Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 74 of 202
Found at i:21916771 original size:21 final size:21
Alignment explanation
Indices: 21916730--21916772 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
21916720 GACCTCGAAT
* *
21916730 CTCTAAACCCTAAATCACTAA
1 CTCTAAACCCCAAACCACTAA
*
21916751 CTCTAAACCCCAAACCCCTAA
1 CTCTAAACCCCAAACCACTAA
21916772 C
1 C
21916773 CACTAACCCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.42, G:0.00, T:0.19
Consensus pattern (21 bp):
CTCTAAACCCCAAACCACTAA
Found at i:21916858 original size:88 final size:89
Alignment explanation
Indices: 21916757--21916930 Score: 296
Period size: 88 Copynumber: 2.0 Consensus size: 89
21916747 CTAACTCTAA
*
21916757 ACCCCAAACCCCTAACCACTAACCCCTAAACCTTATTTAATATATAAATTAAAA-ACACTAATTA
1 ACCCCAAACCCCTAACCACTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTA
*
21916821 ATCTAAATCATAAACCCTAACTCG
66 ATCTAAACCATAAACCCTAACTCG
* *
21916845 ACCCCAAATCCCTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTA
1 ACCCCAAACCCCTAACCACTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTA
*
21916910 ATCTAAACCTTAAACCCTAAC
66 ATCTAAACCATAAACCCTAAC
21916931 ATGACACTAA
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
88 51 0.64
89 29 0.36
ACGTcount: A:0.44, C:0.30, G:0.01, T:0.25
Consensus pattern (89 bp):
ACCCCAAACCCCTAACCACTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTA
ATCTAAACCATAAACCCTAACTCG
Found at i:21916978 original size:7 final size:7
Alignment explanation
Indices: 21916958--21917001 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
21916948 AACCCTAAAT
21916958 CCCTAAC
1 CCCTAAC
* *
21916965 TCTTAAC
1 CCCTAAC
*
21916972 CTCTAAC
1 CCCTAAC
*
21916979 CTCTAAC
1 CCCTAAC
21916986 CCCTAAC
1 CCCTAAC
21916993 CCCTAAC
1 CCCTAAC
21917000 CC
1 CC
21917002 ATAAACCTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.27, C:0.50, G:0.00, T:0.23
Consensus pattern (7 bp):
CCCTAAC
Found at i:21917054 original size:14 final size:15
Alignment explanation
Indices: 21917032--21917065 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
21917022 CTTAAATAAG
*
21917032 AATCCCTAA-TCCAT
1 AATCTCTAATTCCAT
21917046 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
21917061 AATCT
1 AATCT
21917066 ATAAACCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:21917138 original size:20 final size:21
Alignment explanation
Indices: 21917113--21917156 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
21917103 ATCCTAAATT
*
21917113 AACCATATATA-TATACCCTA
1 AACCATATATATTAAACCCTA
21917133 AACCATATATATTAAACCCTA
1 AACCATATATATTAAACCCTA
21917154 AAC
1 AAC
21917157 TATAATGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (21 bp):
AACCATATATATTAAACCCTA
Found at i:21917518 original size:41 final size:41
Alignment explanation
Indices: 21917473--21917746 Score: 370
Period size: 41 Copynumber: 6.7 Consensus size: 41
21917463 AAATGTTTTT
*
21917473 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
21917514 GCGGCGCTTTTACAAAAACGCCGCTAAAGAT-TGAGTATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
21917554 GTGGCGCTTTTTCAAAAACGCCGCTAAAGATCTCAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
21917595 GCGACGCTTTTCCAAAAACGCTGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * * *
21917636 TCGACGCTTTTTCAAAGACGCCGCTAAAGATTTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * * *
21917677 GCGGCACTTCTTCAAAAGCGCTGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
21917718 GCGGCGCTTTTTTTAGAAACGCCGCTAAA
1 GCGGCGC-TTTTTCAAAAACGCCGCTAAA
21917747 TCCCCGAAAG
Statistics
Matches: 200, Mismatches: 31, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
40 37 0.19
41 147 0.74
42 16 0.08
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:21917874 original size:40 final size:39
Alignment explanation
Indices: 21917814--21917920 Score: 142
Period size: 40 Copynumber: 2.7 Consensus size: 39
21917804 AAAAACGCTA
* *
21917814 CTAATGCTCATTTTTAGCGGCATTTTTAGGAAAGCGCCG
1 CTAATGCTCATTTTTAGCGGCGTTTTTAGGAAAGCGACG
* ** *
21917853 CTAATGCTCGATCTTTAGCGGCGTTTTGCGTAAAGCGACG
1 CTAATGCTC-ATTTTTAGCGGCGTTTTTAGGAAAGCGACG
21917893 CTAATGCTCAATTTTTAGCGGCGTTTTT
1 CTAATGCTC-ATTTTTAGCGGCGTTTTT
21917921 TGTCCAAACG
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
39 9 0.16
40 49 0.84
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (39 bp):
CTAATGCTCATTTTTAGCGGCGTTTTTAGGAAAGCGACG
Found at i:21917943 original size:12 final size:12
Alignment explanation
Indices: 21917926--21917951 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21917916 TTTTTTGTCC
21917926 AAACGCCGCTAA
1 AAACGCCGCTAA
21917938 AAACGCCGCTAA
1 AAACGCCGCTAA
21917950 AA
1 AA
21917952 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:21918478 original size:16 final size:17
Alignment explanation
Indices: 21918447--21918479 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
21918437 ATTTTAATAA
*
21918447 TTTAAATTATTTATTAC
1 TTTAAATTAATTATTAC
21918464 TTTAAA-TAATTATTAC
1 TTTAAATTAATTATTAC
21918480 ATGATGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAAATTAATTATTAC
Found at i:21923359 original size:87 final size:86
Alignment explanation
Indices: 21923252--21923413 Score: 211
Period size: 87 Copynumber: 1.9 Consensus size: 86
21923242 CATGCATAAG
** * *
21923252 GTTGAGTTCTTACTCTTAATGAATTCA-TATCTTATG-TTTTAGTTGGTCCTATTTAGACGGACA
1 GTTGAGTTCTTACTCTTAATGAATT-ATTATCGCA-GAGTTTAGTTGGTCCTATTGAGACGGACA
21923315 TGATGAATTCACCGACATGTGAA
64 TGATGAATTCACCGACATGTGAA
* * * *
21923338 GTTGAGTTTCTTACTTTTAATGAGTTATTATCGCAGAGTTTAGTTGGTCCTATTGAGGCGGACTT
1 GTTGAG-TTCTTACTCTTAATGAATTATTATCGCAGAGTTTAGTTGGTCCTATTGAGACGGACAT
21923403 GATGAATTCAC
65 GATGAATTCAC
21923414 TGAATTTAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
86 8 0.12
87 57 0.88
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (86 bp):
GTTGAGTTCTTACTCTTAATGAATTATTATCGCAGAGTTTAGTTGGTCCTATTGAGACGGACATG
ATGAATTCACCGACATGTGAA
Found at i:21924017 original size:7 final size:6
Alignment explanation
Indices: 21923983--21924016 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
21923973 TACGACTTCA
*
21923983 TTTAGT TTTAGT TTTAGT TTGAGT TTTCAGT TTT
1 TTTAGT TTTAGT TTTAGT TTTAGT TTT-AGT TTT
21924017 CTTTAGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.15, C:0.03, G:0.18, T:0.65
Consensus pattern (6 bp):
TTTAGT
Found at i:21932446 original size:77 final size:77
Alignment explanation
Indices: 21932358--21932511 Score: 272
Period size: 77 Copynumber: 2.0 Consensus size: 77
21932348 AGAGTTTGGT
* * *
21932358 TATTAAATAGGGCTATTTTGTAAAGAAGTTTTTGTTAGTTTTGAGTTTAAGTACTAAATTGATAG
1 TATTAAATAGGGCTATGTTGTAAAGAAATTTTTATTAGTTTTGAGTTTAAGTACTAAATTGATAG
21932423 AGATCTAATTTA
66 AGATCTAATTTA
21932435 TATTAAATAGGGCTATGTTGTAAAGAAATTTTTATTAGTTTTGAGTTTAAGTACTAAATTGATAG
1 TATTAAATAGGGCTATGTTGTAAAGAAATTTTTATTAGTTTTGAGTTTAAGTACTAAATTGATAG
*
21932500 AGATTTAATTTA
66 AGATCTAATTTA
21932512 ACATGAAATT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (77 bp):
TATTAAATAGGGCTATGTTGTAAAGAAATTTTTATTAGTTTTGAGTTTAAGTACTAAATTGATAG
AGATCTAATTTA
Found at i:21932747 original size:2 final size:2
Alignment explanation
Indices: 21932740--21932786 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
21932730 GTTAAATTAT
21932740 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21932782 TA TA T
1 TA TA T
21932787 CAAGAAATGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21936951 original size:16 final size:16
Alignment explanation
Indices: 21936930--21936964 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
21936920 ATACGATGAC
21936930 TTTAGTTTATTATTAT
1 TTTAGTTTATTATTAT
21936946 TTTAGTTTATTATTAT
1 TTTAGTTTATTATTAT
21936962 TTT
1 TTT
21936965 TTAAATTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTAGTTTATTATTAT
Found at i:21944171 original size:21 final size:19
Alignment explanation
Indices: 21944145--21944194 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
21944135 TGACAAGACC
*
21944145 AAAAAATATAAAATAATTGT
1 AAAAAATATAAAA-AATAGT
*
21944165 ACAAAAATTATTAAAAATAGT
1 A-AAAAA-TATAAAAAATAGT
21944186 AAAAAATAT
1 AAAAAATAT
21944195 TTTAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.12
20 6 0.23
21 11 0.42
22 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (19 bp):
AAAAAATATAAAAAATAGT
Found at i:21944314 original size:21 final size:21
Alignment explanation
Indices: 21944277--21944327 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
21944267 TTTTTATTAT
*
21944277 TTTAAAATTGTTAAAACAGATA
1 TTTAAAATTGATAAAACA-ATA
*
21944299 TTTAAAATT-ATAAAACATTA
1 TTTAAAATTGATAAAACAATA
21944319 TTTAAAATT
1 TTTAAAATT
21944328 TGTAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 11 0.41
21 7 0.26
22 9 0.33
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (21 bp):
TTTAAAATTGATAAAACAATA
Found at i:21944333 original size:21 final size:20
Alignment explanation
Indices: 21944272--21944346 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 20
21944262 AAACTTTTTT
21944272 ATTATTTTAAAATTGTTAAAAC
1 ATTA-TTTAAAATTG-TAAAAC
* *
21944294 AGATATTTAAAATTATAAAAC
1 A-TTATTTAAAATTGTAAAAC
21944315 ATTATTTAAAATTTGTAAAA-
1 ATTATTTAAAA-TTGTAAAAC
21944335 ATTA-TTAAAATT
1 ATTATTTAAAATT
21944347 TTTGAAAGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
18 2 0.04
19 6 0.13
20 13 0.28
21 14 0.30
22 10 0.21
23 2 0.04
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.43
Consensus pattern (20 bp):
ATTATTTAAAATTGTAAAAC
Found at i:21944343 original size:10 final size:10
Alignment explanation
Indices: 21944297--21944387 Score: 53
Period size: 10 Copynumber: 9.1 Consensus size: 10
21944287 TTAAAACAGA
*
21944297 TATTTAAAAT
1 TATTAAAAAT
21944307 TA-TAAAACAT
1 TATTAAAA-AT
*
21944317 TATTTAAAAT
1 TATTAAAAAT
21944327 T-TGTAAAAAT
1 TAT-TAAAAAT
21944337 TATT-AAAAT
1 TATTAAAAAT
* * *
21944346 TTTTGAAAGT
1 TATTAAAAAT
*
21944356 TATTAAAAAA
1 TATTAAAAAT
***
21944366 TGGCAAATAAT
1 TATTAAA-AAT
21944377 TATTAAAAAT
1 TATTAAAAAT
21944387 T
1 T
21944388 TGTGAACAAG
Statistics
Matches: 59, Mismatches: 16, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
9 13 0.22
10 35 0.59
11 11 0.19
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (10 bp):
TATTAAAAAT
Found at i:21944344 original size:19 final size:19
Alignment explanation
Indices: 21944300--21944363 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
21944290 AAACAGATAT
21944300 TTAAAA-TTATAAAACATTA
1 TTAAAATTTATAAAA-ATTA
*
21944319 TTTAAAATTTGTAAAAATTA
1 -TTAAAATTTATAAAAATTA
