Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 214 of 284
Found at i:71023735 original size:17 final size:15
Alignment explanation
Indices: 71023707--71023752 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
71023697 GAAATTTAAG
71023707 AAAATAAA-ATGATT
1 AAAATAAAGATGATT
*
71023721 AAATTGGAAAGATGA-T
1 AAAAT--AAAGATGATT
71023737 AAAATAAAGATGATT
1 AAAATAAAGATGATT
71023752 A
1 A
71023753 TCATCATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
14 12 0.46
15 2 0.08
16 8 0.31
17 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (15 bp):
AAAATAAAGATGATT
Found at i:71024836 original size:25 final size:25
Alignment explanation
Indices: 71024611--71024836 Score: 94
Period size: 25 Copynumber: 9.2 Consensus size: 25
71024601 GAGCTCAAAA
* *
71024611 GAGCATCCCGTTATA-AGCTC-TCAT
1 GAGCTTCCCGTTATATGGCTCGT-AT
* * * **
71024635 GAGCTTCCCGGTATATGGTTCTTGC
1 GAGCTTCCCGTTATATGGCTCGTAT
* * *
71024660 GAGCTTCCCGTT-TGTAGCTCTTAT
1 GAGCTTCCCGTTATATGGCTCGTAT
*
71024684 GAGCTTCCCGATTA-ATTGGCTC-TCT
1 GAGCTTCCCG-TTATA-TGGCTCGTAT
* * *
71024709 AGAGCTT-CC-TAATATTAGCTTGCT-T
1 -GAGCTTCCCGTTATA-TGGCTCG-TAT
* * * **
71024734 GAACTTCCTGTTA-ATGGCTCTTCG
1 GAGCTTCCCGTTATATGGCTCGTAT
* *
71024758 GAGCTTCCCGTTAGATGGCTCATAT
1 GAGCTTCCCGTTATATGGCTCGTAT
* * *
71024783 GAGCTTCTCGTTATATGGCTCGAAA
1 GAGCTTCCCGTTATATGGCTCGTAT
*
71024808 GAGCTTCCCGTT-TATGTACTCGTAT
1 GAGCTTCCCGTTATATG-GCTCGTAT
71024833 GAGC
1 GAGC
71024837 ATTCTCGAAT
Statistics
Matches: 149, Mismatches: 39, Indels: 27
0.69 0.18 0.13
Matches are distributed among these distances:
23 3 0.02
24 60 0.40
25 71 0.48
26 15 0.10
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCGTAT
Found at i:71037789 original size:47 final size:47
Alignment explanation
Indices: 71037735--71037827 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
71037725 ATTTATATGC
71037735 TTAAATTCTTAATGAGTCTATTTTCAAGAGAAACAAATGGGAACATT
1 TTAAATTCTTAATGAGTCTATTTTCAAGAGAAACAAATGGGAACATT
*
71037782 TTAAATTCTTAATGAGTCTATTTTCAGGAGAAACAAATGGGAACAT
1 TTAAATTCTTAATGAGTCTATTTTCAAGAGAAACAAATGGGAACAT
71037828 CATCCAAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (47 bp):
TTAAATTCTTAATGAGTCTATTTTCAAGAGAAACAAATGGGAACATT
Found at i:71038397 original size:20 final size:20
Alignment explanation
Indices: 71038372--71038445 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
71038362 GCGTGTGTGA
*
71038372 CCACACGGGCATGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
71038392 CCACACGGGCGTGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
*
71038412 CCACACGGGCGTTTCCCAAG
1 CCACACGGGCGTGTCCCAAG
*
71038432 CCACAAGGGCGTGT
1 CCACACGGGCGTGT
71038446 GACCCCTGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.22, C:0.38, G:0.28, T:0.12
Consensus pattern (20 bp):
CCACACGGGCGTGTCCCAAG
Found at i:71041665 original size:19 final size:19
Alignment explanation
Indices: 71041623--71041672 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
71041613 AACTCAAAAT
**
71041623 AAATTCAAAATAATTTTTA
1 AAATTCAAAATAATTTAAA
71041642 AAATTCAAAAT-ATTTAAA
1 AAATTCAAAATAATTTAAA
71041660 AGAATTCCAAAAT
1 A-AATT-CAAAAT
71041673 TTATATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 6 0.22
19 15 0.56
20 6 0.22
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (19 bp):
AAATTCAAAATAATTTAAA
Found at i:71043345 original size:16 final size:16
Alignment explanation
Indices: 71043297--71043347 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
71043287 CGTAAAATAG
71043297 AAAATTTTAAA-TAA-
1 AAAATTTTAAATTAAT
** *
71043311 AGTATTTTAAAATTTAT
1 AAAATTTT-AAATTAAT
71043328 AAAATTTTAAATTAAT
1 AAAATTTTAAATTAAT
71043344 AAAA
1 AAAA
71043348 GTAAAATTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 6 0.21
15 3 0.11
16 13 0.46
17 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (16 bp):
AAAATTTTAAATTAAT
Found at i:71050450 original size:21 final size:23
Alignment explanation
Indices: 71050409--71050452 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
71050399 AAAAAATACA
*
71050409 TATGCGTAGTATATATAAAAATG
1 TATGCGTAATATATATAAAAATG
71050432 TATGCGTAATATA-ATAAAAAT
1 TATGCGTAATATATATAAAAAT
