Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 195 of 310
Found at i:63689407 original size:94 final size:94
Alignment explanation
Indices: 63689224--63689494 Score: 303
Period size: 94 Copynumber: 2.8 Consensus size: 94
63689214 CATGGCAGCA
* * *
63689224 TGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATTTGTGC
1 TGTGATATGTGA--TCCGTATAAGACCATAGCTGGGCTATGGCATC-G-G--ATGTGATATGTGC
* * * *
63689289 TTCCGTATAAGACCATATCCGGGATATGGCATCGG
60 TACTGTATAAGACCATATCCGGGATATGACATCAG
* * * *
63689324 TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCGG-TGTGATATGTGCTACTG
1 TGTGATATGTGAT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGATGTGATATGTGCTACTG
*
63689388 TATAAGACCATATCTGGGATATGACATCAG
65 TATAAGACCATATCCGGGATATGACATCAG
* *
63689418 TGTGATATGTGATCCGTATAAGACCATGGCTGGGCTATGGCCTCGGTATGTGATATGTGACTA-T
1 TGTGATATGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCGG-ATGTGATATGTG-CTACT
**
63689482 GTGCAAGACCATA
64 GTATAAGACCATA
63689495 ATTTTACTAT
Statistics
Matches: 147, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
93 28 0.19
94 53 0.36
95 23 0.16
96 3 0.02
97 1 0.01
98 2 0.01
99 27 0.18
100 10 0.07
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (94 bp):
TGTGATATGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCGGATGTGATATGTGCTACTGT
ATAAGACCATATCCGGGATATGACATCAG
Found at i:63692740 original size:15 final size:15
Alignment explanation
Indices: 63692692--63692760 Score: 86
Period size: 15 Copynumber: 4.6 Consensus size: 15
63692682 GTATCTTGGG
63692692 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
*
63692707 TCTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
*
63692722 TTTCTTTATTCC-GGG
1 TTTCTTTA-TCCTGGA
* *
63692737 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
63692752 TTTCTTTAT
1 TTTCTTTAT
63692761 TCGGTTTCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
14 2 0.04
15 40 0.89
16 3 0.07
ACGTcount: A:0.12, C:0.20, G:0.13, T:0.55
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:63692761 original size:30 final size:31
Alignment explanation
Indices: 63692683--63692762 Score: 101
Period size: 30 Copynumber: 2.6 Consensus size: 31
63692673 CATAGTATTG
* *
63692683 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCCTGGATCTCTC
* * *
63692713 TATCCTGGATTTCTTTATTCC-GGGTTTCTC
1 TATCTTGGATTTCTTTATTCCTGGATCTCTC
63692743 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
63692763 GGTTTCCTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 40 0.93
31 3 0.07
ACGTcount: A:0.11, C:0.20, G:0.15, T:0.54
Consensus pattern (31 bp):
TATCTTGGATTTCTTTATTCCTGGATCTCTC
Found at i:63694391 original size:150 final size:150
Alignment explanation
Indices: 63694087--63694391 Score: 490
Period size: 149 Copynumber: 2.0 Consensus size: 150
63694077 TTCTAGTATG
63694087 AAATTGTTTTGAAATATTAATTAGGAGGTATTAAATAGAAATTTTACCAATTTCTAAGTCTATGG
1 AAATTGTTTTGAAATATTAATTAGGAGGTATTAAATAGAAATTTTACCAATTTCTAAGTCTATGG
63694152 ACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTAAGGGCATTTTGGTCATTTAGG
66 ACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTAAGGGCATTTTGGTCATTTAGG
* * ** * **
63694217 GGCTAGAAGTTTCTAGTATG
131 GGCTAAAAGATTAAAATACA
*
63694237 AAATTGTTTTGAAATATTAATTAGGAGGTCTTAAATAGCAAA-TTTACCAATTTCTAAGTCT-TG
1 AAATTGTTTTGAAATATTAATTAGGAGGTATTAAATAG-AAATTTTACCAATTTCTAAGTCTATG
63694300 GACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTAAGGGCATTTTGGTCATTTAG
65 GACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTAAGGGCATTTTGGTCATTTAG
63694365 GGG-TAAAATGAATTAAAATACA
130 GGGCTAAAA-G-ATTAAAATACA
63694387 AAATT
1 AAATT
63694392 AAAAGCCAAT
Statistics
Matches: 144, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
148 4 0.03
149 71 0.49
150 66 0.46
151 3 0.02
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (150 bp):
AAATTGTTTTGAAATATTAATTAGGAGGTATTAAATAGAAATTTTACCAATTTCTAAGTCTATGG
ACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTAAGGGCATTTTGGTCATTTAGG
GGCTAAAAGATTAAAATACA
Found at i:63695365 original size:46 final size:46
Alignment explanation
Indices: 63695315--63695676 Score: 352
Period size: 46 Copynumber: 7.8 Consensus size: 46
63695305 TGTTTGGGCA
*
63695315 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* *
63695361 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--AGG
* *
63695406 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* *
63695454 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--AGG
* *
63695499 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* *
63695547 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--AGG
* * *
63695592 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * *
63695640 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
63695677 GCGGGTTACA
Statistics
Matches: 263, Mismatches: 26, Indels: 54
0.77 0.08 0.16
Matches are distributed among these distances:
42 3 0.01
43 21 0.08
44 3 0.01
45 6 0.02
46 117 0.44
47 81 0.31
48 6 0.02
49 3 0.01
50 20 0.08
51 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
Found at i:63695470 original size:93 final size:93
Alignment explanation
Indices: 63695311--63695668 Score: 662
Period size: 93 Copynumber: 3.8 Consensus size: 93
63695301 AGGATGTTTG
*
63695311 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
63695376 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
63695404 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
63695469 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
63695497 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
63695562 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
63695590 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
*
63695655 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
63695669 ACTTATGGGC
Statistics
Matches: 259, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 259 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:63697585 original size:92 final size:92
Alignment explanation
Indices: 63697469--63697689 Score: 343
Period size: 92 Copynumber: 2.4 Consensus size: 92
63697459 TTTGACATGG
* * * * *
63697469 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATAGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATAGTATCTTTCAAC
*
63697534 CATGGTCTTATCCATTTCATGTCACGT
66 CATGGTCTTATCCATTTCATATCACGT
* *
63697561 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATAGTATCTTTCAAC
* *
63697626 CATGGTCTTATTCATTTCATATCAGGT
66 CATGGTCTTATCCATTTCATATCACGT
*
63697653 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
63697690 ATATCAGAGA
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 117 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATAGTATCTTTCAAC
CATGGTCTTATCCATTTCATATCACGT
Found at i:63697689 original size:46 final size:46
Alignment explanation
Indices: 63697469--63697696 Score: 298
Period size: 46 Copynumber: 5.0 Consensus size: 46
63697459 TTTGACATGG
* * * *
63697469 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCAGGT
* *
63697515 TGCCATAGTATCTTTCAACCATGGTCTTA-TCCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATGTCAGGT
* ** *
63697561 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* *
63697607 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* *
63697653 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAG
63697697 AGAGCACACT
Statistics
Matches: 166, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
45 5 0.03
46 160 0.96
47 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
Found at i:63706100 original size:35 final size:35
Alignment explanation
Indices: 63706054--63706122 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
63706044 GTTACATAGT
63706054 ATTTCAAAGTGATTATGATCAAGAAAATTTTAGCG
1 ATTTCAAAGTGATTATGATCAAGAAAATTTTAGCG
*
63706089 ATTTCAAAGTGATTATGATCAAGCAAATTTTAGC
1 ATTTCAAAGTGATTATGATCAAGAAAATTTTAGC
63706123 AACCAATTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (35 bp):
ATTTCAAAGTGATTATGATCAAGAAAATTTTAGCG
Found at i:63709202 original size:14 final size:14
Alignment explanation
Indices: 63709183--63709218 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
63709173 ATTTGACGAT
*
63709183 TTTTTTTTAATTTA
1 TTTTTTTTAATTCA
*
63709197 TTTTTTGTAATTCA
1 TTTTTTTTAATTCA
63709211 TTTTTTTT
1 TTTTTTTT
63709219 GAAATAGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (14 bp):
TTTTTTTTAATTCA
Found at i:63732219 original size:77 final size:77
Alignment explanation
Indices: 63732092--63732244 Score: 288
Period size: 77 Copynumber: 2.0 Consensus size: 77
63732082 TGAAAAGACA
* *
63732092 GAAAACATAAGCCTGCTTTAAAAATTTTAGACTAACTTCTGATTCAAATGTTATTGCATCCCCTT
1 GAAAACATAAGCCTGCTTTAAAAATTTTAGACTAACTCCTGATTCAAATGTTATTGCACCCCCTT
63732157 GTTCAGTGAACC
66 GTTCAGTGAACC
63732169 GAAAACATAAGCCTGCTTTAAAAATTTTAGACTAACTCCTGATTCAAATGTTATTGCACCCCCTT
1 GAAAACATAAGCCTGCTTTAAAAATTTTAGACTAACTCCTGATTCAAATGTTATTGCACCCCCTT
63732234 GTTCAGTGAAC
66 GTTCAGTGAAC
63732245 TGCTCTCTAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.33
Consensus pattern (77 bp):
GAAAACATAAGCCTGCTTTAAAAATTTTAGACTAACTCCTGATTCAAATGTTATTGCACCCCCTT
GTTCAGTGAACC
Found at i:63735931 original size:18 final size:18
Alignment explanation
Indices: 63735905--63735939 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
63735895 TATTATTATT
*
63735905 TTAAATAATTTTAAAAAA
1 TTAAATAATTATAAAAAA
*
63735923 TTAATTAATTATAAAAA
1 TTAAATAATTATAAAAA
63735940 TAATTTGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAATAATTATAAAAAA
Found at i:63738046 original size:18 final size:18
Alignment explanation
Indices: 63738025--63738075 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
63738015 CTTTTACGGT
63738025 ACTATTCACGTATACGAC
1 ACTATTCACGTATACGAC
