 2 0.01
116 92 0.31
117 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATAGATTTGA
Found at i:405545 original size:229 final size:226
Alignment explanation
Indices: 405267--405712 Score: 707
Period size: 229 Copynumber: 2.0 Consensus size: 226
405257 TAGAATTATG
* *
405267 CAAAAAGTTAAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTAAACAAGTTCTCCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
405332 TTATGAACTTTCTCTGGAAAAGCTGCTCCATTAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTAATAGATTTGAGCAAAAGGTTGAACAAAT
* *
405397 TCTTCTTATTATGA-ACTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCAGTATGAACTCTAC
131 TCTTCTCATTATGATA-TTCTTCTTCCTTCTTC--AT-ACGAGTTCTTCTCAGTATGAACT-TAC
*
405461 -CTGGAAATGTCGATCCATCAAATGATGAATTCAAA
191 TCTGGAAATGTCAATCCATCAAATGATGAATTCAAA
*
405496 CAAAAAGTTGAACAAGTTCTCCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTAAACAAGTTCTCCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
405561 TTATGAACTTTCTCTGGAAAAGCTGATCCGTCAAGTAATAGATTTGAGCAAAAGGTTGAACAAAT
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTAATAGATTTGAGCAAAAGGTTGAACAAAT
* * *
405626 TCTTCTCATTATGATATTCTTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAACTTTCTCTGG
131 TCTTCTCATTATGATATTCTTCTTCCTTCTTCATACGAGTTCTTCTCAGTATGAACTTACTCTGG
405691 AAATGTCAATCCATCAAATGAT
196 AAATGTCAATCCATCAAATGAT
405713 AGATTTGAAT
Statistics
Matches: 201, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
225 2 0.01
226 46 0.23
227 2 0.01
229 150 0.75
230 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (226 bp):
CAAAAAGTTAAACAAGTTCTCCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTAATAGATTTGAGCAAAAGGTTGAACAAAT
TCTTCTCATTATGATATTCTTCTTCCTTCTTCATACGAGTTCTTCTCAGTATGAACTTACTCTGG
AAATGTCAATCCATCAAATGATGAATTCAAA
Found at i:405662 original size:24 final size:23
Alignment explanation
Indices: 405627--405671 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
405617 TGAACAAATT
405627 CTTCTCATTATGATATTCTTCTTC
1 CTTCTCATTATGA-ATTCTTCTTC
*
405651 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGAATTCTTCT
405672 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 9 0.47
25 3 0.16
ACGTcount: A:0.16, C:0.24, G:0.07, T:0.53
Consensus pattern (23 bp):
CTTCTCATTATGAATTCTTCTTC
Found at i:406614 original size:83 final size:83
Alignment explanation
Indices: 406441--406912 Score: 711
Period size: 83 Copynumber: 5.7 Consensus size: 83
406431 GTTCCTACCA
* *
406441 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTCCTTCATCCTCCAAA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAG-CACATTCATCCTCCAAA
406506 TTCAATGATTGGTTCTGTCC
64 TTCAATGATTGGTTCTGTCC
* *
406526 AACCAGATCAGATAACTCAAAGAACACTTCCACAAGATGTTATGAGCACATTCATCCTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCCTCCAAATT
*
406591 AAATGATTGGTTCTGTCC
66 CAATGATTGGTTCTGTCC
* *
406609 AACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCAT-CTTCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCCTCCAAATT
*
406673 CAATGATTGGTTCTGTTC
66 CAATGATTGGTTCTGTCC
* * * * *
406691 AACCAGATCAGATAACTCATAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCCTCCAAATT
*
406756 CAATAATTGGTT-T-TACC
66 CAATGATTGGTTCTGT-CC
* *
406773 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAAT
1 -AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCCTCCAAAT
406838 TCAATGATTGGTT-T-TACC
65 TCAATGATTGGTTCTGT-CC
406856 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATC
1 -AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATC
406913 TTTCCAGGTA
Statistics
Matches: 357, Mismatches: 27, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
81 1 0.00
82 77 0.22
83 235 0.66
84 4 0.01
85 40 0.11
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (83 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCCTCCAAATT
CAATGATTGGTTCTGTCC
Found at i:406717 original size:165 final size:165
Alignment explanation
Indices: 406436--406912 Score: 719
Period size: 165 Copynumber: 2.9 Consensus size: 165
406426 CTGTAGTTCC
* *
406436 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTCCTTCATCCT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAG-CACATTCAT-CT
* * *
406501 CCAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCACAAGATGT
63 TCAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC
*
406566 TATGAGCACATTCATCCTCCAAATTAAATGATTGGTTCT
128 TATGAGCACATTCATCCTCCAAATTAAATAATTGGTT-T
*
406605 GT-CC-AACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTC
1 -TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTC
* *
406668 AAATTCAATGATTGGTTCTGTTCAACCAGATCAGATAACTCATAGAACACTTCCAGAAGATGCTA
65 AAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
* * * * *
406733 TTAGCAAATTCATCTTCTAAATTCAATAATTGGTTT
130 TGAGCACATTCATCCTCCAAATTAAATAATTGGTTT
*
406769 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTT-C
406834 AAATTCAATGATTGGTT-T-TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC
65 AAATTCAATGATTGGTTCTGT-CC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC
406897 TATGAGCACATTCATC
128 TATGAGCACATTCATC
406913 TTTCCAGGTA
Statistics
Matches: 282, Mismatches: 20, Indels: 14
0.89 0.06 0.04
Matches are distributed among these distances:
163 1 0.00
164 4 0.01
165 151 0.54
166 78 0.28
167 4 0.01
168 41 0.15
169 2 0.01
170 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (165 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCA
AATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
GAGCACATTCATCCTCCAAATTAAATAATTGGTTT
Found at i:406881 original size:248 final size:250
Alignment explanation
Indices: 406441--406914 Score: 753
Period size: 248 Copynumber: 1.9 Consensus size: 250
406431 GTTCCTACCA
***
406441 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTCCTTCATCCTCCAAA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCAAATTCATCCTCCAAA
* *
406506 TTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCACAAGATGTTATGA
66 TTCAATAATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCACAAGATGCTATGA
406571 GCACATTCATCCTCCAAATTAAATGATTGGTTCTGTCCAACCAGATCAAATAACTCAAAGAACAC
131 GCACATTCATCCTCCAAATTAAATGATTGGTTCTGTCCAACCAGATCAAATAACTCAAAGAACAC
406636 TTCCAGAAGATGCTATGAGCACATTCATCTTCAAATTCAATGATTGGTTCTGTTC
196 TTCCAGAAGATGCTATGAGCACATTCATCTTCAAATTCAATGATTGGTTCTGTTC
* * *
406691 AACCAGATCAGATAACTCATAGAACACTTCCAGAAGATGCTATT-AG-CAAATTCATCTTCTAAA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCAAATTCATCCTCCAAA
*
406754 TTCAATAATTGGTT-T-TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
66 TTCAATAATTGGTTCTGT-CC-AACCAGATCAGATAACTCAAAGAACACTTCCACAAGATGCTAT
* * * *
406817 GAGCACATTCCTCTTCCAAATTCAATGATTGGTT-T-TACCAAACCAGATCAGATAACTCAAAGA
129 GAGCACATTCATCCTCCAAATTAAATGATTGGTTCTGT-CC-AACCAGATCAAATAACTCAAAGA
406880 ACACTTCCAGAAGATGCTATGAGCACATTCATCTT
192 ACACTTCCAGAAGATGCTATGAGCACATTCATCTT
406915 TCCAGGTAAT
Statistics
Matches: 207, Mismatches: 13, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
246 2 0.01
247 6 0.03
248 154 0.74
249 2 0.01
250 43 0.21
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (250 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCAAATTCATCCTCCAAA
TTCAATAATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCACAAGATGCTATGA
GCACATTCATCCTCCAAATTAAATGATTGGTTCTGTCCAACCAGATCAAATAACTCAAAGAACAC
TTCCAGAAGATGCTATGAGCACATTCATCTTCAAATTCAATGATTGGTTCTGTTC
Found at i:407716 original size:15 final size:16
Alignment explanation
Indices: 407697--407735 Score: 71
Period size: 15 Copynumber: 2.5 Consensus size: 16
407687 GAATTTTCGA
407697 AAATAAATTGAACTTG
1 AAATAAATTGAACTTG
407713 -AATAAATTGAACTTG
1 AAATAAATTGAACTTG
407728 AAATAAAT
1 AAATAAAT
407736 AGAATTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (16 bp):
AAATAAATTGAACTTG
Found at i:408057 original size:1 final size:1
Alignment explanation
Indices: 408053--408122 Score: 59
Period size: 1 Copynumber: 70.0 Consensus size: 1
408043 TTGACCCCCC
* * ** * * * * *
408053 TTTTTTCTTTTTTCTTTTTTCCTTTTTTTTTTTTTTTTCTTTTTTTTCTTTCTTTTTCTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
408118 TTTTT
1 TTTTT
408123 CTTCAAGCAT
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:408071 original size:8 final size:8
Alignment explanation
Indices: 408053--408119 Score: 70
Period size: 8 Copynumber: 8.8 Consensus size: 8
408043 TTGACCCCCC
408053 TTTTTTC-
1 TTTTTTCT
408060 TTTTTTCT
1 TTTTTTCT
*
408068 TTTTTCCT
1 TTTTTTCT
408076 TTTTTT-T
1 TTTTTTCT
408083 TTTTTT-T
1 TTTTTTCT
408090 TCTTTTT-T
1 T-TTTTTCT
*
408098 TTCTTTCT
1 TTTTTTCT
*
408106 TTTTCTCT
1 TTTTTTCT
408114 TTTTTT
1 TTTTTT
408120 TTTCTTCAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
7 20 0.39
8 31 0.61
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTCT
Found at i:408081 original size:25 final size:25
Alignment explanation