* * *
21944339 TTAAAATTTTTGAAAGTTA
1 TTAAAATTTATAAAAATTA
21944358 TTAAAA
1 TTAAAA
21944364 AATGGCAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
19 22 0.56
20 10 0.26
21 7 0.18
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (19 bp):
TTAAAATTTATAAAAATTA
Found at i:21953862 original size:47 final size:47
Alignment explanation
Indices: 21953799--21953908 Score: 166
Period size: 47 Copynumber: 2.3 Consensus size: 47
21953789 GACCTATGGG
* * *
21953799 TTATCCGCAACTTATTCTAGTCGGCAATCATTTGCTCGACCAGTGGT
1 TTATCCACAACGTATTCTAGTCGGCAATCATCTGCTCGACCAGTGGT
* * *
21953846 TTATCCACAACGTATTCTAGTTGGCAGTCATCTGCTCGACCATTGGT
1 TTATCCACAACGTATTCTAGTCGGCAATCATCTGCTCGACCAGTGGT
21953893 TTATCCACAACGTATT
1 TTATCCACAACGTATT
21953909 AGTAGCTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (47 bp):
TTATCCACAACGTATTCTAGTCGGCAATCATCTGCTCGACCAGTGGT
Found at i:21954025 original size:90 final size:90
Alignment explanation
Indices: 21953842--21954036 Score: 228
Period size: 90 Copynumber: 2.1 Consensus size: 90
21953832 GCTCGACCAG
* * * * * * *
21953842 TGGTTTATCCACAACGTATTCTAGTTGGCAGTCATCTGCTCGACCATTGGTTTATCCACAACGTA
1 TGGTTCATCCAC--CGTATTCTAGTAGACAGTCATATGCTCAACCAATGGTTTATCCACAACATA
* * * * *
21953907 TTAGTAGCTTTTATATGCACAAATGGA
64 TTAGCAACTTTCATATACACAAACGGA
21953934 TGGTTCATCCACCGTATTCTAGTAGACAGTCATATGCTCAACCAATGGTTTATCCACAACATATT
1 TGGTTCATCCACCGTATTCTAGTAGACAGTCATATGCTCAACCAATGGTTTATCCACAACATATT
* * * *
21953999 AGCAACTTTCATCTATATAGACGGA
66 AGCAACTTTCATATACACAAACGGA
21954024 TGGTTCATCCACC
1 TGGTTCATCCACC
21954037 AATAAAATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
90 76 0.87
92 11 0.13
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (90 bp):
TGGTTCATCCACCGTATTCTAGTAGACAGTCATATGCTCAACCAATGGTTTATCCACAACATATT
AGCAACTTTCATATACACAAACGGA
Found at i:21955007 original size:19 final size:19
Alignment explanation
Indices: 21954962--21955032 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
21954952 TTATTATGAT
*
21954962 TTTTAATAATATTTAAAAA
1 TTTTAATAATGTTTAAAAA
* * * *
21954981 ATTAAATAATGTTTTATAA
1 TTTTAATAATGTTTAAAAA
* *
21955000 TTTTAATAACTCTTTAACAA
1 TTTTAATAA-TGTTTAAAAA
21955020 TTTTAA-AATGTTT
1 TTTTAATAATGTTT
21955033 TTTACAATTT
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
18 4 0.10
19 23 0.57
20 13 0.32
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (19 bp):
TTTTAATAATGTTTAAAAA
Found at i:21955051 original size:9 final size:9
Alignment explanation
Indices: 21955039--21955120 Score: 58
Period size: 9 Copynumber: 8.7 Consensus size: 9
21955029 GTTTTTTACA
21955039 ATTTTTAAT
1 ATTTTTAAT
21955048 ATTTTTTAAT
1 A-TTTTTAAT
* *
21955058 AATTTCAAT
1 ATTTTTAAT
21955067 ATTTTTACA-
1 ATTTTTA-AT
*
21955076 GTTTTTATAT
1 ATTTTTA-AT
21955086 ATTTTTAAAT
1 ATTTTT-AAT
**
21955096 AATTTTTACG
1 -ATTTTTAAT
*
21955106 ATTGTTAAT
1 ATTTTTAAT
21955115 ATTTTT
1 ATTTTT
21955121 TACAATTTTT
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
9 30 0.55
10 18 0.33
11 7 0.13
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:21955054 original size:19 final size:19
Alignment explanation
Indices: 21955016--21955091 Score: 66
Period size: 19 Copynumber: 3.9 Consensus size: 19
21955006 TAACTCTTTA
* *
21955016 ACAATTTTAAAATGTTTTTT
1 ACAATTTT-TAATATTTTTT
21955036 ACAATTTTTAATATTTTTT
1 ACAATTTTTAATATTTTTT
* *
21955055 A-ATAATTTCAATA-TTTTT
1 ACA-ATTTTTAATATTTTTT
*
21955073 ACAGTTTTTATATATTTTT
1 ACAATTTTTA-ATATTTTT
21955092 AAATAATTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
18 11 0.24
19 22 0.49
20 12 0.27
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (19 bp):
ACAATTTTTAATATTTTTT
Found at i:21955062 original size:11 final size:10
Alignment explanation
Indices: 21955040--21955131 Score: 50
Period size: 10 Copynumber: 9.5 Consensus size: 10
21955030 TTTTTTACAA
21955040 TTTTTAATAT
1 TTTTTAATAT
21955050 TTTTTAATA-
1 TTTTTAATAT
* *
21955059 ATTTCAATA-
1 TTTTTAATAT
* *
21955068 TTTTT-ACAG
1 TTTTTAATAT
21955077 TTTTTATATAT
1 TTTTTA-ATAT
* *
21955088 TTTTAAATAA
1 TTTTTAATAT
**
21955098 TTTTTACGA-
1 TTTTTAATAT
*
21955107 TTGTTAATAT
1 TTTTTAATAT
21955117 TTTTTACA-AT
1 TTTTTA-ATAT
21955127 TTTTT
1 TTTTT
21955132 GGACTGGTCA
Statistics
Matches: 61, Mismatches: 16, Indels: 10
0.70 0.18 0.11
Matches are distributed among these distances:
8 2 0.03
9 21 0.34
10 30 0.49
11 8 0.13
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (10 bp):
TTTTTAATAT
Found at i:21961163 original size:48 final size:48
Alignment explanation
Indices: 21961095--21961227 Score: 196
Period size: 48 Copynumber: 2.8 Consensus size: 48
21961085 CTAATTATCA
*
21961095 TGTA-GTTTCAACCTTAACGGGTAAACAGGCACTATTACTCATTATTTG
1 TGTAGGTTT-AACCTTAACGGGTAACCAGGCACTATTACTCATTATTTG
* * *
21961143 TGTAGGTTTAACCTTGACGGGTAACCATGCACTATTATTCATTATTTG
1 TGTAGGTTTAACCTTAACGGGTAACCAGGCACTATTACTCATTATTTG
**
21961191 TGTAGGTTTAACCCAAACGGGTAACCAGGCACTATTA
1 TGTAGGTTTAACCTTAACGGGTAACCAGGCACTATTA
21961228 TTTTCACTTG
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
48 72 0.95
49 4 0.05
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (48 bp):
TGTAGGTTTAACCTTAACGGGTAACCAGGCACTATTACTCATTATTTG
Found at i:21963990 original size:27 final size:26
Alignment explanation
Indices: 21963939--21963996 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
21963929 CATATTTTCT
*
21963939 CAAAATTTTACTAGGGGTAAAATCAC
1 CAAAATTTTACGAGGGGTAAAATCAC
*
21963965 CAAAATTTTATCGA-GGGT--AATCAT
1 CAAAATTTTA-CGAGGGGTAAAATCAC
21963989 CAAAATTT
1 CAAAATTT
21963997 AAATGGGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 13 0.45
26 14 0.48
27 2 0.07
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (26 bp):
CAAAATTTTACGAGGGGTAAAATCAC
Found at i:21967421 original size:21 final size:21
Alignment explanation
Indices: 21967397--21967439 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
21967387 CATTGAAGCT
21967397 TAACCTACCACATTTCCATCA
1 TAACCTACCACATTTCCATCA
21967418 TAACCTACCACATTTCCATCA
1 TAACCTACCACATTTCCATCA
21967439 T
1 T
21967440 GTTACATGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (21 bp):
TAACCTACCACATTTCCATCA
Found at i:21971680 original size:20 final size:20
Alignment explanation
Indices: 21971651--21971691 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
21971641 CTTATGAGCG
*
21971651 TTGTTTTCTTGTGGCTTTTT
1 TTGTTCTCTTGTGGCTTTTT
*
21971671 TTGTTCTCTTGTTGCTTTTT
1 TTGTTCTCTTGTGGCTTTTT
21971691 T
1 T
21971692 GTCTTTGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.17, T:0.71
Consensus pattern (20 bp):
TTGTTCTCTTGTGGCTTTTT
Found at i:21982470 original size:26 final size:26
Alignment explanation
Indices: 21982441--21982531 Score: 100
Period size: 26 Copynumber: 3.6 Consensus size: 26
21982431 CTTATAAGCG
*
21982441 TCCCGA-TATATGGTTCTTCGTGAGCT
1 TCCCGATTA-ATGGCTCTTCGTGAGCT
* *
21982467 TCCCGATTAAAGGCTCTTTGTGAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
* *
21982493 TTCTGATTAATGGCTCTTCG-GAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
21982518 TCCCGA-T-ATGGCTC
1 TCCCGATTAATGGCTC
21982532 GCTTAAACTT
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
23 7 0.13
24 1 0.02
25 9 0.16
26 36 0.65
27 2 0.04
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
TCCCGATTAATGGCTCTTCGTGAGCT
Found at i:21982640 original size:24 final size:24
Alignment explanation
Indices: 21982564--21982642 Score: 85
Period size: 24 Copynumber: 3.3 Consensus size: 24
21982554 TTATCCGAAA
21982564 AGCTTCCT-ATTAATGGCTCTTCA-G
1 AGCTTCCTGATT-ATGGCTCTT-ATG
*
21982588 AGCTACCTG-TTATTGGCT-TGTATG
1 AGCTTCCTGATTA-TGGCTCT-TATG
21982612 AGCTTCCTGATTATGGCTCTTATG
1 AGCTTCCTGATTATGGCTCTTATG
21982636 AGCTTCC
1 AGCTTCC
21982643 CTATATAGCC
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
23 3 0.06
24 40 0.85
25 4 0.09
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (24 bp):
AGCTTCCTGATTATGGCTCTTATG
Found at i:21985662 original size:44 final size:42
Alignment explanation
Indices: 21985604--21986170 Score: 348
Period size: 44 Copynumber: 12.9 Consensus size: 42
21985594 ATTTGTGGTT
* *
21985604 TTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGATTAGTAG
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAG
* * *
21985647 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTAT
1 -TTTAATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTG-TAG
* * *
21985692 TTTGAGTCTGTTCCACTGCAACTTCAGGGAGATAAAACTTGTTATG
1 TTT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TA-G
* * * * ** * * *
21985738 ATGTGATATGCTCTACTATAACTTTAGAGAGATAAGATATGTTAT
1 -TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-TAG
* * * *
21985783 TTTCAGTCTGTTCCACTACAACTTCAGCGAGATAAGACTTGTTATGG
1 TTT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TA--G
* * * * *
21985830 TGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGAT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGT-AG
* * * **
21985874 TTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TAG
** * * * * *
21985918 TTTCGTCTGCTCCGCTACAAATTCAGGGAGATAAGACTGGA-
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAG
* * * * *
21985959 TGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGT-T
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-TGTAG
* **
21986003 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TAG
** * *
21986047 TTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGA-
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAG
* * * * *
21986088 TGTGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTAG
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTAG
* * *
21986131 TTTTAATCTACTCCACTGCAACTTCAGCGAGATAGGATTG
1 -TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTG
21986171 GCTTCTTCTG
Statistics
Matches: 400, Mismatches: 98, Indels: 51
0.73 0.18 0.09
Matches are distributed among these distances:
41 59 0.15
42 5 0.01
43 6 0.01
44 193 0.48
45 74 0.19
46 59 0.15
47 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (42 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAG
Found at i:21985791 original size:91 final size:90
Alignment explanation
Indices: 21985603--21986164 Score: 333
Period size: 91 Copynumber: 6.4 Consensus size: 90
21985593 GATTTGTGGT
* * * * * * *
21985603 TTTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGA-TTAG-TA-GCT-TCAATCTGCTCCACT
1 TTTTAGTCTGTTCCACTGCAACTTCAGGGAGATAAAACTT-GTTATGATGT-GATATGCTCTACT
* * * *
21985664 GCAACTTCAGGGAGATAAGGTTTGTTA
64 ACAACTTCAGAGAGATAAGATATGTTA