71050453 TACATAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.34
Consensus pattern (23 bp):
TATGCGTAATATATATAAAAATG
Found at i:71051904 original size:27 final size:27
Alignment explanation
Indices: 71051859--71052017 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
71051849 GCGAGGCTGC
* *
71051859 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
71051886 CAGATATTGTGGCAGAGTCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
71051912 CAGATATATGTGGCAAAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
71051939 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
71051966 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
71051993 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
71052018 GACGCTTCCT
Statistics
Matches: 116, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 101 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:71052018 original size:54 final size:54
Alignment explanation
Indices: 71051859--71052020 Score: 238
Period size: 54 Copynumber: 3.0 Consensus size: 54
71051849 GCGAGGCTGC
* * * * * *
71051859 CAGATAT-TGTGACGAAGTCACCAGATACAGAT-ATTGTGGCAGAGTCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
71051912 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
*
71051966 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
71052020 C
1 C
71052021 GCTTCCTCCA
Statistics
Matches: 100, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 12 0.12
54 88 0.88
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:71055876 original size:44 final size:44
Alignment explanation
Indices: 71055823--71056304 Score: 306
Period size: 44 Copynumber: 11.1 Consensus size: 44
71055813 GTTCAATGCC
* *
71055823 TTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTGTAAA
1 TTCGGTCTGTTACCCTACTGCTTAGGGGGTTAAGATCTTGTAAA
* * *
71055867 TTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGT--C
1 TTCGGTCTGTTACCCTACTGCTTAGGGGGTTAAGA-TCTT-GTAAA
* * **
71055911 CTCGATCTGTTTTCCTACTGCTTAGGGGGTTAAGATCTTGTAAA
1 TTCGGTCTGTTACCCTACTGCTTAGGGGGTTAAGATCTTGTAAA
* * * * *
71055955 TTCGGTCTGTTACCCTACTTCTTAGCGGTTTAAGACCCTTCGT--C
1 TTCGGTCTGTTACCCTACTGCTTAGGGGGTTAAGA-TCTT-GTAAA
* * * * *
71055999 CTCGATCTGTTTCCCTACTACTTAGGGGATTAAGATC-TGTAAA
1 TTCGGTCTGTTACCCTACTGCTTAGGGGGTTAAGATCTTGTAAA
* * ** * * **
71056042 TTCAG-CTTGTTACCCTACTGCTTAAGGGGTTAAAGCCCAT-CATC
1 TTCGGTC-TGTTACCCTACTGCTTAGGGGGTT-AAGATCTTGTAAA
** * * * *
71056086 TTCAATCTGTTTCCCTATTGCTTAGGGGGTTAAGATC-TATCAA
1 TTCGGTCTGTTACCCTACTGCTTAGGGGGTTAAGATCTTGTAAA
* * * * * *
71056129 TTCAGCCTGTTGCCTTACTGCTTAGGGGGTTAAGGTC-TATAAA
1 TTCGGTCTGTTACCCTACTGCTTAGGGGGTTAAGATCTTGTAAA
* * * ** * * **
71056172 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCAT-CATC
1 TTCGGTCTGTTACCCTACTGCTTAGGGGGTTAA-GATCTTGTAAA
* * *
71056216 TTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATC-TGTCAA
1 TTCGGTCTGTTACCCTACTGCTTAGGGGGTTAAGATCTTGTAAA
* * * *
71056259 TTCAG-CTTGTTAGCCTACTGCTTAGGGGGTTAA-AGCTTGTGAA
1 TTCGGTC-TGTTACCCTACTGCTTAGGGGGTTAAGATCTTGTAAA
71056302 TTC
1 TTC
71056305 ACTGATTCTA
Statistics
Matches: 337, Mismatches: 83, Indels: 37
0.74 0.18 0.08
Matches are distributed among these distances:
41 2 0.01
42 9 0.03
43 133 0.39
44 180 0.53
45 9 0.03
46 4 0.01
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (44 bp):
TTCGGTCTGTTACCCTACTGCTTAGGGGGTTAAGATCTTGTAAA
Found at i:71055894 original size:88 final size:85
Alignment explanation
Indices: 71055693--71056164 Score: 450
Period size: 88 Copynumber: 5.4 Consensus size: 85
71055683 ATCTATATTT
* * * * *
71055693 TTCAGCCTTTTACCCTACTGCTTAGGGG-TCAAGGCTCATCGTCTTTGATCTG-CTCCACTACTG
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATC--CTTCGATCTGTTTCC-CTACTG
* * * *
71055756 TTTAGGGAGATAAGATCTGAAAA
63 CTTAGGGGGTTAAGATCTGTAAA
* *
71055779 TTTAGCCTGTTACCCTACTACTTAGGGGTTTAAGGTTCAATGCCTTCGATCTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGTTC-AT-CCTTCGATCTGTTTCCCTACTGC
71055844 TTAGGGGGTTAAGATCTTGTAAA
64 TTAGGGGGTTAAGATC-TGTAAA
* * * * *
71055867 TTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCC-TCGATCTGTTTTCCTACTG