Indices: 408053--408123 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 25
408043 TTGACCCCCC
408053 TTTTTTCTTTTTTCTTTTTTCCTTT
1 TTTTTTCTTTTTTCTTTTTTCCTTT
* *
408078 TTTTTTTTTTTTTCTTTTTTTTCTTT
1 TTTTTTCTTTTTTC-TTTTTTCCTTT
* *
408104 CTTTTTCTCTTTT-TTTTTTC
1 TTTTTTCTTTTTTCTTTTTTC
408124 TTCAAGCATA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
24 6 0.15
25 13 0.33
26 20 0.51
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (25 bp):
TTTTTTCTTTTTTCTTTTTTCCTTT
Found at i:408082 original size:17 final size:17
Alignment explanation
Indices: 408060--408103 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
408050 CCCTTTTTTC
408060 TTTTTTCTTTTTTCCTT
1 TTTTTTCTTTTTTCCTT
* *
408077 TTTTTTTTTTTTTTCTT
1 TTTTTTCTTTTTTCCTT
408094 TTTTTTCTTT
1 TTTTTTCTTT
408104 CTTTTTCTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTTTCTTTTTTCCTT
Found at i:408084 original size:19 final size:19
Alignment explanation
Indices: 408055--408125 Score: 92
Period size: 19 Copynumber: 3.7 Consensus size: 19
408045 GACCCCCCTT
408055 TTTTCTTTTTTCTTTTTTCC
1 TTTT-TTTTTTCTTTTTTCC
*
408075 TTTTTTTTTT-TTTTTTCT
1 TTTTTTTTTTCTTTTTTCC
408093 TTTTTTTCTTTC-TTTTTCTC
1 TTTTTTT-TTTCTTTTTTC-C
408113 TTTTTTTTTTCTT
1 TTTTTTTTTTCTT
408126 CAAGCATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
18 14 0.31
19 19 0.42
20 12 0.27
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTTTTTTCTTTTTTCC
Found at i:408090 original size:32 final size:32
Alignment explanation
Indices: 408053--408125 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 32
408043 TTGACCCCCC
*
408053 TTTTTTCTTTTTTCTTTTTTCCTTTTT-T-TTTT
1 TTTTTTCTTTTTT-TTCTTT-CTTTTTCTCTTTT
408085 TTTTTTCTTTTTTTTCTTTCTTTTTCTCTTTT
1 TTTTTTCTTTTTTTTCTTTCTTTTTCTCTTTT
408117 TTTTTTCTT
1 TTTTTTCTT
408126 CAAGCATAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
30 6 0.16
31 6 0.16
32 26 0.68
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (32 bp):
TTTTTTCTTTTTTTTCTTTCTTTTTCTCTTTT
Found at i:415475 original size:15 final size:15
Alignment explanation
Indices: 415452--415483 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
415442 TGAAATGAAT
415452 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
415467 AATGCATGTATGCAA
1 AATGAATGTATGCAA
415482 AA
1 AA
415484 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:419484 original size:14 final size:15
Alignment explanation
Indices: 419454--419494 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
419444 TCTTCGATTG
419454 AAAAATAAA-TA-TT
1 AAAAATAAATTATTT
*
419467 -AAAATAATTTATTT
1 AAAAATAAATTATTT
419481 AAAAATAAATTATT
1 AAAAATAAATTATT
419495 ATTTATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 7 0.30
13 2 0.09
14 2 0.09
15 12 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAAATAAATTATTT
Found at i:420915 original size:3 final size:3
Alignment explanation
Indices: 420907--420990 Score: 141
Period size: 3 Copynumber: 28.0 Consensus size: 3
420897 TTAATATATT
* *
420907 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
420955 TAA TAA TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
420991 ATCAATATGG
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:422729 original size:8 final size:9
Alignment explanation
Indices: 422713--422738 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
422703 TCTTTCTTTC
422713 TTTCTTTTT
1 TTTCTTTTT
422722 TTTCTTTTT
1 TTTCTTTTT
422731 TTTCTTTT
1 TTTCTTTT
422739 CAATTTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:432238 original size:29 final size:30
Alignment explanation
Indices: 432203--432265 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
432193 AATTTGATTC
*
432203 TAAATTGTT-TAAAAAAAAGTAGATTGTTA
1 TAAATTGTTAAAAAAAAAAGTAGATTGTTA
*
432232 TAAATTGTTAAAAAAAAAAGTATATTGTTA
1 TAAATTGTTAAAAAAAAAAGTAGATTGTTA
432262 TAAA
1 TAAA
432266 GCGAGACATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (30 bp):
TAAATTGTTAAAAAAAAAAGTAGATTGTTA
Found at i:437004 original size:11 final size:11
Alignment explanation
Indices: 436988--437018 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
436978 AAGTAAGCGT
436988 TCTAGAATGAA
1 TCTAGAATGAA
*
436999 TCTAGAATGAG
1 TCTAGAATGAA
437010 TCTAGAATG
1 TCTAGAATG
437019 TTTAAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (11 bp):
TCTAGAATGAA
Found at i:438068 original size:75 final size:75
Alignment explanation
Indices: 437940--438113 Score: 260
Period size: 75 Copynumber: 2.3 Consensus size: 75
437930 ATGACGATGT
* * *
437940 GGGCCTTCAGCATGCCCCAACATTGGCTAATACAAACGTTCAAAATGTGTCAACATTCTTGATTC
1 GGGCTTTCAGCATGCCCCAACATTAGCTAATACAAACGTTCAAAATGTGTCAACATTCCTGA-TC
*
438005 -TGATTGAAAG
65 ATGAATGAAAG
*
438015 GGGCTTTCAGCATGCCCCAGCATTAGCTAATACAAACGTTCAAAATGTGTCAACATTCCTGATCA
1 GGGCTTTCAGCATGCCCCAACATTAGCTAATACAAACGTTCAAAATGTGTCAACATTCCTGATCA
*
438080 TGAATGAAAT
66 TGAATGAAAG
* *
438090 GGGCTTTCAGCATGCTCCATCATT
1 GGGCTTTCAGCATGCCCCAACATT
438114 TGTTTCTTGT
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
74 2 0.02
75 88 0.98
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (75 bp):
GGGCTTTCAGCATGCCCCAACATTAGCTAATACAAACGTTCAAAATGTGTCAACATTCCTGATCA
TGAATGAAAG
Found at i:441720 original size:11 final size:10
Alignment explanation
Indices: 441641--441725 Score: 68
Period size: 11 Copynumber: 8.1 Consensus size: 10
441631 TTACTTTTAC
441641 TTTTTCTTTT
1 TTTTTCTTTT
441651 TTCTTT-TTTCT
1 TT-TTTCTTT-T
441662 TTTTTCTTTT
1 TTTTTCTTTT
441672 TTCTTT-TTTCT
1 TT-TTTCTTT-T
441683 TTTTTCTTTT
1 TTTTTCTTTT
**
441693 TTCCTTT-TTCC
1 TT--TTTCTTTT
441704 TTTTTCATTTT
1 TTTTTC-TTTT
441715 TTTTTCTTTT
1 TTTTTCTTTT
441725 T
1 T
441726 ATGAGTATAG
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
9 3 0.05
10 25 0.41
11 30 0.49
12 3 0.05
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:441725 original size:7 final size:7
Alignment explanation
Indices: 441602--441716 Score: 137
Period size: 7 Copynumber: 16.7 Consensus size: 7
441592 CATGATTCAA
441602 TTTTTCT
1 TTTTTCT
**
441609 TCCTTC-
1 TTTTTCT
441615 TTTTTCT
1 TTTTTCT
*
441622 TTTTTCC
1 TTTTTCT
*
441629 TTTTAC-
1 TTTTTCT
*
441635 TTTTAC-
1 TTTTTCT
441641 TTTTTCT
1 TTTTTCT
441648 TTTTTCT
1 TTTTTCT
441655 TTTTTCT
1 TTTTTCT
441662 TTTTTCT
1 TTTTTCT
441669 TTTTTCT
1 TTTTTCT
441676 TTTTTCT
1 TTTTTCT
441683 TTTTTCT
1 TTTTTCT
*
441690 TTTTTCC
1 TTTTTCT
*
441697 TTTTTCC
1 TTTTTCT
441704 TTTTTCAT
1 TTTTTC-T
441712 TTTTT
1 TTTTT
441717 TTTCTTTTTA
Statistics
Matches: 96, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
6 15 0.16
7 76 0.79
8 5 0.05
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTCT
Found at i:446412 original size:18 final size:19
Alignment explanation
Indices: 446372--446412 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
446362 TTAAGAAAAT
*
446372 ATATTATATTTTTTATAAG
1 ATATTATATTTTTTAGAAG
446391 ATATT-TATTTATTTAGAA-
1 ATATTATATTT-TTTAGAAG
446409 ATAT
1 ATAT
446413 CAGAAAAGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
ATATTATATTTTTTAGAAG
Found at i:448056 original size:3 final size:3
Alignment explanation
Indices: 448048--448113 Score: 71
Period size: 3 Copynumber: 22.0 Consensus size: 3
448038 GGCCTGTTTG
* * *
448048 TAA TAA TAA TAA TAT TAA TAA TAA AAA TAAA TAA TAA T-A TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* *
448093 TAA TAG TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
448114 AATGAAAAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
2 2 0.04
3 46 0.90
4 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:448573 original size:124 final size:123
Alignment explanation
Indices: 448354--448993 Score: 919
Period size: 124 Copynumber: 5.3 Consensus size: 123
448344 TCTGCTCATT
** * * *
448354 CTTCTTCAGATGAGTTCTTCTCATTATGAACACT-TCTGAAAATATTGATGCTGGTCTATCTCCT
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGAAAA-GTTGATGATGATCTATCTCCT
* **
448418 TCTGTGATAGGGTCATGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
65 TCTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
448477 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTAGAAAAGTTGATGATGATCTATCTCCT
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT-GAAAAGTTGATGATGATCTATCTCCT
*
448542 TCTGTGATAGAGTCATGCAAAACGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
65 TCTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
448601 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGATGATCTATCTCCT
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT-GAAAAGTTGATGATGATCTATCTCCT
448666 TCTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
65 TCTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
*
448725 CTTCTTCAGATGACTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGATGATCTATCTCCT
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT-GAAAAGTTGATGATGATCTATCTCCT
