Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 90 of 318
Found at i:30228598 original size:36 final size:35
Alignment explanation
Indices: 30228544--30228649 Score: 135
Period size: 36 Copynumber: 3.0 Consensus size: 35
30228534 TTATAATATA
*
30228544 TATTTTTA-AAATTTTTAAATATATATTTTTGGAAT
1 TATTTTTATAAA-TTTTAAATATATATTTTTGAAAT
*
30228579 TATTTCTTATAAATTTTAAAAATATATTTTTGAAAT
1 TATTT-TTATAAATTTTAAATATATATTTTTGAAAT
* *
30228615 TAATTTTTCTAAATTTTAAATAT-TATTTTTTAAAT
1 T-ATTTTTATAAATTTTAAATATATATTTTTGAAAT
30228650 ATTAAATATT
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
35 16 0.25
36 40 0.63
37 7 0.11
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.57
Consensus pattern (35 bp):
TATTTTTATAAATTTTAAATATATATTTTTGAAAT
Found at i:30228643 original size:21 final size:20
Alignment explanation
Indices: 30228618--30228663 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
30228608 TTGAAATTAA
*
30228618 TTTTTCTAAATTTTAAATAT
1 TTTTTCTAAATATTAAATAT
*
30228638 TATTTTTTAAATATTAAATAT
1 T-TTTTCTAAATATTAAATAT
30228659 TTTTT
1 TTTTT
30228664 AATAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTCTAAATATTAAATAT
Found at i:30228958 original size:21 final size:23
Alignment explanation
Indices: 30228934--30228984 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
30228924 TTTCATATTA
30228934 TTAAAAAAAT-ATATTT--AATT
1 TTAAAAAAATAATATTTAAAATT
*
30228954 TTTAAAAAATAATATTTAAAATT
1 TTAAAAAAATAATATTTAAAATT
30228977 TTAAAAAA
1 TTAAAAAA
30228985 TTAGTTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 9 0.35
21 6 0.23
23 11 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TTAAAAAAATAATATTTAAAATT
Found at i:30228967 original size:23 final size:22
Alignment explanation
Indices: 30228937--30228985 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
30228927 CATATTATTA
*
30228937 AAAAAAT-ATATTT-AATTTTT
1 AAAAAATAATATTTAAAATTTT
30228957 AAAAAATAATATTTAAAATTTT
1 AAAAAATAATATTTAAAATTTT
30228979 AAAAAAT
1 AAAAAAT
30228986 TAGTTTCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 7 0.27
21 6 0.23
22 13 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAAAATAATATTTAAAATTTT
Found at i:30229103 original size:23 final size:22
Alignment explanation
Indices: 30229072--30229114 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
30229062 AATTTTTTTA
*
30229072 AAATTAATAATAAAAAATAAATT
1 AAATAAATAA-AAAAAATAAATT
*
30229095 AAATAAATAAACAAAATAAA
1 AAATAAATAAAAAAAATAAA
30229115 ATAAGGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (22 bp):
AAATAAATAAAAAAAATAAATT
Found at i:30229116 original size:23 final size:19
Alignment explanation
Indices: 30229070--30229116 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 19
30229060 TCAATTTTTT
30229070 TAAAATTAATAATAAAAAA
1 TAAAATTAATAATAAAAAA
30229089 T-AAATTAAATAAATAAACAAAA
1 TAAAATT-AAT-AAT-AA-AAAA
30229111 TAAAAT
1 TAAAAT
30229117 AAGGAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
18 5 0.22
19 4 0.17
20 3 0.13
21 2 0.09
22 5 0.22
23 4 0.17
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
TAAAATTAATAATAAAAAA
Found at i:30229176 original size:21 final size:21
Alignment explanation
Indices: 30229136--30229182 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
30229126 TATAAAACTT
30229136 AAAAAAA--GAAAAAAAATTA
1 AAAAAAATTGAAAAAAAATTA
* **
30229155 AAGAAAATTGAAAAAAGTTTA
1 AAAAAAATTGAAAAAAAATTA
30229176 AAAAAAA
1 AAAAAAA
30229183 AGTTAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 6 0.27
21 16 0.73
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.15
Consensus pattern (21 bp):
AAAAAAATTGAAAAAAAATTA
Found at i:30230091 original size:15 final size:15
Alignment explanation
Indices: 30230068--30230097 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30230058 CATAACAAAG
30230068 AAGAAGAAGAAGAAA
1 AAGAAGAAGAAGAAA
*
30230083 AAGACGAAGAAGAAA
1 AAGAAGAAGAAGAAA
30230098 TGGACACACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.03, G:0.27, T:0.00
Consensus pattern (15 bp):
AAGAAGAAGAAGAAA
Found at i:30233092 original size:16 final size:17
Alignment explanation
Indices: 30233057--30233099 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
30233047 CATTTGATTG
30233057 ATTATTTTTTAACTTAA
1 ATTATTTTTTAACTTAA
30233074 ATTATTTTTATAA-TT-A
1 ATTATTTTT-TAACTTAA
30233090 ATTATCTTTT
1 ATTAT-TTTT
30233100 GAGTCATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.25
17 15 0.62
18 3 0.12
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTATTTTTTAACTTAA
Found at i:30236699 original size:18 final size:19
Alignment explanation
Indices: 30236674--30236721 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 19
30236664 TTTGCTAACC
*
30236674 ATATTTTTTATTTATTATT
1 ATATTTTTAATTTATTATT
30236693 ATATTTTTAAAATTTATTATT
1 ATATTTTT--AATTTATTATT
30236714 ATATTTTT
1 ATATTTTT
30236722 TTAAAAACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 8 0.31
21 18 0.69
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
ATATTTTTAATTTATTATT
Found at i:30236736 original size:24 final size:25
Alignment explanation
Indices: 30236682--30236736 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 25
30236672 CCATATTTTT
**
30236682 TATTTATTATTATATTTTTAAAATT
1 TATTTATTATTATATTTTTAAAAAC
*
30236707 TA-TTATTA-TATTTTTTTAAAAAC
1 TATTTATTATTATATTTTTAAAAAC
30236730 TATTTAT
1 TATTTAT
30236737 GTAGTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 14 0.54
24 10 0.38
25 2 0.08
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
TATTTATTATTATATTTTTAAAAAC
Found at i:30237120 original size:15 final size:15
Alignment explanation
Indices: 30237100--30237130 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30237090 ACAATAAATG
30237100 TTAAATTTATTCAAT
1 TTAAATTTATTCAAT
*
30237115 TTAAATTTATTTAAT
1 TTAAATTTATTCAAT
30237130 T
1 T
30237131 CTTTTTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAAATTTATTCAAT
Found at i:30247759 original size:71 final size:70
Alignment explanation
Indices: 30247642--30247986 Score: 406
Period size: 71 Copynumber: 4.8 Consensus size: 70
30247632 AGCTCACCAC
30247642 CTCGCAATATGAGTGA-TTTTTG-AAAAAGAAATTGAAACTGGAACCTCA-GTGTCTTGAGGTTC
1 CTCGCAATATGAGTGATTTTTTGAAAAAAGAAATTGAAA-T---ACCTCACGTGTCTTGAGGTTC
30247704 AACTCACCT
62 AACTCACCT
* * *
30247713 CTCGCAATATGAGTGATTTTTTTGAAAGACAGAAATTGAAATACCTCAATGTGTCCTTGAGGCTC
1 CTCGCAATATGAGTGA-TTTTTTGAAA-AAAGAAATTGAAATACCTC-ACGTGT-CTTGAGGTTC
30247778 AACTCACCT
62 AACTCACCT
30247787 -TCGCAATATGAGTTGA-TTTTTGACAAAAAGAAATTGAAATTACCTCAGCG-GTCTTGAGGTTC
1 CTCGCAATATGAG-TGATTTTTTGA-AAAAAGAAATTGAAA-TACCTCA-CGTGTCTTGAGGTTC
30247849 AACTCACCT
62 AACTCACCT
* *
30247858 AT-GCAATATGATTGATTTTTTGAAAAAAGAAATTGAAAATACCTCAACGTGTC-TGAGG-TCAA
1 CTCGCAATATGAGTGATTTTTTGAAAAAAGAAATTG-AAATACCTC-ACGTGTCTTGAGGTTCAA
30247920 CTCACCT
64 CTCACCT
30247927 CTCGCAATATGAGCTGATTTTTT-AAAAACAGAAATTGAAAATACCTCAACGTGTC-TGAGG
1 CTCGCAATATGAG-TGATTTTTTGAAAAA-AGAAATTG-AAATACCTC-ACGTGTCTTGAGG
30247987 CTCACTCTCG
Statistics
Matches: 247, Mismatches: 8, Indels: 38
0.84 0.03 0.13
Matches are distributed among these distances:
69 12 0.05
70 42 0.17
71 102 0.41
72 24 0.10
73 31 0.13
74 24 0.10
75 12 0.05
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (70 bp):
CTCGCAATATGAGTGATTTTTTGAAAAAAGAAATTGAAATACCTCACGTGTCTTGAGGTTCAACT
CACCT
Found at i:30247986 original size:141 final size:145
Alignment explanation
Indices: 30247642--30247986 Score: 453
Period size: 141 Copynumber: 2.4 Consensus size: 145
30247632 AGCTCACCAC
* *
30247642 CTCGCAATATGAGTGA-TTTTTGAAAAAGAAATTGAAACTGGAACCTC-A-GTGTCTTGAGGTTC
1 CTCGCAATATGAGTGATTTTTTAAAAAAGAAATTGAAAAT---ACCTCAACGTGTCTTGAGGTTC
* * *
30247704 AACTCACCTCTCGCAATATGAGTGATTTTTTTGAAAGACAGAAATTGAAATACCTCAATGTGTCC
63 AACTCACCTATCGCAATATGAGTGATTTTTTTGAAAGAAAGAAATTGAAATACCTCAACGTGTCC
30247769 TTGAGGCTCAACTCACCT
128 TTGAGGCTCAACTCACCT
* * *
30247787 -TCGCAATATGAGTTGATTTTTGACAAAAAGAAATTGAAATTACCTCAGCG-GTCTTGAGGTTCA
1 CTCGCAATATGAG-TGATTTTTTA-AAAAAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCA
*
30247850 ACTCACCTAT-GCAATATGATTGA-TTTTTTGAAA-AAAGAAATTGAAAATACCTCAACGTGT-C
64 ACTCACCTATCGCAATATGAGTGATTTTTTTGAAAGAAAGAAATTG-AAATACCTCAACGTGTCC
30247911 -TGAGG-TCAACTCACCT
128 TTGAGGCTCAACTCACCT
30247927 CTCGCAATATGAGCTGATTTTTTAAAAACAGAAATTGAAAATACCTCAACGTGTC-TGAGG
1 CTCGCAATATGAG-TGATTTTTTAAAAA-AGAAATTGAAAATACCTCAACGTGTCTTGAGG
30247987 CTCACTCTCG
Statistics
Matches: 179, Mismatches: 12, Indels: 22
0.84 0.06 0.10
Matches are distributed among these distances:
140 15 0.08
141 51 0.28
142 13 0.07
143 25 0.14
144 29 0.16
145 25 0.14
146 5 0.03
147 16 0.09
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (145 bp):
CTCGCAATATGAGTGATTTTTTAAAAAAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAAC
TCACCTATCGCAATATGAGTGATTTTTTTGAAAGAAAGAAATTGAAATACCTCAACGTGTCCTTG
AGGCTCAACTCACCT
Found at i:30248317 original size:93 final size:96
Alignment explanation
Indices: 30248131--30248422 Score: 321
Period size: 93 Copynumber: 3.0 Consensus size: 96
30248121 AAACATAAAT
* *
30248131 AAAAAAAGAAAATTGAAAATACCTCAGGTGTCCTGAGGCT-AACTCACCTCTC-CAATATGAGTT
1 AAAAACAG-AAATTG-AAATACCTCA-GCGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * * *
30248194 GA-TTTG--AAAGAGAATTTGTAAGGCAAAAATTG
62 GATTTTGAAAAACAGAAATTGAAAAGCAGAAATTG
30248226 AAAAACAGAAATTGAAATACCTCAGCGT-TGA-GCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AAAAACAGAAATTGAAATACCTCAGCGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