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG---GTTCATCCTTCGATCTGTTTCCCTACTG
71055931 CTTAGGGGGTTAAGATCTTGTAAA
63 CTTAGGGGGTTAAGATC-TGTAAA
* * * * * * *
71055955 TTCGGTCTGTTACCCTACTTCTTAGCGGTTTAAGACCCTTCGTCC-TCGATCTGTTTCCCTACTA
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG---GTTCATCCTTCGATCTGTTTCCCTACTG
*
71056019 CTTAGGGGATTAAGATCTGTAAA
63 CTTAGGGGGTTAAGATCTGTAAA
* * ** * *
71056042 TTCAGCTTGTTACCCTACTGCTTAAGGGG-TTAAAGCCCATCATCTTCAATCTGTTTCCCTATTG
1 TTCAGCCTGTTACCCTACTGCTT-AGGGGTTTAAGGTTCATC--CTTCGATCTGTTTCCCTACTG
* *
71056106 CTTAGGGGGTTAAGATCTATCAA
63 CTTAGGGGGTTAAGATCTGTAAA
* * *
71056129 TTCAGCCTGTTGCCTTACTGCTTAGGGGGTTAAGGT
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGT
71056165 CTATAAATTC
Statistics
Matches: 329, Mismatches: 44, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
84 3 0.01
86 31 0.09
87 126 0.38
88 162 0.49
89 3 0.01
90 1 0.00
91 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (85 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCCTTCGATCTGTTTCCCTACTGCTT
AGGGGGTTAAGATCTGTAAA
Found at i:71056191 original size:130 final size:129
Alignment explanation
Indices: 71056012--71056291 Score: 436
Period size: 130 Copynumber: 2.2 Consensus size: 129
71056002 GATCTGTTTC
* * * *
71056012 CCTACTACTTAGGGGATTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAAGGGG-TTAAA
1 CCTACTGCTTAGGGGGTTAAGATCTATAAATTCAGCCTGTTACCCTACTGCTT-AGGGGTTTAAA
*
71056076 GCCCATCATCTTCAATCTGTTTCCCTATTGCTTAGGGGGTTAAGATCTATCAATTCAGCCTGTTG
65 GCCCATCATCTTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATCAATTCAGCCTGTTG
* *
71056141 CCTTACTGCTTAGGGGGTTAAGGTCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
1 CC-TACTGCTTAGGGGGTTAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAA
* * *
71056206 GCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTCAATTCAGCTTGTTA
65 GCCCATCATCTTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATCAATTCAGCCTGTT-
71056271 G
129 G
71056272 CCTACTGCTTAGGGGGTTAA
1 CCTACTGCTTAGGGGGTTAA
71056292 AGCTTGTGAA
Statistics
Matches: 138, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
129 7 0.05
130 128 0.93
131 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (129 bp):
CCTACTGCTTAGGGGGTTAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAAG
CCCATCATCTTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATCAATTCAGCCTGTTG
Found at i:71056462 original size:66 final size:66
Alignment explanation
Indices: 71056356--71056487 Score: 219
Period size: 66 Copynumber: 2.0 Consensus size: 66
71056346 TCTATGCTTA
** *
71056356 TGTCAAATGGTTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCGGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATGAAT
71056421 G
66 G
**
71056422 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAATTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATGAAT
71056487 G
66 G
71056488 GTATATGAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATGAAT
G
Found at i:71063085 original size:21 final size:23
Alignment explanation
Indices: 71063044--71063087 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
71063034 GAAAAATACA
*
71063044 TATGCGTAGTATATATAAAAATG
1 TATGCGTAATATATATAAAAATG
71063067 TATGCGTAATATA-ATAAAAAT
1 TATGCGTAATATATATAAAAAT
71063088 TACATAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.34
Consensus pattern (23 bp):
TATGCGTAATATATATAAAAATG
Found at i:71065310 original size:16 final size:17
Alignment explanation
Indices: 71065289--71065322 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
71065279 ATATCTTTTC
71065289 ATATATTTTATA-AAAA
1 ATATATTTTATATAAAA
71065305 ATATATTTTATATAAAA
1 ATATATTTTATATAAAA
71065322 A
1 A
71065323 ATTAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATATTTTATATAAAA
Found at i:71065366 original size:21 final size:19
Alignment explanation
Indices: 71065327--71065368 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
71065317 TAAAAAATTA
*
71065327 AAAAAATCAAATTTTAAAT
1 AAAAAATCAAATTTGAAAT
71065346 AAAAAATCAAATTCATGAAAT
1 AAAAAATCAAATT--TGAAAT
71065367 AA
1 AA
71065369 TTTGTTCAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
21 7 0.35