**
63738043 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGAC
*
63738061 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
63738076 AGTAGTTGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (18 bp):
ACTATTCACGTATACGAC
Found at i:63742145 original size:11 final size:11
Alignment explanation
Indices: 63742129--63742159 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
63742119 ATACCCATAC
63742129 CCCATACCTTG
1 CCCATACCTTG
*
63742140 CCCATACCTTT
1 CCCATACCTTG
63742151 CCCATACCT
1 CCCATACCT
63742160 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:63743222 original size:3 final size:3
Alignment explanation
Indices: 63743216--63743252 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
63743206 GATTGTTGTT
* *
63743216 GTG GTG GTG GTG GTG GTG GTG ATG GTG GTG ATG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG G
63743253 AGTGGAAGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.05, C:0.00, G:0.62, T:0.32
Consensus pattern (3 bp):
GTG
Found at i:63746467 original size:15 final size:15
Alignment explanation
Indices: 63746444--63746486 Score: 63
Period size: 13 Copynumber: 3.0 Consensus size: 15
63746434 ATAAGACCTG
*
63746444 GAGACTGAAAAGTTA
1 GAGAATGAAAAGTTA
63746459 GAGAATG--AAGTTA
1 GAGAATGAAAAGTTA
63746472 GAGAATGAAAAGTTA
1 GAGAATGAAAAGTTA
63746487 ACACTTGCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 13 0.52
15 12 0.48
ACGTcount: A:0.49, C:0.02, G:0.28, T:0.21
Consensus pattern (15 bp):
GAGAATGAAAAGTTA
Found at i:63748229 original size:25 final size:25
Alignment explanation
Indices: 63748195--63748243 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
63748185 CCTTATAAAT
**
63748195 TTTAAATTAGGAATTCTATTAGGAC
1 TTTAAATTAGGAATTAGATTAGGAC
63748220 TTTAAATTAGGAATTAGATTAGGA
1 TTTAAATTAGGAATTAGATTAGGA
63748244 TTTTCCTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (25 bp):
TTTAAATTAGGAATTAGATTAGGAC
Found at i:63748242 original size:12 final size:12
Alignment explanation
Indices: 63748196--63748243 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
63748186 CTTATAAATT
63748196 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
63748208 TTCTATTAGGACT
1 TTAAATTAGGA-A
63748221 TTAAATTAGGAA
1 TTAAATTAGGAA
*
63748233 TTAGATTAGGA
1 TTAAATTAGGA
63748244 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:63752879 original size:13 final size:13
Alignment explanation
Indices: 63752863--63752913 Score: 54
Period size: 12 Copynumber: 4.1 Consensus size: 13
63752853 TTCCTTATAA
63752863 AATTTAAATTAGG
1 AATTTAAATTAGG
63752876 AATTCT--ATTAGG
1 AATT-TAAATTAGG
*
63752888 ACTTTAAATTAGG
1 AATTTAAATTAGG
*
63752901 AA-TTAGATTAGG
1 AATTTAAATTAGG
63752913 A
1 A
63752914 TTTTCCTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 1 0.03
12 19 0.59
13 11 0.34
14 1 0.03
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (13 bp):
AATTTAAATTAGG
Found at i:63752899 original size:25 final size:25
Alignment explanation
Indices: 63752865--63752913 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
63752855 CCTTATAAAA
**
63752865 TTTAAATTAGGAATTCTATTAGGAC
1 TTTAAATTAGGAATTAGATTAGGAC
63752890 TTTAAATTAGGAATTAGATTAGGA
1 TTTAAATTAGGAATTAGATTAGGA
63752914 TTTTCCTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (25 bp):
TTTAAATTAGGAATTAGATTAGGAC
Found at i:63756046 original size:80 final size:80
Alignment explanation
Indices: 63755913--63756074 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 80
63755903 AGAAATATTT
63755913 GATATTCATGAAACCAAAAGGTTTGAAAGGTATATAATTGACAAATGTGAAAGGTAATTGGCATT
1 GATATTCATGAAACCAAAAGGTTTGAAAGGTATATAATTGACAAATGTGAAAGGTAATTGGCATT
63755978 CATTGATAGGTGAGA
66 CATTGATAGGTGAGA
*
63755993 GATATTCATGAAACCAAAAGGTTTGAAAGGTATATAATTGACTAATGTGAAAGGTAATTGGCATT
1 GATATTCATGAAACCAAAAGGTTTGAAAGGTATATAATTGACAAATGTGAAAGGTAATTGGCATT
63756058 CATTGATAGGTGAGA
66 CATTGATAGGTGAGA
63756073 GA
1 GA
63756075 AGTGAACAAG
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (80 bp):
GATATTCATGAAACCAAAAGGTTTGAAAGGTATATAATTGACAAATGTGAAAGGTAATTGGCATT
CATTGATAGGTGAGA
Found at i:63756376 original size:15 final size:15
Alignment explanation
Indices: 63756344--63756373 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
63756334 TTACCTGAAA
63756344 TATAACAAATAGATT
1 TATAACAAATAGATT
63756359 TATAA-AAATAGATT
1 TATAACAAATAGATT
63756373 T
1 T
63756374 TATTATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (15 bp):
TATAACAAATAGATT
Found at i:63767372 original size:25 final size:24
Alignment explanation
Indices: 63767344--63767390 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
63767334 TAATTTCTGG
63767344 GTTCACGATAATTTGATTTTTTCGA
1 GTTCACGATAATTTG-TTTTTTCGA
*
63767369 GTTCATGATAATTTGTTTTTTC
1 GTTCACGATAATTTGTTTTTTC
63767391 AATACGTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.21, C:0.11, G:0.15, T:0.53
Consensus pattern (24 bp):
GTTCACGATAATTTGTTTTTTCGA
Found at i:63777547 original size:45 final size:44
Alignment explanation
Indices: 63777493--63777579 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
63777483 TTATTTTTAA
63777493 ATTAGCACAATCATAAATTAAATTC-TAATTATTTTTAAATGTGTT
1 ATTAGCACAAT-ATAAATTAAA-TCATAATTATTTTTAAATGTGTT
* * **
63777538 ATTATCACAATTTCTATTAAATCATAATTATTTTTAAATGTG
1 ATTAGCACAATATAAATTAAATCATAATTATTTTTAAATGTG
63777580 AATTTAGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 2 0.05
44 25 0.68
45 10 0.27
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (44 bp):
ATTAGCACAATATAAATTAAATCATAATTATTTTTAAATGTGTT
Found at i:63779885 original size:10 final size:10
Alignment explanation
Indices: 63779866--63779895 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
63779856 TATCAAGGTG
*
63779866 TTTTTGAGTA
1 TTTTTAAGTA
63779876 TTTTTAAGTA
1 TTTTTAAGTA
63779886 TTTTTAAGTA
1 TTTTTAAGTA
63779896 CAAGATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (10 bp):
TTTTTAAGTA
Found at i:63781211 original size:31 final size:32
Alignment explanation
Indices: 63781176--63781250 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 32
63781166 AAGAAAACAT
*
63781176 TTGACA-GCTTTGGCGAATAAAAAAGCTCCAC
1 TTGACATGCTTTGGCGAATAAAAAAGCGCCAC
* ** *
63781207 TTGACATGTTTTGGTTAATGAAAAAGCGCCAC
1 TTGACATGCTTTGGCGAATAAAAAAGCGCCAC
* *
63781239 TTGGCATCCTTT
1 TTGACATGCTTT
63781251 TATAAAATAT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 6 0.17
32 29 0.83
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (32 bp):
TTGACATGCTTTGGCGAATAAAAAAGCGCCAC
Found at i:63781365 original size:16 final size:19
Alignment explanation
Indices: 63781328--63781368 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
63781318 TTTATGTTTT
63781328 TTTATAATTTATTTTCATA
1 TTTATAATTTATTTTCATA
63781347 TTTATAATTT-TTTT-A-A
1 TTTATAATTTATTTTCATA
63781363 TTTATA
1 TTTATA
63781369 TATACTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 1 0.05
18 4 0.18
19 10 0.45
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATAATTTATTTTCATA
Found at i:63783795 original size:15 final size:14
Alignment explanation
Indices: 63783762--63783791 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
63783752 CTAATACCTG
63783762 AATTAAATATTAAA
1 AATTAAATATTAAA
63783776 AATTAAATATTAAA
1 AATTAAATATTAAA
63783790 AA
1 AA
63783792 ATTATTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTAAATATTAAA
Found at i:63783799 original size:11 final size:11
Alignment explanation
Indices: 63783783--63783814 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
63783773 AAAAATTAAA
63783783 TATTAAAAAAT
1 TATTAAAAAAT
63783794 TATTAAAAAAT
1 TATTAAAAAAT
63783805 TATTAAAAAA
1 TATTAAAAAA
63783815 ATGTTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TATTAAAAAAT
Found at i:63783821 original size:11 final size:11
Alignment explanation
Indices: 63783766--63783822 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
63783756 TACCTGAATT
63783766 AAATATTAAAAA
1 AAATATT-AAAA
63783778 TTAAATATTAAAA
1 --AAATATTAAAA
*
63783791 AATTATTAAAA
1 AAATATTAAAA
*
63783802 AATTATTAAAA
1 AAATATTAAAA
*
63783813 AAATGTTAAA
1 AAATATTAAA
63783823 TTTAAGTACC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
11 29 0.73
13 4 0.10
14 7 0.17
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
AAATATTAAAA
Found at i:63785907 original size:17 final size:17
Alignment explanation
Indices: 63785885--63785918 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
63785875 ATAATGAAGA
63785885 ATCATTGAGGAGGTTAT
1 ATCATTGAGGAGGTTAT
63785902 ATCATTGAGGAGGTTAT
1 ATCATTGAGGAGGTTAT
63785919 CAGCAACAGC
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:0.29, C:0.06, G:0.29, T:0.35
Consensus pattern (17 bp):
ATCATTGAGGAGGTTAT
Found at i:63797522 original size:20 final size:21
Alignment explanation
Indices: 63797481--63797523 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
63797471 TATTAGTATG
*
63797481 ATAAAAATAATTTCTAAACAA
1 ATAAAAATAATTTCAAAACAA
63797502 ATAAAAA-AATTT-AAAATCAA
1 ATAAAAATAATTTCAAAA-CAA
63797522 AT
1 AT
63797524 CATCATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 3 0.15
20 10 0.50
21 7 0.35
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (21 bp):
ATAAAAATAATTTCAAAACAA
Found at i:63800072 original size:28 final size:25
Alignment explanation
Indices: 63800026--63800084 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 25
63800016 GTTTATAAAG
*
63800026 TTTTATAAAAGCTGTATAATATATATAT
1 TTTTATAAAAGCTGCATAA-AT-TAT-T
63800054 TTTTATAAAA-CTTGCATAAATTATT
1 TTTTATAAAAGC-TGCATAAATTATT
63800079 TTTTAT
1 TTTTAT
63800085 TTGGATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 7 0.24
26 3 0.10
27 3 0.10
28 16 0.55
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (25 bp):
TTTTATAAAAGCTGCATAAATTATT