* *
448790 TTTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTCTTC
65 TCTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
* * *
448849 CTTCTTCAGATGAGTTCTTCTCATTATGACCTTTCTCTGGAAA----A-G-T--TC-A--TCCAT
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGAAAAGTTGATGATGATCTATCTCCTT
* * ** * ** *
448903 CGAGTGAT-GAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTC
66 C-TGTGATAG-AGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
*
448962 CTTCTTCAGATGAGTTCTTCTTATTATGAACT
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACT
448994 CTACCTGGCA
Statistics
Matches: 485, Mismatches: 28, Indels: 18
0.91 0.05 0.03
Matches are distributed among these distances:
112 5 0.01
113 78 0.16
114 1 0.00
115 2 0.00
117 1 0.00
118 1 0.00
119 1 0.00
123 36 0.07
124 355 0.73
125 5 0.01
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (123 bp):
CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGAAAAGTTGATGATGATCTATCTCCTT
CTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
Found at i:448930 original size:113 final size:112
Alignment explanation
Indices: 448807--449141 Score: 474
Period size: 113 Copynumber: 3.0 Consensus size: 112
448797 TAGAGTCATG
** *
448807 CAAAAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
* *
448872 TTATGACCTTTCTCTGGAAAAGTTCATCCATCGAGTGATGAATTCAAA
66 TTATGA-CTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAA
*
448920 CAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
* * * * * * *
448985 TTATGAACTCTAC-CTGGCAATGCTGATCCATCAAATAATGAATTCCAA
66 TTATG-ACT-TTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAA
* *
449033 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
**
449098 TTATGAAATTCTTCTGGAAAAGTTGATCCATCAAGTGATGAATT
66 TTATGACTTTC-TCTGGAAAAGTTGATCCATCAAGTGATGAATT
449142 TGAATCTTTG
Statistics
Matches: 194, Mismatches: 24, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
111 2 0.01
112 1 0.01
113 188 0.97
114 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (112 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
TTATGACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAA
Found at i:458139 original size:18 final size:19
Alignment explanation
Indices: 458099--458139 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
458089 TTAAGAAAAT
*
458099 ATATTATATTTTTTATAAG
1 ATATTATATTTTTTAGAAG
458118 ATATT-TATTTATTTAGAA-
1 ATATTATATTT-TTTAGAAG
458136 ATAT
1 ATAT
458140 CAGAAAAGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
ATATTATATTTTTTAGAAG
Found at i:459890 original size:3 final size:3
Alignment explanation
Indices: 459882--459941 Score: 68
Period size: 3 Copynumber: 20.0 Consensus size: 3
459872 GGCTTGTTTG
* * *
459882 TAA TAA TAA TAA TAT TAA TAA TAA AAA TAAA TAA TAA T-A TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
*
459927 TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA
459942 AATGAAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
2 2 0.04
3 42 0.89
4 3 0.06
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:463020 original size:3 final size:3
Alignment explanation
Indices: 463005--463060 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
462995 ATTTATTTAT
*
463005 TAA TAA TATA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TTA -AA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
463049 TAA TAA TAA TAA
1 TAA TAA TAA TAA
463061 AAGTAAACTG
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 3 0.06
3 42 0.88
4 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:463039 original size:20 final size:19
Alignment explanation
Indices: 463005--463060 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
462995 ATTTATTTAT
463005 TAATAATATATAATAATATAA
1 TAATAATA-ATAATAATA-AA
*
463026 TAATAATAATAATAATAAT
1 TAATAATAATAATAATAAA
463045 TAAATAATAATAATAA
1 T-AATAATAATAATAA
463061 AAGTAAACTG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 2 0.06
20 23 0.70
21 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAATAATAATAATAATAAA
Found at i:463434 original size:45 final size:45
Alignment explanation
Indices: 463187--463994 Score: 1328
Period size: 45 Copynumber: 17.8 Consensus size: 45
463177 GACGGAAATG
*
463187 TTTGAAAACATCATGCACTGAATGGCTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
* *
463233 TTTGAAAATATCATGCACTGAAGGGCTTACAGATGACCTGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
* * *
463279 TTTGAAAACATCATGCACTGAAGGACTTATAGACGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
*
463325 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
*
463371 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* * *
463416 TTTGAAAACATCATGCACTGAAGGACTTACAGATAACCCAAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
463461 TTTGAAAACATCATGCACTGAAGGGCTTACTGATGACCCGAAAGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCG-AAGGT
*
463507 TTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
463552 TTTGAAAACATCATGCACTGAAGGGCTTACTGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
463597 TTTGAAAACATCATGCACTGAAGGGCTTACTGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
*
463643 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCAGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
463688 TTTGAAAACATCATGCACTGAAGGGCTTACTGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
463734 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
463779 TTTGAAAACATCATGTACTGAAGGGCTTACTGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
463825 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
463870 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCAAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
463915 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
463960 TTTGAAAACATCATGCACTGAAGGACTTACAGATG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATG
463995 TGGGAAATAG
Statistics
Matches: 724, Mismatches: 34, Indels: 9
0.94 0.04 0.01
Matches are distributed among these distances:
45 380 0.52
46 344 0.48
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
Found at i:463510 original size:91 final size:91
Alignment explanation
Indices: 463187--463994 Score: 1352
Period size: 91 Copynumber: 8.9 Consensus size: 91
463177 GACGGAAATG
* *
463187 TTTGAAAACATCATGCACTGAATGGCTTACAGATGACCCGAAGGTTTTTGAAAATATCATGCACT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTTGAAAACATCATGCACT
*
463252 GAAGGGCTTACAGATGACCTGAAGGTT
65 GAAGGGCTTACAGATGACCCGAAGGTT
* * *
463279 TTTGAAAACATCATGCACTGAAGGACTTATAGACGACCCGAAGGTTTTTGAAAACATCATGCACT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTTGAAAACATCATGCACT
*
463344 GAAGGACTTACAGATGACCCGAAGGTT
65 GAAGGGCTTACAGATGACCCGAAGGTT
*
463371 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
* * *
463436 AAGGACTTACAGATAACCCAAAGG-T
66 AAGGGCTTACAGATGACCCGAAGGTT
* *
463461 TTTGAAAACATCATGCACTGAAGGGCTTACTGATGACCCGAAAGTTTTTGAAAACATCATGCACT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCG-AAGGTTTTGAAAACATCATGCACT
*
463526 AAAGGGCTTACAGATGACCCGAAGG-T
65 GAAGGGCTTACAGATGACCCGAAGGTT
*
463552 TTTGAAAACATCATGCACTGAAGGGCTTACTGATGACCCGAAGGTTTTGAAAACATCATGCACTG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
*
463617 AAGGGCTTACTGATGACCCGAAGGTT
66 AAGGGCTTACAGATGACCCGAAGGTT
*
463643 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCAGAAGGTTTTGAAAACATCATGCACTG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
*
463708 AAGGGCTTACTGATGACCCGAAGGTT
66 AAGGGCTTACAGATGACCCGAAGGTT
*
463734 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGTACTG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
*
463799 AAGGGCTTACTGATGACCCGAAGGTT
66 AAGGGCTTACAGATGACCCGAAGGTT
463825 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
* *
463890 AAGGACTTACAGATGACCCAAAGG-T
66 AAGGGCTTACAGATGACCCGAAGGTT
*
463915 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
*
463980 AAGGACTTACAGATG
66 AAGGGCTTACAGATG
463995 TGGGAAATAG
Statistics
Matches: 684, Mismatches: 30, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
90 165 0.24
91 392 0.57
92 127 0.19
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (91 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
AAGGGCTTACAGATGACCCGAAGGTT
Found at i:463516 original size:136 final size:136
Alignment explanation
Indices: 463187--463994 Score: 1323
Period size: 136 Copynumber: 5.9 Consensus size: 136
463177 GACGGAAATG
* * *
463187 TTTGAAAACATCATGCACTGAATGGCTTACAGATGACCCGAAGGTTTTTGAAAATATCATGCACT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAAGTTTTTGAAAACATCATGCACT
* * *
463252 GAAGGGCTTACAGATGACCTGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTATAGACGACC
66 GAAGGGCTTACAGATGACCCGAAGG-TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACC
463317 CGAAGGTT
130 CGAAGG-T
* *