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAAATCAAATTTGAAAT
Found at i:71071397 original size:12 final size:12
Alignment explanation
Indices: 71071382--71071406 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71071372 TTATATCATT
71071382 TCATTATTATCA
1 TCATTATTATCA
71071394 TCATTATTATCA
1 TCATTATTATCA
71071406 T
1 T
71071407 ATAGTACTAT
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:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TCATTATTATCA
Found at i:71077302 original size:5 final size:5
Alignment explanation
Indices: 71077294--71077324 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
71077284 TTAAAGGGAC
71077294 TTATA TTATA TTATA TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA T
71077325 AAATAAGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:71077505 original size:5 final size:5
Alignment explanation
Indices: 71077495--71077522 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
71077485 AAGAAATTGT
71077495 TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TAT
71077523 AAATAAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:71079166 original size:12 final size:12
Alignment explanation
Indices: 71079149--71079173 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71079139 GCCGACTACT
71079149 GTTACTGTTACC
1 GTTACTGTTACC
71079161 GTTACTGTTACC
1 GTTACTGTTACC
71079173 G
1 G
71079174 ATTCGGCACT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:71079437 original size:18 final size:18
Alignment explanation
Indices: 71079406--71079474 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
71079396 GAATAATTTA
*
71079406 ATTGTTACTGAATAACTG
1 ATTGTTATTGAATAACTG
* *
71079424 ATTATTATTGAATAATTG
1 ATTGTTATTGAATAACTG
***
71079442 ATTGTTACCAAATAACTG
1 ATTGTTATTGAATAACTG
*
71079460 ACTGTTATTGAATAA
1 ATTGTTATTGAATAA
71079475 ATAATCGTTC
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.41
Consensus pattern (18 bp):
ATTGTTATTGAATAACTG
Found at i:71079456 original size:36 final size:37
Alignment explanation
Indices: 71079386--71079474 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 37
71079376 TGGAAAGATC
* * **
71079386 GACTGTTACTGAATAATTTAATTGTTACTGAATAACT
1 GACTATTATTGAATAATTTAATTGTTACCAAATAACT
* *
71079423 GATTATTATTGAATAA-TTGATTGTTACCAAATAACT
1 GACTATTATTGAATAATTTAATTGTTACCAAATAACT
*
71079459 GACTGTTATTGAATAA
1 GACTATTATTGAATAA
71079475 ATAATCGTTC
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 31 0.70
37 13 0.30
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.40
Consensus pattern (37 bp):
GACTATTATTGAATAATTTAATTGTTACCAAATAACT
Found at i:71088271 original size:26 final size:26
Alignment explanation
Indices: 71088241--71088296 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
71088231 TGAAATTCCC
*
71088241 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
71088267 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
71088293 ATCA
1 ATCA
71088297 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:71090645 original size:12 final size:12
Alignment explanation
Indices: 71090628--71090652 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71090618 GCCGACTACT
71090628 GTTACTGTTACC
1 GTTACTGTTACC
71090640 GTTACTGTTACC
1 GTTACTGTTACC
71090652 G
1 G
71090653 ATTCGGCACT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:71090739 original size:47 final size:47
Alignment explanation
Indices: 71090681--71090787 Score: 178
Period size: 47 Copynumber: 2.3 Consensus size: 47
71090671 CGGATATTGT
*
71090681 TACTGTTACTGTTTCGGATTTGTTCCGATAAGGTACTCTGTGTACCG
1 TACTGTTACTGTTCCGGATTTGTTCCGATAAGGTACTCTGTGTACCG
*
71090728 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCG
1 TACTGTTACTGTTCCGGATTTGTTCCGATAAGGTACTCTGTGTACCG
* *
71090775 TATTGCTACTGTT
1 TACTGTTACTGTT
71090788 ACTGTTACTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (47 bp):
TACTGTTACTGTTCCGGATTTGTTCCGATAAGGTACTCTGTGTACCG
Found at i:71090998 original size:36 final size:37
Alignment explanation
Indices: 71090912--71091000 Score: 99
Period size: 36 Copynumber: 2.4 Consensus size: 37
71090902 TGGAAAGATC
*
71090912 GACTGTTACTGAATAATTTAATTGTTACTAAATAACT