Found at i:63804582 original size:39 final size:39
Alignment explanation
Indices: 63804538--63804813 Score: 525
Period size: 39 Copynumber: 7.1 Consensus size: 39
63804528 ATGCAAGACA
63804538 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
63804577 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
63804616 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
63804655 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
63804694 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
63804733 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
63804772 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
63804811 CTG
1 CTG
63804814 ATAATATAAT
Statistics
Matches: 233, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 233 1.00
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:63808593 original size:21 final size:21
Alignment explanation
Indices: 63808564--63808613 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
63808554 TTTTAAAAAC
*
63808564 TTTTCCTTTCTTCT-AGTTCTT
1 TTTTTCTTTCTT-TGAGTTCTT
*
63808585 TTTTTCTTT-TTTGATTTCTT
1 TTTTTCTTTCTTTGAGTTCTT
63808605 TTTTT-TTTC
1 TTTTTCTTTC
63808614 CCCACTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 4 0.16
20 13 0.52
21 8 0.32
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTTCTTTCTTTGAGTTCTT
Found at i:63816498 original size:30 final size:28
Alignment explanation
Indices: 63816425--63816534 Score: 73
Period size: 30 Copynumber: 3.8 Consensus size: 28
63816415 AAAAGTTACA
* **
63816425 TAAATTTTTTTAGGTTCTTCAAAAGTTGG
1 TAAATTTTTTTTGGCCCTT-AAAAGTTGG
* * *
63816454 TAAAAGTATATTTGGACCCTTAAAAGTTGG
1 T-AAATTTTTTTTGG-CCCTTAAAAGTTGG
**
63816484 TAAACTTTTTTTTGGCTTTTAAAAG-T--
1 TAAA-TTTTTTTTGGCCCTTAAAAGTTGG
63816510 TAAATTTTTTTTGAGCCCCTTAAAA
1 TAAATTTTTTTTG-G-CCCTTAAAA
63816535 TTAAAAAATA
Statistics
Matches: 63, Mismatches: 13, Indels: 12
0.72 0.15 0.14
Matches are distributed among these distances:
25 9 0.14
26 5 0.08
27 7 0.11
28 1 0.02
29 12 0.19
30 26 0.41
31 3 0.05
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.45
Consensus pattern (28 bp):
TAAATTTTTTTTGGCCCTTAAAAGTTGG
Found at i:63829818 original size:10 final size:10
Alignment explanation
Indices: 63829793--63829825 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
63829783 TTTAATTAAA
63829793 ATTTAAAAAT
1 ATTTAAAAAT
*
63829803 -TTTAAAAGT
1 ATTTAAAAAT
63829812 ATTTAAAAAT
1 ATTTAAAAAT
63829822 ATTT
1 ATTT
63829826 TTTATACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (10 bp):
ATTTAAAAAT
Found at i:63830045 original size:23 final size:23
Alignment explanation
Indices: 63830019--63830088 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
63830009 TTTATTTAAC
*
63830019 TTAATCGAATATGTTCACAAACA
1 TTAATCGAACATGTTCACAAACA
* *
63830042 TTAAACTAACATGTTCACAAACA
1 TTAATCGAACATGTTCACAAACA
* *
63830065 TATAATTGAACATGTTCACGAACA
1 T-TAATCGAACATGTTCACAAACA
63830089 ATGTTAATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 21 0.54
24 18 0.46
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.29
Consensus pattern (23 bp):
TTAATCGAACATGTTCACAAACA
Found at i:63830300 original size:18 final size:19
Alignment explanation
Indices: 63830277--63830318 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
63830267 ACGTATACAC
63830277 TTTTT-AAATAATTTTTA-A
1 TTTTTAAAAT-ATTTTTATA
63830295 TTTTTAAAATATTTTTATA
1 TTTTTAAAATATTTTTATA
63830314 TTTTT
1 TTTTT
63830319 TTTGTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTAAAATATTTTTATA
Found at i:63830879 original size:27 final size:28
Alignment explanation
Indices: 63830842--63830895 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
63830832 TACATTATTT
63830842 AAATTTCAGTTTTTGATA-TCTAAAATTG
1 AAATTTCAGTTTTT-ATATTCTAAAATTG
*
63830870 AAATTT-AGTTTTTATATTTTAAAATT
1 AAATTTCAGTTTTTATATTCTAAAATT
63830896 TCATATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 3 0.12
27 15 0.62
28 6 0.25
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (28 bp):
AAATTTCAGTTTTTATATTCTAAAATTG
Found at i:63831933 original size:21 final size:21
Alignment explanation
Indices: 63831907--63831947 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
63831897 TGAGTATATT
63831907 TTTTTTTTAATTTTTAGAATA
1 TTTTTTTTAATTTTTAGAATA
63831928 TTTTTTTTAATTTTTAGAAT
1 TTTTTTTTAATTTTTAGAAT
63831948 GTCATATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTTTTTAATTTTTAGAATA
Found at i:63833967 original size:20 final size:20
Alignment explanation
Indices: 63833938--63833991 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
63833928 GGGGCACATG
*
63833938 CCCGTGTGGCCTGGGACACC
1 CCCGTGTGGCCTGGAACACC
* **
63833958 CCCGTATGGCCTGGAACATG
1 CCCGTGTGGCCTGGAACACC
63833978 CCCGTGTGGCCTGG
1 CCCGTGTGGCCTGG
63833992 CCATGAGCAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.11, C:0.35, G:0.35, T:0.19
Consensus pattern (20 bp):
CCCGTGTGGCCTGGAACACC
Found at i:63841858 original size:138 final size:138
Alignment explanation
Indices: 63841600--63841873 Score: 440
Period size: 138 Copynumber: 2.0 Consensus size: 138
63841590 GACGCTACCG
* * * * *
63841600 ATGCTGATATCTCGTTAGAATTGTCTCTTTCAATGAATAAACCCCCAAGGGTTGAAGTCGGCGAA
1 ATGCCGATAGCTCGTTAGAATGGTCCCTTTCAATCAATAAACCCCCAAGGGTTGAAGTCGGCGAA
* * * *
63841665 CGTAACAATCATTATAAACTGAATATCAATGAAGCCCTTACTTTGGCAACTACGAGTGATAATTT
66 CGTAACAATCATCATAAACTGAAGATCAATGAAGCCCTTACTTTAGCAACTACGAGTGATAAGTT
63841730 TACATCCA
131 TACATCCA
* * *
63841738 ATGCCGATAGCTCGTTAGAATGGTCCCTTTCAATCAATAAACCCCCAGGGGTTGAAGTTGGTGAA
1 ATGCCGATAGCTCGTTAGAATGGTCCCTTTCAATCAATAAACCCCCAAGGGTTGAAGTCGGCGAA
63841803 CGTAACAATCATCATAAACTGAAGATCAATGAAGCCCTTACTTTAGCAACTACGAGTGATAAGTT
66 CGTAACAATCATCATAAACTGAAGATCAATGAAGCCCTTACTTTAGCAACTACGAGTGATAAGTT
63841868 TACATC
131 TACATC
63841874 GAAGAAAAGA
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
138 124 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (138 bp):
ATGCCGATAGCTCGTTAGAATGGTCCCTTTCAATCAATAAACCCCCAAGGGTTGAAGTCGGCGAA
CGTAACAATCATCATAAACTGAAGATCAATGAAGCCCTTACTTTAGCAACTACGAGTGATAAGTT
TACATCCA
Found at i:63841916 original size:138 final size:137
Alignment explanation
Indices: 63841630--63841903 Score: 304
Period size: 138 Copynumber: 2.0 Consensus size: 137
63841620 TTGTCTCTTT
* * *
63841630 CAATGAATAAACCCCCAAGGGTTGAAGTCGGCGAACGTAACAATCATTATAAACTGAATATCAAT
1 CAATAAATAAACCCCCAAGGGTTGAAGTCGGCGAACGTAACAATCATCATAAACTGAAGATCAAT
* * * * * ** *
63841695 GAAGCCCTTACTTTGGCAACTACGAGTGATAATTTTACATCCAATGCCGATAGCTCGTTAGAATG
66 GAAGCCCTTACTTTAGCAACTACGAGTGATAAGTTTACATCCAATG-CAAAAGCACGAAACAATG
*** **
63841760 GTCCCTTT
130 GAAACTGA
* * * *
63841768 CAATCAATAAACCCCCAGGGGTTGAAGTTGGTGAACGTAACAATCATCATAAACTGAAGATCAAT
1 CAATAAATAAACCCCCAAGGGTTGAAGTCGGCGAACGTAACAATCATCATAAACTGAAGATCAAT
*
63841833 GAAGCCCTTACTTTAGCAACTACGAGTGATAAGTTTACATCGAA-G-AAAAG-AC-AAACAATGG
66 GAAGCCCTTACTTTAGCAACTACGAGTGATAAGTTTACATCCAATGCAAAAGCACGAAACAAT--
63841894 GGAAACTGA
129 GGAAACTGA
63841903 C
1 C
63841904 GAATGGAAAT
Statistics
Matches: 114, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
133 4 0.04
134 1 0.01
135 8 0.07
137 1 0.01
138 100 0.88
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (137 bp):
CAATAAATAAACCCCCAAGGGTTGAAGTCGGCGAACGTAACAATCATCATAAACTGAAGATCAAT
GAAGCCCTTACTTTAGCAACTACGAGTGATAAGTTTACATCCAATGCAAAAGCACGAAACAATGG
AAACTGA
Found at i:63853684 original size:44 final size:44
Alignment explanation
Indices: 63853621--63853707 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
63853611 CGGAATTACA
63853621 TCTCTTATAGCCCAGAAATGATGCATAGCATAATATTGGATATT
1 TCTCTTATAGCCCAGAAATGATGCATAGCATAATATTGGATATT
63853665 TCTCTTATAGCCCAGAAATGATGCATAGCATAATATTGGATAT
1 TCTCTTATAGCCCAGAAATGATGCATAGCATAATATTGGATAT
63853708 CGCTAGGACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (44 bp):
TCTCTTATAGCCCAGAAATGATGCATAGCATAATATTGGATATT
Found at i:63861427 original size:18 final size:18
Alignment explanation
Indices: 63861396--63861433 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
63861386 CTTTTGGCCA
*
63861396 TCCTCATCAGCATCATTT
1 TCCTCATCAGCATCACTT
63861414 TCCTCATC-GTCATCACTT
1 TCCTCATCAG-CATCACTT
63861432 TC
1 TC
63861434 TGAATCTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.18, C:0.37, G:0.05, T:0.39
Consensus pattern (18 bp):
TCCTCATCAGCATCACTT
Found at i:63861929 original size:29 final size:29
Alignment explanation
Indices: 63861896--63861953 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
63861886 CAACTTTACG
63861896 AGCAATCTGAAAGAGAGCAACATAAGCTT
1 AGCAATCTGAAAGAGAGCAACATAAGCTT
63861925 AGCAATCTGAAAGAGAGCAACATAAGCTT
1 AGCAATCTGAAAGAGAGCAACATAAGCTT
63861954 TGTTTCTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (29 bp):
AGCAATCTGAAAGAGAGCAACATAAGCTT
Found at i:63870080 original size:212 final size:212
Alignment explanation
Indices: 63869713--63870137 Score: 805
Period size: 212 Copynumber: 2.0 Consensus size: 212
63869703 TTGAAAATAT
63869713 GGCTGCTCACTGGTGACAAGAGGGAGACTGCCATAAATATAGGGTGAGGCTTATATCACAGTTCC
1 GGCTGCTCACTGGTGACAAGAGGGAGACTGCCATAAATATAGGGTGAGGCTTATATCACAGTTCC
* *
63869778 ATATCTTTGTGTGTGTGTATATATCGCAGTTCCATATATAATTGCTATTGTATTACCCCATTTGG
66 ATATCTTTGTGTGTGTATATATATCACAGTTCCATATATAATTGCTATTGTATTACCCCATTTGG
63869843 CAGATTTGCTTGTAGCTTACTCCGTCAAGATATGAAGCAATTCCATTTGAGTTTGAGCAGAGATG
131 CAGATTTGCTTGTAGCTTACTCCGTCAAGATATGAAGCAATTCCATTTGAGTTTGAGCAGAGATG
63869908 CTGAGTCTAATAACCAA
196 CTGAGTCTAATAACCAA
63869925 GGCTGCTCACTGGTGACAAGAGGGAGACTGCCATAAATATAGGGTGAGGCTTATATCACAGTTCC
1 GGCTGCTCACTGGTGACAAGAGGGAGACTGCCATAAATATAGGGTGAGGCTTATATCACAGTTCC
* **
63869990 ATATCTTTGTGTGTGTATATATATCACAGTTCCATATATATTTGCTATTGTATTGGCCCATTTGG
66 ATATCTTTGTGTGTGTATATATATCACAGTTCCATATATAATTGCTATTGTATTACCCCATTTGG