30248289 TTGAAAAACAGAAATT-AAAAGCAGAAATTG
66 TTGAAAAACAGAAATTGAAAAGCAGAAATTG
* * * *
30248319 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTG
1 AAAAACAGAAATT-GAAATACCTCAGCGT--CTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * * *
30248384 ATTTTTGAAAAGCATAAATTGAAAAACGGAAATTG
63 A-TTTTGAAAAACAGAAATTGAAAAGCAGAAATTG
30248419 AAAA
1 AAAA
30248423 TACCTCAGCG
Statistics
Matches: 170, Mismatches: 15, Indels: 19
0.83 0.07 0.09
Matches are distributed among these distances:
89 3 0.02
90 15 0.09
91 13 0.08
92 7 0.04
93 34 0.20
94 28 0.16
95 7 0.04
97 2 0.01
98 29 0.17
99 16 0.09
100 16 0.09
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.24
Consensus pattern (96 bp):
AAAAACAGAAATTGAAATACCTCAGCGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTGAAAAACAGAAATTGAAAAGCAGAAATTG
Found at i:30248327 original size:14 final size:13
Alignment explanation
Indices: 30248292--30248336 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
30248282 GTTGATTTTG
30248292 AAAAACAGAAATT
1 AAAAACAGAAATT
*
30248305 AAAAGCAGAAATT
1 AAAAACAGAAATT
30248318 GAAAAACAGAAATT
1 -AAAAACAGAAATT
30248332 AAAAA
1 AAAAA
30248337 TACCTCGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:30249353 original size:14 final size:15
Alignment explanation
Indices: 30249334--30249363 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
30249324 GATCCCTCTC
30249334 TCTTTTTT-TTTTTT
1 TCTTTTTTCTTTTTT
30249348 TCTTTTTTCTTTTTT
1 TCTTTTTTCTTTTTT
30249363 T
1 T
30249364 TAAGATGCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TCTTTTTTCTTTTTT
Found at i:30257969 original size:11 final size:12
Alignment explanation
Indices: 30257939--30257987 Score: 52
Period size: 11 Copynumber: 4.4 Consensus size: 12
30257929 GTTAATTTGT
30257939 GTATTATTTTAA
1 GTATTATTTTAA
*
30257951 GAATTATTTT-A
1 GTATTATTTTAA
*
30257962 GTATTATTTTTA
1 GTATTATTTTAA
30257974 -T-TTATTTTAA
1 GTATTATTTTAA
30257984 -TATT
1 GTATT
30257988 TGTTTTTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
10 9 0.28
11 13 0.41
12 10 0.31
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (12 bp):
GTATTATTTTAA
Found at i:30257980 original size:21 final size:22
Alignment explanation
Indices: 30257954--30258020 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 22
30257944 ATTTTAAGAA
*
30257954 TTATTTTAGTA-TTATTTTTAT
1 TTATTTTAATATTTATTTTTAT
*
30257975 TTATTTTAATATTTGTTTTTAT
1 TTATTTTAATATTTATTTTTAT
* * *
30257997 GT-TTTTAA-ATATA-TTTGAT
1 TTATTTTAATATTTATTTTTAT
30258016 TTATT
1 TTATT
30258021 ATATTTTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 6 0.16
20 5 0.14
21 16 0.43
22 10 0.27
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (22 bp):
TTATTTTAATATTTATTTTTAT
Found at i:30258022 original size:26 final size:24
Alignment explanation
Indices: 30257983--30258032 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
30257973 ATTTATTTTA
*
30257983 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
30258007 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
30258033 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:30260928 original size:25 final size:23
Alignment explanation
Indices: 30260876--30260930 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
30260866 TATAAATAGT
30260876 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
30260899 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
30260924 AATAGTG
1 AATAGTG
30260931 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:30261029 original size:25 final size:25
Alignment explanation
Indices: 30260992--30261116 Score: 85
Period size: 25 Copynumber: 4.9 Consensus size: 25
30260982 ATAGATATAA
*
30260992 AAAAAATATATACATAATATAGTGT
1 AAAAAATACATACATAATATAGTGT
*
30261017 AAAAAATACATACATAATATAAT-T
1 AAAAAATACATACATAATATAGTGT
* *
30261041 AAAATATATACATAAGATAACAT-GTAG-
1 AAAA-A-ATACAT-ACATAATATAGT-GT
* * *
30261068 AAAAATATATATAAATAATATAGTAT
1 AAAAA-ATACATACATAATATAGTGT
* * * *
30261094 TAAATATAGATACATAAAATAGT
1 AAAAAATACATACATAATATAGT
30261117 ATAATATATA
Statistics
Matches: 79, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
24 5 0.06
25 44 0.56
26 19 0.24
27 11 0.14
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.30
Consensus pattern (25 bp):
AAAAAATACATACATAATATAGTGT
Found at i:30261051 original size:22 final size:24
Alignment explanation
Indices: 30260993--30261086 Score: 88
Period size: 25 Copynumber: 3.9 Consensus size: 24
30260983 TAGATATAAA
*
30260993 AAAAATATATACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
30261017 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
30261041 -AAAATATATACATAAGATAACATGT
1 AAAAATATATACATAATAT-A-ATGT
*
30261066 AGAAAA-ATATATATAA-ATAAT
1 A-AAAATATATACATAATATAAT
30261087 ATAGTATTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
22 16 0.27
23 3 0.05
24 4 0.07
25 23 0.39
26 9 0.15
27 4 0.07
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:30261086 original size:47 final size:46
Alignment explanation
Indices: 30260994--30261086 Score: 109
Period size: 47 Copynumber: 2.0 Consensus size: 46
30260984 AGATATAAAA
* *
30260994 AAAATATATACATAATATAGTGTAAAAAATACATACATAATATAATT
1 AAAATATATACATAAGATAATGTAAAAAATA-ATACATAATATAATT
*
30261041 AAAATATATACATAAGATAACATGTAGAAAAAT-ATATATAA-ATAAT
1 AAAATATATACATAAGAT-A-ATGTA-AAAAATAATACATAATATAAT
30261087 ATAGTATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
47 22 0.55
48 8 0.20
49 4 0.10
50 6 0.15
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (46 bp):
AAAATATATACATAAGATAATGTAAAAAATAATACATAATATAATT
Found at i:30261099 original size:15 final size:13
Alignment explanation
Indices: 30260981--30261099 Score: 50
Period size: 13 Copynumber: 9.1 Consensus size: 13
30260971 ATATGTATGA
* *
30260981 AATAGATATAAAA
1 AATATATATAAAT
* *
30260994 AAAATATATACAT
1 AATATATATAAAT
*
30261007 AATATAGTGTAAA-
1 AATATA-TATAAAT
* *
30261020 AA-ATACATACAT
1 AATATATATAAAT
30261032 AATATA-ATTAAA-
1 AATATATA-TAAAT
*
30261044 ATATATACATAAGAT
1 A-ATATATATAA-AT
* * *
30261059 AACATGTAGAAA-
1 AATATATATAAAT
30261071 AATATATATAAAT
1 AATATATATAAAT
30261084 AATATAGTATTAAAT
1 AATATA-TA-TAAAT
30261099 A
1 A
30261100 TAGATACATA
Statistics
Matches: 77, Mismatches: 18, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
11 3 0.04
12 16 0.21
13 37 0.48
14 14 0.18
15 7 0.09
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (13 bp):
AATATATATAAAT
Found at i:30261122 original size:23 final size:25
Alignment explanation
Indices: 30260997--30261203 Score: 105
Period size: 23 Copynumber: 8.6 Consensus size: 25
30260987 TATAAAAAAA
* * *
30260997 ATATATACATAATATAGTGTAAAAA
1 ATATATACATAATATAGTATTAAAT
*
30261022 ATACATACATAATATA--ATTAAA-
1 ATATATACATAATATAGTATTAAAT
* **
30261044 ATATATACATAAGATAACATGTAGAAAAAT
1 ATATATACAT-A-AT-ATA-GTA-TTAAAT
*
30261074 ATATATAAATAATATAGTATTAAAT
1 ATATATACATAATATAGTATTAAAT
* *
30261099 ATAGATACATAAAATAGTA-T-AAT
1 ATATATACATAATATAGTATTAAAT
* * * *
30261122 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAT
* * *
30261146 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAT
* *
30261168 A-ATATATATAATATAATATTAAA-
1 ATATATACATAATATAGTATTAAAT
*
30261191 AAATATA-ATAATA
1 ATATATACATAATA
30261204 ACAAAAAAAA
Statistics
Matches: 142, Mismatches: 27, Indels: 28
0.72 0.14 0.14
Matches are distributed among these distances:
21 1 0.01
22 24 0.17
23 44 0.31
24 15 0.11
25 37 0.26
26 3 0.02
27 2 0.01
28 3 0.02
29 4 0.03
30 9 0.06
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAT
Found at i:30261128 original size:27 final size:25
Alignment explanation
Indices: 30261070--30261126 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
30261060 ACATGTAGAA
* *
30261070 AAATATATATAAATAATATAGTATT
1 AAATATAGATAAATAAAATAGTATT
*
30261095 AAATATAGATACATAAAATAGTA-T
1 AAATATAGATAAATAAAATAGTATT
30261119 AATATATA
1 AA-ATATA
30261127 TACGTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 3 0.11
25 25 0.89
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (25 bp):
AAATATAGATAAATAAAATAGTATT
Found at i:30261526 original size:16 final size:16
Alignment explanation
Indices: 30261488--30261526 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
30261478 CTCCAAAAAA
*
30261488 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
30261504 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
30261520 AATAACT
1 AAAAACT
30261527 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:30261719 original size:30 final size:30
Alignment explanation
Indices: 30261683--30261749 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
30261673 TAGGTACAAG
* *
30261683 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAATATGGCTAGTGGAGT
30261713 TGGTGGTGGAGCAAATATGGCTAGTGGAGT
1 TGGTGGTGGAGCAAATATGGCTAGTGGAGT
30261743 TGGTGGT
1 TGGTGGT
30261750 AGCAAAGGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.18, C:0.06, G:0.48, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAGCAAATATGGCTAGTGGAGT
Found at i:30262661 original size:17 final size:18
Alignment explanation
Indices: 30262629--30262662 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30262619 TGGTATCAAC
*
30262629 TATTTTTTAATTTTTATG
1 TATTTTTTAATATTTATG
30262647 TATTTTTT-ATATTTAT
1 TATTTTTTAATATTTAT
30262663 ATTTAATGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TATTTTTTAATATTTATG
Found at i:30267796 original size:46 final size:46
Alignment explanation
Indices: 30267729--30267939 Score: 268
Period size: 46 Copynumber: 4.6 Consensus size: 46
30267719 AACCTGTGTG