1 GACTGTTACTGAATAATTTAATTGTTACCAAATAACT
** * * * * *
71090949 GGTTATTATTGAATAA-TTGATTTTTACCGAATAACT
1 GACTGTTACTGAATAATTTAATTGTTACCAAATAACT
71090985 GACTGTTACTGAATAA
1 GACTGTTACTGAATAA
71091001 ATAATCGTTC
Statistics
Matches: 40, Mismatches: 12, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
36 28 0.70
37 12 0.30
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.40
Consensus pattern (37 bp):
GACTGTTACTGAATAATTTAATTGTTACCAAATAACT
Found at i:71092432 original size:94 final size:94
Alignment explanation
Indices: 71092263--71092799 Score: 524
Period size: 94 Copynumber: 5.7 Consensus size: 94
71092253 GGGGTGTAAC
* * * *
71092263 GCTACAAATCCTATACCCCTGAAGTCGTAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATT
1 GCTACAAATCCTATACCCCTAAAGTCGCAGTGGGTCGGATTGAAGCTACCATAGCGAATCTTATC
* * *
71092328 TCCTTGAAGTTACAGTGAAGTAAGATAAA
66 TCCCTGAAGTTACAGTGGAGCAAGATAAA
* * * *
71092357 GCTACAAATTCTATACCCCTAAAATTGCAGTGGGTCGGATTGAAGCTACCATAG-TAAGTCTTAT
1 GCTACAAATCCTATACCCCTAAAGTCGCAGTGGGTCGGATTGAAGCTACCATAGCGAA-TCTTAT
* **
71092421 CTCCCTAAAGTTGTAGTGGAGCAAGATAAA
65 CTCCCTGAAGTTACAGTGGAGCAAGATAAA
* * * * * *
71092451 GCTACAAATTCTATACCCCTGAAGTCGTAGTGGGTCAGG-TTAAAGCTATCATAACGAATCTTAT
1 GCTACAAATCCTATACCCCTAAAGTCGCAGTGGGTC-GGATTGAAGCTACCATAGCGAATCTTAT
* * * * *
71092515 CTCCCTAAAGTTGCAGTGGGGCAAGATGAT
65 CTCCCTGAAGTTACAGTGGAGCAAGATAAA
* * * * *
71092545 GTTACAAATCCTATACCCCTAAAGTTGCAATGGGTC-GAATGAAACTACCATAGCGAATCTTATC
1 GCTACAAATCCTATACCCCTAAAGTCGCAGTGGGTCGGATTGAAGCTACCATAGCGAATCTTATC
* * *
71092609 TCTCTGAAGTTACAGTGAAGCAAGATTAA
66 TCCCTGAAGTTACAGTGGAGCAAGATAAA
* * * * * * *
71092638 GCTACAGATCCTGTACCCTTAAAGTCACAGTGGGTCAGAATGGAA-CTACAATAGCGAATCTTAT
1 GCTACAAATCCTATACCCCTAAAGTCGCAGTGGGTC-GGATTGAAGCTACCATAGCGAATCTTAT
* * *
71092702 CTCCTTGAAGTTACAATGGAGCAAGATGAA
65 CTCCCTGAAGTTACAGTGGAGCAAGATAAA
* * * * * *** * * * *
71092732 GCTACAAATCATATATCGCTAAAGTTGTAGTAAATCGGATTGAAACTACAATAGCAAATCTCATC
1 GCTACAAATCCTATACCCCTAAAGTCGCAGTGGGTCGGATTGAAGCTACCATAGCGAATCTTATC
71092797 TCC
66 TCC
71092800 ACGAAGATGC
Statistics
Matches: 360, Mismatches: 76, Indels: 14
0.80 0.17 0.03
Matches are distributed among these distances:
92 1 0.00
93 80 0.22
94 271 0.75
95 8 0.02
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (94 bp):
GCTACAAATCCTATACCCCTAAAGTCGCAGTGGGTCGGATTGAAGCTACCATAGCGAATCTTATC
TCCCTGAAGTTACAGTGGAGCAAGATAAA
Found at i:71092698 original size:187 final size:187
Alignment explanation
Indices: 71092263--71092758 Score: 593
Period size: 187 Copynumber: 2.6 Consensus size: 187
71092253 GGGGTGTAAC
*
71092263 GCTACAAATCCTATACCCCTGAAGTCGTAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATT
1 GCTACAAATCCTATACCCCTGAAGTCGTAGTGGGTCAGATTGAAGCTA-CATAGCGAATCTTATC
* * * * * *
71092328 TCCTTGAAGTTACAGTGAAGTAAGATAAAGCTACAAATTCTATACCCCTAAAATTGCAGTGGGTC
65 TCCTTGAAGTTACAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAATGGGTC
* * * ** *
71092393 GGATTGAAGCTACCATAGTAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAAGATAAA
130 GGAATGAAACTACCATAGGAAGTCTTATCTCCCTAAAGTTACAGTGAAGCAAGATAAA
* * * *
71092451 GCTACAAATTCTATACCCCTGAAGTCGTAGTGGGTCAGGTTAAAGCTATCATAACGAATCTTATC
1 GCTACAAATCCTATACCCCTGAAGTCGTAGTGGGTCAGATTGAAGCTA-CATAGCGAATCTTATC
* * * * * *
71092516 TCCCTAAAGTTGCAGTGGGGCAAGATGATGTTACAAATCCTATACCCCTAAAGTTGCAATGGGTC
65 TCCTTGAAGTTACAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAATGGGTC
* * *
71092581 -GAATGAAACTACCATAGCGAA-TCTTATCTCTCTGAAGTTACAGTGAAGCAAGATTAA
130 GGAATGAAACTACCATAG-GAAGTCTTATCTCCCTAAAGTTACAGTGAAGCAAGATAAA
* * * * ** *
71092638 GCTACAGATCCTGTACCCTTAAAGTCACAGTGGGTCAGAATGGAA-CTACAATAGCGAATCTTAT
1 GCTACAAATCCTATACCCCTGAAGTCGTAGTGGGTCAG-ATTGAAGCTAC-ATAGCGAATCTTAT
* * * *
71092702 CTCCTTGAAGTTACAATGGAGCAAGATGAAGCTACAAATCATATATCGCTAAAGTTG
64 CTCCTTGAAGTTACAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTG
71092759 TAGTAAATCG
Statistics
Matches: 257, Mismatches: 48, Indels: 7
0.82 0.15 0.02
Matches are distributed among these distances:
186 1 0.00
187 139 0.54
188 117 0.46
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (187 bp):
GCTACAAATCCTATACCCCTGAAGTCGTAGTGGGTCAGATTGAAGCTACATAGCGAATCTTATCT
CCTTGAAGTTACAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAATGGGTCG
GAATGAAACTACCATAGGAAGTCTTATCTCCCTAAAGTTACAGTGAAGCAAGATAAA
Found at i:71092944 original size:44 final size:44
Alignment explanation
Indices: 71092890--71093042 Score: 123
Period size: 44 Copynumber: 3.3 Consensus size: 44
71092880 AATCTTATCT
71092890 CCCTGAAGTTGCAATAGAGTAAGATGAAGCTACAAATCCTATAC
1 CCCTGAAGTTGCAATAGAGTAAGATGAAGCTACAAATCCTATAC
* * * * * *
71092934 CCTTGAAGTTGTAGT-GGGTTGAA-ATGAAACTACAATGGCAAATCTTAT-C
1 CCCTGAAGTTGCAATAGAG-T-AAGATGAAGCT---A---CAAATCCTATAC
* *
71092983 TCCCTGAAGTTGTAGTAGAGTAAGATGAAGCTACAAATCCTATAC
1 -CCCTGAAGTTGCAATAGAGTAAGATGAAGCTACAAATCCTATAC
*
71093028 CCCTAAAGTTGCAAT
1 CCCTGAAGTTGCAAT
71093043 GGATCAGAAT
Statistics
Matches: 84, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
43 2 0.02
44 41 0.49
45 3 0.04
47 2 0.02
49 3 0.04
50 31 0.37
51 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (44 bp):
CCCTGAAGTTGCAATAGAGTAAGATGAAGCTACAAATCCTATAC
Found at i:71092984 original size:94 final size:94
Alignment explanation
Indices: 71092263--71093105 Score: 501
Period size: 94 Copynumber: 9.0 Consensus size: 94
71092253 GGGGTGTAAC
* * * * * * *
71092263 GCTACAAATCCTATACCCCTGAAGTCGTAGTGGG-TCAGATTGAAGCTACCATAGCGAATCTTAT
1 GCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGA-AATGAAACTACAATAGCAAATCTTAT
* * * * * *
71092327 TTCCTTGAAGTTACAGTGAAGTAAGATAAA
65 CTCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * * * * * * * *
71092357 GCTACAAATTCTATACCCCTAAAATTGCAGTGGGTCGGATTGAAGCTACCATAGTAAGTCTTATC
1 GCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGAAATGAAACTACAATAGCAAATCTTATC
* * *
71092422 TCCCTAAAGTTGTAGTGGAGCAAGATAAA
66 TCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * * ** * * *
71092451 GCTACAAATTCTATACCCCTGAAGTCGTAGTGGG-TCAGGTTAAAGCTATC-ATAACGAATCTTA
1 GCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGAAATGAAA-CTA-CAATAGCAAATCTTA
* * *
71092514 TCTCCCTAAAGTTGCAGTGGGGCAAGATGAT
64 TCTCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * * * *
71092545 GTTACAAATCCTATACCCCTAAAGTTGCAATGGGTCG-AATGAAACTACCATAGCGAATCTTATC
1 GCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGAAATGAAACTACAATAGCAAATCTTATC
* * * *
71092609 TCTCTGAAGTTACAGTGAAGCAAGATTAA
66 TCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * *** * * *
71092638 GCTACAGATCCTGTACCCTTAAAGTCACAGTGGG-TCAGAATGGAACTACAATAGCGAATCTTAT
1 GCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGA-AATGAAACTACAATAGCAAATCTTAT
* * *
71092702 CTCCTTGAAGTTACAATGGAGCAAGATGAA
65 CTCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * *** * * * *
71092732 GCTACAAATCATATATCGCTAAAGTTGTAGTAAATCGGATTGAAACTACAATAGCAAATCTCATC
1 GCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGAAATGAAACTACAATAGCAAATCTTATC
* * * * * *
71092797 TCCAC-GAAGATGCAATGGCGTATGATAAA
66 TCC-CTGAAGTTGCAGTGGAGCAAGATGAA
* ** * ** ** * * **
71092826 GGTACAACAT--TA-A-ATCT--AGTTTTCTTGAATTTGCAGTGAAA-T-GGATGAAGCAGCAAT
1 GCTACAA-ATCCTATACCCCTAAAGTTGTAGTG-GGTTGAAATGAAACTACAAT--AGCA--AAT
* * *
71092883 CTTATCTCCCTGAAGTTGCAATAGAGTAAGATGAA
60 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * *
71092918 GCTACAAATCCTATACCCTTGAAGTTGTAGTGGGTTGAAATGAAACTACAATGGCAAATCTTATC
1 GCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGAAATGAAACTACAATAGCAAATCTTATC
* * *
71092983 TCCCTGAAGTTGTAGTAGAGTAAGATGAA
66 TCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * * * * *
71093012 GCTACAAATCCTATACCCCTAAAGTTGCAAT-GGATCAGAATGAAACTACTACAACAAATCTTAT
1 GCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGA-AATGAAACTACAATAGCAAATCTTAT
* * * *
71093076 CTCCTTGAAGTTGCAATGAAGCAAGTTGAA
65 CTCCCTGAAGTTGCAGTGGAGCAAGATGAA
71093106 ACTGTGACAC
Statistics
Matches: 574, Mismatches: 150, Indels: 50
0.74 0.19 0.06
Matches are distributed among these distances:
88 2 0.00
89 7 0.01
90 13 0.02
91 5 0.01
92 38 0.07
93 77 0.13
94 406 0.71
95 4 0.01
96 12 0.02
97 8 0.01
98 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (94 bp):
GCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGAAATGAAACTACAATAGCAAATCTTATC