463325 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAAGTTTTTGAAAACATCATGCACT
* *
463390 GAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATAACCC
66 GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCC
*
463455 AAAGGT
131 GAAGGT
*
463461 TTTGAAAACATCATGCACTGAAGGGCTTACTGATGACCCGAAAGTTTTTGAAAACATCATGCACT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAAGTTTTTGAAAACATCATGCACT
* * *
463526 AAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACTGATGACCC
66 GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCC
463591 GAAGGT
131 GAAGGT
* *
463597 TTTGAAAACATCATGCACTGAAGGGCTTACTGATGACCCGAAGGTTTTTGAAAACATCATGCACT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAAGTTTTTGAAAACATCATGCACT
* * *
463662 GAAGGGCTTACAGATGACCAGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACTGATGACCC
66 GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCC
463727 GAAGGTT
131 GAAGG-T
* *
463734 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCG-AAGGTTTTGAAAACATCATGTACT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAAGTTTTTGAAAACATCATGCACT
* *
463798 GAAGGGCTTACTGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
66 GAAGGGCTTACAGATGACCCGAAGG-TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACC
463863 CGAAGGT
130 CGAAGGT
* *
463870 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCC-AAAGGTTTTGAAAACATCATGCACT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAAGTTTTTGAAAACATCATGCACT
*
463934 GAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATG
66 GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATG
463995 TGGGAAATAG
Statistics
Matches: 634, Mismatches: 33, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
135 35 0.06
136 389 0.61
137 125 0.20
138 85 0.13
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (136 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAAGTTTTTGAAAACATCATGCACT
GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCC
GAAGGT
Found at i:464678 original size:22 final size:22
Alignment explanation
Indices: 464653--464732 Score: 94
Period size: 22 Copynumber: 3.6 Consensus size: 22
464643 AATAAAGCTT
464653 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
464675 TCATCTTT--AAAGAGATATGATA
1 TCATCTTTGAAAAGAGA-AT-CTA
*
464697 TCATCTTTTAAGAA-AGAATCTA
1 TCATCTTTGAA-AAGAGAATCTA
464719 TCATCTTTGAAAAG
1 TCATCTTTGAAAAG
464733 TGTAAATGTA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
20 7 0.14
21 4 0.08
22 30 0.61
23 2 0.04
24 4 0.08
25 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:466039 original size:75 final size:75
Alignment explanation
Indices: 465896--466064 Score: 232
Period size: 75 Copynumber: 2.3 Consensus size: 75
465886 GATGTAGGCC
* * * * * *
465896 TTCAGCATGCCCCAACATTGGCTAATACAAACGTTCAAAATGTGTCAACATTATTGATTCTTATT
1 TTCAGCATGCCCCAACATTAGCTAATACAAACATTCAAAATGTGTCAAAATTACTGATTCTGAAT
465961 GAAAGGGGCT
66 GAAAGGGGCT
*
465971 TTCAGCATGCCCCAACATTAGCTAATACAAACATTCAAAATGTGTCAAAATTCCTGA-TCATGAA
1 TTCAGCATGCCCCAACATTAGCTAATACAAACATTCAAAATGTGTCAAAATTACTGATTC-TGAA
*
466035 TGAAATGGGCT
65 TGAAAGGGGCT
* *
466046 TTCAGCATGCTCCATCATT
1 TTCAGCATGCCCCAACATT
466065 TGTTTCTTGT
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
74 2 0.02
75 81 0.98
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (75 bp):
TTCAGCATGCCCCAACATTAGCTAATACAAACATTCAAAATGTGTCAAAATTACTGATTCTGAAT
GAAAGGGGCT
Found at i:469570 original size:1 final size:1
Alignment explanation
Indices: 469566--469663 Score: 61
Period size: 1 Copynumber: 98.0 Consensus size: 1
469556 TTTTTCTTCC
* * * * ** * ** **
469566 TTTTTTTTCTTTTTTCTTTTTTTCTTTTTTTTCTTTTTCCTTTTTATTTTTTCCTTTTTCCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
469631 TTTTTCTTTTTTCTTTTTTCTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
469664 ATGAGTATAG
Statistics
Matches: 73, Mismatches: 24, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.01, C:0.14, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:469580 original size:7 final size:7
Alignment explanation
Indices: 469568--469663 Score: 99
Period size: 7 Copynumber: 13.7 Consensus size: 7
469558 TTTCTTCCTT
469568 TTTTTTC
1 TTTTTTC
469575 TTTTTTC
1 TTTTTTC
469582 TTTTTTTC
1 -TTTTTTC
*
469590 TTTTTTT
1 TTTTTTC
469597 TCTTTTTC
1 T-TTTTTC
* *
469605 CTTTTTA
1 TTTTTTC
469612 TTTTTTC
1 TTTTTTC
*
469619 CTTTTTC
1 TTTTTTC
*
469626 --CTTT-
1 TTTTTTC
469630 TTTTTTC
1 TTTTTTC
469637 TTTTTTC
1 TTTTTTC
469644 TTTTTTC
1 TTTTTTC
469651 TTTTTTTC
1 -TTTTTTC
469659 TTTTT
1 TTTTT
469664 ATGAGTATAG
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
5 3 0.04
6 3 0.04
7 49 0.66
8 19 0.26
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:469623 original size:45 final size:45
Alignment explanation
Indices: 469567--469655 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
469557 TTTTCTTCCT
* *
469567 TTTTTTTCTTTTTTCTTTTTTTCTT-TTTTTTCTTTTTCCTTTTTA
1 TTTTTTCCTTTTTCCTTTTTTT-TTCTTTTTTCTTTTTCCTTTTTA
*
469612 TTTTTTCCTTTTTCCTTTTTTTTTCTTTTTTCTTTTTTCTTTTT
1 TTTTTTCCTTTTTCCTTTTTTTTTCTTTTTTCTTTTTCCTTTTT
469656 TTCTTTTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 2 0.05
45 38 0.95
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.84
Consensus pattern (45 bp):
TTTTTTCCTTTTTCCTTTTTTTTTCTTTTTTCTTTTTCCTTTTTA
Found at i:474525 original size:19 final size:19
Alignment explanation
Indices: 474500--474543 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
474490 TAATAAAGAA
474500 AAAAATATATAAATAT-TAT
1 AAAAATA-ATAAATATATAT
* *
474519 GAAAATAATAAGTATATAT
1 AAAAATAATAAATATATAT
474538 AAAAAT
1 AAAAAT
474544 TTTGATAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AAAAATAATAAATATATAT
Found at i:476873 original size:3 final size:3
Alignment explanation
Indices: 476858--476910 Score: 63
Period size: 3 Copynumber: 17.0 Consensus size: 3
476848 ATTTATTTAT
476858 TAA TAA TATA TAA TAA T-A TAA TAA TAA TAA TAA TAA TTAA CTAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA -TAA TAA
*
476905 AAA TAA
1 TAA TAA
476911 AAGTAAACTG
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
2 2 0.05
3 33 0.75
4 9 0.20
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:476902 original size:17 final size:15
Alignment explanation
Indices: 476858--476910 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 15
476848 ATTTATTTAT
476858 TAATAATATATAATAA
1 TAATAATA-ATAATAA
476874 T-ATAATAATAATAA
1 TAATAATAATAATAA
476888 TAATAATTAACTAATAA
1 TAATAA-TAA-TAATAA
*
476905 AAATAA
1 TAATAA
476911 AAGTAAACTG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
14 8 0.24
15 10 0.30
16 4 0.12
17 11 0.33
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (15 bp):
TAATAATAATAATAA
Found at i:477004 original size:11 final size:11
Alignment explanation
Indices: 476985--477014 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
476975 GCAACAAATC
*
476985 ATAATAAACTA
1 ATAACAAACTA
476996 ATAACAAACTA
1 ATAACAAACTA
477007 ATAACAAA
1 ATAACAAA
477015 TACTAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (11 bp):
ATAACAAACTA
Found at i:479822 original size:13 final size:14
Alignment explanation
Indices: 479793--479825 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
479783 AAATGCAAAT
*
479793 TTTAACGTGTGTTA
1 TTTAACGTGTGTAA
479807 TTTAACG-GTGTAA
1 TTTAACGTGTGTAA
479820 TTTAAC
1 TTTAAC
479826 AGTCATGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.45
Consensus pattern (14 bp):
TTTAACGTGTGTAA
Found at i:480200 original size:3 final size:3
Alignment explanation
Indices: 480192--480244 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
480182 AAACTAAAGA
* * *
480192 AAG AAG AAG -CG AAAG AAG AAG AAA AAG CAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
480237 AAG AAG AA
1 AAG AAG AA
480245 ATGGTGGACC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 39 0.93
4 2 0.05
ACGTcount: A:0.66, C:0.04, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:483588 original size:2 final size:2
Alignment explanation
Indices: 483581--483616 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
483571 AAATTTATTC
483581 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
483617 TGTTGAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:483983 original size:35 final size:35
Alignment explanation
Indices: 483916--483985 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
483906 AATACCTGAG
** *
483916 AGAAGGAGGCAAGTTCGATGAAATGCGTTTTAGGA
1 AGAAGGAGGCAAGTTCGATGAAACACGCTTTAGGA
**
483951 AGAAGGAGGCGTGTTCGATGAAACACGCTTTAGGA
1 AGAAGGAGGCAAGTTCGATGAAACACGCTTTAGGA
483986 GGAATGATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.34, T:0.21
Consensus pattern (35 bp):
AGAAGGAGGCAAGTTCGATGAAACACGCTTTAGGA
Found at i:484221 original size:16 final size:16
Alignment explanation