* *
30267729 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
* * **
30267775 TAAGACCATGGTTGAAAGATACCATGG--ACCTGATATGAGATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
* *
30267819 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
*
30267865 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAAT-AA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAATGAA
* * *
30267910 GTAAGACCATAGTTGAAAGACACTATGGCA
1 -TAAGACCATGGTTGAAAGATACCATGGCA
30267940 TCACGTCAAA
Statistics
Matches: 148, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
44 42 0.28
45 3 0.02
46 103 0.70
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
Found at i:30267859 original size:90 final size:84
Alignment explanation
Indices: 30267676--30267895 Score: 305
Period size: 90 Copynumber: 2.5 Consensus size: 84
30267666 AGTGTGCTCT
* * *
30267676 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGACATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCAGTGTGTAAGACCATGGT
30267741 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
* **
30267760 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGACCTGATATGAGATGTGTAAGAC
1 CTGACATGAAATGTATAAGACCATGGTTGAAAGATACCATGG--C--A-ACCAG-TGTGTAAGAC
30267825 CATGGTTGAAAGATACCATGGCAAC
60 CATGGTTGAAAGATACCATGGCAAC
* * *
30267850 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
30267896 ATGACAGAAA
Statistics
Matches: 121, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
84 41 0.34
85 1 0.01
86 2 0.02
88 2 0.02
89 2 0.02
90 73 0.60
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (84 bp):
CTGACATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCAGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:30267925 original size:136 final size:128
Alignment explanation
Indices: 30267676--30267929 Score: 341
Period size: 136 Copynumber: 1.9 Consensus size: 128
30267666 AGTGTGCTCT
*
30267676 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
* * * *
30267741 TGAAAGATACCATGGCAACCTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGAC
66 TGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATAGTTGAAAGATACCATGGAC
* *
30267804 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG---AG--TAAG
30267869 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAAT-AAGTAAGACCATAGTTGAAAGA
58 ACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAA-TAAGACCATAGTTGAAAGA
30267930 CACTATGGCA
Statistics
Matches: 109, Mismatches: 7, Indels: 12
0.85 0.05 0.09
Matches are distributed among these distances:
128 47 0.43
131 2 0.02
134 1 0.01
135 2 0.02
136 57 0.52
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (128 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
TGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATAGTTGAAAGATACCATGGAC
Found at i:30268246 original size:23 final size:25
Alignment explanation
Indices: 30268201--30268247 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
30268191 AATAAATATA
*
30268201 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
30268226 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
30268248 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:30268648 original size:21 final size:22
Alignment explanation
Indices: 30268614--30268654 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
30268604 GGGTGTTACA
**
30268614 AATATAAACCATATA-ATAAGT
1 AATATAAAAAATATATATAAGT
30268635 AATATAAAAAATATATATAA
1 AATATAAAAAATATATATAA
30268655 TAAAATGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (22 bp):
AATATAAAAAATATATATAAGT
Found at i:30268672 original size:17 final size:18
Alignment explanation
Indices: 30268647--30268689 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
30268637 TATAAAAAAT
30268647 ATATATAAT-AAAATGTA
1 ATATATAATAAAAATGTA
*
30268664 ATATGTAATAAAAATGTA
1 ATATATAATAAAAATGTA
30268682 A-ATATAAT
1 ATATATAAT
30268690 GAAGGATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (18 bp):
ATATATAATAAAAATGTA
Found at i:30268813 original size:23 final size:22
Alignment explanation
Indices: 30268756--30268815 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
30268746 ATAATTTTTT
30268756 TAAAAAATAATAT-ATATAAAA
1 TAAAAAATAATATAATATAAAA
* * *
30268777 TATATAAATAAATATAATTTATAAG
1 TA-AAAAAT-AATATAATATA-AAA
30268802 TAAAAAATAATATA
1 TAAAAAATAATATA
30268816 TACTATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 2 0.06
22 5 0.16
23 11 0.35
24 9 0.29
25 4 0.13
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
TAAAAAATAATATAATATAAAA
Found at i:30268856 original size:17 final size:19
Alignment explanation
Indices: 30268834--30268868 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30268824 TTATAATTAA
30268834 TATTT-ATAGA-TATAAAG
1 TATTTAATAGATTATAAAG
30268851 TATTTAATAGATTATAAA
1 TATTTAATAGATTATAAA
30268869 AAATATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (19 bp):
TATTTAATAGATTATAAAG
Found at i:30273942 original size:24 final size:24
Alignment explanation
Indices: 30273877--30273942 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 24
30273867 TAAAAAATCT
** *
30273877 ATATTTTTATATATTTTTTTAAAAT
1 ATATTTTT-TATATAATTTTAAAAA
30273902 ATATTTTTT-T-TAATTTTAAAAA
1 ATATTTTTTATATAATTTTAAAAA
*
30273924 ATATTTTTTATATACTTTT
1 ATATTTTTTATATAATTTT
30273943 GAATTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 18 0.51
23 2 0.06
24 7 0.20
25 8 0.23
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (24 bp):
ATATTTTTTATATAATTTTAAAAA
Found at i:30275784 original size:22 final size:22
Alignment explanation
Indices: 30275729--30275774 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
30275719 TATGAATACG
*
30275729 GAGAGATTTGTATTTTGTTCTT
1 GAGAGATTTGCATTTTGTTCTT
30275751 GAGAGATTTGCATTTTGTTCTT
1 GAGAGATTTGCATTTTGTTCTT
30275773 GA
1 GA
30275775 ACGTATTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.07, G:0.24, T:0.50
Consensus pattern (22 bp):
GAGAGATTTGCATTTTGTTCTT
Found at i:30282382 original size:11 final size:11
Alignment explanation
Indices: 30282366--30282396 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
30282356 AGACAATTTG
30282366 TAAAAATAAAA
1 TAAAAATAAAA
30282377 TAAAAATAAAA
1 TAAAAATAAAA
30282388 T-AAAATAAA
1 TAAAAATAAA
30282397 GAACACAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:30300572 original size:39 final size:39
Alignment explanation
Indices: 30300544--30300672 Score: 195
Period size: 39 Copynumber: 3.3 Consensus size: 39
30300534 GCGGGACTTT
* * * *
30300544 AGCCCGGACATATTTCCAGTACGTAGCCTGCGGACCCTA
1 AGCCCGGATATAATTCCAGCACATAGCCTGCGGACCCTA
*
30300583 AGTCCGGATATAATTCCAGCACATAGCCTGCGGACCCTA
1 AGCCCGGATATAATTCCAGCACATAGCCTGCGGACCCTA
*
30300622 AGCCCGGATATAATTCCAGCACATAGCCTGCAGACCCTA
1 AGCCCGGATATAATTCCAGCACATAGCCTGCGGACCCTA
*
30300661 AGTCCGGATATA
1 AGCCCGGATATA
30300673 CATCACTGAA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (39 bp):
AGCCCGGATATAATTCCAGCACATAGCCTGCGGACCCTA
Found at i:30304255 original size:29 final size:29
Alignment explanation
Indices: 30304195--30304264 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
30304185 AACAATAACT
*** *
30304195 TAAGTGACTAAAATGTAACATTTTAGACA
1 TAAGTGACTAAAATGTAACATGAGAGAAA
* *
30304224 TAAGTGACTAAAATGTAATATGAGATAAA
1 TAAGTGACTAAAATGTAACATGAGAGAAA
30304253 TAAAAGTGACTA
1 T--AAGTGACTA
30304265 TTTTTATAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 24 0.73
31 9 0.27
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.29
Consensus pattern (29 bp):
TAAGTGACTAAAATGTAACATGAGAGAAA
Found at i:30315497 original size:25 final size:25
Alignment explanation
Indices: 30315465--30315515 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
30315455 CTTTTATCCC
30315465 TTTTAAGTCTCATAATATTTCTTCT
1 TTTTAAGTCTCATAATATTTCTTCT
30315490 TTTTAAGTCTCATAATATTTCTTCT
1 TTTTAAGTCTCATAATATTTCTTCT
30315515 T
1 T
30315516 GTAGGTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.57
Consensus pattern (25 bp):
TTTTAAGTCTCATAATATTTCTTCT
Found at i:30319117 original size:31 final size:29
Alignment explanation
Indices: 30319043--30319118 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
30319033 TGACTTTAAT
*
30319043 ATTCAATTTGGTACCTAAAATTTATTTTG
1 ATTCAATTTGGTACTTAAAATTTATTTTG
** * *
30319072 ATTCAATTAAGTACTTAAACTTTGCTTCTTG
1 ATTCAATTTGGTACTTAAAATTT-ATT-TTG
*
30319103 GTTCAATTTGGTACTT
1 ATTCAATTTGGTACTT
30319119 GAACCTAACT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 19 0.51
30 2 0.05
31 16 0.43
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (29 bp):
ATTCAATTTGGTACTTAAAATTTATTTTG
Found at i:30319256 original size:58 final size:58
Alignment explanation
Indices: 30319178--30319315 Score: 145
Period size: 58 Copynumber: 2.4 Consensus size: 58
30319168 AAACCAATTT
* * **
30319178 GTTCAAGTA-CTAATTCGAACC-AAAAAGGTAAGTTTAGATACTTAATTAGACAAAAAAA
1 GTTCAAGTATCAAATT-GAACCTAAAAA-CTAAGTTTAGATACCCAATTAGACAAAAAAA
** * * *
30319236 GTTCAAGTATCAAATTGAACCTTGACACTAAGTTTAGATACCCAATTGGATAAAAAAA
1 GTTCAAGTATCAAATTGAACCTAAAAACTAAGTTTAGATACCCAATTAGACAAAAAAA
* *
30319294 ATTTAAGTATCAAATTGAACCT
1 GTTCAAGTATCAAATTGAACCT
30319316 TGAGGCCAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
58 60 0.90
59 7 0.10
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.28
Consensus pattern (58 bp):
GTTCAAGTATCAAATTGAACCTAAAAACTAAGTTTAGATACCCAATTAGACAAAAAAA
Found at i:30319330 original size:58 final size:58
Alignment explanation
Indices: 30319210--30319351 Score: 176
Period size: 58 Copynumber: 2.4 Consensus size: 58