63870055 CAGATTTGCTTGTAGCTTACTCCGTCAAGATATGAAGCAATTCCATTTGAGTTTGAGCAGAGATG
131 CAGATTTGCTTGTAGCTTACTCCGTCAAGATATGAAGCAATTCCATTTGAGTTTGAGCAGAGATG
63870120 CTGAGTCTAATAACCAA
196 CTGAGTCTAATAACCAA
63870137 G
1 G
63870138 TAAAGGTAAA
Statistics
Matches: 208, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
212 208 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (212 bp):
GGCTGCTCACTGGTGACAAGAGGGAGACTGCCATAAATATAGGGTGAGGCTTATATCACAGTTCC
ATATCTTTGTGTGTGTATATATATCACAGTTCCATATATAATTGCTATTGTATTACCCCATTTGG
CAGATTTGCTTGTAGCTTACTCCGTCAAGATATGAAGCAATTCCATTTGAGTTTGAGCAGAGATG
CTGAGTCTAATAACCAA
Found at i:63881879 original size:24 final size:23
Alignment explanation
Indices: 63881823--63881880 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
63881813 AAAATCTAGC
* * *
63881823 TAATATCATTATATTTTTAGAGA
1 TAATATTATTATAATTTTAAAGA
*
63881846 TAAAATTTATTAATAATTTTAAAGA
1 TAATA-TTATT-ATAATTTTAAAGA
63881871 TAATATTATT
1 TAATATTATT
63881881 GAGAGAGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 4 0.14
24 9 0.32
25 15 0.54
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (23 bp):
TAATATTATTATAATTTTAAAGA
Found at i:63883268 original size:28 final size:28
Alignment explanation
Indices: 63883228--63883281 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
63883218 GGTCCAGTTC
*
63883228 AAACATTCTTAGATAATTGTGGTTGTCG
1 AAACATTCTTAGATAATTGCGGTTGTCG
63883256 AAACATTCTTAGATAATTGCGGTTGT
1 AAACATTCTTAGATAATTGCGGTTGT
63883282 TGATGAACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (28 bp):
AAACATTCTTAGATAATTGCGGTTGTCG
Found at i:63885630 original size:1 final size:1
Alignment explanation
Indices: 63885624--63885651 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
63885614 AACAGAAGGG
63885624 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
63885652 AAAATAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:63893557 original size:51 final size:51
Alignment explanation
Indices: 63893475--63893635 Score: 182
Period size: 51 Copynumber: 3.1 Consensus size: 51
63893465 GGATACAATA
* * * *
63893475 TTTTCAACTTGAGAGCATGATATTCATTTATTTGAGCAAAGAATCCACC-TT
1 TTTTCAACTTGAGAGCAAGTTATCCATTTATTTGTGCAAA-AATCCACCTTT
* *
63893526 TTTTCAACTTGAGAGCAAGTTGTCCAATTATTTGTGCAAAAATTCCACCTTTTT
1 TTTTCAACTTGAGAGCAAGTTATCCATTTATTTGTGCAAAAA-TCCACC--TTT
* *
63893580 TTTTCAATTTGAGAGCAAGTTTTCCATTTATTTGTGCAAAAAATCCA-CTATT
1 TTTTCAACTTGAGAGCAAGTTATCCATTTATTTGTGC-AAAAATCCACCT-TT
63893632 TTTT
1 TTTT
63893636 GTTTCAACAA
Statistics
Matches: 95, Mismatches: 9, Indels: 11
0.83 0.08 0.10
Matches are distributed among these distances:
50 2 0.02
51 41 0.43
52 6 0.06
53 1 0.01
54 40 0.42
55 5 0.05
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (51 bp):
TTTTCAACTTGAGAGCAAGTTATCCATTTATTTGTGCAAAAATCCACCTTT
Found at i:63893611 original size:54 final size:53
Alignment explanation
Indices: 63893475--63893643 Score: 193
Period size: 54 Copynumber: 3.2 Consensus size: 53
63893465 GGATACAATA
* * *
63893475 TTTTCAACTTGAGAGCATGATATT-CATTTATTTGAGCAAAGAATCCACC---TT
1 TTTTCAACTTGAGAGCAAG-TTTTCCATTTATTTGTGCAAA-AATCCACCTTTTT
* *
63893526 TTTTCAACTTGAGAGCAAGTTGTCCAATTATTTGTGCAAAAATTCCACCTTTTT
1 TTTTCAACTTGAGAGCAAGTTTTCCATTTATTTGTGCAAAAA-TCCACCTTTTT
* *
63893580 TTTTCAATTTGAGAGCAAGTTTTCCATTTATTTGTGCAAAAAATCCACTATTTTT
1 TTTTCAACTTGAGAGCAAGTTTTCCATTTATTTGTGC-AAAAATCCAC-CTTTTT
63893635 TGTTTCAAC
1 T-TTTCAAC
63893644 AAGGAAAAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
50 4 0.04
51 38 0.38
54 41 0.41
55 11 0.11
56 6 0.06
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (53 bp):
TTTTCAACTTGAGAGCAAGTTTTCCATTTATTTGTGCAAAAATCCACCTTTTT
Found at i:63910784 original size:23 final size:22
Alignment explanation
Indices: 63910731--63910785 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
63910721 GGGCACCCCG
* *
63910731 TCTA-AATATAGAATTATTTTT
1 TCTATAATTTAGAATTATTTTA
*
63910752 TCTATAATTTAGATTTATTTTA
1 TCTATAATTTAGAATTATTTTA
63910774 TCATATAATTTA
1 TC-TATAATTTA
63910786 TTAAAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 4 0.14
22 16 0.55
23 9 0.31
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (22 bp):
TCTATAATTTAGAATTATTTTA
Found at i:63911137 original size:16 final size:15
Alignment explanation
Indices: 63911101--63911139 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
63911091 TTACTGCATT
*
63911101 TTATTTTTAAAATAA
1 TTATTATTAAAATAA
63911116 TATATTATTAAAATAAA
1 T-TATTATTAAAAT-AA
63911133 TTATTAT
1 TTATTAT
63911140 AATTATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 17 0.81
17 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTATTATTAAAATAA
Found at i:63912042 original size:23 final size:24
Alignment explanation
Indices: 63912009--63912054 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
63911999 TCGAAGCAAT
*
63912009 CCAAACTATTTAA-AATAATTCAA
1 CCAAACAATTTAACAATAATTCAA
63912032 CCAAACAATTTAACAATAATTCA
1 CCAAACAATTTAACAATAATTCA
63912055 TAATAATCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (24 bp):
CCAAACAATTTAACAATAATTCAA
Found at i:63913711 original size:22 final size:22
Alignment explanation
Indices: 63913686--63913727 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
63913676 TAGTCATATA
63913686 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
63913708 ATAATTTATTATTTTAATAA
1 ATAAATTATTAATATAATAA
63913728 TTATTTAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:63913773 original size:16 final size:16
Alignment explanation
Indices: 63913751--63913787 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
63913741 CAATTTATTT
63913751 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
63913768 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
63913783 TAATA
1 TAATA
63913788 CTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:63914354 original size:14 final size:13
Alignment explanation
Indices: 63914335--63914375 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
63914325 TCAGAAAAGT
63914335 AAATCATTTTCTAG
1 AAATCATTTTC-AG
*
63914349 AAATCATTTTCCG
1 AAATCATTTTCAG
63914362 AAAGTCATTTTCAG
1 AAA-TCATTTTCAG
63914376 TGAAACAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (13 bp):
AAATCATTTTCAG
Found at i:63915631 original size:13 final size:13
Alignment explanation
Indices: 63915599--63915630 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
63915589 ATATAAAAAA
63915599 TTATTTTAATTTT
1 TTATTTTAATTTT
63915612 TTATTTTAA-TTT
1 TTATTTTAATTTT
63915624 TTATTTT
1 TTATTTT
63915631 TTTTAGTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTATTTTAATTTT
Found at i:63919797 original size:18 final size:19
Alignment explanation
Indices: 63919758--63919798 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
63919748 ATTATTTGAA
*
63919758 TATTGTATAATTCTTATTT
1 TATTGTATAATTCTTATAT
63919777 TATTGT-TAATT-TTACTAT
1 TATTGTATAATTCTTA-TAT
63919795 TATT
1 TATT
63919799 TTAGAGACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.15
18 11 0.55
19 6 0.30
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (19 bp):
TATTGTATAATTCTTATAT
Found at i:63928825 original size:54 final size:54
Alignment explanation
Indices: 63928757--63928864 Score: 173
Period size: 54 Copynumber: 2.0 Consensus size: 54
63928747 CTAAGTTGTT
* *
63928757 GGGCTTGGTGTGTGGAGGAGATGGGAAAGAGGTGGTTGCTGC-CACGGGCGGCGG
1 GGGCTTGGTATGTGGAGGAGATGGGAAAAAGGTGGTTGCTGCAC-CGGGCGGCGG
*
63928811 GGGCTTGGTATGTGGAGGAGATGGGAAAAAGGTGGTTGGTGCACCGGGCGGCGG
1 GGGCTTGGTATGTGGAGGAGATGGGAAAAAGGTGGTTGCTGCACCGGGCGGCGG
63928865 AGCTGGAACA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
54 49 0.98
55 1 0.02
ACGTcount: A:0.17, C:0.12, G:0.53, T:0.19
Consensus pattern (54 bp):
GGGCTTGGTATGTGGAGGAGATGGGAAAAAGGTGGTTGCTGCACCGGGCGGCGG
Found at i:63929625 original size:195 final size:195
Alignment explanation
Indices: 63929293--63929683 Score: 710
Period size: 195 Copynumber: 2.0 Consensus size: 195
63929283 GTAAAAGCAG
*
63929293 CAGACAAAGTGGTGGACATGCCGGAGTGGTTATCGGGCATGACTAGAAATCATGTGGGCTCTGCC
1 CAGACAAAGTGGTGGACATGCCGGAGTGGTTATCGGGCATGACAAGAAATCATGTGGGCTCTGCC
*
63929358 CGCGCAGGTTCGAATCCTGCCGTTCACGAATGATATTTCTTTTTATTGCTTTGCTGTTGCCTTTG
66 CGCGCAGGTTCGAATCCTGCCGTTCACGAATGATATTTCTTTTTATTGCTTTGCTGTTGCCTGTG
* *
63929423 GCTGCAACTGCAACCATTATCTTTGTGACCGAGGATAACGGCCTAGTGCTTGAGCAGCCATTGTT
131 GCTGCAACTGCAACCATTATCTTTGTGACCGAGGAAAACGGCCTAGTGCTTGAGCAGCCATCGTT
*
63929488 CAGACAAAGTGGTGGACGTGCCGGAGTGGTTATCGGGCATGACAAGAAATCATGTGGGCTCTGCC
1 CAGACAAAGTGGTGGACATGCCGGAGTGGTTATCGGGCATGACAAGAAATCATGTGGGCTCTGCC
* *
63929553 CGCGCAGGTTTGAATCCTGCCGTTCACGAATGATATTTCTTTTTATTGCTTTGCTGTTTCCTGTG
66 CGCGCAGGTTCGAATCCTGCCGTTCACGAATGATATTTCTTTTTATTGCTTTGCTGTTGCCTGTG
*
63929618 GCTGCAACTGCAACCATTATCTTTGTGACTGAGGAAAACGGCCTAGTGCTTGAGCAGCCATCGTT
131 GCTGCAACTGCAACCATTATCTTTGTGACCGAGGAAAACGGCCTAGTGCTTGAGCAGCCATCGTT
63929683 C
1 C
63929684 TTGTTTCTCT
Statistics
Matches: 188, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
195 188 1.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.30
Consensus pattern (195 bp):
CAGACAAAGTGGTGGACATGCCGGAGTGGTTATCGGGCATGACAAGAAATCATGTGGGCTCTGCC
CGCGCAGGTTCGAATCCTGCCGTTCACGAATGATATTTCTTTTTATTGCTTTGCTGTTGCCTGTG
GCTGCAACTGCAACCATTATCTTTGTGACCGAGGAAAACGGCCTAGTGCTTGAGCAGCCATCGTT
Found at i:63932925 original size:12 final size:11
Alignment explanation
Indices: 63932887--63932924 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
63932877 ATATGAATGC
63932887 AAAAAAAA-AA
1 AAAAAAAAGAA
63932897 AAAAAAAAGAA
1 AAAAAAAAGAA
*
63932908 AGAAAGAAAGAA
1 A-AAAAAAAGAA
63932920 AAAAA
1 AAAAA
63932925 GGCATTAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 8 0.33
11 6 0.25
12 10 0.42