TCCCTGAAGTTGCAGTGGAGCAAGATGAA
Found at i:71093011 original size:50 final size:47
Alignment explanation
Indices: 71092880--71093018 Score: 128
Period size: 50 Copynumber: 3.0 Consensus size: 47
71092870 ATGAAGCAGC
* *
71092880 AATCTTATCTCCCTGAAGTTGCAATAGAGTAAGATGAAGCT---ACA
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAAGATGAAGCTACAACA
* * * *
71092924 AATCCTATAC-CCTTGAAGTTGTAGT-GGGTTGAA-ATGAAACTACAATGGCA
1 AATCTTAT-CTCCCTGAAGTTGTAGTAGAG-T-AAGATGAAGCTACAA---CA
71092974 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAAGATGAAGCTACAA
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAAGATGAAGCTACAA
71093019 ATCCTATACC
Statistics
Matches: 73, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
43 2 0.03
44 27 0.37
45 3 0.04
47 1 0.01
49 3 0.04
50 35 0.48
51 2 0.03
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (47 bp):
AATCTTATCTCCCTGAAGTTGTAGTAGAGTAAGATGAAGCTACAACA
Found at i:71093258 original size:7 final size:7
Alignment explanation
Indices: 71093246--71093281 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
71093236 CCTAAAAGCT
71093246 CAAAACC
1 CAAAACC
71093253 CAAAACC
1 CAAAACC
*
71093260 CAAAGCC
1 CAAAACC
71093267 CAATAACC
1 CAA-AACC
71093275 CAAAACC
1 CAAAACC
71093282 TAAACAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.53, C:0.42, G:0.03, T:0.03
Consensus pattern (7 bp):
CAAAACC
Found at i:71093268 original size:14 final size:15
Alignment explanation
Indices: 71093246--71093281 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
71093236 CCTAAAAGCT
71093246 CAAAACCCAA-AACC
1 CAAAACCCAATAACC
*
71093260 CAAAGCCCAATAACC
1 CAAAACCCAATAACC
71093275 CAAAACC
1 CAAAACC
71093282 TAAACAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.53, C:0.42, G:0.03, T:0.03
Consensus pattern (15 bp):
CAAAACCCAATAACC
Found at i:71093275 original size:22 final size:21
Alignment explanation
Indices: 71093240--71093281 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
71093230 CCTAACCCTA
*
71093240 AAAGCTCAAAACCCAAAACCC
1 AAAGCCCAAAACCCAAAACCC
71093261 AAAGCCCAATAACCCAAAACC
1 AAAGCCCAA-AACCCAAAACC
71093282 TAAACAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.52, C:0.38, G:0.05, T:0.05
Consensus pattern (21 bp):
AAAGCCCAAAACCCAAAACCC
Found at i:71099617 original size:19 final size:18
Alignment explanation
Indices: 71099573--71099628 Score: 66
Period size: 17 Copynumber: 3.3 Consensus size: 18
71099563 AGGTGGCAAA
71099573 TATAAATT--TTAAAAAT
1 TATAAATTAATTAAAAAT
*
71099589 TA-AAAATAATTAAAAAT
1 TATAAATTAATTAAAAAT
71099606 ATATAAATTAA-TAAAAAT
1 -TATAAATTAATTAAAAAT
71099624 TATAA
1 TATAA
71099629 TTTTTTTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
15 4 0.12
16 2 0.06
17 13 0.38
18 9 0.26
19 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TATAAATTAATTAAAAAT
Found at i:71099865 original size:7 final size:7
Alignment explanation
Indices: 71099853--71099878 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
71099843 TTTGAAAATA
71099853 TATAATT
1 TATAATT
71099860 TATAATT
1 TATAATT
71099867 TATAATT
1 TATAATT
71099874 TATAA
1 TATAA
71099879 AAAATTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TATAATT
Found at i:71104505 original size:22 final size:22
Alignment explanation
Indices: 71104468--71104520 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
71104458 TAATAATATA
71104468 TTTTTAAAA-A-AAATTCCAAG
1 TTTTTAAAATATAAATTCCAAG
* *
71104488 TTTTTATAATATAAATTCCATG
1 TTTTTAAAATATAAATTCCAAG
71104510 TTTTTAAAATA
1 TTTTTAAAATA
71104521 AGTTCGAGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 8 0.29
21 1 0.04
22 19 0.68
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (22 bp):
TTTTTAAAATATAAATTCCAAG
Found at i:71107367 original size:11 final size:10
Alignment explanation
Indices: 71107351--71107377 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
71107341 AATCTTGTGG
71107351 AAAAAAAAAC
1 AAAAAAAAAC
71107361 AAAAAAAAAC
1 AAAAAAAAAC
71107371 AAAAAAA
1 AAAAAAA
71107378 TCTATGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:71108896 original size:22 final size:23
Alignment explanation