30319200 AAAAGGTAAG
* * * * *
30319210 TTTAGATACTTAATTAGACAAAAAAAGTTCAAGTATCAAATTGAACCTTGACACTAAG
1 TTTAGATACCTAATTGGACAAAAAAAATTCAAGTATCAAATTGAACCTTGACACCAAA
* * * **
30319268 TTTAGATACCCAATTGGATAAAAAAAATTTAAGTATCAAATTGAACCTTGAGGCCAAA
1 TTTAGATACCTAATTGGACAAAAAAAATTCAAGTATCAAATTGAACCTTGACACCAAA
**
30319326 TTTAGGCACCTAATTGGACAAAAAAA
1 TTTAGATACCTAATTGGACAAAAAAA
30319352 CACATTAGGT
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 70 1.00
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.27
Consensus pattern (58 bp):
TTTAGATACCTAATTGGACAAAAAAAATTCAAGTATCAAATTGAACCTTGACACCAAA
Found at i:30324273 original size:64 final size:64
Alignment explanation
Indices: 30324198--30324389 Score: 321
Period size: 64 Copynumber: 3.0 Consensus size: 64
30324188 TCATTCATAA
* **
30324198 CACATCCAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
*
30324262 CACATCTAGTTAGGTGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
** *
30324326 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAATATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
30324390 GATACATGAA
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 120 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:30324996 original size:176 final size:176
Alignment explanation
Indices: 30324774--30325220 Score: 662
Period size: 176 Copynumber: 2.5 Consensus size: 176
30324764 GCAGTGGAGT
* * *
30324774 AGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCCGAGCAGATCGAAGATGGCGAATCTT
1 AGACTGAAGATTGAAAATCTTATCTCCCTAAGCAGTAGCGGAGCAGATTGAAGATGGCGAATCTT
* * * * *
30324839 ATCTCCATGTATCGGCAATGGAGTAGATTTTACCATTGGCCTTATCTCTCTGAGGTAGCAAGAGA
66 ATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGACCTAATCTCTCTGAAGTAGCAAGAGA
* *
30324904 GCAGGTTGGCGATTGTAGTCTTATCTTCCTGA-GATAGTAAGGAAGC
131 GCAGGTTGGCGATTGTAGTCTTATATTCCTGATG-TAGCAAGGAAGC
* * * * * * *
30324950 AGACTGAAAATTGAAAATTTTATATCTCTAAGTAGTAGAGGAGCAGATTGAAGATGGTGAATCTT
1 AGACTGAAGATTGAAAATCTTATCTCCCTAAGCAGTAGCGGAGCAGATTGAAGATGGCGAATCTT
30325015 ATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGACCTAATCTCTCTGAAGTAGCAAGAGA
66 ATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGACCTAATCTCTCTGAAGTAGCAAGAGA
*
30325080 GCAGGTTGGCGATTGTAGTCTTATATTTCTGATGTAGCAAGGAAGC
131 GCAGGTTGGCGATTGTAGTCTTATATTCCTGATGTAGCAAGGAAGC
* * *
30325126 AGACTGAAGATTGAAAATCTTATCTCCCTAGGCAGTTGCGGAGCAGATTGAGGATGGCGAATCTT
1 AGACTGAAGATTGAAAATCTTATCTCCCTAAGCAGTAGCGGAGCAGATTGAAGATGGCGAATCTT
* * *
30325191 ATCTCCATGTATTGGCAATGGGGCAAATTT
66 ATCTCCATGTATCGGCAATGGAGCAGATTT
30325221 AAGTCACCAG
Statistics
Matches: 239, Mismatches: 31, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
176 238 1.00
177 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (176 bp):
AGACTGAAGATTGAAAATCTTATCTCCCTAAGCAGTAGCGGAGCAGATTGAAGATGGCGAATCTT
ATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGACCTAATCTCTCTGAAGTAGCAAGAGA
GCAGGTTGGCGATTGTAGTCTTATATTCCTGATGTAGCAAGGAAGC
Found at i:30325082 original size:88 final size:88
Alignment explanation
Indices: 30324814--30325083 Score: 221
Period size: 88 Copynumber: 3.1 Consensus size: 88
30324804 AGCAGTAGCC
* * * *
30324814 GAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGTAGATTTTACCATTGGC
1 GAGCAGATTGAAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCATTGAC
*
30324879 CTTATCTCTCTGAGGTAGCAAGA
66 CTTATCTCTCTGAAGTAGCAAGA
* ** * * * * * * * **
30324902 GAGCAGGTTGGCGATTGT-AGTCTTATCTTCC-TGAGAT-AGTAA-GGAAGCAGA-CTGAAAATT
1 GAGCAGATTGAAGATGGTGAATCTTATC-TCCATG-TATCGGCAATGG-AGCAGATTTTACCATT
** * *
30324962 GAAAATTTTATATCTCT-AAGTAG-TAGA
63 G---ACCTTATCTCTCTGAAGTAGCAAGA
*
30324989 GGAGCAGATTGAAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGA
1 -GAGCAGATTGAAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCATTGA
*
30325054 CCTAATCTCTCTGAAGTAGCAAGA
65 CCTTATCTCTCTGAAGTAGCAAGA
30325078 GAGCAG
1 GAGCAG
30325084 GTTGGCGATT
Statistics
Matches: 129, Mismatches: 39, Indels: 28
0.66 0.20 0.14
Matches are distributed among these distances:
86 8 0.06
87 30 0.23
88 53 0.41
89 31 0.24
90 7 0.05
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (88 bp):
GAGCAGATTGAAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCATTGAC
CTTATCTCTCTGAAGTAGCAAGA
Found at i:30325399 original size:12 final size:13
Alignment explanation
Indices: 30325379--30325429 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
30325369 CACCAAAACC
30325379 AAAACCAAAAAAT
1 AAAACCAAAAAAT
30325392 AAAA-CAAAAAAT
1 AAAACCAAAAAAT
**
30325404 AATAAATAAAAAAAAT
1 -A-AAA-CCAAAAAAT
30325420 AAAACCAAAA
1 AAAACCAAAA
30325430 TAATTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
12 8 0.26
13 9 0.29
14 6 0.19
15 1 0.03
16 7 0.23
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (13 bp):
AAAACCAAAAAAT
Found at i:30325409 original size:15 final size:14
Alignment explanation
Indices: 30325385--30325429 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
30325375 AACCAAAACC
30325385 AAAAAATAAAACAA
1 AAAAAATAAAACAA
*
30325399 AAAATAAT-AAATAA
1 AAAA-AATAAAACAA
30325413 AAAAAATAAAACCAA
1 AAAAAATAAAA-CAA
30325428 AA
1 AA
30325430 TAATTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 3 0.12
14 16 0.62
15 7 0.27
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.11
Consensus pattern (14 bp):
AAAAAATAAAACAA
Found at i:30329395 original size:46 final size:46
Alignment explanation
Indices: 30329341--30329517 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
30329331 GATATTTGGG
30329341 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * *** * * * *
30329387 TATCCGAACTCGTTGAGTTGAGTCTGAGTTCAAGAGATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-A
*
30329434 CATCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** * *
30329479 CGCCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30329518 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
45 25 0.24
46 54 0.51
47 26 0.25
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:30329502 original size:92 final size:93
Alignment explanation
Indices: 30329339--30329510 Score: 274
Period size: 92 Copynumber: 1.9 Consensus size: 93
30329329 AGGATATTTG
* *
30329339 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATATCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
* *
30329404 TTGAGTCTGAGTTCAAGAGATGTAACTA
66 TCGAGTCCGAGTTCAAGAGATGTAACTA
* * *
30329432 GGCATCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
30329496 TCGAGTCCGAGTTCA
66 TCGAGTCCGAGTTCA
30329511 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 48 0.67
93 24 0.33
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TCGAGTCCGAGTTCAAGAGATGTAACTA
Found at i:30331605 original size:19 final size:19
Alignment explanation
Indices: 30331560--30331620 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 19
30331550 ATAGAAATTT
*
30331560 ATATAAAAA-TAAT-TAAA
1 ATATAAAAATTAATAAAAA
*
30331577 ATGATGAAAATTAATAAAAA
1 AT-ATAAAAATTAATAAAAA
30331597 ATATAAAAATATATATAAGAAA
1 ATATAAAAAT-TA-ATAA-AAA
30331619 AT
1 AT
30331621 TATAGAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
17 2 0.06
18 6 0.17
19 11 0.31
20 7 0.20
21 4 0.11
22 5 0.14
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
ATATAAAAATTAATAAAAA
Found at i:30332092 original size:16 final size:17
Alignment explanation
Indices: 30332060--30332094 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30332050 AAATTAAAAG
*
30332060 AAGAAAAAGAGATATGA
1 AAGAAAAAGAGAAATGA
30332077 AAGAAAAAGA-AAATGA
1 AAGAAAAAGAGAAATGA
30332093 AA
1 AA
30332095 AAGAGAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (17 bp):
AAGAAAAAGAGAAATGA
Found at i:30332105 original size:35 final size:36
Alignment explanation
Indices: 30332050--30332136 Score: 90
Period size: 36 Copynumber: 2.4 Consensus size: 36
30332040 TCTTATAATG
* *
30332050 AAATTAAAAGAAGAAAAAGAG-AT-ATGAAAGAAAAAGA
1 AAATTGAAA-AAGAGAAAGAGTATGA-GAAAG-AAAAGA
*
30332087 AAA-TGAAAAAGAGAAAGAGTGTGAGAAAGAAAAGA
1 AAATTGAAAAAGAGAAAGAGTATGAGAAAGAAAAGA
*
30332122 AAATTGAAAAGGAGA
1 AAATTGAAAAAGAGA
30332137 GTGAGATTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
35 19 0.44
36 20 0.47
37 4 0.09
ACGTcount: A:0.66, C:0.00, G:0.24, T:0.10
Consensus pattern (36 bp):
AAATTGAAAAAGAGAAAGAGTATGAGAAAGAAAAGA
Found at i:30332141 original size:30 final size:30
Alignment explanation
Indices: 30332082--30332142 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
30332072 TATGAAAGAA
*
30332082 AAAGAAAATGAAAAAGAGAAAGAGTGTGAG
1 AAAGAAAATGAAAAAGAGAAAGAGAGTGAG
*
30332112 AAAGAAAA-GAAAATTGA-AAAGGAGAGTGAG
1 AAAGAAAATGAAAA-AGAGAAA-GAGAGTGAG
30332142 A
1 A
30332143 TTGAAGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.61, C:0.00, G:0.30, T:0.10
Consensus pattern (30 bp):
AAAGAAAATGAAAAAGAGAAAGAGAGTGAG
Found at i:30335346 original size:9 final size:9
Alignment explanation
Indices: 30335334--30335382 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
30335324 AAAAAATTAC
30335334 TTTTATAATT
1 TTTTATAA-T
30335344 TTTTATAAAGT
1 TTTTAT-AA-T
*
30335355 TTTAATAAT
1 TTTTATAAT
*
30335364 TTTTATCAT
1 TTTTATAAT
30335373 TTTTATAAT
1 TTTTATAAT
30335382 T
1 T
30335383 CTTTTGAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
9 17 0.52
10 8 0.24
11 8 0.24
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:30335347 original size:10 final size:10
Alignment explanation
Indices: 30335334--30335404 Score: 56
Period size: 11 Copynumber: 6.9 Consensus size: 10
30335324 AAAAAATTAC
30335334 TTTTATAATT
1 TTTTATAATT