21985691 TTTTGAGTCTGTTCCACTGCAACTTCAGGGAGATAAAACTTGTTATGATGTGATATGCTCTACTA
1 TTTT-AGTCTGTTCCACTGCAACTTCAGGGAGATAAAACTTGTTATGATGTGATATGCTCTACTA
* *
21985756 TAACTTTAGAGAGATAAGATATGTTA
65 CAACTTCAGAGAGATAAGATATGTTA
* * * * * *
21985782 TTTTCAGTCTGTTCCACTACAACTTCAGCGAGATAAGACTTGTTATGGTGTGATCTGCTCTACTG
1 TTTT-AGTCTGTTCCACTGCAACTTCAGGGAGATAAAACTTGTTATGATGTGATATGCTCTACTA
* *
21985847 CAACTTCAGAGAGATAAGATCTGTGA
65 CAACTTCAGAGAGATAAGATATGTTA
* * * * ** * * * **
21985873 TTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGA-TTGGTT-T-CTTTCG-TCTGCTCCGCT
1 TTTTAGTCTGTTCCACTGCAACTTCAGGGAGATAAAACTT-GTTATGATGT-GATATGCTCTACT
* * * *
21985934 ACAAATTCAGGGAGATAAGA-CTG-GA
64 ACAACTTCAGAGAGATAAGATATGTTA
* * * * * * * * *
21985959 TGTGA-TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGTT-T--T-TAATCTGCTCCACT
1 TTTTAGTCTGTTCCACTGCAACTTCAGGGAGATAA-AACT-TGTTATGATGTGATATGCTCTACT
* * *
21986019 GCAACTTCAGGGAGATAGGAT-TGGTT-
64 ACAACTTCAGAGAGATAAGATAT-GTTA
* * * * * *
21986045 TCTTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC-TG----GATGTGATCTGCTCTATTG
1 T-TTTAGTCTGTTCCACTGCAACTTCAGGGAGATAAAACTTGTTATGATGTGATATGCTCTACTA
*
21986105 CAACTTCAGAGAGATAAGATCTG-TA
65 CAACTTCAGAGAGATAAGATATGTTA
* ** *
21986130 GTTTTAATCTACTCCACTGCAACTTCAGCGAGATA
1 -TTTTAGTCTGTTCCACTGCAACTTCAGGGAGATA
21986165 GGATTGGCTT
Statistics
Matches: 383, Mismatches: 69, Indels: 47
0.77 0.14 0.09
Matches are distributed among these distances:
84 2 0.01
85 115 0.30
86 10 0.03
87 10 0.03
88 60 0.16
89 35 0.09
90 33 0.09
91 117 0.31
92 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (90 bp):
TTTTAGTCTGTTCCACTGCAACTTCAGGGAGATAAAACTTGTTATGATGTGATATGCTCTACTAC
AACTTCAGAGAGATAAGATATGTTA
Found at i:21986111 original size:85 final size:87
Alignment explanation
Indices: 21985603--21986164 Score: 308
Period size: 85 Copynumber: 6.4 Consensus size: 87
21985593 GATTTGTGGT
* * * * * *
21985603 TTTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGATTAGTAGCT-TCAATCTGCTCCACTGCA
1 TTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCA-TGGATGT-AATCTGCTCCACTGCA
* * *
21985667 ACTTCAGGGAGATAAGGTTTGTTA-
64 ACTTCAGAGAGATAAGATCTG-TAG
* * * * * * * *
21985691 TTTTGAGTCTGTTCCACTGCAACTTCAGGGAGATAA-AACTTGTTATGATGTGATATGCTCTACT
1 TTTT-AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCATG----GATGTAATCTGCTCCACT
** * *
21985755 ATAACTTTAGAGAGATAAGATATGTTA-
61 GCAACTTCAGAGAGATAAGATCTG-TAG
* * * * * * *
21985782 TTTTCAGTCTGTTCCACTACAACTTCAGCGAGATAAGACTTGTTATGG-TGTGATCTGCTCTACT
1 TTTT-AATCTGCTCCACTGCAACTTCAGAGAGATAAGA----TCATGGATGTAATCTGCTCCACT
21985846 GCAACTTCAGAGAGATAAGATCTGT-G
61 GCAACTTCAGAGAGATAAGATCTGTAG
* * * * * * ** * *
21985872 ATTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGAT--TGGTTTCTTTCGTCTGCTCCGCTA
1 -TTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCATGG---ATGTAATCTGCTCCACTG
* *
21985935 CAAATTCAGGGAGATAAGA-CTG--G
62 CAACTTCAGAGAGATAAGATCTGTAG
* * * * ** *
21985958 ATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGTTTTTAATCTGCTCCACTGCAA
1 TTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATC-ATGGATGTAATCTGCTCCACTGCAA
* * *
21986023 CTTCAGGGAGATAGGAT-TGGT-T
65 CTTCAGAGAGATAAGATCT-GTAG
** * * * *
21986045 TCTTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C-TGGATGTGATCTGCTCTATTGCAA
1 T-TTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCATGGATGTAATCTGCTCCACTGCAA
21986108 CTTCAGAGAGATAAGATCTGTAG
65 CTTCAGAGAGATAAGATCTGTAG
* *
21986131 TTTTAATCTACTCCACTGCAACTTCAGCGAGATA
1 TTTTAATCTGCTCCACTGCAACTTCAGAGAGATA
21986165 GGATTGGCTT
Statistics
Matches: 370, Mismatches: 78, Indels: 55
0.74 0.16 0.11
Matches are distributed among these distances:
84 3 0.01
85 125 0.34
86 5 0.01
87 5 0.01
88 66 0.18
89 29 0.08
90 27 0.07
91 105 0.28
92 3 0.01
96 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (87 bp):
TTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCATGGATGTAATCTGCTCCACTGCAAC
TTCAGAGAGATAAGATCTGTAG
Found at i:21986183 original size:129 final size:128
Alignment explanation
Indices: 21985788--21986183 Score: 578
Period size: 129 Copynumber: 3.0 Consensus size: 128
21985778 GTTATTTTCA
* * *
21985788 GTCTGTTCCACTACAACTTCAGCGAGATAAGACTTGTTATGGTGTGATCTGCTCTACTGCAACTT
1 GTCTGCTCCACTACAACTTCAGGGAGATAAGAC-TG----GATGTGATCTGCTCTACTGCAACTT
* *
21985853 CAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTC
61 CAGAGAGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC
21985918 TTT
126 TTT
* *
21985921 CGTCTGCTCCGCTACAAATTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGA
1 -GTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGA
* *
21985986 GAGATAAGATCTATGTTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTT
65 GAGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC-TTT
* *
21986051 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTATTGCAACTTCAGAG
1 GTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAG
* * *
21986116 AGATAAGATCTGT-AGTTTTAATCTACTCCACTGCAACTTCAGCGAGATAGGATTGGCTTCTTCT
66 AGATAAGATCTGTGA-TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTT-T
21986180 GTCT
1 GTCT
21986184 AACTGCAATG
Statistics
Matches: 241, Mismatches: 18, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
128 2 0.01
129 205 0.85
130 3 0.01
133 2 0.01
134 29 0.12
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (128 bp):
GTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAG
AGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTT
Found at i:21986346 original size:99 final size:99
Alignment explanation
Indices: 21986204--21986687 Score: 734
Period size: 99 Copynumber: 4.9 Consensus size: 99
21986194 TTTGGGAAGT
* * * * * *
21986204 AAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCAGGGAAGTAAAATTCACCGTTGT
1 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCCATTGT
21986269 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAC
66 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAC
* *
21986303 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCAGGGAAGTAAGATTCGCCATTGT
1 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCCATTGT
* * **
21986368 AGCTTCAATCTTTTAAATTGCAATGTTAGGGAAC
66 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAC
* ** *
21986402 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGCCAAGGAAGTAAGATTCGCTGTTGC
1 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCCATTGT
* *
21986467 AGCTTCAATCTTTTTAATTACAATGTCGGGGAAC
66 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAC
* * *
21986501 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGTCAGGGAAGTAAGATTCGTCATTGC
1 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCCATTGT
* *
21986566 GGCTTCAATCTTTTAAATTGCAATTTCGGGGAAC
66 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAC
* * *
21986600 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCTTTGT
1 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCCATTGT
21986665 GGCTTCAATCTTTTTAATTGCAA
66 GGCTTCAATCTTTTTAATTGCAA
21986688 CCTCAAGGGT
Statistics
Matches: 347, Mismatches: 38, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 347 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (99 bp):
AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCCATTGT
GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAC
Found at i:21987619 original size:19 final size:19
Alignment explanation
Indices: 21987584--21987633 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
21987574 GGCCTCTCCT
21987584 TTTTCCTTTTTTGTTC-TTC
1 TTTT-CTTTTTTGTTCTTTC
* *
21987603 TTTTCTTTTCTTTTTCTTTT
1 TTTTCTTTT-TTGTTCTTTC
21987623 TTTTCTTTTTT
1 TTTTCTTTTTT
21987634 TCAAGTGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 5 0.19
19 11 0.41
20 11 0.41
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (19 bp):
TTTTCTTTTTTGTTCTTTC
Found at i:21987633 original size:16 final size:16
Alignment explanation
Indices: 21987600--21987632 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
21987590 TTTTTTGTTC
21987600 TTCTTTTCTTTTCTTT
1 TTCTTTTCTTTTCTTT
21987616 TTCTTTT-TTTTCTTT
1 TTCTTTTCTTTTCTTT
21987631 TT
1 TT
21987633 TTCAAGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTCTTTTCTTTTCTTT
Found at i:21990170 original size:23 final size:23
Alignment explanation
Indices: 21990143--21990195 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
21990133 AGTGTTATTG
21990143 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
21990166 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
21990189 ATCAGTG
1 ATCAGTG
21990196 TGGCACTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:21993867 original size:13 final size:14
Alignment explanation
Indices: 21993844--21993872 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21993834 TTACATTTGA
21993844 CCTCTCCCATTTCC
1 CCTCTCCCATTTCC
21993858 CCTC-CCCATTTCC
1 CCTCTCCCATTTCC
21993871 CC
1 CC
21993873 AACCCCGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.07, C:0.62, G:0.00, T:0.31
Consensus pattern (14 bp):
CCTCTCCCATTTCC
Found at i:22002612 original size:23 final size:24
Alignment explanation
Indices: 22002575--22002621 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
22002565 GAAGATTTTT
22002575 AATCTTAGTAGATTTGATTCTGTA
1 AATCTTAGTAGATTTGATTCTGTA
*
22002599 AATCTTA-TAGATTTGATTTTGTA
1 AATCTTAGTAGATTTGATTCTGTA
22002622 GATTGCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.49
Consensus pattern (24 bp):
AATCTTAGTAGATTTGATTCTGTA
Found at i:22003668 original size:5 final size:5
Alignment explanation
Indices: 22003658--22003691 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
22003648 TTTTTAAAAA
22003658 AATTT AATTT AATTT AATTT AATTT AATTT AATT
1 AATTT AATTT AATTT AATTT AATTT AATTT AATT
22003692 CCATTTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
AATTT
Found at i:22003697 original size:15 final size:15
Alignment explanation
Indices: 22003658--22003697 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
22003648 TTTTTAAAAA
*
22003658 AATTTAATTTAATTT
1 AATTCAATTTAATTT
*
22003673 AATTTAATTTAATTT
1 AATTCAATTTAATTT
*
22003688 AATTCCATTT
1 AATTCAATTT
22003698 GTTTTGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
AATTCAATTTAATTT
Found at i:22003892 original size:29 final size:31
Alignment explanation
Indices: 22003843--22003910 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
22003833 TTGATAGTTC
* *
22003843 AAGTACCACATTGAAC-CTTT-TCAAAGTAT
1 AAGTACCACAATGAACATTTTATCAAAGTAT
* *
22003872 AAGTACCACAATGGACATTTTATGAAAGTAT
1 AAGTACCACAATGAACATTTTATCAAAGTAT
*
22003903 ATGTACCA