Indices: 484202--484232 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
484192 TATAATTTAT
484202 TTTTTTATTCATTAAA
1 TTTTTTATTCATTAAA
*
484218 TTTTTTATTCTTTAA
1 TTTTTTATTCATTAA
484233 GTAATTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTTATTCATTAAA
Found at i:484260 original size:9 final size:8
Alignment explanation
Indices: 484240--484287 Score: 62
Period size: 8 Copynumber: 5.9 Consensus size: 8
484230 TAAGTAATTA
484240 ATTATTTT
1 ATTATTTT
484248 ATTATTATT
1 ATTATT-TT
484257 ATTATTTT
1 ATTATTTT
484265 ATATATTTT
1 AT-TATTTT
*
484274 -TTATTTG
1 ATTATTTT
484281 ATTATTT
1 ATTATTT
484288 AATTGTAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
7 5 0.14
8 17 0.47
9 14 0.39
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (8 bp):
ATTATTTT
Found at i:484454 original size:30 final size:32
Alignment explanation
Indices: 484420--484488 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 32
484410 TATTCTTTTT
*
484420 AAATTTA-TGAAT-ATTATGAAACAGTAGTTC
1 AAATTTATTAAATAATTATGAAACAGTAGTTC
* *
484450 AAATTTATTTAAATAATTTTGAAATAGTAGTTC
1 AAATTTA-TTAAATAATTATGAAACAGTAGTTC
484483 AAATTT
1 AAATTT
484489 TAATGGTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 7 0.21
32 4 0.12
33 22 0.67
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.42
Consensus pattern (32 bp):
AAATTTATTAAATAATTATGAAACAGTAGTTC
Found at i:488916 original size:188 final size:191
Alignment explanation
Indices: 488599--488978 Score: 730
Period size: 188 Copynumber: 2.0 Consensus size: 191
488589 TAATACAACC
488599 AGACAGAACCACCAACGGTCCAACCCAACACATGCATGTTGGACTTCTTTTTAATTTATTATTAT
1 AGACAGAACCACCAACGGTCCAACCCAACACATGCATGTTGGACTTCTTTTTAATTTATTATTAT
488664 TTTTTTTAAAATTGAAGATGAGGTTTAAAAATGAAATCATAGGTGGATTTGTGCTGAAGGTTCAG
66 TTTTTTTAAAATTGAAGATGAGGTTTAAAAATGAAATCATAGGTGGATTTGTGCTGAAGGTTCAG
488729 CAAGCGGGGGAGGTTGTA-T-TAAGTGAATTAATTAATCTGGTGA-TGCTCATCACGAACT
131 CAAGCGGGGGAGGTTGTATTATAAGTGAATTAATTAATCTGGTGAGTGCTCATCACGAACT
488787 AGACAGAACCACCAACGGTCCAACCCAACACATGCATGTTGGACTTCTTTTTAATTTATTATTAT
1 AGACAGAACCACCAACGGTCCAACCCAACACATGCATGTTGGACTTCTTTTTAATTTATTATTAT
488852 TTTTTTTAAAATTGAAGATGAGGTTTAAAAATGAAATCATAGGTGGATTTGTGCTGAAGGTTCAG
66 TTTTTTTAAAATTGAAGATGAGGTTTAAAAATGAAATCATAGGTGGATTTGTGCTGAAGGTTCAG
488917 CAAGCGGGGGAGGTTGTATTATAAGTGAATTAATTAATCTGGTGATGTGCTCATCACGAACT
131 CAAGCGGGGGAGGTTGTATTATAAGTGAATTAATTAATCTGGTGA-GTGCTCATCACGAACT
488979 GCTGTGGACC
Statistics
Matches: 188, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
188 148 0.79
189 1 0.01
190 24 0.13
192 15 0.08
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (191 bp):
AGACAGAACCACCAACGGTCCAACCCAACACATGCATGTTGGACTTCTTTTTAATTTATTATTAT
TTTTTTTAAAATTGAAGATGAGGTTTAAAAATGAAATCATAGGTGGATTTGTGCTGAAGGTTCAG
CAAGCGGGGGAGGTTGTATTATAAGTGAATTAATTAATCTGGTGAGTGCTCATCACGAACT
Found at i:490832 original size:149 final size:150
Alignment explanation
Indices: 490653--490955 Score: 549
Period size: 149 Copynumber: 2.0 Consensus size: 150
490643 ATTTGTATAC
490653 TATTAATTTAATTAGGGGAATGATCGTATATTAGAAG-TTTTATTCGTAACTCTAAGTTATA-AT
1 TATTAATTTAATTAGGGGAATGATCGTATATTAGAAGTTTTTATTCGTAACTCTAAGTTA-ACAT
*
490716 ATTGCATCATATCTGGTCATATTTAATCGAGGTTGTATTTGGTTACATAGTGAAATATAAAAGAC
65 ATTGCATCATATATGGTCATATTTAATCGAGGTTGTA-TTGGTTACATAGTGAAATATAAAAGAC
*
490781 ATTGTAATCTCGAGTTCAACCT
129 ATTGTAATCTCGAGTCCAACCT
490803 TATTAATTTAA-TAGGGGAATGATCGTATATTAGAAGTTTTTATTCGTAACTCTAAGTTAACATA
1 TATTAATTTAATTAGGGGAATGATCGTATATTAGAAGTTTTTATTCGTAACTCTAAGTTAACATA
490867 TTGCATCATATATGGTCATATTTAATCGAGGTTGTATTGGTTACATAGTGAAATATAAAAGACAT
66 TTGCATCATATATGGTCATATTTAATCGAGGTTGTATTGGTTACATAGTGAAATATAAAAGACAT
490932 TGTAATCTCGAGTCCAACCT
131 TGTAATCTCGAGTCCAACCT
490952 TATT
1 TATT
490956 TCTGCACTAG
Statistics
Matches: 149, Mismatches: 2, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
149 78 0.52
150 71 0.48
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.39
Consensus pattern (150 bp):
TATTAATTTAATTAGGGGAATGATCGTATATTAGAAGTTTTTATTCGTAACTCTAAGTTAACATA
TTGCATCATATATGGTCATATTTAATCGAGGTTGTATTGGTTACATAGTGAAATATAAAAGACAT
TGTAATCTCGAGTCCAACCT
Found at i:492701 original size:20 final size:20
Alignment explanation
Indices: 492676--492724 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
492666 ATCGATAGAC
* *
492676 TTATTTAGTTTATAATATTT
1 TTATTTAATTTATAACATTT
*
492696 TTATTTAATTTTTAACATTT
1 TTATTTAATTTATAACATTT
*
492716 GTATTTAAT
1 TTATTTAAT
492725 GTTTGTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (20 bp):
TTATTTAATTTATAACATTT
Found at i:492737 original size:13 final size:14
Alignment explanation
Indices: 492713--492742 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
492703 ATTTTTAACA
492713 TTTGTATTTAA-TG
1 TTTGTATTTAATTG
492726 TTTGTATTTAATTG
1 TTTGTATTTAATTG
492740 TTT
1 TTT
492743 TAATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (14 bp):
TTTGTATTTAATTG
Found at i:492750 original size:23 final size:23
Alignment explanation
Indices: 492714--492785 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
492704 TTTTTAACAT
*
492714 TTGTATTTAA-TGTTTGTATTTAA
1 TTGT-TTTAATTGTTTTTATTTAA
*
492737 TTGTTTTAATTGTTTTTA-TTAT
1 TTGTTTTAATTGTTTTTATTTAA
*
492759 TTAGTTTGTAATTTTTTTTATTTAA
1 TT-GTTT-TAATTGTTTTTATTTAA
492784 TT
1 TT
492786 TTCTTTGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 10 0.24
23 15 0.37
24 11 0.27
25 5 0.12
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.68
Consensus pattern (23 bp):
TTGTTTTAATTGTTTTTATTTAA
Found at i:492800 original size:16 final size:15
Alignment explanation
Indices: 492746--492822 Score: 68
Period size: 16 Copynumber: 5.1 Consensus size: 15
492736 ATTGTTTTAA
*
492746 TTGTTTTT-ATTATT
1 TTGTTTTTAATTTTT
* *
492760 TAGTTTGTAATTTTT
1 TTGTTTTTAATTTTT
*
492775 TT-TATTTAATTTTCT
1 TTGTTTTTAATTTT-T
*
492790 TTGTTTTTAATGTTT
1 TTGTTTTTAATTTTT
*
492805 TTATTATTTAATTTTT
1 TTGTT-TTTAATTTTT
492821 TT
1 TT
492823 CAATTGTAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
14 15 0.31
15 14 0.29
16 20 0.41
ACGTcount: A:0.18, C:0.01, G:0.06, T:0.74
Consensus pattern (15 bp):
TTGTTTTTAATTTTT
Found at i:492812 original size:32 final size:32
Alignment explanation
Indices: 492762--492854 Score: 111
Period size: 32 Copynumber: 3.0 Consensus size: 32
492752 TTATTATTTA
492762 GTTTGTAAT-TTTTT-TTATTTAATTTTCTTT-
1 GTTTGTAATGTTTTTATTATTTAATTTT-TTTC
*
492792 GTTTTTAATGTTTTTATTATTTAATTTTTTTC
1 GTTTGTAATGTTTTTATTATTTAATTTTTTTC
** * *
492824 AATTGTAATGTTTTAATTATTTAATTATTTT
1 GTTTGTAATGTTTTTATTATTTAATTTTTTT
492855 AGGGTTTATT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
30 8 0.15
31 8 0.15
32 38 0.70
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (32 bp):
GTTTGTAATGTTTTTATTATTTAATTTTTTTC
Found at i:492813 original size:79 final size:79
Alignment explanation
Indices: 492676--492829 Score: 190
Period size: 79 Copynumber: 1.9 Consensus size: 79
492666 ATCGATAGAC
492676 TTATTTAGTTTATAATATTTTTATTTAATTTTTAACATTTGTATTTAATGTTTGTATTTAATTGT
1 TTATTTAGTTTATAATATTTTTATTTAATTTTT-ACATTTGTATTTAATGTTTGTATTTAATTGT
492741 TTT-AATTGTTTTTA
65 TTTCAATTGTTTTTA
* * * *
492755 TTATTTAGTTTGTAATTTTTTTTATTTAA-TTTT-C-TTTGTTTTTAATGTTTTTATTATTTAAT
1 TTATTTAGTTTATAA-TATTTTTATTTAATTTTTACATTTGTATTTAATG--TTT-GTATTTAAT
*
492817 TTTTTTCAATTGT
62 TGTTTTCAATTGT
492830 AATGTTTTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
76 12 0.18
77 1 0.02
78 3 0.05
79 31 0.48
80 18 0.28
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.68
Consensus pattern (79 bp):
TTATTTAGTTTATAATATTTTTATTTAATTTTTACATTTGTATTTAATGTTTGTATTTAATTGTT
TTCAATTGTTTTTA
Found at i:493071 original size:28 final size:28
Alignment explanation
Indices: 493039--493095 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
493029 AATTGAAAGT
*
493039 AAACGAAAATGCAATATCACAAACTGAG
1 AAACGAAAATGAAATATCACAAACTGAG
493067 AAACGAAAATGAAATATCACAAACTGAG
1 AAACGAAAATGAAATATCACAAACTGAG
493095 A
1 A
493096 TTTCAGAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.56, C:0.16, G:0.14, T:0.14
Consensus pattern (28 bp):
AAACGAAAATGAAATATCACAAACTGAG
Found at i:497884 original size:17 final size:17
Alignment explanation
Indices: 497862--497896 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
497852 AACTCTCCCC
497862 CATATGTTCTGTGACAA
1 CATATGTTCTGTGACAA
497879 CATATGTTCTGTGACAA
1 CATATGTTCTGTGACAA
497896 C
1 C
497897 TGAGAACTTC
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:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (17 bp):
CATATGTTCTGTGACAA
Found at i:498365 original size:20 final size:20
Alignment explanation
Indices: 498327--498379 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
498317 AAAATGTTTT
*
498327 TATGAATAGTAT-TATACTG
1 TATGAATAGTATCGATACTG
498346 TATGAATAGTATCGATACTG
1 TATGAATAGTATCGATACTG
* *
498366 TGTAAATAGTATCG
1 TATGAATAGTATCG