*
30335344 TTTTATAAAGT
1 TTTTAT-AATT
*
30335355 TTTAATAA-T
1 TTTTATAATT
*
30335364 TTTTATCA-T
1 TTTTATAATT
30335373 TTTTATAATT
1 TTTTATAATT
*
30335383 CTTTTGAGAATT
1 -TTTT-ATAATT
30335395 TTTATATAAT
1 TTT-TATAAT
30335405 CTCTAAAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
9 15 0.31
10 9 0.18
11 19 0.39
12 6 0.12
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (10 bp):
TTTTATAATT
Found at i:30339239 original size:19 final size:19
Alignment explanation
Indices: 30339215--30339258 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
30339205 ATTGTATCAC
30339215 ATATTGTATGTGACTTCAA
1 ATATTGTATGTGACTTCAA
30339234 ATATTGTATGTGACTTCAA
1 ATATTGTATGTGACTTCAA
30339253 ATATTG
1 ATATTG
30339259 CATTAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (19 bp):
ATATTGTATGTGACTTCAA
Found at i:30341781 original size:16 final size:17
Alignment explanation
Indices: 30341757--30341788 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
30341747 AAATGCCGAT
30341757 TTTTATAAAAAAATTAA
1 TTTTATAAAAAAATTAA
30341774 TTTT-TAAAAAAATTA
1 TTTTATAAAAAAATTA
30341789 CGAGAATAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTTATAAAAAAATTAA
Found at i:30355493 original size:9 final size:9
Alignment explanation
Indices: 30355481--30355531 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 9
30355471 TAAACATAAT
30355481 AAATATTTA
1 AAATATTTA
30355490 AAATATTTA
1 AAATATTTA
**
30355499 AAA-ACATA
1 AAATATTTA
30355507 AAATATTTA
1 AAATATTTA
**
30355516 AAA-ACATA
1 AAATATTTA
30355524 AAATATTT
1 AAATATTT
30355532 TATGGTAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
8 12 0.38
9 20 0.62
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (9 bp):
AAATATTTA
Found at i:30355500 original size:17 final size:17
Alignment explanation
Indices: 30355488--30355531 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
30355478 AATAAATATT
30355488 TAAAATATTTAAAAACA
1 TAAAATATTTAAAAACA
30355505 TAAAATATTTAAAAACA
1 TAAAATATTTAAAAACA
30355522 TAAAATATTT
1 TAAAATATTT
30355532 TATGGTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATATTTAAAAACA
Found at i:30359722 original size:244 final size:244
Alignment explanation
Indices: 30359270--30359874 Score: 957
Period size: 244 Copynumber: 2.5 Consensus size: 244
30359260 AGTACAATTA
* * * * * ** *
30359270 AAAATATTAATTAGAAGAGTTTCACATTAATAAAAAATTTAATGAAATAATA-ACACCAATAAAA
1 AAAATATTAAATAAAAAAATTTCACATTAATAAGATTTTTAATAAAATAATACA-ACCAATAAAA
* *
30359334 TTAATTAACATTTTAATTTAATAAAAATAAAATTATTTGCGATTTGAATATTTAATTTTAAAAAT
65 TTAATTAATATTTTAATTTAATAAAAATAAAATTATTTACGATTTGAATATTTAATTTTAAAAAT
* *
30359399 TATTTTGATATAAATTTTAAAACTATTAAGTCCAAAAGTTTTGAAGTGAAAAAATCTAATTAAAT
130 TATTTTGATATAAATTTTAAAACTATTAAGTCCAAAAATTTTGAAGTGAAAAAATATAATTAAAT
30359464 AATGTACGTTGAAAAGGAAAAGTATAATTAAAAATATTAAATAGAAGAAT
195 AATGTACGTTGAAAAGGAAAAGTATAATTAAAAATATTAAATAGAAGAAT
* *
30359514 AAAATATTAAATAAAAAAATTTCACATTAATAAGTTTTTTAATAAAATAATACAACGAATAAAAT
1 AAAATATTAAATAAAAAAATTTCACATTAATAAGATTTTTAATAAAATAATACAACCAATAAAAT
30359579 TAATTAATATTTTAATTTAATAAAAATAAAATTATTTACGATTTGAATATTTAATTTTAAAAATT
66 TAATTAATATTTTAATTTAATAAAAATAAAATTATTTACGATTTGAATATTTAATTTTAAAAATT
*
30359644 ATTTTGATATAAATTTTAAAATTATTAAGTCCAAAAATTTTGAAGT-AAAAAATATAATTAAATA
131 ATTTTGATATAAATTTTAAAACTATTAAGTCCAAAAATTTTGAAGTGAAAAAATATAATTAAATA
*
30359708 ATGTACGTTTGAAAAGGGAAAGTATAATTAAAAATATTAAATAGAAGAAT
196 ATGTACG-TTGAAAAGGAAAAGTATAATTAAAAATATTAAATAGAAGAAT
*
30359758 AAAATATTAAAT-AACAAA-TTCACATTAATAAGATTTTTAATAAAATAATACAACCAATAAAAT
1 AAAATATTAAATAAAAAAATTTCACATTAATAAGATTTTTAATAAAATAATACAACCAATAAAAT
* * * * * *
30359821 TAATTAATATTTTAATTTATTAAAAATAGAATTAATTAAGTTTTAAATATTTAA
66 TAATTAATATTTTAATTTAATAAAAATAAAATTATTTACGATTTGAATATTTAA
30359875 AAATTATTAA
Statistics
Matches: 334, Mismatches: 25, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
242 91 0.27
243 29 0.09
244 213 0.64
245 1 0.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (244 bp):
AAAATATTAAATAAAAAAATTTCACATTAATAAGATTTTTAATAAAATAATACAACCAATAAAAT
TAATTAATATTTTAATTTAATAAAAATAAAATTATTTACGATTTGAATATTTAATTTTAAAAATT
ATTTTGATATAAATTTTAAAACTATTAAGTCCAAAAATTTTGAAGTGAAAAAATATAATTAAATA
ATGTACGTTGAAAAGGAAAAGTATAATTAAAAATATTAAATAGAAGAAT
Found at i:30361706 original size:6 final size:6
Alignment explanation
Indices: 30361697--30361730 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
30361687 ATTTATATTT
* *
30361697 ATTTGG ATTTGG ATTTGG ATTTGA ATTTGA ATTT
1 ATTTGG ATTTGG ATTTGG ATTTGG ATTTGG ATTT
30361731 CTAAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (6 bp):
ATTTGG
Found at i:30370161 original size:43 final size:43
Alignment explanation
Indices: 30370114--30370236 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
30370104 TAACATGTAT
* *
30370114 CGATGCCACTGTCCCACACAGGGTCTTACACG-AAGTCG-ATTAA
1 CGATGCCACTGTCCCACACAAGGTCTTACACGTAA-TCGTAAT-A
* * * *
30370157 CGATGCCAATGTCTCACACATGGTTTTACACGTAATCGTAATA
1 CGATGCCACTGTCCCACACAAGGTCTTACACGTAATCGTAATA
* * *
30370200 CAATGCCACTGTCCCATACAAGGTCTTACATGTAATC
1 CGATGCCACTGTCCCACACAAGGTCTTACACGTAATC
30370237 ACATCTCAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 62 0.94
44 4 0.06
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
CGATGCCACTGTCCCACACAAGGTCTTACACGTAATCGTAATA
Found at i:30371581 original size:30 final size:30
Alignment explanation
Indices: 30371523--30371583 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30371513 TTCCCGAGCC
*
30371523 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATCCAAAAGTT
* * * *
30371553 TAGGGGCAAAATTGTAATTTTCCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATCCAAAAGTT
30371583 T
1 T
30371584 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATCCAAAAGTT
Found at i:30372401 original size:64 final size:63
Alignment explanation
Indices: 30372320--30372503 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 63
30372310 AGACATTATG
* *
30372320 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTA-GTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
30372384 ATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGGCACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-GTGTA---CACCATGTAGACAAGAGAGCTACGAGA
30372448 TAA
61 TAA
* * * *
30372451 AT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-AGTGTACACCATGTAG-ACAAGAGAGC
30372504 CGAACTATAT
Statistics
Matches: 99, Mismatches: 14, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
62 1 0.01
63 18 0.18
64 26 0.26
65 4 0.04
66 19 0.19
67 31 0.31
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTAGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:30378298 original size:18 final size:18
Alignment explanation
Indices: 30378275--30378539 Score: 137
Period size: 18 Copynumber: 14.3 Consensus size: 18
30378265 GAATAATTAT
30378275 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
30378293 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * *
30378311 TTATTCAATAATAATCAG
1 TTATTCAGTAACAGTCAG
30378329 TTATTCAGTATCGATCAATTGATC-G
1 TTATTCAGTA---A-C-A--G-TCAG
*
30378354 ATTA-TCTAGTAACAGTCAA
1 -TTATTC-AGTAACAGTCAG
* *
30378373 TTATTTAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * * *
30378390 ATATTCAGTAGCAATTAAG
1 TTATTCAGTAAC-AGTCAG
*
30378409 TTATTCAGTAACAGTCAT
1 TTATTCAGTAACAGTCAG
* *
30378427 TTATTCAGTGACAATCAG
1 TTATTCAGTAACAGTCAG
* * *
30378445 TTATTTAGTAA-TGATCAT
1 TTATTCAGTAACAG-TCAG
* * *
30378463 TTATTTAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
30378481 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
*
30378499 TTA-TCTAGTAACAGTCAA
1 TTATTC-AGTAACAGTCAG
* *
30378517 TTATTCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
30378535 TTATT
1 TTATT
30378540 TAGAAATAAT
Statistics
Matches: 188, Mismatches: 39, Indels: 40
0.70 0.15 0.15
Matches are distributed among these distances:
17 15 0.08
18 137 0.73
19 19 0.10
21 2 0.01
22 1 0.01
23 2 0.01
25 3 0.02
26 9 0.05
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.38
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:30378521 original size:72 final size:70
Alignment explanation
Indices: 30378354--30378557 Score: 207
Period size: 72 Copynumber: 2.8 Consensus size: 70
30378344 CAATTGATCG
* *
30378354 ATTATCTAGTAACAGTCAATTATTTAGTAAAATCAGA-TATTCAGTAGCA-ATTAAGTTATTCAG
1 ATTATCTAGTAACAGTCAATTATTTAGTAAAATCA-ATTATTTAGTA--ATATTCAGTTATTCAG
30378417 TAACAGTC
63 TAACAGTC
* * * * *
30378425 ATTTAT-TCAGTGACAATCAGTTATTTAGTAATGATCATTTATTTAGTAATATTCAGTTATTCAG
1 A-TTATCT-AGTAACAGTCAATTATTTAGTAA-AATCAATTATTTAGTAATATTCAGTTATTCAG
30378489 TAACAGTC
63 TAACAGTC
** * * *
30378497 TATTATCTAGTAACAGTCAATTATTCGGTAACAGTCAATTATTTAGAAATAATCAGTTATT
1 -ATTATCTAGTAACAGTCAATTATTTAGTAA-AATCAATTATTTAGTAATATTCAGTTATT
30378558 TTATACCTTT
Statistics
Matches: 108, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
71 3 0.03
72 91 0.84
73 14 0.13
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (70 bp):
ATTATCTAGTAACAGTCAATTATTTAGTAAAATCAATTATTTAGTAATATTCAGTTATTCAGTAA
CAGTC
Found at i:30378792 original size:44 final size:45
Alignment explanation
Indices: 30378721--30378828 Score: 173
Period size: 44 Copynumber: 2.4 Consensus size: 45
30378711 ACAAATCCGG
30378721 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
* * *
30378766 AACGGTAAC-GTAACAGTATTCGACACACAAAGTGCCGAATCGGT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
*
30378810 AACAGTAACGGTAACAGTA
1 AACAGTAACAGTAACAGTA
30378829 ACAGTAGTCA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