1 AAGTACCA
22003911 AATAATACAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 14 0.44
30 3 0.09
31 15 0.47
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (31 bp):
AAGTACCACAATGAACATTTTATCAAAGTAT
Found at i:22008552 original size:37 final size:36
Alignment explanation
Indices: 22008511--22008602 Score: 107
Period size: 37 Copynumber: 2.4 Consensus size: 36
22008501 ATTCCAAAAA
*
22008511 TAATATTATTTTAATAG-ATTTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATTT--TATT-AATTTAATAT
22008548 TAATATTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATATTATCTTAATAGTATTTTATTAATTTAATAT
22008584 TAAAGTGATTATCTTAATA
1 T-AA-T-ATTATCTTAATA
22008603 TTAAATTTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
35 8 0.16
36 6 0.12
37 18 0.37
38 5 0.10
39 12 0.24
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTTTATTAATTTAATAT
Found at i:22008621 original size:67 final size:65
Alignment explanation
Indices: 22008530--22008659 Score: 183
Period size: 67 Copynumber: 2.0 Consensus size: 65
22008520 TTTAATAGAT
**
22008530 TTAATATTAAATTTAATTTAATA-TTATCTTAATAGTATTTTATT-AATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATTTAATATTTATC-T--T-GTATTAAATTAAATTTAATATTAAAGTGAT
22008593 TATC
62 TATC
*
22008597 TTAATATTAAATTTAATTTCATATTTATCTTGTATTAAATTAAATTTAATATTAAAGTGATTA
1 TTAATATTAAATTTAATTTAATATTTATCTTGTATTAAATTAAATTTAATATTAAAGTGATTA
22008660 GGTTTAATCA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
64 8 0.14
65 22 0.38
67 23 0.40
68 5 0.09
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (65 bp):
TTAATATTAAATTTAATTTAATATTTATCTTGTATTAAATTAAATTTAATATTAAAGTGATTATC
Found at i:22008635 original size:28 final size:29
Alignment explanation
Indices: 22008592--22008649 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
22008582 ATTAAAGTGA
* *
22008592 TTATCTTAATATTAAATTTAATTTCATAT
1 TTATCTTAATATTAAATTAAATTTAATAT
*
22008621 TTATCTT-GTATTAAATTAAATTTAATAT
1 TTATCTTAATATTAAATTAAATTTAATAT
22008649 T
1 T
22008650 AAAGTGATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (29 bp):
TTATCTTAATATTAAATTAAATTTAATAT
Found at i:22013048 original size:87 final size:87
Alignment explanation
Indices: 22012902--22013075 Score: 269
Period size: 87 Copynumber: 2.0 Consensus size: 87
22012892 CGAAATAAAA
22012902 ACATAATAACATAAAGAAAAAAAAAGAGATTATCAATTCTTTTTTACTTTCTCTTCCCTATTAAA
1 ACATAATAACATAAAGAAAAAAAAAGAGATTATCAATTCTTTTTTACTTTCTCTTCCCTATTAAA
* *
22012967 ACTTGTTATCCATATGAATCAT
66 ACGTGTTATCCAAATGAATCAT
* *** *
22012989 ACATAGTAACATAAAG-AAAATGGAGAGATTATTAATTCTTTTCTTACTTTCTCTTCCCTATTAA
1 ACATAATAACATAAAGAAAAAAAAAGAGATTATCAATTCTTTT-TTACTTTCTCTTCCCTATTAA
22013053 AACGTGTTATCCAAATGAATCAT
65 AACGTGTTATCCAAATGAATCAT
22013076 TCCCTTCACT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
86 22 0.28
87 57 0.72
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (87 bp):
ACATAATAACATAAAGAAAAAAAAAGAGATTATCAATTCTTTTTTACTTTCTCTTCCCTATTAAA
ACGTGTTATCCAAATGAATCAT
Found at i:22014892 original size:21 final size:22
Alignment explanation
Indices: 22014866--22014907 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
22014856 AGATGTTTGT
22014866 TTATTATTTTCTTGCT-TTTTA
1 TTATTATTTTCTTGCTATTTTA
22014887 TTATTATTTTCTTGCTATTTT
1 TTATTATTTTCTTGCTATTTT
22014908 CTTGTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.14, C:0.10, G:0.05, T:0.71
Consensus pattern (22 bp):
TTATTATTTTCTTGCTATTTTA
Found at i:22014918 original size:11 final size:11
Alignment explanation
Indices: 22014870--22014911 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
22014860 GTTTGTTTAT
22014870 TATTTTCTTGC
1 TATTTTCTTGC
* **
22014881 T-TTTTATTAT
1 TATTTTCTTGC
22014891 TATTTTCTTGC
1 TATTTTCTTGC
22014902 TATTTTCTTG
1 TATTTTCTTG
22014912 TTTTTTTTTC
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.12, C:0.12, G:0.07, T:0.69
Consensus pattern (11 bp):
TATTTTCTTGC
Found at i:22015578 original size:24 final size:25
Alignment explanation
Indices: 22015546--22015600 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
22015536 CACTATTTTA
* * *
22015546 AATATAAAATATTCATT-TTTATAT
1 AATAAAAAATATACATTAATTATAT
22015570 AATAAAAAATATACATTAATTATAT
1 AATAAAAAATATACATTAATTATAT
*
22015595 ATTAAA
1 AATAAA
22015601 TAAAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
AATAAAAAATATACATTAATTATAT
Found at i:22018943 original size:1 final size:1
Alignment explanation
Indices: 22018937--22018970 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
22018927 GTGATCTCTC
22018937 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22018971 AAATTTAGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:22021395 original size:11 final size:10
Alignment explanation
Indices: 22021376--22021402 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
22021366 CATATTTATA
22021376 TTGTTTTTTT
1 TTGTTTTTTT
22021386 TTGTTTTTTT
1 TTGTTTTTTT
22021396 TTGTTTT
1 TTGTTTT
22021403 GAGGCACTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (10 bp):
TTGTTTTTTT
Found at i:22041746 original size:2 final size:2
Alignment explanation
Indices: 22041739--22041782 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
22041729 GTTAAAAGTA
22041739 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22041781 AT
1 AT
22041783 CCATCCTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22046075 original size:16 final size:16
Alignment explanation
Indices: 22046054--22046088 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
22046044 GTCACACAAA
22046054 TAGTGTGTGTTGAGTG
1 TAGTGTGTGTTGAGTG
22046070 TAGTGTGTGTTGAGTG
1 TAGTGTGTGTTGAGTG
22046086 TAG
1 TAG
22046089 AACATAGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (16 bp):
TAGTGTGTGTTGAGTG
Found at i:22050675 original size:6 final size:6
Alignment explanation
Indices: 22050661--22050702 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
22050651 GGTTTTATCA
* *
22050661 AAATTG AAATGG AAATGG AAATGG AAATGA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
22050703 CTTTATTTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.26, T:0.19
Consensus pattern (6 bp):
AAATGG
Found at i:22062042 original size:104 final size:104
Alignment explanation
Indices: 22061849--22062188 Score: 576
Period size: 104 Copynumber: 3.3 Consensus size: 104
22061839 TGTATATAAA
** * * *
22061849 AGGGGTTGCTGTGTGTTGATTCCCCGA-TTCATGGGTGGTGCTATGTGCG-TGATCCACCATATC
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATC
*
22061912 TTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
22061953 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGCTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
*
22062018 TTGAAATGAAAAGGGGGTTGCTATGTTCTGATTCCCCCG
66 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
22062057 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
22062122 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
22062161 AGGGGTTGCTAAGTGCTGATTCCCCGAT
1 AGGGGTTGCTAAGTGCTGATTCCCCGAT
22062189 NNNNNNNNNN
Statistics
Matches: 224, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
104 183 0.82
105 40 0.18
106 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:22064752 original size:35 final size:34
Alignment explanation
Indices: 22064704--22064776 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 34
22064694 TTTTCTCTAG
* **
22064704 TTTTCATAGTTTTAGGTTAGGGTTCTTTTCTTTTCTT
1 TTTTCATA-TTTTAGATTA-GGTT-TTCCCTTTTCTT
22064741 TTTTCAT-TTTTAGATTAGGTTTTCCCTTTTCTT
1 TTTTCATATTTTAGATTAGGTTTTCCCTTTTCTT
22064774 TTT
1 TTT
22064777 AGAATAGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 13 0.39
34 4 0.12
35 9 0.27
37 7 0.21
ACGTcount: A:0.11, C:0.12, G:0.12, T:0.64
Consensus pattern (34 bp):
TTTTCATATTTTAGATTAGGTTTTCCCTTTTCTT
Found at i:22077258 original size:26 final size:22
Alignment explanation
Indices: 22077202--22077258 Score: 60
Period size: 26 Copynumber: 2.4 Consensus size: 22
22077192 TCAATCTAAT
22077202 TATAATTTAGATTTTTATTATA
1 TATAATTTAGATTTTTATTATA
*
22077224 TTTAAATTTAGAATTTAATTATTATA
1 TAT-AATTTAG-ATTT--TTATTATA
22077250 TATATATTT
1 TATA-ATTT
22077259 TAGTTACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 2 0.07
23 7 0.25
24 4 0.14
25 1 0.04
26 14 0.50
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (22 bp):
TATAATTTAGATTTTTATTATA
Found at i:22080087 original size:13 final size:13
Alignment explanation
Indices: 22080069--22080095 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22080059 TAGTGACTAT
22080069 GGCATCTAACAAG
1 GGCATCTAACAAG
22080082 GGCATCTAACAAG
1 GGCATCTAACAAG
22080095 G
1 G
22080096 AGATCGGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (13 bp):
GGCATCTAACAAG
Found at i:22082343 original size:44 final size:42
Alignment explanation
Indices: 22082287--22082377 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 42
22082277 ATAAAATACC
22082287 AAAAAAATATATTTA-TGAAA-AAATAAAATACGAAAAGAAATA
1 AAAAAAATATATTTACTGAAAGAAATAAAATACG-AAA-AAATA
* *
22082329 AAAAAATAGTATATTTACTGAAAGTAATAAAATCCGAAAAAATA
1 AAAAAA-A-TATATTTACTGAAAGAAATAAAATACGAAAAAATA
22082373 AAAAA
1 AAAAA
22082378 TACGAACAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
42 6 0.14
43 1 0.02
44 18 0.42
45 8 0.19
46 10 0.23
ACGTcount: A:0.66, C:0.04, G:0.08, T:0.22
Consensus pattern (42 bp):
AAAAAAATATATTTACTGAAAGAAATAAAATACGAAAAAATA
Found at i:22082810 original size:157 final size:158
Alignment explanation
Indices: 22082331--22083503 Score: 1829
Period size: 159 Copynumber: 7.4 Consensus size: 158
22082321 AAGAAATAAA
** *
22082331 AAAATAGTATATTTACTGAAAGTAATAAAATCCGAAAA-AATAAAAAATACGAACAAAGGGCCAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAA-GAAAAATACGAACAAAGGGCCAA
* * * * * *
22082395 AATAAGGGTTTTTCACTAAATTTATATAAAAAATACATTAAAATAATATATTTCAAACATTATGT
65 AATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACTTTATGT
*
22082460 ACTAAAATAATATAAAATAATAAAATATG
130 ACTAAAATAATATAAAATAATAAAATACG
**
22082489 AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAATAGCC--A
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAAGGGCCAAA
22082552 ATAAGGGTTTTTTTACTAAATTTATATAAAAAAAACACACTAAATTAATACATTTCAAACTTTAT
66 ATAAGGG-TTTTTTACTAAATTTATAT--AAAAAACACACTAAATTAATACATTTCAAACTTTAT
*
22082617 GTACTAAAATAATATAAAATAATAAAATACA
128 GTACTAAAATAATATAAAATAATAAAATACG
*
22082648 AAAATAGTATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATACGAACAAAGGGCCAAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAAGGGCCAAA
22082713 ATAAGGGTTTTTTACTAAATTTATAT-AAAAACACACTAAATTAATACATTTCAAACTTTATGTA