498380 TGAACAGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.38
Consensus pattern (20 bp):
TATGAATAGTATCGATACTG
Found at i:498421 original size:21 final size:21
Alignment explanation
Indices: 498393--498447 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
498383 ACAGTAATGA
498393 ACAGTGCTACAATGTACCGAT
1 ACAGTGCTACAATGTACCGAT
*
498414 ATAGTGCTACAATGTACCGAT
1 ACAGTGCTACAATGTACCGAT
*
498435 ACACTGCTACAAT
1 ACAGTGCTACAAT
498448 AATTTCTGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (21 bp):
ACAGTGCTACAATGTACCGAT
Found at i:502813 original size:22 final size:21
Alignment explanation
Indices: 502753--502817 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
502743 AAGGATTTAA
502753 TCATCATACTCGAAAGACTTAC
1 TCATCAT-CTCGAAAGACTTAC
* ** * *
502775 TGATGGTC-CGAAGGACTTCC
1 TCATCATCTCGAAAGACTTAC
502795 TCATCATGCTCGAAAGACTTAC
1 TCATCAT-CTCGAAAGACTTAC
502817 T
1 T
502818 GATGGCACTT
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
20 14 0.45
21 2 0.06
22 15 0.48
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (21 bp):
TCATCATCTCGAAAGACTTAC
Found at i:502922 original size:13 final size:13
Alignment explanation
Indices: 502904--502928 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
502894 TGCTCGAAAG
502904 ACTTACTGATGGC
1 ACTTACTGATGGC
502917 ACTTACTGATGG
1 ACTTACTGATGG
502929 ATTTGCCTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:502977 original size:90 final size:91
Alignment explanation
Indices: 502795--503006 Score: 302
Period size: 90 Copynumber: 2.3 Consensus size: 91
502785 AAGGACTTCC
* *
502795 TCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATAGATTTGCTTCACTATTCTTTGGTGA
1 TCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATAGATTTGCTTCAC--TTCTTCGCTGA
* *
502860 AGTCTTACAAATTACCTGAAGGATTTAA
64 AGGCTTACAAATTACCCGAAGGATTTAA
*
502888 TCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGATTTGCCTT-AC-TCTTCGCTGAA
1 TCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATAGATTTG-CTTCACTTCTTCGCTGAA
502951 GGCTTACAAATTACCCGAAGGATTTAA
65 GGCTTACAAATTACCCGAAGGATTTAA
** **
502978 TCATCATTTTCTTAAGACTTACTGATGGC
1 TCATCATGCTCGAAAGACTTACTGATGGC
503007 CCGAAGGACT
Statistics
Matches: 109, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
90 59 0.54
93 47 0.43
94 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (91 bp):
TCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATAGATTTGCTTCACTTCTTCGCTGAAG
GCTTACAAATTACCCGAAGGATTTAA
Found at i:503236 original size:44 final size:43
Alignment explanation
Indices: 503117--503256 Score: 173
Period size: 44 Copynumber: 3.3 Consensus size: 43
503107 AAATATCCCA
* * *
503117 CCCGAAGG-TCTT-ATCATCTTGCTC-AAAAAGCTTACAGATGA
1 CCCGAAGGATCTTAATCATCATGCTCGAAAAA-CTTACTGATGG
*
503158 CCCGAAGGAT-TTAAGCATCATGCTCGAAAAACTTACTGATGG
1 CCCGAAGGATCTTAATCATCATGCTCGAAAAACTTACTGATGG
* *
503200 CCCGAAGGATTCTTAATCATCATGCTCGAAAGACTTATTGATGG
1 CCCGAAGGA-TCTTAATCATCATGCTCGAAAAACTTACTGATGG
503244 CCCGAAGGA-CTTA
1 CCCGAAGGATCTTA
503257 TAAAGTGCGA
Statistics
Matches: 87, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
41 10 0.11
42 33 0.38
43 6 0.07
44 38 0.44
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (43 bp):
CCCGAAGGATCTTAATCATCATGCTCGAAAAACTTACTGATGG
Found at i:503377 original size:236 final size:236
Alignment explanation
Indices: 502964--503441 Score: 680
Period size: 236 Copynumber: 2.0 Consensus size: 236
502954 TTACAAATTA
** ** *
502964 CCCGAAGGATTTAATCATCATTTTCTTAAGACTTACTGATGGCCCGAAGGACTTATATAGTGCGA
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAGTGCGA
* * * * *
503029 AGTATTGGAAATCACCTTTTTACTTCAAAAATTTCATTTTCTTAAACCATTACTTTCTCATTTTT
66 AATACTGGAAATCACCTTATTACTTCAAAAATCTCATTTTCTTAAACCATCACTTTCTCATTTTT
* * * *
503094 TAAATTCACTTGAAAATATCCCACCCGAAGGTCTTATCATCTTGCTCAAAA-AGCTTACAGATGA
131 CAAATTCACTTCAAAACATCCCACCCGAAGGACTTATCATCTTGCTCAAAAGA-CTTACAGATGA
*
503158 CCCGAAGGATTTAAGCATCATGCTCGAAAAACTTACTGATGG
195 CCCGAAGGATTTAAACATCATGCTCGAAAAACTTACTGATGG
*
503200 CCCGAAGGATTCTTAATCATCATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTATAAAGTGC
1 CCCGAAGGA-T-TTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAGTGC
* *
503265 GAAATGCT-GAAATCACCTTATTACTTTTCAAATATCTCATTTTCTTAAA-CATCAC-TT-TCAT
64 GAAATACTGGAAATCACCTTATTAC--TTCAAAAATCTCATTTTCTTAAACCATCACTTTCTCAT
*
503326 TTTTCAAATTCA-TGTCAAAACATCCTACCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAG
127 TTTTCAAATTCACT-TCAAAACATCCCACCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAG
*
503390 ATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGG
191 ATGACCCGAAGGATTTAAACATCATGCTCGAAAAACTTACTGATGG
503436 CCCGAA
1 CCCGAA
503442 TGACTTATAA
Statistics
Matches: 216, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
235 1 0.00
236 118 0.55
237 19 0.09
238 57 0.26
239 21 0.10
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (236 bp):
CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAGTGCGA
AATACTGGAAATCACCTTATTACTTCAAAAATCTCATTTTCTTAAACCATCACTTTCTCATTTTT
CAAATTCACTTCAAAACATCCCACCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGAC
CCGAAGGATTTAAACATCATGCTCGAAAAACTTACTGATGG
Found at i:503424 original size:42 final size:41
Alignment explanation
Indices: 503352--503448 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 41
503342 AAAACATCCT
* *
503352 ACCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATG
1 ACCCGAAGGACTTAACATCATGCTCAAAAGACTTACAGATG
* * *
503393 ACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATG
1 ACCCGAAGGACTT-AACATCATGCTCAAAAGACTTACAGATG
* *
503435 GCCCGAATGACTTA
1 ACCCGAAGGACTTA
503449 TAAATTTTGG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 13 0.28
42 34 0.72
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (41 bp):
ACCCGAAGGACTTAACATCATGCTCAAAAGACTTACAGATG
Found at i:503583 original size:20 final size:20
Alignment explanation
Indices: 503557--503610 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
503547 AAAACATCCT
503557 ACCTGAAGGTCTTATGGATG
1 ACCTGAAGGTCTTATGGATG
*
503577 GCCTGAAGGTCTTATGGATG
1 ACCTGAAGGTCTTATGGATG
* *
503597 ACCCGAAGGACTTA
1 ACCTGAAGGTCTTA
503611 ATCATCTTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (20 bp):
ACCTGAAGGTCTTATGGATG
Found at i:503640 original size:42 final size:42
Alignment explanation
Indices: 503593--503695 Score: 145
Period size: 42 Copynumber: 2.5 Consensus size: 42
503583 AGGTCTTATG
* * *
503593 GATGACCCGAAGGACTTAATCATCTTGCTCTAAAGGCTTACA
1 GATGACCCGAAGGACTTAATCATCATGCTCGAAAGACTTACA
*
503635 GATGACCCGAAGGA-TTCAATCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGACTT-AATCATCATGCTCGAAAGACTTACA
*
503677 GATGGCCCGAAGGACTTAA
1 GATGACCCGAAGGACTTAA
503696 AAATAATGAA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 2 0.04
42 50 0.93
43 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (42 bp):
GATGACCCGAAGGACTTAATCATCATGCTCGAAAGACTTACA
Found at i:504017 original size:215 final size:213
Alignment explanation
Indices: 503581--504284 Score: 919
Period size: 215 Copynumber: 3.3 Consensus size: 213
503571 TGGATGGCCT
503581 GAAGGTCTTATGGAT-GACCCGAAGGACTTAATCATCTTGCTCTAAAGGCTTACAGATGACCCGA
1 GAAGGTCTTATGGATGGA-CCGAAGGACTT-ATCATCTTGCTCTAAAGGCTTACAGATGACCCGA
* * * * * * *
503645 AGGATTCAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAAAAATAATG-AATTT
64 AGGATTTAAACATCATGCTCGAAAGACTTAATGATGGCCCGAAAGACTTATAAGT-GTGAAATTT
* * * * *
503709 TCGAAATCGCCTTCTTAGTTTTCAAAAGTTTCATCTTCTTAAAACATCATTTTCTCATTTTCAAA
128 TAGAAATCGCCTTCTTAGTTTCCAAGA-TTTCATTTTCTTAAAACATCACTTTCTCATTTTCAAA
503774 TTCATGTGAAAACATCCTACCC
192 TTCATGTGAAAACATCCTACCC
* * *
503796 GAAGGTCTTCTGGATGGACCGAAGGACTTATCATCTTGCTCAAAAGGCTTACAAATGACCCGAAG
1 GAAGGTCTTATGGATGGACCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAG
* *
503861 GATTTAAACATCGTGCTCGAAAGACTTAATGATGGCCCGAAAGACTTATATAGTGTGAAATATTA
66 GATTTAAACATCATGCTCGAAAGACTTAATGATGGCCCGAAAGACTTATA-AGTGTGAAATTTTA
* * * ** *
503926 GAAATCGCTTTTTTACTTCTCCAAGATTTCATTTTCTT-AAACAAAACTTTCTCATCTTTCAACT
130 GAAATCGCCTTCTTAGTT-TCCAAGATTTCATTTTCTTAAAACATCACTTTCTCAT-TTTCAAAT
*
503990 TTATGTGAAAACATCCTACCC
193 TCATGTGAAAACATCCTACCC
* * * * * *
504011 GAAGGTCTGATGGATGGCCCAAATGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCTGAAA
1 GAAGGTCTTATGGATGGACCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAG
* * ** * *
504076 GATTTAAGCATCATGCTCGAAAGACTTATTGATGGCTTGAAAGACTTACTAAGCGTGAAATTTTG
66 GATTTAAACATCATGCTCGAAAGACTTAATGATGGCCCGAAAGACTTA-TAAGTGTGAAATTTTA
* * *
504141 GAAATCACCTTCTTAGTTTTCAAAGATTTCATTTTCTTAAAACATCACTTTCTTATTTTCTCAAA
130 GAAATCGCCTTCTTAG-TTTCCAAGATTTCATTTTCTTAAAACATCACTTTCTCA-TTT-TCAAA
504206 TTCATGTGAAAACATCCTACCC
192 TTCATGTGAAAACATCCTACCC
* *
504228 GAAAGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATG
1 GAAGGTCTTATGGATGGACCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATG
504285 GATTTGCTTC
Statistics
Matches: 424, Mismatches: 55, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
214 94 0.22
215 225 0.53
216 26 0.06
217 79 0.19
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (213 bp):
GAAGGTCTTATGGATGGACCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAG
GATTTAAACATCATGCTCGAAAGACTTAATGATGGCCCGAAAGACTTATAAGTGTGAAATTTTAG
AAATCGCCTTCTTAGTTTCCAAGATTTCATTTTCTTAAAACATCACTTTCTCATTTTCAAATTCA
TGTGAAAACATCCTACCC
Found at i:504482 original size:109 final size:109
Alignment explanation
Indices: 504275--504513 Score: 329
Period size: 109 Copynumber: 2.2 Consensus size: 109
504265 GCTCTAAAGG
* *
504275 CTTACAGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGAGTTGCTTCACTACTCT
1 CTTA-AGATGG-TTTACTTCACCACTCTTCGGTGAAGGCTTAAGATTGAGTTGCTTCACTACTCT
* *
504340 TCAGTGAAGGCTTAAGATGAATTGTTTCACTATTCTTTGGTGAAGC
64 TCAGTGAAGGCTTAAAATGAATTGTTTCACTATTCTTCGGTGAAGC
*
504386 CTTAGGATGGTTTACTTCACCACTCTTCGGTGAAGGCTTAAGA-TG-GTTTGCTTCACTACTCTT
1 CTTAAGATGGTTTACTTCACCACTCTTCGGTGAAGGCTTAAGATTGAG-TTGCTTCACTACTC-T
** * *
504449 TTGGTGAAGGCTTAAAATGATTTGTTTCACTATTCTTCGGTGAAGG
64 TCAGTGAAGGCTTAAAATGAATTGTTTCACTATTCTTCGGTGAAGC
*
504495 CTTAAGATTGATTTACTTC
1 CTTAAGA-TGGTTTACTTC
504514 TTCATACATG
Statistics
Matches: 114, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
107 1 0.01
108 16 0.14
109 78 0.68
110 15 0.13
111 4 0.04
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (109 bp):
CTTAAGATGGTTTACTTCACCACTCTTCGGTGAAGGCTTAAGATTGAGTTGCTTCACTACTCTTC
AGTGAAGGCTTAAAATGAATTGTTTCACTATTCTTCGGTGAAGC
Found at i:504494 original size:73 final size:72
Alignment explanation
Indices: 504271--504502 Score: 284
Period size: 73 Copynumber: 3.2 Consensus size: 72
504261 TCTTGCTCTA
* * *
504271 AAGGCTTACAGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGAGTTGCTTCACTA
1 AAGGCTTA-AGATGG-TTTGCTTCACTACTCTTTGGTGAAGGCTTAA-AATGATTTGCTTCACTA
*
504336 CTCTTCAGTG
63 CTCTTCGGTG
** * * * ** * * *
504346 AAGGCTTAAGATGAATTGTTTCACTATTCTTTGGTGAAGCCTTAGGATGGTTTACTTCACCACTC
1 AAGGCTTAAGATGGTTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATGATTTGCTTCACTACTC
504411 TTCGGTG
66 TTCGGTG
* *
504418 AAGGCTTAAGATGGTTTGCTTCACTACTCTTTTGGTGAAGGCTTAAAATGATTTGTTTCACTATT
1 AAGGCTTAAGATGGTTTGCTTCACTACTC-TTTGGTGAAGGCTTAAAATGATTTGCTTCACTACT
504483 CTTCGGTG
65 CTTCGGTG
504491 AAGGCTTAAGAT
1 AAGGCTTAAGAT
504503 TGATTTACTT
Statistics
Matches: 130, Mismatches: 26, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
72 45 0.35
73 72 0.55
74 5 0.04
75 8 0.06
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.37
Consensus pattern (72 bp):
AAGGCTTAAGATGGTTTGCTTCACTACTCTTTGGTGAAGGCTTAAAATGATTTGCTTCACTACTC
TTCGGTG
Found at i:504507 original size:37 final size:36
Alignment explanation
Indices: 504271--504513 Score: 288
Period size: 36 Copynumber: 6.6 Consensus size: 36
504261 TCTTGCTCTA
504271 AAGGCTTACAGATGGATTTGCTTCACTACTCTTCGGTG
1 AAGGCTTA-AGAT-GATTTGCTTCACTACTCTTCGGTG
* *
504309 AAGGCTTAAGATTGAGTTGCTTCACTACTCTTCAGTG
1 AAGGCTTAAGA-TGATTTGCTTCACTACTCTTCGGTG
* * * *
504346 AAGGCTTAAGATGAATTGTTTCACTATTCTTTGGTG
1 AAGGCTTAAGATGATTTGCTTCACTACTCTTCGGTG
* * * * *
504382 AAGCCTTAGGATGGTTTACTTCACCACTCTTCGGTG
1 AAGGCTTAAGATGATTTGCTTCACTACTCTTCGGTG
* *
504418 AAGGCTTAAGATGGTTTGCTTCACTACTCTTTTGGTG
1 AAGGCTTAAGATGATTTGCTTCACTACTC-TTCGGTG
* * *
504455 AAGGCTTAAAATGATTTGTTTCACTATTCTTCGGTG
1 AAGGCTTAAGATGATTTGCTTCACTACTCTTCGGTG
*
504491 AAGGCTTAAGATTGATTTACTTC
1 AAGGCTTAAGA-TGATTTGCTTC
504514 TTCATACATG
Statistics
Matches: 173, Mismatches: 29, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
36 88 0.51
37 76 0.44
38 9 0.05
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (36 bp):
AAGGCTTAAGATGATTTGCTTCACTACTCTTCGGTG
Found at i:505980 original size:124 final size:124
Alignment explanation
Indices: 505760--506001 Score: 358
Period size: 124 Copynumber: 2.0 Consensus size: 124
505750 TGCCACAATT
505760 ATCTTATACTGGTACGGGCCTTCAAAATGCCCCAACACCTCAAATTGTAAGGCTCATTCTCCATA
1 ATCTTATACTGGTACGGGCCTTCAAAATGCCCCAACACCTCAAATTGTAAGGCTCATTCTCCATA
* * * * *
505825 CCTTCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTGCCCAACATC
66 CCTCCCTAGTCTAAATCTTGTCATCTCAACATGATGTGGGTTCAGTCATGCCCAACATC
* * * * * * * * *
505884 ATCTTATACTGGTATGGGCCTTCAAAATGCTCCATCGCTTTAAATTGTAAGGCTCCTTCTTCATG
1 ATCTTATACTGGTACGGGCCTTCAAAATGCCCCAACACCTCAAATTGTAAGGCTCATTCTCCATA
505949 CCTCCCTAGTCTAAATCTTGTCATCTCAACATGATGTGGGTTCAGTCATGCCC
66 CCTCCCTAGTCTAAATCTTGTCATCTCAACATGATGTGGGTTCAGTCATGCCC
506002 CAATGTGTGT
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
124 104 1.00
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (124 bp):
ATCTTATACTGGTACGGGCCTTCAAAATGCCCCAACACCTCAAATTGTAAGGCTCATTCTCCATA
CCTCCCTAGTCTAAATCTTGTCATCTCAACATGATGTGGGTTCAGTCATGCCCAACATC
Found at i:507283 original size:18 final size:16
Alignment explanation
Indices: 507252--507291 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
507242 CTTCTTTCTT
507252 TTTTTCTCTATTTTTAA
1 TTTTTCTCTATTTTT-A
*
507269 TTTTTCTCATTTTTTTA
1 TTTTTCTC-TATTTTTA
507286 TTTTTC
1 TTTTTC
507292 ATTTCTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTCTCTATTTTTA
Found at i:510068 original size:55 final size:55
Alignment explanation
Indices: 510005--510146 Score: 212
Period size: 55 Copynumber: 2.6 Consensus size: 55
509995 CAACTTCAAA
* * * *
510005 CTTCATTCATCGGATGTCTTTCTTCATGGATCGATCTTCAATCAGTTTCGAATTT
1 CTTCATTCATCGGATGTCCTTCTTCATGAATCGATCTTCAATCAGGTTCAAATTT
* * *
510060 CTTCATTCATCTGATGTCCATCTTCATGAATCGTTCTTCAATCAGGTTCAAATTT
1 CTTCATTCATCGGATGTCCTTCTTCATGAATCGATCTTCAATCAGGTTCAAATTT
*
510115 CTTCATTCATCGAATGTCCTTCTTCATGAATC
1 CTTCATTCATCGGATGTCCTTCTTCATGAATC
510147 ACTTGAATGT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 77 1.00
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (55 bp):
CTTCATTCATCGGATGTCCTTCTTCATGAATCGATCTTCAATCAGGTTCAAATTT
Found at i:516732 original size:16 final size:19
Alignment explanation
Indices: 516696--516733 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
516686 TTAATCCGAG
516696 AATGATATAGAAAAATAAT
1 AATGATATAGAAAAATAAT
516715 AATGA-ATA-AAAAAT-AT
1 AATGATATAGAAAAATAAT
516731 AAT
1 AAT
516734 TATAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.26
17 6 0.32
18 3 0.16
19 5 0.26
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (19 bp):
AATGATATAGAAAAATAAT
Found at i:516732 original size:19 final size:19
Alignment explanation
Indices: 516696--516733 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
516686 TTAATCCGAG
*
516696 AATGATATAGAAAAATAAT
1 AATGATATAAAAAAATAAT
516715 AATGA-ATAAAAAATATAAT
1 AATGATATAAAAAA-ATAAT
516734 TATAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (19 bp):
AATGATATAAAAAAATAAT
Found at i:517001 original size:16 final size:16
Alignment explanation
Indices: 516980--517016 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
516970 AACCACTCAT
516980 TTGGTGATCGAGTACG
1 TTGGTGATCGAGTACG
* *
516996 TTGGTGCTCGAGTTCG
1 TTGGTGATCGAGTACG
517012 TTGGT
1 TTGGT
517017 CTTCTGTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.14, G:0.38, T:0.38
Consensus pattern (16 bp):
TTGGTGATCGAGTACG
Found at i:525474 original size:5 final size:5
Alignment explanation
Indices: 525464--525489 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
525454 TGACTTAGAA
525464 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
525490 ATAATAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:539147 original size:19 final size:20
Alignment explanation
Indices: 539110--539147 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
539100 AATTTTAATA
*
539110 AAAATACATAGATTTTTTTT
1 AAAATACATAGATTATTTTT
*
539130 AAAATATAT-GATTATTTT
1 AAAATACATAGATTATTTT
539148 AGATTTTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
AAAATACATAGATTATTTTT
Found at i:541965 original size:22 final size:23
Alignment explanation
Indices: 541940--541982 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
541930 CCGTTTATCC
*
541940 ACCTTCTAG-AGCTGCTGACTGG
1 ACCTTCTAGAAGCTGATGACTGG
541962 ACCTTCTAGAAGCTGATGACT
1 ACCTTCTAGAAGCTGATGACT
541983 CACTGCCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (23 bp):
ACCTTCTAGAAGCTGATGACTGG
Found at i:554749 original size:19 final size:18
Alignment explanation
Indices: 554721--554759 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
554711 AAAACCAGAA
*
554721 CCCCAGGGGGTATCGATT
1 CCCCAGGGGGAATCGATT
*
554739 CCCCTAGGGGGAATCGGTT
1 CCCC-AGGGGGAATCGATT
554758 CC
1 CC
554760 TCTTCAAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.15, C:0.31, G:0.33, T:0.21
Consensus pattern (18 bp):
CCCCAGGGGGAATCGATT
Found at i:554795 original size:24 final size:23
Alignment explanation