44 41 0.71
45 17 0.29
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (45 bp):
AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
Found at i:30378823 original size:12 final size:12
Alignment explanation
Indices: 30378806--30378830 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30378796 AGTGCCGAAT
30378806 CGGTAACAGTAA
1 CGGTAACAGTAA
30378818 CGGTAACAGTAA
1 CGGTAACAGTAA
30378830 C
1 C
30378831 AGTAGTCAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:30384282 original size:43 final size:43
Alignment explanation
Indices: 30384235--30384358 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 43
30384225 TAACACATAT
* * * *
30384235 CGATGCCACTTTCCTACACAGGGTCTTACACG-AAGTCCATTA-A
1 CGATGCCACTATCCCACACAAGGTCTTACACGTAA-T-CATAATA
* *
30384278 CGATGCCGA-TGTCCCACACATGGTCTTACACGTAATCATAATA
1 CGATGCC-ACTATCCCACACAAGGTCTTACACGTAATCATAATA
* *
30384321 CAATGCCACTATCCCACACAAGGTCTTACATGTAATCA
1 CGATGCCACTATCCCACACAAGGTCTTACACGTAATCA
30384359 CATCCCAATA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
42 5 0.07
43 61 0.88
44 3 0.04
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.25
Consensus pattern (43 bp):
CGATGCCACTATCCCACACAAGGTCTTACACGTAATCATAATA
Found at i:30389799 original size:6 final size:6
Alignment explanation
Indices: 30389785--30389814 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
30389775 TAATTATTAA
*
30389785 TTATTT TTATAT TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
30389815 GAATTTGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:30391196 original size:24 final size:27
Alignment explanation
Indices: 30391167--30391216 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
30391157 TTATATAAGA
30391167 GAAAATACT-A-TACA-TAGTTATACT
1 GAAAATACTAATTACAGTAGTTATACT
*
30391191 GAAAATAGTAATTACAGTAGTTATAC
1 GAAAATACTAATTACAGTAGTTATAC
30391217 AAAATATGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 8 0.36
25 1 0.05
26 4 0.18
27 9 0.41
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (27 bp):
GAAAATACTAATTACAGTAGTTATACT
Found at i:30401016 original size:16 final size:18
Alignment explanation
Indices: 30400997--30401034 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
30400987 GTTTTAAGAA
30400997 TTATTTG-TCTTAT-TTT
1 TTATTTGTTCTTATGTTT
*
30401013 TTATTTGTTTTTATGTTT
1 TTATTTGTTCTTATGTTT
30401031 TTAT
1 TTAT
30401035 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 5 0.26
18 7 0.37
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.76
Consensus pattern (18 bp):
TTATTTGTTCTTATGTTT
Found at i:30402812 original size:19 final size:19
Alignment explanation
Indices: 30402790--30402846 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
30402780 ACGAACATTT
*
30402790 ACATAATCATTTAACATAC
1 ACATCATCATTTAACATAC
30402809 ACATCATCATTTAACATAC
1 ACATCATCATTTAACATAC
*
30402828 ACATCATAATTTAATCATA
1 ACATCATCATTTAA-CATA
30402847 TTGTCCCTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 31 0.89
20 4 0.11
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (19 bp):
ACATCATCATTTAACATAC
Found at i:30403499 original size:15 final size:15
Alignment explanation
Indices: 30403479--30403509 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
30403469 TTTCACCCAA
30403479 ATTAAACCTCAACAT
1 ATTAAACCTCAACAT
30403494 ATTAAACCTCAACAT
1 ATTAAACCTCAACAT
30403509 A
1 A
30403510 ACACATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (15 bp):
ATTAAACCTCAACAT
Found at i:30405116 original size:13 final size:13
Alignment explanation
Indices: 30405098--30405129 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
30405088 TTATTTTAAT
*
30405098 TAATATCATATAA
1 TAATATAATATAA
30405111 TAATATAATATAA
1 TAATATAATATAA
30405124 TAATAT
1 TAATAT
30405130 TTTCTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
TAATATAATATAA
Found at i:30407184 original size:35 final size:37
Alignment explanation
Indices: 30407113--30407210 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
30407103 ATAATCTTCA
30407113 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
30407151 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
30407186 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
30407211 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:30407210 original size:17 final size:19
Alignment explanation
Indices: 30407113--30407203 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
30407103 ATAATCTTCA
30407113 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
30407132 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
30407151 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
30407168 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
30407186 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
30407204 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:30407229 original size:22 final size:22
Alignment explanation
Indices: 30407113--30407226 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
30407103 ATAATCTTCA
30407113 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
30407132 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
30407151 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
30407168 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
30407186 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
30407208 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
30407227 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:30407521 original size:18 final size:18
Alignment explanation
Indices: 30407496--30407532 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
30407486 TTCCCGGATT
*
30407496 ATTTTTTTTATATATTTTA
1 ATTTTTTTAATA-ATTTTA
30407515 ATTTTTTTAATAATTTTA
1 ATTTTTTTAATAATTTTA
30407533 GTATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTTTTTAATAATTTTA
Found at i:30408868 original size:12 final size:12
Alignment explanation
Indices: 30408851--30408876 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30408841 TTAAGAACAA
30408851 AACTAGATACGG
1 AACTAGATACGG
30408863 AACTAGATACGG
1 AACTAGATACGG
30408875 AA
1 AA
30408877 GCGTATCTAA
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:0.15, G:0.23, T:0.15
Consensus pattern (12 bp):
AACTAGATACGG
Found at i:30411351 original size:21 final size:20
Alignment explanation
Indices: 30411327--30411367 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
30411317 ATACATACCT
* *
30411327 ATATATATTAAAGATATATAC
1 ATATATAATAAA-ACATATAC
30411348 ATATATAATAAAACATATAC
1 ATATATAATAAAACATATAC
30411368 CTAGATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (20 bp):
ATATATAATAAAACATATAC
Found at i:30411465 original size:6 final size:6
Alignment explanation
Indices: 30411454--30411495 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
30411444 TAATATTTAA
30411454 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
30411496 TACATGATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.14
6 30 0.86
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:30411475 original size:18 final size:17
Alignment explanation
Indices: 30411454--30411495 Score: 75
Period size: 17 Copynumber: 2.4 Consensus size: 17
30411444 TAATATTTAA
30411454 AAAAATAAAAATAAAAAT
1 AAAAATAAAAAT-AAAAT
30411472 AAAAATAAAAATAAAAT
1 AAAAATAAAAATAAAAT
30411489 AAAAATA
1 AAAAATA
30411496 TACATGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAAATAAAAATAAAAT
Found at i:30411513 original size:23 final size:23
Alignment explanation
Indices: 30411487--30411534 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
30411477 TAAAAATAAA
30411487 ATAAAAATATAC-ATGATATATAT
1 ATAAAAATATACGAT-ATATATAT
*
30411510 ATAAACATATACGATATATATAT
1 ATAAAAATATACGATATATATAT
30411533 AT
1 AT
30411535 TAGAAATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.35
Consensus pattern (23 bp):
ATAAAAATATACGATATATATAT
Found at i:30411527 original size:21 final size:22
Alignment explanation
Indices: 30411487--30411533 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
30411477 TAAAAATAAA
30411487 ATAAAAATATACATGATATATAT
1 ATAAAAATATACA-GATATATAT
*
30411510 ATAAACATATAC-GATATATAT
1 ATAAAAATATACAGATATATAT
30411531 ATA
1 ATA
30411534 TTAGAAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.52
23 11 0.48
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.34
Consensus pattern (22 bp):
ATAAAAATATACAGATATATAT
Found at i:30412554 original size:16 final size:16
Alignment explanation
Indices: 30412533--30412565 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
30412523 TAGCCCATCA
*
30412533 TTAATTAGAATTTGAT
1 TTAATTAAAATTTGAT
30412549 TTAATTAAAATTTGAT
1 TTAATTAAAATTTGAT
30412565 T
1 T
30412566 AGAACTCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (16 bp):
TTAATTAAAATTTGAT
Found at i:30412671 original size:21 final size:20
Alignment explanation
Indices: 30412613--30412674 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
30412603 TAATATAAAC
* *
30412613 ATTATAAATTTTAATAAAAAT
1 ATTAAAAATTATAA-AAAAAT
* * *
30412634 ATTAAAAACTGTAAAAAAGT
1 ATTAAAAATTATAAAAAAAT
30412654 ATTAACAAATTATAAAAAAAT
1 ATTAA-AAATTATAAAAAAAT
30412675 TATATGATAC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
20 10 0.30
21 23 0.70
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (20 bp):
ATTAAAAATTATAAAAAAAT
Found at i:30412783 original size:16 final size:15
Alignment explanation
Indices: 30412740--30412784 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
30412730 AATTGAGAAA
30412740 TTAAGTGCTGAATTT