66 ATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACTTTATGTA
22082777 CTAAAATAATATAAAATAATAAAATACG
131 CTAAAATAATATAAAATAATAAAATACG
* * *
22082805 AAAATAGTATATTTTTTGAAAGTAATAAAATCCAAAAAGAAAAAGAAAAATACAAACAAAGGGCC
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCC--GAA-AATAAGAAAAATACGAACAAAGGGCC
*
22082870 AAAATAAGGGTTTTTTTTACTAAATTTATATAAAAAAAAACACTAAATTAATACATTTCAAACTT
63 AAAATAAGGG--TTTTTTACTAAATTTATAT-AAAAAACACACTAAATTAATACATTTCAAACTT
* *
22082935 TATGTACTAAAATAATATAAAATAAGAAAATAAG
125 TATGTACTAAAATAATATAAAATAATAAAATACG
*
22082969 AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAATAAAGGGCCAAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAAGGGCCAAA
*
22083034 ATAAGGGTTTTTTACTAAATTTATA-AAAAAACACAATAAATTAATACATTTCAAACTTTATGTA
66 ATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACTTTATGTA
* *
22083098 CTAAAAGAATATAAAATAATAAAATACA
131 CTAAAATAATATAAAATAATAAAATACG
* *
22083126 AAAATAGTATATTTTTTGAAAGTAATAAAATTCGGAAAA-AAGAAAAATACGAACAAATGGCCAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAA-TCCGAAAATAAGAAAAATACGAACAAAGGGCCAA
* * * *
22083190 AATAAAGGGTTTTCTACTAAATTTATATAAAAAATACACTAAAATAATACATTTCAAACATTATG
65 AAT-AAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACTTTATG
22083255 TACTAAAATAATATAAAATAATAAAATACG
129 TACTAAAATAATATAAAATAATAAAATACG
* * *
22083285 AAAATAGTAT-TTTTTTTAAAGTAATAAAATTCGAAAATAAGAAAAATACGAACAAATGGCCAAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAAGGGCCAAA
* *
22083349 ATGAGGATTTTTTACTAAATTTATATAAAAAAAACACACTAAATTAATACATTTCAAACTTTATG
66 ATAAGGGTTTTTTACTAAATTTATAT--AAAAAACACACTAAATTAATACATTTCAAACTTTATG
*
22083414 TAATAAAATAATATAAAATAATAAAATACG
129 TACTAAAATAATATAAAATAATAAAATACG
* *
22083444 AAAACAGTATATTTTTTAAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAAGGG
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAAGGG
22083504 GGTGCCGCCT
Statistics
Matches: 937, Mismatches: 58, Indels: 38
0.91 0.06 0.04
Matches are distributed among these distances:
156 8 0.01
157 259 0.28
158 129 0.14
159 284 0.30
160 99 0.11
161 41 0.04
162 21 0.02
164 96 0.10
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.29
Consensus pattern (158 bp):
AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAAGGGCCAAA
ATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACTTTATGTA
CTAAAATAATATAAAATAATAAAATACG
Found at i:22082978 original size:321 final size:318
Alignment explanation
Indices: 22082324--22083503 Score: 1856
Period size: 321 Copynumber: 3.7 Consensus size: 318
22082314 ATACGAAAAG
* ** *
22082324 AAATAAAAAAATAGTATATTTACTGAAAGTAATAAAATCCGAAAA-AATAAAAAATACGAACAAA
1 AAATAAGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAA-GAAAAATACGAACAAA
* * * * *
22082388 GGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAATACATTAAAATAATATATTTCAAAC
65 GGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAAC
* *
22082453 ATTATGTACTAAAATAATATAAAATAATAAAATATGAAAATAGTATATTTTTTGAAAGTAATAAA
130 TTTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAA
* **
22082518 ATCCGAAAATAAGAAAAATACGAACAAATAGCC--AATAAGGGTTTTTTTACTAAATTTATATAA
195 ATCCGAAAAAAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTTACTAAATTTATATAA
22082581 AAAAAACACACTAAATTAATACATTTCAAACTTTATGTACTAAAATAATATAAAATAATA
260 AAAAAA-ACACTAAATTAATACATTTCAAACTTTATGTACTAAAATAATATAAAATAATA
*
22082641 AAATACA-AAAATAGTATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATACGAACAAA
1 AAATA-AGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAA
22082705 GGGCCAAAATAAGGGTTTTTTACTAAATTTATAT-AAAAACACACTAAATTAATACATTTCAAAC
65 GGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAAC
22082769 TTTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAA
130 TTTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAA
* *
22082834 ATCCAAAAAGAAAAAGAAAAATACAAACAAAGGGCCAAAATAAGGGTTTTTTTTACTAAATTTAT
195 ATCC--GAA-AAAAAGAAAAATACGAACAAAGGGCCAAAATAAGGG-TTTTTTTACTAAATTTAT
*
22082899 ATAAAAAAAAACACTAAATTAATACATTTCAAACTTTATGTACTAAAATAATATAAAATAAGA
256 ATAAAAAAAAACACTAAATTAATACATTTCAAACTTTATGTACTAAAATAATATAAAATAATA
*
22082962 AAATAAGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAATAAAG
1 AAATAAGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAAG
*
22083027 GGCCAAAATAAGGGTTTTTTACTAAATTTATA-AAAAAACACAATAAATTAATACATTTCAAACT
66 GGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACT
* *
22083091 TTATGTACTAAAAGAATATAAAATAATAAAATACAAAAATAGTATATTTTTTGAAAGTAATAAAA
131 TTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAA
* * * *
22083156 TTCGGAAAAAAGAAAAATACGAACAAATGGCCAAAATAAAGGG-TTTTCTACTAAATTTATAT-A
196 TCCGAAAAAAAGAAAAATACGAACAAAGGGCCAAAAT-AAGGGTTTTTTTACTAAATTTATATAA
* * *
22083219 AAAAATACACTAAAATAATACATTTCAAACATTATGTACTAAAATAATATAAAATAATA
260 AAAAAAACACTAAATTAATACATTTCAAACTTTATGTACTAAAATAATATAAAATAATA
* * * *
22083278 AAATACGAAAATAGTAT-TTTTTTTAAAGTAATAAAATTCGAAAATAAGAAAAATACGAACAAAT
1 AAATAAGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAAG
* *
22083342 GGCCAAAATGAGGATTTTTTACTAAATTTATATAAAAAAAACACACTAAATTAATACATTTCAAA
66 GGCCAAAATAAGGGTTTTTTACTAAATTTATAT--AAAAAACACACTAAATTAATACATTTCAAA
* * *
22083407 CTTTATGTAATAAAATAATATAAAATAATAAAATACGAAAACAGTATATTTTTTAAAAGTAATAA
129 CTTTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAA
*
22083472 AATCCGAAAATAAGAAAAATACGAACAAAGGG
194 AATCCGAAAAAAAGAAAAATACGAACAAAGGG
22083504 GGTGCCGCCT
Statistics
Matches: 800, Mismatches: 49, Indels: 27
0.91 0.06 0.03
Matches are distributed among these distances:
315 73 0.09
316 165 0.21
317 106 0.13
318 151 0.19
319 28 0.04
320 1 0.00
321 248 0.31
322 28 0.04
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.29
Consensus pattern (318 bp):
AAATAAGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAAG
GGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACT
TTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAA
TCCGAAAAAAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTTACTAAATTTATATAAA
AAAAAACACTAAATTAATACATTTCAAACTTTATGTACTAAAATAATATAAAATAATA
Found at i:22092079 original size:9 final size:9
Alignment explanation
Indices: 22092065--22092114 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
22092055 TTTGGTTAAA
22092065 AATTACCCG
1 AATTACCCG
22092074 AATTACCCG
1 AATTACCCG
*
22092083 AATTA-ACG
1 AATTACCCG
*
22092091 AAAAATACCCG
1 --AATTACCCG
22092102 AATTACCCG
1 AATTACCCG
22092111 AATT
1 AATT
22092115 TTTTTATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 2 0.06
9 26 0.76
10 4 0.12
11 2 0.06
ACGTcount: A:0.42, C:0.26, G:0.10, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:22095410 original size:25 final size:25
Alignment explanation
Indices: 22095376--22095430 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
22095366 CTTCCTCTCT
22095376 TCTTT-CTTTTATTATTATTT-TTTTC
1 TCTTTCCTTTTATT-TT-TTTCTTTTC
22095401 -CTTTCCTTTTATTTTTTTCTTTTC
1 TCTTTCCTTTTATTTTTTTCTTTTC
22095425 TCTTTC
1 TCTTTC
22095431 TTCTTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 3 0.11
24 11 0.41
25 13 0.48
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (25 bp):
TCTTTCCTTTTATTTTTTTCTTTTC
Found at i:22095412 original size:19 final size:20
Alignment explanation
Indices: 22095390--22095429 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
22095380 TCTTTTATTA
22095390 TTATTTTTTTCCTTTC-CTT
1 TTATTTTTTTCCTTTCTCTT
*
22095409 TTATTTTTTTCTTTTCTCTT
1 TTATTTTTTTCCTTTCTCTT
22095429 T
1 T
22095430 CTTCTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (20 bp):
TTATTTTTTTCCTTTCTCTT
Found at i:22104219 original size:19 final size:18
Alignment explanation
Indices: 22104179--22104219 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
22104169 AATATTACAC
*
22104179 ATTTCAATTTCACATTAA
1 ATTTCAATTTCACACTAA
*
22104197 ATTTCAATTTTCACACTAT
1 ATTTCAA-TTTCACACTAA
22104216 ATTT
1 ATTT
22104220 TGCTTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTCAATTTCACACTAA
Found at i:22106769 original size:20 final size:20
Alignment explanation
Indices: 22106744--22106805 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
22106734 TCAATTAAAA
22106744 TTCAAATATTATTTCACTAT
1 TTCAAATATTATTTCACTAT
*
22106764 TTCAAATCA--CTTT-A--A-
1 TTCAAAT-ATTATTTCACTAT
*
22106779 TTCAAGTATTATTTCACTAT
1 TTCAAATATTATTTCACTAT
22106799 TTCAAAT
1 TTCAAAT
22106806 CACTTTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 14
0.63 0.08 0.29
Matches are distributed among these distances:
14 1 0.03
15 6 0.19
16 4 0.13
17 1 0.03
18 1 0.03
19 4 0.13
20 13 0.42
21 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.02, T:0.47
Consensus pattern (20 bp):
TTCAAATATTATTTCACTAT
Found at i:22106781 original size:35 final size:35
Alignment explanation
Indices: 22106742--22106812 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
22106732 ATTCAATTAA
22106742 AATTCAAATATTATTTCACTATTTCAAATCACTTT
1 AATTCAAATATTATTTCACTATTTCAAATCACTTT
*
22106777 AATTCAAGTATTATTTCACTATTTCAAATCACTTT
1 AATTCAAATATTATTTCACTATTTCAAATCACTTT
22106812 A
1 A
22106813 TTTTCACTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.17, G:0.01, T:0.45
Consensus pattern (35 bp):
AATTCAAATATTATTTCACTATTTCAAATCACTTT
Found at i:22107422 original size:18 final size:18
Alignment explanation
Indices: 22107354--22107422 Score: 56
Period size: 18 Copynumber: 4.0 Consensus size: 18
22107344 TTAGTAGGGT
*
22107354 ATTCAAATT-ATTTTTCTA
1 ATTCAAATTCACTTTTC-A
* *
22107372 TTTCAAATTCAC-TTTCT
1 ATTCAAATTCACTTTTCA
**
22107389 ATTC-AA-TCACAATTCA
1 ATTCAAATTCACTTTTCA
22107405 ATTCAAATTCACTTTTCA
1 ATTCAAATTCACTTTTCA
22107423 CTTTCTAATC
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
15 4 0.10
16 9 0.23
17 5 0.13
18 20 0.51
19 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCAAATTCACTTTTCA
Found at i:22107463 original size:41 final size:40
Alignment explanation
Indices: 22107379--22107456 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 40
22107369 CTATTTCAAA
* * *
22107379 TTCACTTTCTATTCAATCACAATTCAATTCAAATTCACTT
1 TTCACTTTCTAATCAATCACAATTCAATACAAATACACTT
*
22107419 TTCACTTTCTAATCAATACACAATTCAATACCAATACA
1 TTCACTTTCTAATCAAT-CACAATTCAATACAAATACA
22107457 TATTTCAGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
40 16 0.48
41 17 0.52
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (40 bp):
TTCACTTTCTAATCAATCACAATTCAATACAAATACACTT
Found at i:22108546 original size:3 final size:3
Alignment explanation
Indices: 22108538--22108566 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22108528 TATATTAGTT