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:63934474 original size:19 final size:19
Alignment explanation
Indices: 63934428--63934475 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
63934418 GTATATATTT
*
63934428 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGCAGA
*
63934446 TAAATCTTATTTAGGCAGA
1 TAAATTTTATTTAGGCAGA
63934465 TAAATTTTATT
1 TAAATTTTATT
63934476 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (19 bp):
TAAATTTTATTTAGGCAGA
Found at i:63934558 original size:42 final size:42
Alignment explanation
Indices: 63934499--63934582 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
63934489 TATTTTTATT
*
63934499 TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAACTATTTTTCC
*
63934541 TTATGTTTTAGTAGTTTATTAGAATAAGAGAACTATTTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAACTATTTTTCC
63934583 ATTTAGGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (42 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGAGAACTATTTTTCC
Found at i:63936969 original size:54 final size:54
Alignment explanation
Indices: 63936887--63936996 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
63936877 GAGGGTGTTG
*
63936887 AAATATGTATATATTTTAAATTTATTTAGGTAGATAAATCTTCTTTAGGAAGAT
1 AAATATGTATATATTTTAAATTTATTTAGGTAGATAAATCTTATTTAGGAAGAT
63936941 AAATATGTATATATTTTAAATTTATTTAGGTAGATAAATCTTATTTAGGAAGAT
1 AAATATGTATATATTTTAAATTTATTTAGGTAGATAAATCTTATTTAGGAAGAT
63936995 AA
1 AA
63936997 GTTTTATTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.44
Consensus pattern (54 bp):
AAATATGTATATATTTTAAATTTATTTAGGTAGATAAATCTTATTTAGGAAGAT
Found at i:63936986 original size:19 final size:18
Alignment explanation
Indices: 63936903--63936996 Score: 77
Period size: 19 Copynumber: 5.2 Consensus size: 18
63936893 GTATATATTT
63936903 TAAATTTATTTAGGTAGA
1 TAAATTTATTTAGGTAGA
* *
63936921 TAAATCTTCTTTAGGAAGA
1 TAAAT-TTATTTAGGTAGA
* **
63936940 TAAATATGTATATA--T-TT
1 TAAAT-T-TATTTAGGTAGA
63936957 TAAATTTATTTAGGTAGA
1 TAAATTTATTTAGGTAGA
*
63936975 TAAATCTTATTTAGGAAGA
1 TAAAT-TTATTTAGGTAGA
63936994 TAA
1 TAA
63936997 GTTTTATTCA
Statistics
Matches: 58, Mismatches: 12, Indels: 11
0.72 0.15 0.14
Matches are distributed among these distances:
15 5 0.09
16 1 0.02
17 6 0.10
18 10 0.17
19 32 0.55
20 4 0.07
ACGTcount: A:0.40, C:0.03, G:0.14, T:0.43
Consensus pattern (18 bp):
TAAATTTATTTAGGTAGA
Found at i:63937003 original size:19 final size:19
Alignment explanation
Indices: 63936957--63937004 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
63936947 GTATATATTT
*
63936957 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGAAGA
*
63936975 TAAATCTTATTTAGGAAGA
1 TAAATTTTATTTAGGAAGA
*
63936994 TAAGTTTTATT
1 TAAATTTTATT
63937005 CATATTCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.46
Consensus pattern (19 bp):
TAAATTTTATTTAGGAAGA
Found at i:63955263 original size:52 final size:51
Alignment explanation
Indices: 63955200--63955334 Score: 171
Period size: 52 Copynumber: 2.6 Consensus size: 51
63955190 GACGGGAAAG
* *
63955200 ATGTAATATGTGCTTTCGTATAAGACCATAGCAGGGCTATGGCATCGGTACA
1 ATGTGATATGTG-TTCCGTATAAGACCATAGCAGGGCTATGGCATCGGTACA
* ***
63955252 ATGTGATATGTGTTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
1 ATGTGATATGTGTT-CCGTATAAGACCATAGCAGGGCTATGGCATCGGTACA
*
63955304 ATGTGATAATGTGATTCCGTATAATACCATA
1 ATGTGAT-ATGTG-TTCCGTATAAGACCATA
63955335 TTTAGGATAT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
51 2 0.03
52 50 0.68
53 19 0.26
54 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (51 bp):
ATGTGATATGTGTTCCGTATAAGACCATAGCAGGGCTATGGCATCGGTACA
Found at i:63962853 original size:53 final size:52
Alignment explanation
Indices: 63962774--63962877 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 52
63962764 GGAAAAGATA
* *
63962774 TGATATGTGTTCCCGTATAAGACCATAGCTGGGTTATGGCATCGGTGTGATG
1 TGATATGTGTTCCCGTATAAGACCATAGCTGGGATATGGCATCGGTATGATG
**
63962826 TGATAATGTGATT-CCGTATAATG-CCATATTTGGGATATGGCATCGGTATGAT
1 TGAT-ATGTG-TTCCCGTATAA-GACCATAGCTGGGATATGGCATCGGTATGAT
63962878 ATGTAATCCG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
52 4 0.09
53 38 0.84
54 3 0.07
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.35
Consensus pattern (52 bp):
TGATATGTGTTCCCGTATAAGACCATAGCTGGGATATGGCATCGGTATGATG
Found at i:63963897 original size:42 final size:42
Alignment explanation
Indices: 63963838--63963958 Score: 170
Period size: 43 Copynumber: 2.9 Consensus size: 42
63963828 AATGTGACAT
* *
63963838 TCGGGCTTTGAGCCTAGCAGGCGTAATGCCGGTGAAATGATG
1 TCGGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATA
* *
63963880 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGC-GTAATGCCGGTGAAATGATA
* * *
63963923 TCAGTCTTCGAGCCTAGCAGGCGAAATGCCGGTGAA
1 TCGGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAA
63963959 TGAGTTCAGA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 32 0.46
43 37 0.54
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.22
Consensus pattern (42 bp):
TCGGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATA
Found at i:63963994 original size:41 final size:41
Alignment explanation
Indices: 63963850--63964038 Score: 132
Period size: 43 Copynumber: 4.6 Consensus size: 41
63963840 GGGCTTTGAG
* * * ** *
63963850 CCTAGCAGGCGTAATGCCGGTGAAATG-ATGTCGGGCTTCGAG
1 CCTAGCAGGCTTAATGCCGGTG-AATGAAT-TCAGACTTAAAA
* ** *
63963892 CCTAGCAGGCTATAATGCCGGTGAGATG-ATATCAGTCTTCGAG
1 CCTAGCAGGCT-TAATGCCGGTGA-ATGAAT-TCAGACTTAAAA
** * *
63963935 CCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCTTAATGCCGGTGAATGAATTCAGACTTAAAA
* * ** * *
63963976 TCTAGCAGTCTTTGTGCCGGTG-ATGAATTCGGGCTTAAAA
1 CCTAGCAGGCTTAATGCCGGTGAATGAATTCAGACTTAAAA
63964016 CCTAGCAGGCTTAATGCCGGTGA
1 CCTAGCAGGCTTAATGCCGGTGA
63964039 TTTGATAAAA
Statistics
Matches: 119, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
40 32 0.27
41 28 0.24
42 23 0.19
43 36 0.30
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (41 bp):
CCTAGCAGGCTTAATGCCGGTGAATGAATTCAGACTTAAAA
Found at i:63964552 original size:16 final size:18
Alignment explanation
Indices: 63964521--63964553 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
63964511 AACTCGTCAC
63964521 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
63964539 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
63964554 ATCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:63968511 original size:60 final size:59
Alignment explanation
Indices: 63968387--63968527 Score: 171
Period size: 60 Copynumber: 2.4 Consensus size: 59
63968377 CCTAACTGTG
* *
63968387 TTGATATGGGCAAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTGATA
1 TTGATATGGGCTAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
* * *
63968446 CTGATATGGGCTAGGCCCAGTATA-CTCTGTTAC-TGTA-AGGGGCTATGGCCCAGATTAATA
1 TTGATATGGGCTAGGCCCAATATATCTC-G--ACTTGTATA-GGGCTACGGCCCAGATTAATA
63968506 TTGATATGGGCTAAGGCCCAAT
1 TTGATATGGGCT-AGGCCCAAT
63968528 TAACCCTAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
58 3 0.04
59 23 0.33
60 34 0.49
61 10 0.14
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (59 bp):
TTGATATGGGCTAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
Found at i:63974643 original size:42 final size:42
Alignment explanation
Indices: 63974584--63974704 Score: 143
Period size: 43 Copynumber: 2.9 Consensus size: 42
63974574 AATGTGACAT
*
63974584 TCGGGCTTTGAGCCTAGCAGGTGTAATGCCGGTGAAACGATA
1 TCGGGCTTCGAGCCTAGCAGGTGTAATGCCGGTGAAACGATA
* * * * *
63974626 TCGGGCTTCGGGCCTAGCAGGCTATAATACCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGG-TGTAATGCCGGTGAAACGATA
* * * *
63974669 TCAGGCTTCGAGCCTAGCAGGCGAAATGGCGGTGAA
1 TCGGGCTTCGAGCCTAGCAGGTGTAATGCCGGTGAA
63974705 TGAGTTTAGA
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 28 0.44
43 36 0.56
ACGTcount: A:0.24, C:0.21, G:0.34, T:0.21
Consensus pattern (42 bp):
TCGGGCTTCGAGCCTAGCAGGTGTAATGCCGGTGAAACGATA
Found at i:63975298 original size:16 final size:18
Alignment explanation
Indices: 63975267--63975299 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
63975257 AACTCGTCAC
63975267 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
63975285 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
63975300 ATCTAGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:63976035 original size:22 final size:21
Alignment explanation
Indices: 63976000--63976040 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
63975990 CCCTTATACT
63976000 TTTATCCTATATAACATAAATA
1 TTTATCCTATATAA-ATAAATA
63976022 TTTATCACTA-ATAAATAAA
1 TTTATC-CTATATAAATAAA
63976041 ACTTATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 10 0.56
23 3 0.17
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (21 bp):
TTTATCCTATATAAATAAATA
Found at i:63979513 original size:11 final size:11
Alignment explanation
Indices: 63979456--63979530 Score: 69
Period size: 11 Copynumber: 6.8 Consensus size: 11
63979446 CCTAGCTCAC
*
63979456 TGCTGTTTTGC
1 TGCTGTTTTGG
* *
63979467 TGCAGTTTCGG
1 TGCTGTTTTGG
*
63979478 TGTTGTTTTGG
1 TGCTGTTTTGG
* *
63979489 TGTTGTTTGGG
1 TGCTGTTTTGG
63979500 TGCTGTTTTGG
1 TGCTGTTTTGG
* *
63979511 TGCTATTTTGT
1 TGCTGTTTTGG
*
63979522 TGCTATTTT
1 TGCTGTTTT
63979531 TTGTCGTGTT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 53 1.00
ACGTcount: A:0.04, C:0.09, G:0.31, T:0.56
Consensus pattern (11 bp):
TGCTGTTTTGG
Found at i:63981759 original size:18 final size:18
Alignment explanation
Indices: 63981736--63981785 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
63981726 TAAAGTTTAT
63981736 TTTAAAATTCTTGAAGAA
1 TTTAAAATTCTTGAAGAA
* * *
63981754 TTTAAAATACTAGAAGCA
1 TTTAAAATTCTTGAAGAA
63981772 TATTAAAATTCTTG
1 T-TTAAAATTCTTG