1 TTAAGTGCTGAATTT
* *
30412755 TT-ACTGCTAAATTT
1 TTAAGTGCTGAATTT
30412769 TATAAGTGCTGAATTT
1 T-TAAGTGCTGAATTT
30412785 ATATTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 11 0.46
15 3 0.12
16 10 0.42
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.47
Consensus pattern (15 bp):
TTAAGTGCTGAATTT
Found at i:30412787 original size:15 final size:15
Alignment explanation
Indices: 30412741--30412787 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
30412731 ATTGAGAAAT
30412741 TAAGTGCTGAATTT-
1 TAAGTGCTGAATTTA
* * *
30412755 TTACTGCTAAATTTTA
1 TAAGTGCTGAA-TTTA
30412771 TAAGTGCTGAATTTA
1 TAAGTGCTGAATTTA
30412786 TA
1 TA
30412788 TTAAAAAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
14 8 0.32
15 9 0.36
16 8 0.32
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.45
Consensus pattern (15 bp):
TAAGTGCTGAATTTA
Found at i:30412968 original size:19 final size:20
Alignment explanation
Indices: 30412923--30412977 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
30412913 ATATTTTTTG
*
30412923 GATAATTTTTTGTAAAAGAT
1 GATAATTTTTTTTAAAAGAT
*
30412943 GCTTAATTTTTTTTAAAAG-T
1 G-ATAATTTTTTTTAAAAGAT
*
30412963 GATAATTTATTTTAA
1 GATAATTTTTTTTAA
30412978 TTTTTTAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 12 0.40
20 3 0.10
21 15 0.50
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (20 bp):
GATAATTTTTTTTAAAAGAT
Found at i:30413073 original size:15 final size:16
Alignment explanation
Indices: 30413045--30413077 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
30413035 TTAATCTCAC
30413045 TATTATAATATTATCA
1 TATTATAATATTATCA
*
30413061 TATT-TAATTTTATCA
1 TATTATAATATTATCA
30413076 TA
1 TA
30413078 ATAATCTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTATAATATTATCA
Found at i:30435222 original size:3 final size:3
Alignment explanation
Indices: 30435214--30435250 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
30435204 GCCTATACGT
30435214 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30435251 GTTTATTGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:30435589 original size:32 final size:29
Alignment explanation
Indices: 30435525--30435602 Score: 86
Period size: 32 Copynumber: 2.6 Consensus size: 29
30435515 ATTGAGGGTC
*
30435525 TAATTAAAATTTTTAAATTTTTGTGAGAT
1 TAATTAAAATTTTCAAATTTTTGTGAGAT
* *
30435554 TAATGT-GAATTTTCAAATATTTTAAGTGAGCT
1 TAAT-TAAAATTTTCAAAT-TTTT--GTGAGAT
30435586 TAATTAAAATTTTCAAA
1 TAATTAAAATTTTCAAA
30435603 AAAATTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
29 14 0.35
30 5 0.12
31 1 0.03
32 20 0.50
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (29 bp):
TAATTAAAATTTTCAAATTTTTGTGAGAT
Found at i:30438603 original size:14 final size:13
Alignment explanation
Indices: 30438571--30438609 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
30438561 TATGTGTTTA
*
30438571 ATTTTTCATTAAT
1 ATTTTTAATTAAT
30438584 -TTTTTAATATAAT
1 ATTTTTAAT-TAAT
30438597 ATTTTTAATTAAT
1 ATTTTTAATTAAT
30438610 GTAATTAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 7 0.30
13 8 0.35
14 8 0.35
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTTTAATTAAT
Found at i:30438960 original size:15 final size:17
Alignment explanation
Indices: 30438932--30438977 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
30438922 AAAATTGATA
30438932 TAAACA-AAATAAAT-AT
1 TAAACATAAA-AAATAAT
*
30438948 TTAAC-TAAAAAATAAT
1 TAAACATAAAAAATAAT
30438964 TAAACATAAAAAAT
1 TAAACATAAAAAAT
30438978 TTGGAACTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 4 0.16
16 13 0.52
17 8 0.32
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAACATAAAAAATAAT
Found at i:30446250 original size:25 final size:25
Alignment explanation
Indices: 30446216--30446265 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
30446206 TTATTCTTCA
30446216 GTTTGCAGATAAATCAACTAAAAAG
1 GTTTGCAGATAAATCAACTAAAAAG
30446241 GTTTGCAGATAAATCAACTAAAAAG
1 GTTTGCAGATAAATCAACTAAAAAG
30446266 CAGGAGGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (25 bp):
GTTTGCAGATAAATCAACTAAAAAG
Found at i:30455824 original size:19 final size:20
Alignment explanation
Indices: 30455792--30455833 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
30455782 GGAAAAAAAT
30455792 ATTTGAGATGGCTAGGAAGA
1 ATTTGAGATGGCTAGGAAGA
*
30455812 ATTT-AGATTGCTAGGAAGA
1 ATTTGAGATGGCTAGGAAGA
30455831 ATT
1 ATT
30455834 CTAAAAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.31
Consensus pattern (20 bp):
ATTTGAGATGGCTAGGAAGA
Found at i:30456095 original size:8 final size:8
Alignment explanation
Indices: 30456082--30456111 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
30456072 AAAACAATCG
30456082 TCAATAAA
1 TCAATAAA
*
30456090 TCAATATA
1 TCAATAAA
30456098 TCAATAAA
1 TCAATAAA
30456106 TCAATA
1 TCAATA
30456112 TACATAATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (8 bp):
TCAATAAA
Found at i:30456103 original size:16 final size:16
Alignment explanation
Indices: 30456082--30456113 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
30456072 AAAACAATCG
30456082 TCAATAAATCAATATA
1 TCAATAAATCAATATA
30456098 TCAATAAATCAATATA
1 TCAATAAATCAATATA
30456114 CATAATGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (16 bp):
TCAATAAATCAATATA
Found at i:30456811 original size:19 final size:20
Alignment explanation
Indices: 30456779--30456821 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
30456769 GGAAGATAAT
30456779 ATTTGGGATGGTTAGAAAGA
1 ATTTGGGATGGTTAGAAAGA
*
30456799 ATTT-GGATTGTTAGAAAGA
1 ATTTGGGATGGTTAGAAAGA
30456818 ATTT
1 ATTT
30456822 TAAAAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.28, T:0.37
Consensus pattern (20 bp):
ATTTGGGATGGTTAGAAAGA
Found at i:30457326 original size:965 final size:970
Alignment explanation
Indices: 30455428--30457370 Score: 2791
Period size: 965 Copynumber: 2.0 Consensus size: 970
30455418 TAATTGTGGC
*
30455428 TTTAAAATGTCTTAATTATCCATCTTAGGACTTTCAAATTGTGTAAGAGTTTGAACATAAGCCAT
1 TTTAAAATGTCTTAATTATCCATCTTAGGACTTTCAAATTGTGTAAGAGTTTGAACATAAACCAT
* * * *
30455493 CTAGTGTTTATGCAAGTTTATATGGAAATTCCAGCGATACCATGCTGCCTTTGTTCACATTAAGT
66 CTAGTGCTAATGCAAGTTTATAAGGAAATTCAAGCGATACCATGCTGCCTTTGTTCACATTAAGT
* *
30455558 ATGGAAGTAACATAGTATTCTTTTTTAGGACATATACTCTGTAGATGCTGATGGTGCTCTTTTCG
131 ATGGAAGTAACATAGTATTCTTTTTTAGGACATATACTATGTAGATGCAGATGGTGCTCTTTTCG
* * * * *
30455623 ACACTGCATTACTCTCAGTAGTTTCTGTCTTTTCTCATTGTAAGCGTTTCTCTCATTTTTATCAA
196 ACACTACATTACTCTCAGTAGTTGCTGCCTTTTCTCATTGTAAGCGCTTCTCTCATTTTCATCAA
* *
30455688 ATATTGTAACATCAATTCACCATGCCACTAAATATGATAATACTTGTCGAAAACAACCAACCTCT
261 ATATTGTAACACCAATTCACCATGCCACTAAATATGATAATACTTGCCGAAAACAACCAACCTCT
* *
30455753 TCCGTGAGAAAGAAGATTGACAATCAGAGGGAAAAAAATATTTGAGATGGCTAGGAAGAATTTAG
326 TCCATGAGAAAGAAGATTGACAATCAGAGGGAAAAAAATATTTGAGATGGCTAGAAAGAATTTAG
* *
30455818 ATTGCTAGGAAGAATTCTAAAAAAAGGACAAGACATTAAAGCTTCTTCATATAGTTTGGCATGAC
391 ATTGCTAGAAAGAATTCTAAAAAAAGGACAAGACATTAAAACTTCTTCATATAGTTTGGCATGAC
30455883 AAATCCATTTCATCTTACTTTAAATACTTATAAAAATGTTCTCTCAATTTTGCATTCAATTAAAT
456 AAATCCATTTCATCTTACTTTAAATACTTATAAAAATGTTCTCTCAATTTTGCATTCAATTAAAT
*
30455948 TTTGGCATGATAGTTTGGCATCTTAATTTTACATTCAATCTAAATTTGTTTGGCAGGGCAGTTTG
521 TTTGGCATGATAGTTTGGAATCTTAATTTTACATTCAATCTAAATTTGTTTGGCA--G-AG-TTG
* * * *
30456013 GCATTTTGGCATGATAATCTCCAACACAAAGTCTAAATAAACCTTATCTCAAGCAATGTAAAACA
582 GCAGTTTGGCATGACAATCTCCAACACAAAGTCTAAATAAACCCTATCTCAAGCAATGCAAAACA
30456078 ATCGTCAATAAATCAATATATCAATAAATCAATATACATAATGGAGGAGAAACCAGGGGTGTTGA
647 A-C-TC----AATC-A-ATATC-A-AAATCAATATACATAATGGAGGAGAAACCAGGGGTGTTGA
* ** *
30456143 TGTTCTGTTTACTGTTGGGGATCCGTGTTAGTCCCCTACGTCAAGATGTTACAGCACTCGTCCCA
702 TGTTCTATTTACTGTCAGGGATCCATGTTAGTCCCCTACGTCAAGATGTTACAGCACTCGTCCCA
*
30456208 ATTGGGTTAAAGTATACGTTTTGCTTAACTACTTGCGTCACCAACGAAACTTCCCTTAAAGATTG
767 ATTGGGTTAAAGTATACATTTTGCTTAACTACTTGCGTCACCAACGAAACTTCCCTTAAAGATTG
* * * * *
30456273 TATTCAATATTGCCTGGTGTCGGAAGCACTAGTGGAGACTCTGGAGGAAATCTACCTCACGAGTA
832 TATTCAATATTGCCTGGTGACGGAAGCACTAGTGGAGACTCTAGAGGAAACCCACCTCACGAGCA
* * * *
30456338 GCTTTAGATTTTGCATAGTTGGGTGTGCCACCATGACATTTTCGAGGCTAAACAGCCAAGGGAGG
897 GCTTTAGATTTTGCATAGTTGGGTGTGCCACCACGACATGTTCAAGGCTAAACAGCCAAAGGAGG
30456403 ACTCTTGGT
962 ACTCTTGGT
** *
30456412 TTTAAAATGTCTTAATTATCTGTCTTAGGACTTTCAACTTGTGTAAGAGTTTGAACATAAACCAT
1 TTTAAAATGTCTTAATTATCCATCTTAGGACTTTCAAATTGTGTAAGAGTTTGAACATAAACCAT
* * * * *
30456477 CTAGTGCTAATGCAA-TTTGATAAGGAAATTCAAGTGATACTATGGTGCCTTTGTTCTCATTGAG
66 CTAGTGCTAATGCAAGTTT-ATAAGGAAATTCAAGCGATACCATGCTGCCTTTGTTCACATTAAG
* *
30456541 TATTGAAGTAACATAGTATTCTGTTTTTTCAGGACATATACTATGTAGATGCAGATGGTGTTCTT
130 TATGGAAGTAACATAGTATTC--TTTTTT-AGGACATATACTATGTAGATGCAGATGGTGCTCTT
* * * *
30456606 TTTGGCACTACATTACTCTCAGTTGTTGCTGCCTTTTCTCATTGTTAGCGCTTCTCTCATTTTCA
192 TTCGACACTACATTACTCTCAGTAGTTGCTGCCTTTTCTCATTGTAAGCGCTTCTCTCATTTTCA
30456671 TCAAATATTGTAACACCAATTCACCATGCCACTAAATATGATAATACTTGCCGAAAACAACCAAC
257 TCAAATATTGTAACACCAATTCACCATGCCACTAAATATGATAATACTTGCCGAAAACAACCAAC
* * * * *
30456736 CTCTTCCATGATAAAGAAGATTGACAATCAGAGGGAAGATAATATTTGGGATGGTTAGAAAGAAT
322 CTCTTCCATGAGAAAGAAGATTGACAATCAGAGGGAAAAAAATATTTGAGATGGCTAGAAAGAAT
* * * *
30456801 TTGGATTGTTAGAAAGAATTTTAAAAAAAAGGACAAGACATTAAAACATT-TTCAATGTAGTTTG
387 TTAGATTGCTAGAAAGAATTCT-AAAAAAAGGACAAGACATTAAAAC-TTCTTC-ATATAGTTTG
* * *
30456865 GCATGACAAATCCATTTCATCTTACTTTAATTACTTATAAAAATGTTCTTTTAATTTTGCATTCA
449 GCATGACAAATCCATTTCATCTTACTTTAAATACTTATAAAAATGTTCTCTCAATTTTGCATTCA
* *