22108538 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
22108567 TAATATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:22110432 original size:91 final size:91
Alignment explanation
Indices: 22110287--22110471 Score: 343
Period size: 91 Copynumber: 2.0 Consensus size: 91
22110277 AATTGGCCAA
* *
22110287 AATCAAGCCATTTATTTCACCCATTCAAGCATGAACCTACAAGAAACTTGCACATATAACCAAGA
1 AATCAAGCCATTTATTTCACCAATTCAAGCATGAACCTACAAGAAACTTACACATATAACCAAGA
22110352 CCTTAAAATATTCCCAAATTATGTAT
66 CCTTAAAATATTCCCAAATTATGTAT
*
22110378 AATCAAGCCATTTCTTTCACCAATTCAAGCATGAACCTACAAGAAACTTACACATATAACCAAGA
1 AATCAAGCCATTTATTTCACCAATTCAAGCATGAACCTACAAGAAACTTACACATATAACCAAGA
22110443 CCTTAAAATATTCCCAAATTATGTAT
66 CCTTAAAATATTCCCAAATTATGTAT
22110469 AAT
1 AAT
22110472 AAGACCAATT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.28
Consensus pattern (91 bp):
AATCAAGCCATTTATTTCACCAATTCAAGCATGAACCTACAAGAAACTTACACATATAACCAAGA
CCTTAAAATATTCCCAAATTATGTAT
Found at i:22113605 original size:62 final size:63
Alignment explanation
Indices: 22113490--22113631 Score: 187
Period size: 62 Copynumber: 2.3 Consensus size: 63
22113480 TGTGGCAAGT
* * * *
22113490 CGTGTAACTCACTGTTTTTGAATTGAGGGCATATGAGCTAGGGACACGAGTGTGTGTCCAGGC
1 CGTGTAACTCATTGTTTGTGAATTGAGGCCACATGAGCTAGGGACACGAGTGTGTGTCCAGGC
** * * *
22113553 CGTGTAACTCATTGTTTGT-AATTTTGGCCACATGGGCTAGGGACACGGGTGTGTGTCTAGGC
1 CGTGTAACTCATTGTTTGTGAATTGAGGCCACATGAGCTAGGGACACGAGTGTGTGTCCAGGC
*
22113615 CGTGTAACCCATTGTTT
1 CGTGTAACTCATTGTTT
22113632 TGGATTTAGG
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
62 52 0.75
63 17 0.25
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (63 bp):
CGTGTAACTCATTGTTTGTGAATTGAGGCCACATGAGCTAGGGACACGAGTGTGTGTCCAGGC
Found at i:22125393 original size:22 final size:22
Alignment explanation
Indices: 22125365--22125409 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
22125355 GGACTGAGCA
* *
22125365 ATTAGGCTAAAGAATTCCAAAG
1 ATTAGGCCAAAGAAATCCAAAG
*
22125387 ATTAGGCCGAAGAAATCCAAAG
1 ATTAGGCCAAAGAAATCCAAAG
22125409 A
1 A
22125410 GAATCACGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.18
Consensus pattern (22 bp):
ATTAGGCCAAAGAAATCCAAAG
Found at i:22127914 original size:16 final size:15
Alignment explanation
Indices: 22127887--22127935 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
22127877 AAATTAAATT
22127887 AATTAACTAAATGCA
1 AATTAACTAAATGCA
*
22127902 AGTTAACCTAAATGCA
1 AATTAA-CTAAATGCA
*
22127918 AATTAAATGAAATGCA
1 AATTAACT-AAATGCA
22127934 AA
1 AA
22127936 GTGATGGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 6 0.21
16 23 0.79
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.24
Consensus pattern (15 bp):
AATTAACTAAATGCA
Found at i:22133627 original size:50 final size:49
Alignment explanation
Indices: 22133503--22133685 Score: 174
Period size: 50 Copynumber: 3.7 Consensus size: 49
22133493 GATAATAACA
* * *
22133503 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTT-T--TTTGTAC
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGAGA-GTTCTCATTTG--G
*
22133552 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATTGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGAGAGTTCTCAT-TTGG
* *** * ** *
22133602 TGCCCATGCCATATCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGAGAGTTCTCAT-TTGG
* *
22133652 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATG
22133686 GGATCTCTTT
Statistics
Matches: 110, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
48 3 0.03
49 35 0.32
50 68 0.62
51 1 0.01
52 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGAGAGTTCTCATTTGG
Found at i:22134507 original size:17 final size:17
Alignment explanation
Indices: 22134485--22134518 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22134475 TGGATTCCTT
22134485 CAAATTTTGGCAGCAAG
1 CAAATTTTGGCAGCAAG
22134502 CAAATTTTGGCAGCAAG
1 CAAATTTTGGCAGCAAG
22134519 TAAAGATGAT
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:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (17 bp):
CAAATTTTGGCAGCAAG
Found at i:22141153 original size:50 final size:50
Alignment explanation
Indices: 22141086--22141283 Score: 225
Period size: 50 Copynumber: 3.8 Consensus size: 50
22141076 TTTTTTGTAC
** **
22141086 TGCCAATGCCATATCCCAGGTATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
* ** *
22141136 TGCCTATGCCATATCCCAGACATGGTCTTACGGGAGACCTCTCATCTCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
* * *
22141186 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGA
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATA---TC---GG
* *
22141242 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCTCT
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGAGACCTCT
22141284 TTACCCAAAT
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
50 82 0.66
53 2 0.02
56 41 0.33
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
Found at i:22143639 original size:138 final size:138
Alignment explanation
Indices: 22143480--22143760 Score: 411
Period size: 138 Copynumber: 2.0 Consensus size: 138
22143470 GAGAACATAT
* * *
22143480 ATATAATTAATATATGAATTTGATTCATATAATATATTAATTGTATATATTTTACCAAATTTAGT
1 ATATAATTAACATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTAGT
* * * * *
22143545 AATATAAATAATTATATTAATTAGTTTCGATC-CAAATATAAAAGACATGAAAATTAACATTCTT
66 AATATAAACAATTATATTAATTAATTTCG-GCGAAAATATAAAAGACATGAAAATTAACATTATT
*
22143609 TTGGAAAGA
130 TTGAAAAGA
* *
22143618 ATATAATTAACATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAAATTTATT
1 ATATAATTAACATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTAGT
* * * *
22143683 AATATAAACAATTATATTAATTAATTTTGGCGAAAATATAAAAGATATGGAAATTAATATTATTT
66 AATATAAACAATTATATTAATTAATTTCGGCGAAAATATAAAAGACATGAAAATTAACATTATTT
22143748 TGAAAAGA
131 TGAAAAGA
22143756 ATATA
1 ATATA
22143761 CTTCCTGTTT
Statistics
Matches: 127, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
137 1 0.01
138 126 0.99
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (138 bp):
ATATAATTAACATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTAGT
AATATAAACAATTATATTAATTAATTTCGGCGAAAATATAAAAGACATGAAAATTAACATTATTT
TGAAAAGA
Found at i:22143863 original size:75 final size:75
Alignment explanation
Indices: 22143778--22143948 Score: 236
Period size: 75 Copynumber: 2.3 Consensus size: 75
22143768 TTTTTAACTT
* * * *
22143778 TCTATTAATAAGGGAATAATCCTATATTCTTTTGGAAAAAAATATAATTCTTTTTTCTAACTTTC
1 TCTATTAATAAGGGAATAATCCTACATTATTTTCG-AAAAAATATAATTCATTTTTCTAACTTTC
*
22143843 CA-TTGCATTC
65 CATTTGCATGC
* *
22143853 TCTATTAATAAGGGAATAATCCTACATTATTTTCGAAAGAATATAATTCATTTTTCTAACTTTTC
1 TCTATTAATAAGGGAATAATCCTACATTATTTTCGAAAAAATATAATTCATTTTTCTAACTTTCC
*
22143918 ATTTGCCTGC
66 ATTTGCATGC
* *
22143928 TCTATTAATAAGAGTATAATC
1 TCTATTAATAAGGGAATAATC
22143949 TTGATTTTCC
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
74 28 0.33
75 57 0.67
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.43
Consensus pattern (75 bp):
TCTATTAATAAGGGAATAATCCTACATTATTTTCGAAAAAATATAATTCATTTTTCTAACTTTCC
ATTTGCATGC
Found at i:22146434 original size:20 final size:20
Alignment explanation
Indices: 22146399--22146447 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
22146389 GTCATGGTCT
*
22146399 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
22146418 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
22146438 TTGCTTACTT
1 TTGCTTACTT
22146448 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:22146792 original size:50 final size:50
Alignment explanation
Indices: 22146702--22146844 Score: 160
Period size: 50 Copynumber: 2.9 Consensus size: 50
22146692 CCTGTACTGT
* * * ** *
22146702 CAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGC
1 CAATGCCATATCCCAGACATGGTCTTACGTGGGACCTCTCATATAGGTGC
* * * *
22146752 CCATGCCATATCCAAGACATGGTCTTACGGGGGACCTCTCATCTAGGTGC
1 CAATGCCATATCCCAGACATGGTCTTACGTGGGACCTCTCATATAGGTGC
* * * *
22146802 CAACGCCATGTCCCAGACATGGTCTTATGTGGGACCTTTCATA
1 CAATGCCATATCCCAGACATGGTCTTACGTGGGACCTCTCATA
22146845 ACCTCAATAA
Statistics
Matches: 75, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (50 bp):
CAATGCCATATCCCAGACATGGTCTTACGTGGGACCTCTCATATAGGTGC
Found at i:22152716 original size:22 final size:22
Alignment explanation
Indices: 22152691--22152735 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22152681 GCCTCCTAGG
22152691 ATTTCACCTCAAGAAAGTTACT
1 ATTTCACCTCAAGAAAGTTACT
22152713 ATTTCACCTCAAGAAAGTTACT
1 ATTTCACCTCAAGAAAGTTACT
22152735 A
1 A
22152736 AGACAATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (22 bp):
ATTTCACCTCAAGAAAGTTACT
Found at i:22153291 original size:17 final size:16
Alignment explanation
Indices: 22153255--22153293 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22153245 TTATTGTGCA
*
22153255 TAAAATAAAATATTCC
1 TAAAATAAAAAATTCC
*
22153271 TAAAATAAAAAATGTCT
1 TAAAATAAAAAAT-TCC
22153288 TAAAAT
1 TAAAAT
22153294 TAATACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (16 bp):
TAAAATAAAAAATTCC
Found at i:22155945 original size:20 final size:21
Alignment explanation
Indices: 22155905--22155961 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
22155895 TAAACATAAC
22155905 CATTTTAGTTACAGTTTTAGTTA
1 CATTTTAGTTA-AG-TTTAGTTA
22155928 CATTTTAG-TAAGTTTAGTTA
1 CATTTTAGTTAAGTTTAGTTA
*
22155948 -AGTTTAGTTAAGTT
1 CATTTTAGTTAAGTT
22155962 ACAGATGTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 6 0.19
20 14 0.44
21 2 0.06
22 2 0.06
23 8 0.25
ACGTcount: A:0.28, C:0.05, G:0.16, T:0.51
Consensus pattern (21 bp):
CATTTTAGTTAAGTTTAGTTA
Found at i:22155951 original size:10 final size:10
Alignment explanation
Indices: 22155908--22155961 Score: 65
Period size: 10 Copynumber: 5.2 Consensus size: 10
22155898 ACATAACCAT
22155908 TTTAGTTACAG
1 TTTAGTTA-AG
*
22155919 TTTTAGTTACAT
1 -TTTAGTTA-AG
22155931 TTTAG-TAAG
1 TTTAGTTAAG
22155940 TTTAGTTAAG
1 TTTAGTTAAG
22155950 TTTAGTTAAG
1 TTTAGTTAAG
22155960 TT
1 TT
22155962 ACAGATGTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
9 6 0.15
10 18 0.46
11 5 0.13
12 10 0.26
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.52
Consensus pattern (10 bp):
TTTAGTTAAG
Found at i:22163801 original size:50 final size:50
Alignment explanation
Indices: 22163733--22164086 Score: 386
Period size: 50 Copynumber: 6.8 Consensus size: 50
22163723 TTTCTTGTAC
* * * * ** * *
22163733 TGCCAATGCCATATCCCAGATATGGCCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
** *
22163783 TGTCC-ATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TG-CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