63981786 GGAAATTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (18 bp):
TTTAAAATTCTTGAAGAA
Found at i:63985593 original size:21 final size:21
Alignment explanation
Indices: 63985567--63985611 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
63985557 TTCTATAAAT
* *
63985567 GCACACAACATTTAGACTCGA
1 GCACACAACATTTACACTCAA
63985588 GCACACAACATTTACACTCAA
1 GCACACAACATTTACACTCAA
63985609 GCA
1 GCA
63985612 TGGTATTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.31, G:0.11, T:0.18
Consensus pattern (21 bp):
GCACACAACATTTACACTCAA
Found at i:63995921 original size:60 final size:61
Alignment explanation
Indices: 63995847--63995972 Score: 143
Period size: 60 Copynumber: 2.1 Consensus size: 61
63995837 AATCAAATTC
*
63995847 AGGTATCAATTTGAAC-CAAGAAGCCAAGTTC-AGATACCTAATTGGACCAAA-ATAAACT-TT
1 AGGTATCAAATTGAACTCAA-AAGCCAAGTTCAAG-TACCTAATTGGACCAAAGA-AAACTCTT
* ** * *
63995907 AGGTATTAAATTGAACTTTAAAGTCAAGTTCAAGTACCTAATTGGACTAAAGAAAACTCTT
1 AGGTATCAAATTGAACTCAAAAGCCAAGTTCAAGTACCTAATTGGACCAAAGAAAACTCTT
63995968 AGGTA
1 AGGTA
63995973 CCAATATGCA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
60 45 0.80
61 11 0.20
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (61 bp):
AGGTATCAAATTGAACTCAAAAGCCAAGTTCAAGTACCTAATTGGACCAAAGAAAACTCTT
Found at i:63996465 original size:30 final size:30
Alignment explanation
Indices: 63996431--63996493 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
63996421 ATTTATTTTA
63996431 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
63996461 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
63996491 TTG
1 TTG
63996494 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:63998593 original size:76 final size:77
Alignment explanation
Indices: 63998476--63998631 Score: 296
Period size: 77 Copynumber: 2.0 Consensus size: 77
63998466 ATTTTGTTTT
63998476 ACAACATAAATGTGATTTTCATTTCTTCTAAGCCAAG-AAAAAAAGTATTTCCGTATTGGATACA
1 ACAACATAAATGTGATTTTCATTTCTTCTAAGCCAAGAAAAAAAAGTATTTCCGTATTGGATACA
63998540 TATTTGTATTCA
66 TATTTGTATTCA
*
63998552 ACAACATAAATGTGATTTTCATTTCTTCTAAGCCAAGAAAAAAAAGTATTTCCGTATTGGATATA
1 ACAACATAAATGTGATTTTCATTTCTTCTAAGCCAAGAAAAAAAAGTATTTCCGTATTGGATACA
63998617 TATTTGTATTCA
66 TATTTGTATTCA
63998629 ACA
1 ACA
63998632 TTCACTTGGG
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
76 37 0.47
77 41 0.53
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.37
Consensus pattern (77 bp):
ACAACATAAATGTGATTTTCATTTCTTCTAAGCCAAGAAAAAAAAGTATTTCCGTATTGGATACA
TATTTGTATTCA
Found at i:63998792 original size:43 final size:43
Alignment explanation
Indices: 63998744--63998829 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
63998734 TTGTAGAAGG
*
63998744 GAAAGATCTACTAACCCCTCGAACAGACAAAGAGAAAGAACAT
1 GAAAGAGCTACTAACCCCTCGAACAGACAAAGAGAAAGAACAT
63998787 GAAAGAGCTACTAACCCCTCGAACAGACAAAGAGAAAGAACAT
1 GAAAGAGCTACTAACCCCTCGAACAGACAAAGAGAAAGAACAT
63998830 CTAAAGAAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.49, C:0.23, G:0.17, T:0.10
Consensus pattern (43 bp):
GAAAGAGCTACTAACCCCTCGAACAGACAAAGAGAAAGAACAT
Found at i:64004522 original size:3 final size:3
Alignment explanation
Indices: 64004514--64004542 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
64004504 TTTATCCGTA
64004514 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
64004543 AGTAACATTT
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:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:64006429 original size:3 final size:3
Alignment explanation
Indices: 64006421--64006446 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
64006411 CAAATATCTT
64006421 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
64006447 TTGCTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:64010272 original size:14 final size:14
Alignment explanation
Indices: 64010255--64010284 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
64010245 TGATTGAGAG
64010255 AATTGAAAGAATAA
1 AATTGAAAGAATAA
*
64010269 AATTGAATGAATAA
1 AATTGAAAGAATAA
64010283 AA
1 AA
64010285 AAGAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.23
Consensus pattern (14 bp):
AATTGAAAGAATAA
Found at i:64018355 original size:46 final size:46
Alignment explanation
Indices: 64017267--64018352 Score: 1843
Period size: 46 Copynumber: 23.6 Consensus size: 46
64017257 GCTTTCTGAA
* *
64017267 ATGAAATGTGTAAGGCCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
64017313 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
* *
64017359 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
*
64017405 ATAAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
64017451 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
64017497 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
64017543 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
64017589 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
64017635 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
64017681 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
64017727 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
64017773 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
64017819 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
64017865 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
64017911 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
64017957 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
64018003 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
64018049 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
64018095 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
* * ** *
64018141 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAATGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
* ** * *
64018187 ATGAAAAGAATAAGACCATGGTTTAAAGATACCATGGCAACATGA-
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
** * ** * ** * *
64018232 CGGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
*** * * *
64018278 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
** *
64018324 A-GAAAATAAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGA
64018353 TACTATAGCA
Statistics
Matches: 999, Mismatches: 39, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
45 38 0.04
46 961 0.96
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
Found at i:64024672 original size:11 final size:11
Alignment explanation
Indices: 64024656--64024686 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
64024646 ATACCCATAC
64024656 CCCATACCTTG
1 CCCATACCTTG
*
64024667 CCCATACCTTT
1 CCCATACCTTG
64024678 CCCATACCT
1 CCCATACCT
64024687 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:64025260 original size:18 final size:18
Alignment explanation
Indices: 64025231--64025323 Score: 125
Period size: 18 Copynumber: 5.2 Consensus size: 18
64025221 TACGACCGTT
*
64025231 TACGGTACTATTCACGTA
1 TACGGAACTATTCACGTA
* *
64025249 TACGGCATTATTCACGTA
1 TACGGAACTATTCACGTA
*
64025267 TACGGTACTATTCACGTA
1 TACGGAACTATTCACGTA
64025285 TACGGAACTATTCACGTA
1 TACGGAACTATTCACGTA
*
64025303 TAC-GATACTGTTCACGTA
1 TACGGA-ACTATTCACGTA
64025321 TAC
1 TAC
64025324 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
17 2 0.03
18 66 0.97
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGAACTATTCACGTA
Found at i:64025278 original size:36 final size:36
Alignment explanation
Indices: 64025231--64025323 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
64025221 TACGACCGTT
* *
64025231 TACGGTACTATTCACGTATACGGCATTATTCACGTA
1 TACGGTACTATTCACGTATACGGAACTATTCACGTA
64025267 TACGGTACTATTCACGTATACGGAACTATTCACGTA
1 TACGGTACTATTCACGTATACGGAACTATTCACGTA
* *
64025303 TACGATACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
64025324 AGTAGTTGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGAACTATTCACGTA
Found at i:64029393 original size:11 final size:11
Alignment explanation
Indices: 64029377--64029407 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
64029367 ATACCCATAC
64029377 CCCATACCTTG
1 CCCATACCTTG
*
64029388 CCCATACCTTT
1 CCCATACCTTG
64029399 CCCATACCT
1 CCCATACCT
64029408 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:64030039 original size:18 final size:18
Alignment explanation
Indices: 64030010--64030102 Score: 125
Period size: 18 Copynumber: 5.2 Consensus size: 18
64030000 TACGACCGTT
*
64030010 TACGGTACTATTCACGTA
1 TACGGAACTATTCACGTA
* *
64030028 TACGGCATTATTCACGTA
1 TACGGAACTATTCACGTA
*
64030046 TACGGTACTATTCACGTA
1 TACGGAACTATTCACGTA
64030064 TACGGAACTATTCACGTA
1 TACGGAACTATTCACGTA
*
64030082 TAC-GATACTGTTCACGTA
1 TACGGA-ACTATTCACGTA
64030100 TAC
1 TAC
64030103 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
17 2 0.03
18 66 0.97
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGAACTATTCACGTA
Found at i:64030057 original size:36 final size:36
Alignment explanation
Indices: 64030010--64030102 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
64030000 TACGACCGTT
* *
64030010 TACGGTACTATTCACGTATACGGCATTATTCACGTA
1 TACGGTACTATTCACGTATACGGAACTATTCACGTA
64030046 TACGGTACTATTCACGTATACGGAACTATTCACGTA
1 TACGGTACTATTCACGTATACGGAACTATTCACGTA
* *
64030082 TACGATACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
64030103 AGTAGTTGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGAACTATTCACGTA
Found at i:64033196 original size:8 final size:8
Alignment explanation
Indices: 64033183--64033216 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
64033173 GATTCTCGGC
64033183 ATGGAAAT
1 ATGGAAAT
64033191 ATGGAAAT
1 ATGGAAAT
64033199 ATGGAAAT
1 ATGGAAAT
64033207 ATGGAAAT
1 ATGGAAAT
64033215 AT
1 AT
64033217 CGACGTACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (8 bp):
ATGGAAAT
Found at i:64035380 original size:144 final size:144