30456930 ATTAAATTTTGGCATGATAGTTTGGAATCTTAATTTTACATTCAATGTAATTTTGTTTGG-A-AG
514 ATTAAATTTTGGCATGATAGTTTGGAATCTTAATTTTACATTCAATCTAAATTTGTTTGGCAGAG
* *
30456993 -T-GCAGTTTGGCATGACAATCTCCCACAC-AAGTTCTATATAAACCCTATCTCAAGCAATGCAA
579 TTGGCAGTTTGGCATGACAATCTCCAACACAAAG-TCTAAATAAACCCTATCTCAAGCAATGCAA
* *
30457055 AACAA-TC-ATC-A-A-C-AAATCAATATACATAATGGGGGAGAAATCAGGGGTGTTGATGTTCT
643 AACAACTCAATCAATATCAAAATCAATATACATAATGGAGGAGAAACCAGGGGTGTTGATGTTCT
** * *
30457114 ATTTGGTGTCAGGGATCCATGTTAGTCCCAC-AGGTCAAGATGTTACAGCATTCGTCCCAATTGG
708 ATTTACTGTCAGGGATCCATGTTAGTCCC-CTACGTCAAGATGTTACAGCACTCGTCCCAATTGG
* * * * * * *
30457178 GTTAAGGTATACATTTTGCTTAACTACTTGTGTCGCCAATGGAACTTCCCTTGAGGATTGTATTC
772 GTTAAAGTATACATTTTGCTTAACTACTTGCGTCACCAACGAAACTTCCCTTAAAGATTGTATTC
30457243 AATATTGCCTGG-GACAGGAAGCACTAGTGGAGACTCTAGAGGAAACCCACCTCACGAGCAGCTT
837 AATATTGCCTGGTGAC-GGAAGCACTAGTGGAGACTCTAGAGGAAACCCACCTCACGAGCAGCTT
* * * * * *
30457307 TGGGTTTTGTATAGTTGGGTGTGCCACCACGACGTGTTCAAGGCTAAGCAGCCAAATGAGGACT
901 TAGATTTTGCATAGTTGGGTGTGCCACCACGACATGTTCAAGGCTAAACAGCCAAAGGAGGACT
30457371 GATAGTTTTT
Statistics
Matches: 863, Mismatches: 86, Indels: 39
0.87 0.09 0.04
Matches are distributed among these distances:
964 2 0.00
965 265 0.31
966 1 0.00
968 1 0.00
969 1 0.00
970 1 0.00
973 3 0.00
978 2 0.00
980 3 0.00
981 56 0.06
982 1 0.00
983 3 0.00
984 134 0.16
986 6 0.01
987 227 0.26
988 27 0.03
989 130 0.15
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (970 bp):
TTTAAAATGTCTTAATTATCCATCTTAGGACTTTCAAATTGTGTAAGAGTTTGAACATAAACCAT
CTAGTGCTAATGCAAGTTTATAAGGAAATTCAAGCGATACCATGCTGCCTTTGTTCACATTAAGT
ATGGAAGTAACATAGTATTCTTTTTTAGGACATATACTATGTAGATGCAGATGGTGCTCTTTTCG
ACACTACATTACTCTCAGTAGTTGCTGCCTTTTCTCATTGTAAGCGCTTCTCTCATTTTCATCAA
ATATTGTAACACCAATTCACCATGCCACTAAATATGATAATACTTGCCGAAAACAACCAACCTCT
TCCATGAGAAAGAAGATTGACAATCAGAGGGAAAAAAATATTTGAGATGGCTAGAAAGAATTTAG
ATTGCTAGAAAGAATTCTAAAAAAAGGACAAGACATTAAAACTTCTTCATATAGTTTGGCATGAC
AAATCCATTTCATCTTACTTTAAATACTTATAAAAATGTTCTCTCAATTTTGCATTCAATTAAAT
TTTGGCATGATAGTTTGGAATCTTAATTTTACATTCAATCTAAATTTGTTTGGCAGAGTTGGCAG
TTTGGCATGACAATCTCCAACACAAAGTCTAAATAAACCCTATCTCAAGCAATGCAAAACAACTC
AATCAATATCAAAATCAATATACATAATGGAGGAGAAACCAGGGGTGTTGATGTTCTATTTACTG
TCAGGGATCCATGTTAGTCCCCTACGTCAAGATGTTACAGCACTCGTCCCAATTGGGTTAAAGTA
TACATTTTGCTTAACTACTTGCGTCACCAACGAAACTTCCCTTAAAGATTGTATTCAATATTGCC
TGGTGACGGAAGCACTAGTGGAGACTCTAGAGGAAACCCACCTCACGAGCAGCTTTAGATTTTGC
ATAGTTGGGTGTGCCACCACGACATGTTCAAGGCTAAACAGCCAAAGGAGGACTCTTGGT
Found at i:30457591 original size:45 final size:45
Alignment explanation
Indices: 30457540--30457630 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
30457530 ATGAAATTAT
* *
30457540 AATAAAATGCCTTGAATTACATTTAGCCTGAATGAAGAAAACATA
1 AATAAAAGGCCTTGAACTACATTTAGCCTGAATGAAGAAAACATA
30457585 AATAAAAGGCCTTGAACTACATTTAGCCTGAATGAAGAAAACATA
1 AATAAAAGGCCTTGAACTACATTTAGCCTGAATGAAGAAAACATA
30457630 A
1 A
30457631 TTGGGTTGCT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.24
Consensus pattern (45 bp):
AATAAAAGGCCTTGAACTACATTTAGCCTGAATGAAGAAAACATA
Found at i:30458869 original size:19 final size:20
Alignment explanation
Indices: 30458837--30458878 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
30458827 GTAAAAGAAT
*
30458837 ATTTGGGATGGTTATAAAGA
1 ATTTGGGATGGTTAGAAAGA
*
30458857 ATTT-GGATTGTTAGAAAGA
1 ATTTGGGATGGTTAGAAAGA
30458876 ATT
1 ATT
30458879 CTAAAAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (20 bp):
ATTTGGGATGGTTAGAAAGA
Found at i:30463478 original size:46 final size:46
Alignment explanation
Indices: 30463422--30463597 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
30463412 TGGTTGAGCA
*
30463422 TCCGAACTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
30463468 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
30463513 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30463561 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCTCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30463598 GCGGGTTTCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30463578 original size:93 final size:93
Alignment explanation
Indices: 30463419--30463589 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
30463409 GGATGGTTGA
* **
30463419 GCATCCGAACTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30463484 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
30463512 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30463577 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
30463590 TCTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30473794 original size:30 final size:30
Alignment explanation
Indices: 30473758--30473818 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
30473748 ATTTTATTGT
* *
30473758 TAATTTTTTTATTATTTTAAAGACATTTGC
1 TAATTTTGTTACTATTTTAAAGACATTTGC
* *
30473788 TAATTTTGTTACTATTTTAGAGGCATTTGC
1 TAATTTTGTTACTATTTTAAAGACATTTGC
30473818 T
1 T
30473819 TGTTAAATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.54
Consensus pattern (30 bp):
TAATTTTGTTACTATTTTAAAGACATTTGC
Found at i:30474932 original size:16 final size:17
Alignment explanation
Indices: 30474913--30474955 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
30474903 ATTTAAAAAC
*
30474913 TTTTATTTTT-AGTATA
1 TTTTATTTTTAAATATA
*
30474929 TTTTATCTTTTAAATATT
1 TTTTAT-TTTTAAATATA
30474947 TTTTATTTT
1 TTTTATTTT
30474956 GATTCATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 6 0.26
17 7 0.30
18 10 0.43
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (17 bp):
TTTTATTTTTAAATATA
Found at i:30475355 original size:42 final size:42
Alignment explanation
Indices: 30475296--30475384 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
30475286 TTTTTTGTGC
*
30475296 ATAAAAAGTCCTAATTAGCTATTTTGTAGGAATGTCATCCGT
1 ATAAAAAGTCCTAATTAGCTATTTTCTAGGAATGTCATCCGT
* *
30475338 ATAAAAAGTCTTAATTAGCTATTTTCTAGGAATGTCATTCGT
1 ATAAAAAGTCCTAATTAGCTATTTTCTAGGAATGTCATCCGT
30475380 ATAAA
1 ATAAA
30475385 GTTTGAACAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (42 bp):
ATAAAAAGTCCTAATTAGCTATTTTCTAGGAATGTCATCCGT
Found at i:30486638 original size:16 final size:15
Alignment explanation
Indices: 30486600--30486641 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
30486590 GTATTGCCTC
30486600 TATTTCTTTT-ATTTA
1 TATTT-TTTTAATTTA
*
30486615 TATCTTTTTAATTATA
1 TATTTTTTTAATT-TA
30486631 TATTTTTTTAA
1 TATTTTTTTAA
30486642 GTTTTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 4 0.17
15 7 0.30
16 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTTTTAATTTA
Found at i:30489130 original size:20 final size:20
Alignment explanation
Indices: 30489105--30489142 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
30489095 ATAAAATTTG
30489105 AAAAAAACGAATCAATTCAA
1 AAAAAAACGAATCAATTCAA
*
30489125 AAAAAAATGAATCAATTC
1 AAAAAAACGAATCAATTC
30489143 GTTCTCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.63, C:0.13, G:0.05, T:0.18
Consensus pattern (20 bp):
AAAAAAACGAATCAATTCAA
Found at i:30489805 original size:21 final size:21
Alignment explanation
Indices: 30489771--30489817 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
30489761 CATGTTAATA
30489771 TATTTTTATCATGTTTT-TAT
1 TATTTTTATCATGTTTTGTAT
* *
30489791 TATTTTTAATTATGTTTTGTTT
1 TATTTTT-ATCATGTTTTGTAT
30489813 TATTT
1 TATTT
30489818 ATTTTATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 9 0.39
22 7 0.30
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.72
Consensus pattern (21 bp):
TATTTTTATCATGTTTTGTAT
Found at i:30490870 original size:39 final size:39
Alignment explanation
Indices: 30490826--30490918 Score: 143
Period size: 39 Copynumber: 2.4 Consensus size: 39
30490816 AGCAGTAGCA
*
30490826 GTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCT
1 GTAACAGTAACAGTATTCAACACACAAAGTGTC-GAATCG
* *
30490865 GTAACAGTAACGGTATTCGACACACAAAGTGTCGAATCG
1 GTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCG
30490904 GTAACAGTAACAGTA
1 GTAACAGTAACAGTA
30490919 ACAGTAACAG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 48 0.98
40 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (39 bp):
GTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCG
Found at i:30490915 original size:6 final size:6
Alignment explanation
Indices: 30490904--30490930 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
30490894 TGTCGAATCG
30490904 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
30490931 GTCGGCACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:30492125 original size:33 final size:32
Alignment explanation
Indices: 30492067--30492129 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 32
30492057 ATTATTTAAT
30492067 TAATAAATATCTCTTAATTATAATAATAATAAA
1 TAATAAATATCTCTTAATTATAATAA-AATAAA
30492100 TAATAAATATCTAC-TAATT-TAAATAAAATA
1 TAATAAATATCT-CTTAATTAT-AATAAAATA
30492130 TTATAATTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
32 5 0.18
33 22 0.79
34 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (32 bp):
TAATAAATATCTCTTAATTATAATAAAATAAA
Found at i:30495290 original size:21 final size:23
Alignment explanation
Indices: 30495246--30495291 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
30495236 TAAACTCTAA
*
30495246 AAAAATAAATTAAAATCCTAATT
1 AAAAATAAATTAAAATCATAATT
*
30495269 AAAAA-AAATTCAAAT-ATAATT
1 AAAAATAAATTAAAATCATAATT
30495290 AA
1 AA
30495292 GATTATGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 9 0.43
23 5 0.24
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (23 bp):
AAAAATAAATTAAAATCATAATT
Done.