Indices: 554744--554806 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
554734 CGATTCCCCT
*
554744 AGGGGGAATCGGTTCCTCTTCAA
1 AGGGGGAATCGGTTCCCCTTCAA
554767 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGGTTCCCCTTCAA
* *
554790 AGGGGGTATCGATTCCC
1 AGGGGGAATCGGTTCCC
554807 TCTGCCCAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.24
Consensus pattern (23 bp):
AGGGGGAATCGGTTCCCCTTCAA
Found at i:561815 original size:28 final size:28
Alignment explanation
Indices: 561765--561835 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
561755 TTCTTTAGGA
*
561765 GTGGTTATTC-GGACATATATGTTATAT
1 GTGGTCATTCGGGACATATATGTTATAT
*
561792 GTGGTCATTCGGGACATATGTGTTATAT
1 GTGGTCATTCGGGACATATATGTTATAT
* *
561820 GTAGTCCTTCGGGACA
1 GTGGTCATTCGGGACA
561836 AATCCTACGC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 9 0.23
28 30 0.77
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.38
Consensus pattern (28 bp):
GTGGTCATTCGGGACATATATGTTATAT
Found at i:565962 original size:28 final size:28
Alignment explanation
Indices: 565891--565962 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
565881 TTCTTAAGGA
*
565891 GTGGTCCTTTGGGACATATGTGTTATAT
1 GTGGTCCTTTGGGACATATATGTTATAT
* ***
565919 GTGGTCATTCAAGACATATATGTTATAT
1 GTGGTCCTTTGGGACATATATGTTATAT
565947 GTGGTCCTTTGGGACA
1 GTGGTCCTTTGGGACA
565963 AATCCTATGC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.22, C:0.12, G:0.26, T:0.39
Consensus pattern (28 bp):
GTGGTCCTTTGGGACATATATGTTATAT
Found at i:566974 original size:17 final size:18
Alignment explanation
Indices: 566940--567000 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 18
566930 CATTCATGGG
566940 GTATCGATACCTAGAAGGTA
1 GTATCGATACC-A-AAGGTA
566960 GTATCGATACC-AAGG--
1 GTATCGATACCAAAGGTA
*
566975 GTACCGATACCATAAGGATA
1 GTATCGATACCA-AAGG-TA
566995 GTATCG
1 GTATCG
567001 GTACAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
15 10 0.29
17 8 0.24
20 16 0.47
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (18 bp):
GTATCGATACCAAAGGTA
Found at i:575031 original size:41 final size:41
Alignment explanation
Indices: 574986--575075 Score: 153
Period size: 41 Copynumber: 2.2 Consensus size: 41
574976 AAAAAAGATT
*
574986 CAGTTTGATTGGTAATTCAATTCGATAGGTGACTGAATTAA
1 CAGTTTGATTGGTAATTCAATTCGATAGGTAACTGAATTAA
* *
575027 CAGTTTGGTTGGTAATTCAATTCGATAGGTAACTGAGTTAA
1 CAGTTTGATTGGTAATTCAATTCGATAGGTAACTGAATTAA
575068 CAGTTTGA
1 CAGTTTGA
575076 ACACCCTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (41 bp):
CAGTTTGATTGGTAATTCAATTCGATAGGTAACTGAATTAA
Found at i:575851 original size:15 final size:15
Alignment explanation
Indices: 575827--575860 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
575817 CCGTATGACC
575827 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
*
575842 ACTACGTCCCGAAGG
1 ACTACATCCCGAAGG
575857 ACTA
1 ACTA
575861 TTATACCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.21, T:0.15
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:575994 original size:29 final size:29
Alignment explanation
Indices: 575945--576054 Score: 168
Period size: 29 Copynumber: 3.8 Consensus size: 29
575935 TTTCATATGT
*
575945 TCATGTA-CTCATGTCATTTCTCTTATGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
* *
575973 TCATGTAGTTAATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
576002 TCGTGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
576031 TCATGTAGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
576055 ATATCACATA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
28 7 0.10
29 61 0.84
30 5 0.07
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:582812 original size:18 final size:18
Alignment explanation
Indices: 582774--582819 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
582764 TCATATATAC
* **
582774 CCCGTAGGACCCCTATGT
1 CCCGTAGGACCACTACAT
582792 CCCGTAGGACCACTACAT
1 CCCGTAGGACCACTACAT
*
582810 CCCGAAGGAC
1 CCCGTAGGAC
582820 TACATCCCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.39, G:0.22, T:0.15
Consensus pattern (18 bp):
CCCGTAGGACCACTACAT
Found at i:582823 original size:15 final size:15
Alignment explanation
Indices: 582803--582836 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
582793 CCGTAGGACC
582803 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
*
582818 ACTACATCCCGAATG
1 ACTACATCCCGAAGG
582833 ACTA
1 ACTA
582837 TTATACCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.32, G:0.15, T:0.18
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:582969 original size:29 final size:29
Alignment explanation
Indices: 582916--583030 Score: 171
Period size: 29 Copynumber: 4.0 Consensus size: 29
582906 TTATATTTCA
*
582916 TATGTTCATGTA-CTCATGTCATTTCTCT
1 TATGATCATGTAGCTCATGTCATTTCTCT
582944 TATGATCATGTAG-TGCATGTCATTTCTCT
1 TATGATCATGTAGCT-CATGTCATTTCTCT
*
582973 TGTGATCATGTAGCTCATGTCATTTCTCT
1 TATGATCATGTAGCTCATGTCATTTCTCT
*
583002 TGTGATCATGTAGCTCATGTCATGTTCTC
1 TATGATCATGTAGCTCATGTCAT-TTCTC
583031 ATATCACATA
Statistics
Matches: 81, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
28 12 0.15
29 63 0.78
30 6 0.07
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (29 bp):
TATGATCATGTAGCTCATGTCATTTCTCT
Found at i:583466 original size:64 final size:63
Alignment explanation
Indices: 583397--583558 Score: 177
Period size: 64 Copynumber: 2.5 Consensus size: 63
583387 TAATGAAGGT
* *
583397 ATGCATCGATGCACTACTTGTGCATCGGTGCA-TAAAATGCATTCGAT-GTTTTATTATTAATAG
1 ATGCATCGATGCACTACTTGTGCATCGATGCACT-AAATGCATTCGATCGTTTTATT-TTAA-AA
583460 G
63 G
* * * *
583461 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATCTTTTTATTTTAAAAG
1 ATGCATCGATGCACT-ACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
** *
583524 AGTGCATCGATGCACTACCAGTGCATCGATACACT
1 A-TGCATCGATGCACTACTTGTGCATCGATGCACT
583559 TTCAAACACT
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
63 4 0.05
64 69 0.84
65 9 0.11
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
Found at i:584379 original size:16 final size:16
Alignment explanation
Indices: 584358--584421 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
584348 ATAAATATAG
584358 TATTAA-AATATAATAT
1 TATTAATAAT-TAATAT
584374 TATTAA-AATT-ATAT
1 TATTAATAATTAATAT
584388 TA-TAATAATATTAAATAT
1 TATTAAT-A-ATT-AATAT
584406 T-TTAATAATTAATAT
1 TATTAATAATTAATAT
584421 T
1 T
584422 TTTATTAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
13 3 0.07
14 6 0.14
15 8 0.19
16 15 0.36
17 1 0.02
18 9 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTAATAATTAATAT
Found at i:584440 original size:11 final size:11
Alignment explanation
Indices: 584424--584454 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
584414 TTAATATTTT
584424 TATTAAAATGA
1 TATTAAAATGA
584435 TATTAAAATGA
1 TATTAAAATGA
584446 TATTAAAAT
1 TATTAAAAT
584455 ATTAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (11 bp):
TATTAAAATGA
Found at i:584465 original size:11 final size:11
Alignment explanation
Indices: 584451--584477 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
584441 AATGATATTA
584451 AAATATTAAAT
1 AAATATTAAAT
584462 AAATATTAAAT
1 AAATATTAAAT
584473 AAATA
1 AAATA
584478 AAATAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATATTAAAT
Found at i:584485 original size:19 final size:18
Alignment explanation
Indices: 584438--584486 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
584428 AAAATGATAT
* *
584438 TAAAATGATATTAAAATA
1 TAAAATAATATTAAAAAA
*
584456 TTAAATAAATATTAAATAAA
1 TAAAAT-AATATTAAA-AAA
584476 TAAAATAATAT
1 TAAAATAATAT
584487 ATATTTTGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 5 0.20
19 13 0.52
20 7 0.28
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
TAAAATAATATTAAAAAA
Found at i:584876 original size:20 final size:19
Alignment explanation
Indices: 584832--584880 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
584822 GTTTATAAAT
*
584832 ATAAAAATAATAAATTTAA
1 ATAAAAATATTAAATTTAA
*
584851 AGAAAAATATTAAATTTAA
1 ATAAAAATATTAAATTTAA
*
584870 TTTAAAAATAT
1 -ATAAAAATAT
584881 AAAACTAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
ATAAAAATATTAAATTTAA
Found at i:584879 original size:47 final size:46
Alignment explanation
Indices: 584788--584896 Score: 130
Period size: 47 Copynumber: 2.4 Consensus size: 46
584778 TATTTATTTT
* * * * *
584788 TAAAAAT-ATAAATATGAAAAAAATACTGAGTTTAGTTTATAAATA
1 TAAAAATAATAAATATAAAAAAAATACTAAATTTAATTTAAAAATA
* *
584833 TAAAAATAATAAATTTAAAGAAAAATATTAAATTTAATTTAAAAATA
1 TAAAAATAATAAATATAAA-AAAAATACTAAATTTAATTTAAAAATA
*
584880 TAAAACTAATAAATATA
1 TAAAAATAATAAATATA
584897 TTTTAAATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 7 0.13
46 9 0.17
47 37 0.70
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (46 bp):
TAAAAATAATAAATATAAAAAAAATACTAAATTTAATTTAAAAATA
Done.