Alignment explanation
Indices: 64034936--64035370 Score: 522
Period size: 144 Copynumber: 3.0 Consensus size: 144
64034926 GATAAGCTGC
* * * *
64034936 TCAAGTTTCCTATGGAAGTAGGGATTTGTCCAGAGAATGTGTTATTAGACAGATACAATTGACTA
1 TCAAGTTTCCTATGGAAGTAGGGATTTGTCCAGAGAATGTGTTATTGGACAGATCCAATTCACTG
* * * *
64035001 AGAGATTTAAGCATCCCTACCTCTTTAGGTATCAATCCAAAAAACATATTGTCAAAAAGGCTAAG
66 AGAGATTTAAGCATCCCTACCTCTTTAGGTATCAATCCAGAAAACATATTTTGAAAAAGGATAAG
64035066 AGTAGTTAAGTTGG
131 AGTAGTTAAGTTGG
* *
64035080 TCAAGTTTCCTATGGAAGTAGGGATTTGTCCAGAGAATGTGTTACTGGACAGATCCAATTTACTG
1 TCAAGTTTCCTATGGAAGTAGGGATTTGTCCAGAGAATGTGTTATTGGACAGATCCAATTCACTG
* * ** * * *
64035145 AGAGATTTAAGCATCCCTACCTCTTTAGGGATGACGCCACTG-AGA-TTATTATCGTACAAAA--
66 AGAGATTTAAGCATCCCTACCTCTTTAGGTATCAATCCA--GAAAACATATT-TTG-A-AAAAGG
*** *
64035206 A-AAGA-TGAACCAAGTTGC
126 ATAAGAGT-AGTTAAGTTGG
* * *
64035224 TTAAGTTTCCTATCGAAGTAGGGATTTGTCCACAGAATGTGTTATTGGACAGATCCAATTCACTG
1 TCAAGTTTCCTATGGAAGTAGGGATTTGTCCAGAGAATGTGTTATTGGACAGATCCAATTCACTG
* * *
64035289 AGAGATTTAAGCATCCCTACCTCTTTAGGTACCAATCCAGAAAACATATTTTGAGAAAGGGTAAG
66 AGAGATTTAAGCATCCCTACCTCTTTAGGTATCAATCCAGAAAACATATTTTGAAAAAGGATAAG
*
64035354 AGTAGTTAAGCTGG
131 AGTAGTTAAGTTGG
64035368 TCA
1 TCA
64035371 TGCTCCCTAT
Statistics
Matches: 238, Mismatches: 41, Indels: 24
0.79 0.14 0.08
Matches are distributed among these distances:
141 3 0.01
142 2 0.01
143 5 0.02
144 220 0.92
145 3 0.01
146 1 0.00
147 4 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (144 bp):
TCAAGTTTCCTATGGAAGTAGGGATTTGTCCAGAGAATGTGTTATTGGACAGATCCAATTCACTG
AGAGATTTAAGCATCCCTACCTCTTTAGGTATCAATCCAGAAAACATATTTTGAAAAAGGATAAG
AGTAGTTAAGTTGG
Found at i:64036483 original size:111 final size:111
Alignment explanation
Indices: 64036289--64036511 Score: 392
Period size: 111 Copynumber: 2.0 Consensus size: 111
64036279 AATTCTAAGA
*
64036289 TCATTTGAATTTATCATTGTGAGCAAAGCTTTGATCTTTTAGTTTATTTATTTGTCATCCTACCA
1 TCATTTGAATTTATAATTGTGAGCAAAGCTTTGATCTTTTAGTTTATTTATTTGTCATCCTACCA
* *
64036354 TCATCAAATCTTGATTGTAGCTAAAATGTCACTATATTTAGTAAAT
66 TCATCAAATATTGATTGTAGCTAAAATGTCACTATATTCAGTAAAT
*
64036400 TCATTTGAATTTATAATTGTGAGCAAAGCTTTGATCTTTTAGTTTATTTATTTGTCATCCTATCA
1 TCATTTGAATTTATAATTGTGAGCAAAGCTTTGATCTTTTAGTTTATTTATTTGTCATCCTACCA
* *
64036465 TCATTAAATATTGATTGTAGTTAAAATGTCACTATATTCAGTAAAT
66 TCATCAAATATTGATTGTAGCTAAAATGTCACTATATTCAGTAAAT
64036511 T
1 T
64036512 TAATTTTTTT
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 106 1.00
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (111 bp):
TCATTTGAATTTATAATTGTGAGCAAAGCTTTGATCTTTTAGTTTATTTATTTGTCATCCTACCA
TCATCAAATATTGATTGTAGCTAAAATGTCACTATATTCAGTAAAT
Found at i:64046165 original size:37 final size:37
Alignment explanation
Indices: 64046124--64046198 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
64046114 TGAGAAAAAA
64046124 GTTAGAAAAATTCAAACTGTAGGAGTCACATGGCTGG
1 GTTAGAAAAATTCAAACTGTAGGAGTCACATGGCTGG
64046161 GTTAGAAAAATTCAAACTGTAGGAGTCACATGGCTGG
1 GTTAGAAAAATTCAAACTGTAGGAGTCACATGGCTGG
64046198 G
1 G
64046199 ACACACGCCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.24
Consensus pattern (37 bp):
GTTAGAAAAATTCAAACTGTAGGAGTCACATGGCTGG
Found at i:64075905 original size:19 final size:19
Alignment explanation
Indices: 64075860--64075906 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
64075850 TTTAAAGTTA
*
64075860 AATTTTTTT-CAAATTTCC
1 AATTTTTTTAAAAATTTCC
***
64075878 AAGAATTTTAAAAATTTCC
1 AATTTTTTTAAAAATTTCC
64075897 AATTTTTTTA
1 AATTTTTTTA
64075907 TATTTTATAA
Statistics
Matches: 21, Mismatches: 7, Indels: 1
0.72 0.24 0.03
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (19 bp):
AATTTTTTTAAAAATTTCC
Found at i:64076595 original size:13 final size:13
Alignment explanation
Indices: 64076579--64076644 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
64076569 TTTAAATTAA
64076579 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
64076592 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
* *
64076605 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
64076618 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
64076631 ACTTATT-AAAAGC
1 ACTT-TTCAAAAGC
64076644 A
1 A
64076645 TTGCCAAACT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
13 40 0.95
14 2 0.05
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:64076608 original size:26 final size:26
Alignment explanation
Indices: 64076579--64076644 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
64076569 TTTAAATTAA
64076579 ACTTTTCAAAAGCACTTCTCAAAAGT
1 ACTTTTCAAAAGCACTTCTCAAAAGT
* * *
64076605 ACTTTTCCACAGCACTTTTCAAAAGT
1 ACTTTTCAAAAGCACTTCTCAAAAGT
64076631 ACTTATT-AAAAGCA
1 ACTT-TTCAAAAGCA
64076645 TTGCCAAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 32 0.94
27 2 0.06
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.32
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTCAAAAGT
Found at i:64077379 original size:26 final size:25
Alignment explanation
Indices: 64077340--64077389 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
64077330 AAACGAAAAC
*
64077340 AAAAAAAACTTTTTTTTACTATTTA
1 AAAAAAAACTTTTTCTTACTATTTA
* *
64077365 AAAAAAAATTATTTTCTTGCTATTT
1 AAAAAAAACT-TTTTCTTACTATTT
64077390 TCTTTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (25 bp):
AAAAAAAACTTTTTCTTACTATTTA
Found at i:64082851 original size:26 final size:28
Alignment explanation
Indices: 64082813--64082876 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 28
64082803 AAGGTTCAGA
* **
64082813 CAAAATTGTAAAATTTG-AAAATAGGGG
1 CAAAACTGTAAAAAATGAAAAATAGGGG
64082840 -AAAA-TGTAAAAAATGAAAAATAGGGG
1 CAAAACTGTAAAAAATGAAAAATAGGGG
64082866 CAAAACTGTAA
1 CAAAACTGTAA
64082877 TAGCCCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 9 0.28
26 14 0.44
27 4 0.12
28 5 0.16
ACGTcount: A:0.55, C:0.05, G:0.20, T:0.20
Consensus pattern (28 bp):
CAAAACTGTAAAAAATGAAAAATAGGGG
Found at i:64084561 original size:64 final size:63
Alignment explanation
Indices: 64084480--64084663 Score: 199
Period size: 67 Copynumber: 2.9 Consensus size: 63
64084470 AGACATTATG
*
64084480 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
64084543 TATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 -ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
64084608 TA
62 TA
** * * * *
64084610 AACTAGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
64084664 CGAACTATAT
Statistics
Matches: 98, Mismatches: 18, Indels: 9
0.78 0.14 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 19 0.19
67 30 0.31
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:64085894 original size:29 final size:27
Alignment explanation
Indices: 64085852--64085934 Score: 103
Period size: 28 Copynumber: 3.0 Consensus size: 27
64085842 GGGTGTTACA
64085852 AAAACTGTAAAATTTTAAAAAATAGGGAT
1 AAAACTGTAAAA-TTTAAAAAATAGGG-T
*
64085881 AAAATTGTAAAATTTAAAAAATAAGGGT
1 AAAACTGTAAAATTTAAAAAAT-AGGGT
* * *
64085909 AAAACTATAAAATCTGAAAAATAGGG
1 AAAACTGTAAAATTTAAAAAATAGGG
64085935 GACACACGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 4 0.08
28 29 0.60
29 15 0.31
ACGTcount: A:0.57, C:0.04, G:0.14, T:0.25
Consensus pattern (27 bp):
AAAACTGTAAAATTTAAAAAATAGGGT
Found at i:64094111 original size:16 final size:16
Alignment explanation
Indices: 64094087--64094119 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
64094077 GTTTCCATAT
*
64094087 TTCACAATTTAATCCC
1 TTCAAAATTTAATCCC
64094103 TTCAAAATTTAATCCC
1 TTCAAAATTTAATCCC
64094119 T
1 T
64094120 AATTTACATT
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:0.33, C:0.27, G:0.00, T:0.39
Consensus pattern (16 bp):
TTCAAAATTTAATCCC
Found at i:64095704 original size:47 final size:48
Alignment explanation
Indices: 64095644--64095756 Score: 167
Period size: 48 Copynumber: 2.4 Consensus size: 48
64095634 GGTGCGAATA
* **
64095644 TTACCTTGATTTGGCTAC-GGGACATGATATAGGTATTTTGAGA-AGAG
1 TTACCTTGATTTGGCTACGGGGACATGATATAGGTACTCCGAGATA-AG
*
64095691 TTACCTTGATTTGGCTACGGGGACATGGTATAGGTACTCCGAGATAAG
1 TTACCTTGATTTGGCTACGGGGACATGATATAGGTACTCCGAGATAAG
64095739 TTACCTTGATTTGGCTAC
1 TTACCTTGATTTGGCTAC
64095757 TGTAATGGCC
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
47 18 0.30
48 41 0.68
49 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.34
Consensus pattern (48 bp):
TTACCTTGATTTGGCTACGGGGACATGATATAGGTACTCCGAGATAAG
Found at i:64100460 original size:46 final size:46
Alignment explanation
Indices: 64100325--64100497 Score: 178
Period size: 46 Copynumber: 3.7 Consensus size: 46
64100315 GTTATTCTGA
*
64100325 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAC-A--
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC--GA-GACAAGT
* * * * *
64100371 GCCATTGTAAGACCATGTTTGGAACATGTCATCGG-CATTGAGACAAGT
1 GCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCCA-CGAGACAAGT
64100419 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACGTAAGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGAC--AAGT
64100467 -C-AGTGTAAGACATGTCTGGGACATGCATCGG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG
64100498 TTACAAGATG
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
45 3 0.03
46 53 0.50
47 31 0.29
48 20 0.19
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACAAGT
Found at i:64100596 original size:50 final size:45
Alignment explanation
Indices: 64100328--64100596 Score: 147
Period size: 46 Copynumber: 5.8 Consensus size: 45
64100318 ATTCTGAGCT
** * *
64100328 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGACAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACAAGATG--TGAC
* * * * * * *
64100374 ATTGTAAGACCATGTTTGGAACATGTCATCGGCATTGAGACAAGTG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA--CA-AGATGTGAC