22163833 TGCCAACGCCGTGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
22163883 TGCCAACGCCGTGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
22163933 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GG
* * *
22163989 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGAAGCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-C-CTC-TCATCTC---GG
** *
22164045 TGCCAATGCCATGTCCCAGACATATTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
22164087 TTACCCAAAT
Statistics
Matches: 269, Mismatches: 24, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
49 2 0.01
50 170 0.63
51 2 0.01
53 6 0.02
54 3 0.01
56 81 0.30
57 1 0.00
58 3 0.01
59 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:22163993 original size:56 final size:56
Alignment explanation
Indices: 22163933--22164086 Score: 254
Period size: 56 Copynumber: 2.8 Consensus size: 56
22163923 CTCATCTCGG
*
22163933 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
* *
22163989 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGAAGCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
** *
22164045 TGCCAATGCCATGTCCCAGACATATTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
22164087 TTACCCAAAT
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 91 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (56 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
Found at i:22164031 original size:106 final size:108
Alignment explanation
Indices: 22163883--22164086 Score: 286
Period size: 112 Copynumber: 1.9 Consensus size: 108
22163873 CTCATCTCGG
* * *
22163883 TGCCAACGCCGTGTCCCAGACATGGTCTTACATGGGACCTCTC-ATCTC-GGTGCCAATGCCATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGAACCTCTCAATCTCAGATGCCAATGCCATG
*
22163946 TCCCAGACATGGTCTTACATGGGACCTCTCGTAATCTCAATGA
66 TCCCAGACATAGTCTTACATGGGACCTCTCGTAATCTCAATGA
* *
22163989 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGAAGCTCTCATAATCTCAATGATGCCAATGC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGAACCTCTC--AATCTC-A-GATGCCAATGC
* *
22164054 CATGTCCCAGACATATTCTTACATGGGATCTCT
62 CATGTCCCAGACATAGTCTTACATGGGACCTCT
22164087 TTACCCAAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
106 39 0.46
109 5 0.06
112 40 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (108 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGAACCTCTCAATCTCAGATGCCAATGCCATG
TCCCAGACATAGTCTTACATGGGACCTCTCGTAATCTCAATGA
Found at i:22174094 original size:18 final size:19
Alignment explanation
Indices: 22174073--22174117 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
22174063 GTAAAAGAAA
*
22174073 AAGTTGTTGC-AGAAGAGG
1 AAGTTGTTACAAGAAGAGG
22174091 AAGTTGTTACTAAAGAAGAGG
1 AAGTTGTTAC--AAGAAGAGG
22174112 AAGTTG
1 AAGTTG
22174118 CTAAAAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 9 0.39
21 14 0.61
ACGTcount: A:0.38, C:0.04, G:0.33, T:0.24
Consensus pattern (19 bp):
AAGTTGTTACAAGAAGAGG
Found at i:22174121 original size:18 final size:19
Alignment explanation
Indices: 22174083--22174122 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
22174073 AAGTTGTTGC
22174083 AGAAGAGGAAGTTGTTACTAA
1 AGAAGAGGAAGTTG-T-CTAA
22174104 AGAAGAGGAAGTTG-CTAA
1 AGAAGAGGAAGTTGTCTAA
22174122 A
1 A
22174123 AATGAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
21 14 0.74
ACGTcount: A:0.45, C:0.05, G:0.30, T:0.20
Consensus pattern (19 bp):
AGAAGAGGAAGTTGTCTAA
Found at i:22174585 original size:17 final size:17
Alignment explanation
Indices: 22174552--22174585 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22174542 GATAAGTATA
*
22174552 CATTGTCATTGCATTTT
1 CATTGTCATTACATTTT
*
22174569 CATTGTCATTACCTTTT
1 CATTGTCATTACATTTT
22174586 AGTGTTAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.21, G:0.09, T:0.53
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:22186366 original size:42 final size:42
Alignment explanation
Indices: 22186268--22186366 Score: 135
Period size: 42 Copynumber: 2.4 Consensus size: 42
22186258 TGAAATGGGC
* * *
22186268 CTACTCACACAAGATGTGGGTCAGAATGTAAGCTGCACGATA
1 CTACTCACACGAGCTGTGGGTCAGAATGTAAGCTACACGATA
* * *
22186310 CTGCTAACACGAGCTGTTGGTCAGAATGTAAGCTACACGATA
1 CTACTCACACGAGCTGTGGGTCAGAATGTAAGCTACACGATA
*
22186352 CTACTCACATGAGCT
1 CTACTCACACGAGCT
22186367 ATGGAGTATC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (42 bp):
CTACTCACACGAGCTGTGGGTCAGAATGTAAGCTACACGATA
Found at i:22189011 original size:2 final size:2
Alignment explanation
Indices: 22189006--22189034 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22188996 ATATCTCATC
22189006 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22189035 CATTACTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22190474 original size:19 final size:19
Alignment explanation
Indices: 22190450--22190486 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
22190440 CTAGTTATAG
22190450 GCTGAAAGTTATTAATTAA
1 GCTGAAAGTTATTAATTAA
22190469 GCTGAAAGTTATTAATTA
1 GCTGAAAGTTATTAATTA
22190487 GGTTAATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (19 bp):
GCTGAAAGTTATTAATTAA
Found at i:22197779 original size:20 final size:20
Alignment explanation
Indices: 22197737--22197793 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
22197727 ATACCCTGAA
* *
22197737 TGAAGTATCGATACTTTGGC
1 TGAAGTATCGATACATTGAC
*
22197757 TGAAGTATCGATGCATTGAC
1 TGAAGTATCGATACATTGAC
* *
22197777 TGAAGCATCAATACATT
1 TGAAGTATCGATACATT
22197794 TCTCAAGGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (20 bp):
TGAAGTATCGATACATTGAC
Found at i:22200656 original size:20 final size:20
Alignment explanation
Indices: 22200633--22200672 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
22200623 CTATCACTTT
22200633 TAATACTTTTAATTTTTAAA
1 TAATACTTTTAATTTTTAAA
** *
22200653 TAATTTTTTTATTTTTTAAA
1 TAATACTTTTAATTTTTAAA
22200673 AATTTAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATACTTTTAATTTTTAAA
Found at i:22200666 original size:19 final size:19
Alignment explanation
Indices: 22200639--22200677 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22200629 CTTTTAATAC
22200639 TTTTAA-TTTTTAAATAATT
1 TTTTAATTTTTTAAA-AATT
*
22200658 TTTTTATTTTTTAAAAATT
1 TTTTAATTTTTTAAAAATT
22200677 T
1 T
22200678 AAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTAATTTTTTAAAAATT
Found at i:22201256 original size:2 final size:2
Alignment explanation
Indices: 22201251--22201288 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
22201241 AAATCTGTTA
**
22201251 AT AT AT AT CC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22201289 GCTATTCGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22203443 original size:88 final size:90
Alignment explanation
Indices: 22203295--22203503 Score: 253
Period size: 88 Copynumber: 2.4 Consensus size: 90
22203285 CCCTCAAATT
** *
22203295 TTTTCAAAAAAAGTAATTAAACTGCT-CCTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAA
1 TTTTCAAAAAAAGTAATTAAACCCCTACTTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAA
* *
22203359 ATGCATCAAAAAGGCCAT-AAAC-C
66 ATACATCAAAAAGACCATCAAACTC
* * * * * *
22203382 TTTTCAAAAAACGCAATTAAACCCCTACTTTTTTTTGCATTCAATTGGGTACTTGAACTTTCAAA
1 TTTTCAAAAAAAGTAATTAAACCCCTACTTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAA
* * *
22203447 ATATATCAAAAAGACCCTCAAACTT
66 ATACATCAAAAAGACCATCAAACTC
* *
22203472 TTTTCAAAAAAAATAATTAAGCCCCTACTTTT
1 TTTTCAAAAAAAGTAATTAAACCCCTACTTTT
22203504 ATTAAAAATT
Statistics
Matches: 101, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
87 22 0.22
88 47 0.47
89 4 0.04
90 28 0.28
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (90 bp):
TTTTCAAAAAAAGTAATTAAACCCCTACTTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAA
ATACATCAAAAAGACCATCAAACTC
Found at i:22203604 original size:46 final size:45
Alignment explanation
Indices: 22203519--22203614 Score: 106
Period size: 46 Copynumber: 2.1 Consensus size: 45
22203509 AAATTAGAAA
* **
22203519 AAAAATATAAAAATATTAAAAAATATAAAAATTTGTAAAATTTTAT
1 AAAAATATAAAAATATTAAAAAATATAAAAA-TTATAAAAAATTAT
*
22203565 AAAAATCAT-AAAATATTATAAAATATATAGAAA-TATAAAAAATTAT
1 AAAAAT-ATAAAAATATTA-AAAA-ATATAAAAATTATAAAAAATTAT
22203611 AAAA
1 AAAA
22203615 TTTATAGTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
46 29 0.67
47 6 0.14
48 8 0.19
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (45 bp):
AAAAATATAAAAATATTAAAAAATATAAAAATTATAAAAAATTAT
Found at i:22203619 original size:9 final size:9
Alignment explanation
Indices: 22203528--22203620 Score: 64
Period size: 10 Copynumber: 10.1 Consensus size: 9
22203518 AAAAAATATA
*
22203528 AAAATATTAA
1 AAAAT-TTAT
*
22203538 AAAATATA-
1 AAAATTTAT
*
22203546 AAAATTTGT
1 AAAATTTAT
22203555 AAAATTTTAT
1 AAAA-TTTAT
* *
22203565 AAAAATCAT
1 AAAATTTAT
22203574 AAAATATTAT
1 AAAAT-TTAT
*
22203584 AAAATATAT
1 AAAATTTAT
*
22203593 AGAAATATA-
1 A-AAATTTAT
*
22203602 AAAAATTAT
1 AAAATTTAT
22203611 AAAATTTAT
1 AAAATTTAT
22203620 A
1 A
22203621 GTCATTAGAA
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
8 11 0.17
9 27 0.41
10 28 0.42
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (9 bp):
AAAATTTAT
Found at i:22204074 original size:68 final size:68
Alignment explanation
Indices: 22203995--22204204 Score: 370
Period size: 68 Copynumber: 3.1 Consensus size: 68
22203985 TCAAGTTTGT
* * *
22203995 TTTACTAATCAAATATTAGATTTTGTTACAACAATTAATACAATTAATATAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
22204060 AAA
66 AAA
22204063 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
22204128 AAA
66 AAA
22204131 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
22204194 AAT
66 AAA
22204197 TTTACTAA
1 TTTACTAA
22204205 CAATTAATTT
Statistics
Matches: 138, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
66 27 0.20
67 1 0.01
68 110 0.80
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:22204105 original size:9 final size:9
Alignment explanation
Indices: 22204093--22204120 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
22204083 TTTTATTACA
22204093 ACAATTAAT
1 ACAATTAAT
22204102 ACAATTAAT
1 ACAATTAAT
22204111 ACAATTAAT
1 ACAATTAAT
22204120 A
1 A
22204121 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:22204214 original size:16 final size:16
Alignment explanation
Indices: 22204193--22204234 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
22204183 AATAATTTGA
*
22204193 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
22204209 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