* * *
64100421 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAGACGTAAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACAAGATGT--GAC
* *
64100468 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGTTACAAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACAAGATGTGAC
* * * * *
64100512 AGTGAAAGGCCATGTTTGGGACATGGCGTTGGCACAAGTATGCTAGAAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAG-ATG-T-G-AC
*
64100561 TTGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
64100597 CTTACCCCAT
Statistics
Matches: 172, Mismatches: 34, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
44 14 0.08
45 18 0.10
46 60 0.35
47 31 0.18
48 16 0.09
49 2 0.01
50 31 0.18
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAGATGTGAC
Found at i:64105752 original size:15 final size:15
Alignment explanation
Indices: 64105734--64105777 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
64105724 GAAGCCCAGA
64105734 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
64105749 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
*
64105764 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
64105778 TTTACAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:64117091 original size:132 final size:134
Alignment explanation
Indices: 64116790--64117168 Score: 435
Period size: 132 Copynumber: 2.9 Consensus size: 134
64116780 GTAGGCTCCC
* * * ** * * * **
64116790 CCATAGGCAAGCTATGGTCTTACACACCATACCCCATGCTTAATGTCCTGGC-AACTTTTTATGT
1 CCATAGTCAAGCTATAGTCTTATACAATATACCCCATGTTTAATGTCCTGACGAACTCTCCATGT
* * *
64116854 TGCCATAGCCGAGCTATAGTCTTACACAATATACCCCATGTTTAATGT-TCTGGCAGACTTTCAA
66 TGCCATAGCCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCTCTGGCAGAC-TTCAA
64116918 TGTTT
130 TGTTT
* * * *
64116923 CCATAGTCGAGCTATCGTCTTATATAATATACCCCATGTTTAATGTCCTGACGGACTCTCCATGT
1 CCATAGTCAAGCTATAGTCTTATACAATATACCCCATGTTTAATGTCCTGACGAACTCTCCATGT
* * * * * *
64116988 TGTCATGGTCGAGTTATGGTCTTACACATTTTTCCCCATGTTTAATGTCT-TGG-AGGAC-TCTA
66 TGCCATAGCCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCTCTGGCA-GACTTCAA
64117050 TGTTT
130 TGTTT
* * * * * * *
64117055 CTATAGTTAAGCTATAGTCTTATACATTTTATCCCATGTTTAATGTCCTGATGAACTCTCTATGT
1 CCATAGTCAAGCTATAGTCTTATACAATATACCCCATGTTTAATGTCCTGACGAACTCTCCATGT
64117120 TGCCATAGCCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTC
66 TGCCATAGCCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTC
64117169 CTGACGGGCT
Statistics
Matches: 205, Mismatches: 38, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
132 106 0.52
133 44 0.21
134 54 0.26
135 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (134 bp):
CCATAGTCAAGCTATAGTCTTATACAATATACCCCATGTTTAATGTCCTGACGAACTCTCCATGT
TGCCATAGCCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCTCTGGCAGACTTCAAT
GTTT
Found at i:64117206 original size:67 final size:67
Alignment explanation
Indices: 64116790--64117221 Score: 388
Period size: 67 Copynumber: 6.5 Consensus size: 67
64116780 GTAGGCTCCC
* * *** * * * *
64116790 CCATAGGCAAGCTATGGTCTTACACACCATACCCCATGCTTAATGTCCTGGC-AACTTTTTATGT
1 CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGACTTTCTATGT
*
64116854 TG
66 TT
* * * * * * * *
64116856 CCATAGCCGAGCTATAGTCTTACACAATATACCCCATGTTTAATGTTCTGGCAGACTTTCAATGT
1 CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGACTTTCTATGT
64116921 TT
66 TT
* * * * * * *
64116923 CCATAGTCGAGCTATCGTCTTATATAATATACCCCATGTTTAATGTCCTGACGGACTCTCCATGT
1 CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGACTTTCTATGT
64116988 TGT
66 T-T
* * * *
64116991 -CATGGTCGAGTTATGGTCTTACACATTTTTCCCCATGTTTAATGTCTTGGA-GGAC--TCTATG
1 CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCT-GACGGACTTTCTATG
64117052 TTT
65 TTT
* ** * * * * * *
64117055 CTATAGTTAAGCTATAGTCTTATACATTTTATCCCATGTTTAATGTCCTGATGAACTCTCTATGT
1 CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGACTTTCTATGT
*
64117120 TG
66 TT
* * *
64117122 CCATAGCCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGGCTTTTTATGT
1 CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGACTTTCTATGT
64117187 TT
66 TT
** * * *
64117189 CCATAGTTAAGCCATGGTCTTAGACACTTTACC
1 CCATAGTCGAGCTATGGTCTTACACATTTTACC
64117222 TCATTATAGA
Statistics
Matches: 298, Mismatches: 61, Indels: 13
0.80 0.16 0.03
Matches are distributed among these distances:
64 3 0.01
65 48 0.16
66 45 0.15
67 199 0.67
68 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.37
Consensus pattern (67 bp):
CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGACTTTCTATGT
TT
Found at i:64122177 original size:27 final size:27
Alignment explanation
Indices: 64122147--64122324 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
64122137 ATATTGAGTC
* * * *
64122147 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
64122174 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
64122201 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
64122229 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
64122256 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
64122283 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
64122310 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64122325 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:64122286 original size:82 final size:81
Alignment explanation
Indices: 64122168--64122323 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
64122158 TGCTATATAA
* *
64122168 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
64122233 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
64122250 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
64122314 CACTTAGTGC
65 CACTTAGTGC
64122324 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:64125082 original size:155 final size:155
Alignment explanation
Indices: 64124798--64125105 Score: 535
Period size: 155 Copynumber: 2.0 Consensus size: 155
64124788 CCCATTTCCA
* *
64124798 CTCGGGTATCATGATCGGCTGAAGTAACCCTGAAGGCACTTGATGTTCCGCTTTCACTTGTTGAC
1 CTCGGGTATCATGATCGGCTGAAGTAACCCTGAAGACACTTGATGTTCCGCGTTCACTTGTTGAC
* *
64124863 ATATTAAACATCTCGAAACAAAGTCGGAGATGTCTCGTTTCATACCATGCCACCAAAACCGACGT
66 ATATTAAACATCTCGAAACAAAGTCAGAGATGTCCCGTTTCATACCATGCCACCAAAACCGACGT
*
64124928 TTCAAGTCGTTGTACATTTTCGTGC
131 TTCAAATCGTTGTACATTTTCGTGC
* *
64124953 CTCGGGTATCATGATCGGCTGGAGTAATCCTGAAGACACTTGATGTTCCGCGTTCACTTGTTGAC
1 CTCGGGTATCATGATCGGCTGAAGTAACCCTGAAGACACTTGATGTTCCGCGTTCACTTGTTGAC
**
64125018 ATATTAAACATCTCGAAACAAAGTCAGAGATGTCCCGTTTCATACCATGCCACCAAAATTGACGT
66 ATATTAAACATCTCGAAACAAAGTCAGAGATGTCCCGTTTCATACCATGCCACCAAAACCGACGT
64125083 TTCAAATCGTTGTACATTTTCGT
131 TTCAAATCGTTGTACATTTTCGT
64125106 ACTCCCCGGG
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
155 144 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (155 bp):
CTCGGGTATCATGATCGGCTGAAGTAACCCTGAAGACACTTGATGTTCCGCGTTCACTTGTTGAC
ATATTAAACATCTCGAAACAAAGTCAGAGATGTCCCGTTTCATACCATGCCACCAAAACCGACGT
TTCAAATCGTTGTACATTTTCGTGC
Found at i:64130043 original size:27 final size:27
Alignment explanation
Indices: 64130013--64130190 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
64130003 ATATTGAGTC
* * * *
64130013 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
64130040 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
64130067 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
64130095 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
64130122 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
64130149 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
64130176 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64130191 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:64130152 original size:82 final size:81
Alignment explanation
Indices: 64130034--64130189 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
64130024 TGCTATATAA
* *
64130034 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
64130099 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
64130116 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
64130180 CACTTAGTGC
65 CACTTAGTGC
64130190 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:64132616 original size:43 final size:44
Alignment explanation
Indices: 64132549--64132676 Score: 136
Period size: 43 Copynumber: 3.0 Consensus size: 44
64132539 ATAAAGCTCG
* * *
64132549 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATA
* * * * **
64132592 T-CGATGCCACTGTCCCATACATGGTCTTAGACATAATCACA-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATA
* *
64132634 TACAATGCCAATGTCCCAGACATGCTCCTACATGTAATCACAT
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
64132677 CTCGGTAACC
Statistics
Matches: 65, Mismatches: 17, Indels: 5
0.75 0.20 0.06
Matches are distributed among these distances:
42 8 0.12
43 57 0.88
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (44 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATA
Found at i:64140774 original size:58 final size:57
Alignment explanation
Indices: 64140657--64140799 Score: 157
Period size: 58 Copynumber: 2.5 Consensus size: 57
64140647 TTCCTTGTTC
* * * * *
64140657 ATTTCTAAATGAATT-CATTTCTC-ATTTTCATTTTCATTTTGAGAAAACCACATTC
1 ATTTCCAAATGAATTCCATTTCTCTATTTTCATTTTAATTTGGAGAAAACCACAATA
*
64140712 ATTTCCAAATG-ATTCCATTTTCTCTATTTTCATTTTAATTTAGGAGAAAACCATAATA
1 ATTTCCAAATGAATTCCA-TTTCTCTATTTTCATTTTAATTT-GGAGAAAACCACAATA
* **
64140770 ATTTCCTGAATGTTTTCCATTTCTCTATTT
1 ATTTCC-AAATGAATTCCATTTCTCTATTT
64140800 CAATTCATTC
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
54 3 0.04
55 12 0.16
56 6 0.08
57 15 0.20
58 18 0.24
59 15 0.20
60 5 0.07
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.47
Consensus pattern (57 bp):
ATTTCCAAATGAATTCCATTTCTCTATTTTCATTTTAATTTGGAGAAAACCACAATA
Done.