22204225 TAGTTTTAAT
1 TAATTTTAAT
22204235 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:22204218 original size:22 final size:22
Alignment explanation
Indices: 22204208--22204268 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
22204198 TTACTAACAA
* * *
22204208 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
22204230 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
*
22204252 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
22204269 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:22204617 original size:19 final size:20
Alignment explanation
Indices: 22204564--22204618 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
22204554 AATAAATTTT
*
22204564 AAATTT-TTATATTTTCATTA
1 AAATTTATTATTTTTTCA-TA
* *
22204584 AAATTTAATAATTTTTC-TA
1 AAATTTATTATTTTTTCATA
22204603 AAATTTATTATTTTTT
1 AAATTTATTATTTTTT
22204619 ATTTTTATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 16 0.55
20 6 0.21
21 7 0.24
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
AAATTTATTATTTTTTCATA
Found at i:22204651 original size:46 final size:45
Alignment explanation
Indices: 22204520--22204651 Score: 133
Period size: 45 Copynumber: 2.9 Consensus size: 45
22204510 ATAAAATTTT
* *
22204520 TTTTTAATGATTTTTATAAAAAATTCTAATTTTCAATAAATTTTAAA
1 TTTTT-AT-ATTTTTATAAAAAATTCTAATTTTTAATAAAATTTAAA
* * * * * *
22204567 TTTTTATATTTTCATTAAAATTTAATAATTTTT-CTAAAATTTATTA
1 TTTTTATATTTTTATAAAAAATT-CTAATTTTTAATAAAATTTA-AA
22204613 TTTTT-TATTTTTATAAAAAAATTCTAATTTTTAATAAAA
1 TTTTTATATTTTTAT-AAAAAATTCTAATTTTTAATAAAA
22204652 GTAGGGGCTT
Statistics
Matches: 68, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
45 37 0.54
46 26 0.38
47 5 0.07
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.55
Consensus pattern (45 bp):
TTTTTATATTTTTATAAAAAATTCTAATTTTTAATAAAATTTAAA
Found at i:22208845 original size:3 final size:3
Alignment explanation
Indices: 22208839--22208875 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
22208829 CAACAACAAC
*
22208839 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
22208876 CTATCAACTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:22210335 original size:187 final size:184
Alignment explanation
Indices: 22209962--22210507 Score: 887
Period size: 183 Copynumber: 2.9 Consensus size: 184
22209952 AAAAAGGCGG
** *
22209962 AACCAAATTAGTGAAAAAAATTAAGTAACAATAGAATATTTAAGTAGAGCAAATCTGCAATTAGA
1 AACCAAATTAGTGAAAAAAA-CGAGT-A-AATAGAATATTTAAGTAGAGCAAATCTGCAATGAGA
*
22210027 ACAGAGATCTTCAACATCAACTAAACAGCTTAATGCATTTTCTCTTCACATTGATCTACTCTTTC
63 ACAGAGATCTTCAACATCAACTAAACAGCTTAATGCA-TTTCTCTTCACATTGATCTACTCTTAC
22210092 CTAAAATCAAACATGAAATTCTCACTCTTTCTCAGGAAACAAACAAACAATAAACACT
127 CTAAAATCAAACATGAAATTCTCACTCTTTCTCAGGAAACAAACAAACAATAAACACT
* * *
22210150 AACCAAATTAGTGAAAAGAAACGAGTAAGACTAGAAGATTTAAGTAGAGCACATCTGCAACGAGA
1 AACCAAATTAGTGAAAA-AAACGAGTAA-A-TAGAATATTTAAGTAGAGCAAATCTGCAATGAGA
* *
22210215 ACAGAGATCTTCAACATCAACTAAACAGCTTAACGCATTTCTCTTCACATTGATCTACTATTACC
63 ACAGAGATCTTCAACATCAACTAAACAGCTTAATGCATTTCTCTTCACATTGATCTACTCTTACC
* *
22210280 TAAAATCAAACATGAAATTCCCACTCTTTCTCAGGAAACAAACAAACACTAAACACT
128 TAAAATCAAACATGAAATTCTCACTCTTTCTCAGGAAACAAACAAACAATAAACACT
* *
22210337 AACCAAAGTAGTGAAAAAAACGAGT-AATAGATTATTTAAGTAGAGCAAATCTGCAATGAGAACA
1 AACCAAATTAGTGAAAAAAACGAGTAAATAGAATATTTAAGTAGAGCAAATCTGCAATGAGAACA
*
22210401 GAGATCTTCAACATCAACTAAGCAGCTTAATGCATTTCTCTTCACATTGATCTACTCTTACCTAA
66 GAGATCTTCAACATCAACTAAACAGCTTAATGCATTTCTCTTCACATTGATCTACTCTTACCTAA
*
22210466 AATCAAACATGAAATTCTCACTCTTTCTCAGGAAACAGACAA
131 AATCAAACATGAAATTCTCACTCTTTCTCAGGAAACAAACAA
22210508 GCAACAATTT
Statistics
Matches: 334, Mismatches: 21, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
183 135 0.40
184 1 0.00
185 1 0.00
186 9 0.03
187 99 0.30
188 86 0.26
189 3 0.01
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (184 bp):
AACCAAATTAGTGAAAAAAACGAGTAAATAGAATATTTAAGTAGAGCAAATCTGCAATGAGAACA
GAGATCTTCAACATCAACTAAACAGCTTAATGCATTTCTCTTCACATTGATCTACTCTTACCTAA
AATCAAACATGAAATTCTCACTCTTTCTCAGGAAACAAACAAACAATAAACACT
Found at i:22213499 original size:3 final size:3
Alignment explanation
Indices: 22213493--22213559 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
22213483 TTTTTTTAGT
22213493 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22213541 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
22213560 ACTTACATAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:22218662 original size:16 final size:16
Alignment explanation
Indices: 22218640--22218671 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
22218630 TTGATTCCAA
22218640 AAAAAAACATAAAAAAC
1 AAAAAAA-ATAAAAAAC
22218657 AAAAAAAATAAAAAA
1 AAAAAAAATAAAAAA
22218672 AAGAAGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.88, C:0.06, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAAAAATAAAAAAC
Found at i:22218672 original size:9 final size:9
Alignment explanation
Indices: 22218639--22218673 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
22218629 TTTGATTCCA
22218639 AAAAAAAAC
1 AAAAAAAAC
*
22218648 ATAAAAAAC
1 AAAAAAAAC
*
22218657 AAAAAAAAT
1 AAAAAAAAC
22218666 AAAAAAAA
1 AAAAAAAA
22218674 GAAGAAGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.89, C:0.06, G:0.00, T:0.06
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:22220195 original size:132 final size:132
Alignment explanation
Indices: 22220010--22220256 Score: 397
Period size: 132 Copynumber: 1.9 Consensus size: 132
22220000 TCCCCTTGAC
* * *
22220010 CAGTAGTGGGGCAGATCAAAGATGGCAGATTTTACCTCCCTATGGTTATAGTGGAGTACATTGAA
1 CAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCCATGGTTACAGTGGAGTACATTGAA
* *
22220075 GCCAGTAATTCTA-CTTCCCTGGGCATCAGCGGAATAGATTGAAGATTTCAAATCTTTCCTCCCT
66 GCCAGTAATTCTATC-TCCCTGGGCAGCAGCGGAATAGATTGAAGACTTCAAATCTTTCCTCCCT
22220139 AAG
130 AAG
* *
22220142 CAGTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCCGTGGTTACAGTGGAGTACATTGAA
1 CAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCCATGGTTACAGTGGAGTACATTGAA
* *
22220207 GCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGTAGACTTCA
66 GCCAGTAATTCTATCTCCCTGGGCAGCAGCGGAATAGATTGAAGACTTCA
22220257 GATTTTGTCT
Statistics
Matches: 105, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
132 104 0.99
133 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (132 bp):
CAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCCATGGTTACAGTGGAGTACATTGAA
GCCAGTAATTCTATCTCCCTGGGCAGCAGCGGAATAGATTGAAGACTTCAAATCTTTCCTCCCTA
AG
Found at i:22220310 original size:44 final size:44
Alignment explanation
Indices: 22220256--22220445 Score: 182
Period size: 44 Copynumber: 4.3 Consensus size: 44
22220246 TGTAGACTTC
* *
22220256 AGATTTTGTCTTCATGTACTGGCGTGAAGTAGATTAAAGATAGT
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGT
*** * * * * *
22220300 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAGAGC
1 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAGT
* * * ** * *
22220345 AAATCTTATCTTCATGTATTGGCGTGAAGTAGATTGAAGAAAAT
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGT
* *
22220389 GGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGT
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGT
* *
22220433 AGGTCCTGTCTTC
1 AGATCTTGTCTTC
22220446 CTATATTGGT
Statistics
Matches: 111, Mismatches: 34, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
44 79 0.71
45 32 0.29
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (44 bp):
AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGT
Found at i:22220409 original size:89 final size:88
Alignment explanation
Indices: 22220264--22220428 Score: 213
Period size: 89 Copynumber: 1.9 Consensus size: 88
22220254 TCAGATTTTG
* * * * *
22220264 TCTTCATGTACTGGCGTGAAGTAGATTAAAGATAGTAGATCTTGTCTTCCCATACTGGTGGCGAA
1 TCTTCATGTACTGGCGTGAAGTAGATTAAAGAAAATAGATCGTGTCTTCACATACTGG-CGCGAA
*
22220329 GTAGATCGAAGAGAGCAAATCTTA
65 GTAGATCAAAGAGAGCAAATCTTA
* * * ** *
22220353 TCTTCATGTATTGGCGTGAAGTAGATTGAAGAAAATGGATCGTGTCTTCATGTACTGGCGTGAAG
1 TCTTCATGTACTGGCGTGAAGTAGATTAAAGAAAATAGATCGTGTCTTCACATACTGGCGCGAAG
22220418 TAGATCAAAGA
66 TAGATCAAAGA
22220429 TAGTAGGTCC
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
88 15 0.23
89 49 0.77
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (88 bp):
TCTTCATGTACTGGCGTGAAGTAGATTAAAGAAAATAGATCGTGTCTTCACATACTGGCGCGAAG
TAGATCAAAGAGAGCAAATCTTA
Found at i:22220507 original size:133 final size:133
Alignment explanation
Indices: 22220262--22220517 Score: 334
Period size: 133 Copynumber: 1.9 Consensus size: 133
22220252 CTTCAGATTT
* * *
22220262 TGTCTTCATGTACTGGCGTGAAGTAGATTAAAGATAGTAGATCTTGTCTTCCCATACTGGTGGCG
1 TGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGTAGATCCTGTCTTCCCATACTGGTAGCG
** ** * *
22220327 AAGTAGATCGAAGAGAGCAAATCTTATCTTCATGTATTGGCGTGAAGTAGATTGAAGAAAATGGA
66 AAGTAGATCGAAGAGAGCAAATCTTATCTTCACATACCGGCGCGAAGTAGATTCAAGAAAATGGA
22220392 TCG
131 TCG
* * *
22220395 TGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATTGGTAGCG
1 TGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGTAGATCCTGTCTTCCCATACTGGTAGCG
* * * * * *
22220460 AAGTGGATCGAATATA-CATATTTTATCTTCCCATACCGGCGGCGAAGTAGATTCAAGA
66 AAGTAGATCGAAGAGAGCAAATCTTATCTTCACATACCGGC-GCGAAGTAGATTCAAGA
22220518 TTACAGATCT
Statistics
Matches: 104, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
132 17 0.16
133 87 0.84
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (133 bp):
TGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGTAGATCCTGTCTTCCCATACTGGTAGCG
AAGTAGATCGAAGAGAGCAAATCTTATCTTCACATACCGGCGCGAAGTAGATTCAAGAAAATGGA
TCG
Found at i:22222202 original size:3 final size:3
Alignment explanation
Indices: 22222196--22222268 Score: 121
Period size: 3 Copynumber: 24.3 Consensus size: 3
22222186 TTTTAATTTT
*
22222196 TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22222244 TTA TTA TTA TTA -TA CTTA TTA TTA T
1 TTA TTA TTA TTA TTA -TTA TTA TTA T
22222269 ACTTACATAT
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
2 2 0.03
3 62 0.94
4 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:22225016 original size:17 final size:17
Alignment explanation
Indices: 22224994--22225035 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
22224984 TGTTTATTAA
*
22224994 TATAATAATTTTTATTT
1 TATAATAATTTTTAATT
*
22225011 TATAAT-TTTTTTAATT
1 TATAATAATTTTTAATT
22225027 TATAA-AATT
1 TATAATAATT
22225036 CCAATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATAATAATTTTTAATT
Done.