Indices: 71108871--71108930 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
71108861 TGGACTGAAT
71108871 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
71108893 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
71108915 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
71108931 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:71108898 original size:4 final size:4
Alignment explanation
Indices: 71108880--71108913 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
71108870 TATAAAAATT
71108880 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
71108914 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:71110319 original size:23 final size:22
Alignment explanation
Indices: 71110267--71110319 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
71110257 TCCACGTCTT
*
71110267 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
71110289 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
71110312 TTTCTTTT
1 TTTCTTTT
71110320 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:71112704 original size:14 final size:14
Alignment explanation
Indices: 71112677--71112710 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
71112667 TATAAAAATT
71112677 TAAACTAAATAAAA
1 TAAACTAAATAAAA
71112691 TAAA-TAAATAAAAA
1 TAAACTAAAT-AAAA
71112705 TAAACT
1 TAAACT
71112711 TTACAACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.28
14 12 0.67
15 1 0.06
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACTAAATAAAA
Found at i:71113791 original size:19 final size:19
Alignment explanation
Indices: 71113767--71113805 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
71113757 GACACATGGA
71113767 ACATAACTCACTATCTTAT
1 ACATAACTCACTATCTTAT
71113786 ACATAACTCACTATCTTAT
1 ACATAACTCACTATCTTAT
71113805 A
1 A
71113806 AAATTTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (19 bp):
ACATAACTCACTATCTTAT
Found at i:71116154 original size:31 final size:31
Alignment explanation
Indices: 71116114--71116172 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
71116104 ATGTCAAAAT
* * * *
71116114 TAAAGTATAGAGATTAAATCTTAAATTTGAG
1 TAAAATATAGAGATCAAAACTAAAATTTGAG
*
71116145 TAAAATATAGGGATCAAAACTAAAATTT
1 TAAAATATAGAGATCAAAACTAAAATTT
71116173 AACCATTCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.32
Consensus pattern (31 bp):
TAAAATATAGAGATCAAAACTAAAATTTGAG
Found at i:71116173 original size:177 final size:176
Alignment explanation
Indices: 71115746--71116367 Score: 807
Period size: 176 Copynumber: 3.5 Consensus size: 176
71115736 TTGAGGCACC
*
71115746 AAATTATGTCAAAATTAAAGTATAGAGATTAAATATCAAATTTGAGCGAAATATAGGAAGCAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATATCAAATTTGAGTGAAATATAGGAAGCAAAA
* ** * **
71115811 CTAAAATTTAGCTGTTCTTATATAATCTTTAAAAAGTTGATGGATTAGAATTGAAATTTAACGTT
66 CTAAAATTTAACCATTCTTATATAATCTTTAAAAAGTTGATGGATTAGAATTGAAATTTAGCCAT
* ** *
71115876 AGTTTTCTATAACAAAAGAAAAGAAAGAAAGAATGGAGATGTGTCT
131 AATTTTCTATGTCAAAAGAAAAGAAAGAAAGAATGGACATGTGTCT
* * * *
71115922 AAATTATGTCTAAATTAAAGTATAGAGATTAAATCTCAAATTTAAGCT-AAATATAGGGAGCAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATATCAAATTTGAG-TGAAATATAGGAAGCAAA
* * * * *
71115986 AATGAAATTTAGCCACTCTTATATAATCTTTAAAAATTTGATGGATTAGAATTGAAATTTAGCCA
65 ACTAAAATTTAACCATTCTTATATAATCTTTAAAAAGTTGATGGATTAGAATTGAAATTTAGCCA
* *
71116051 GAATTTTCTATGTCAAAAGAAAAGGAAAGAAAGAATGGCCATGTGTCT
130 TAATTTTCTATGTCAAAAGAAAA-GAAAGAAAGAATGGACATGTGTCT
* * * * *
71116099 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTTAAATTTGAGTAAAATATAGGGATCAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATATCAAATTTGAGTGAAATATAGGAAGCAAAA
* * * *
71116164 CTAAAATTTAACCATTCTTATATAATC-TTAAAAAGGTAGAGGGATTAGAACTAAAATTTAGCCA
66 CTAAAATTTAACCATTCTTATATAATCTTTAAAAA-GTTGATGGATTAGAATTGAAATTTAGCCA
* * * *
71116228 CTACTTTTTTCATGTCAAAAGAAAAGAAAAAAAGAATGGACAAGTGTCT
130 -TAATTTTCT-ATGTCAAAAGAAAAGAAAGAAAGAATGGACATGTGTCT
* * * **
71116277 AAATTATATCAAAATTAAAGTATAGAAATTAAATATCAAATTTGAGTGAAATATAAGAATTAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATATCAAATTTGAGTGAAATATAGGAAGCAAAA
* *
71116342 TTAAAATTTAACCATTTTTATATAAT
66 CTAAAATTTAACCATTCTTATATAAT
71116368 TCTAAAAGTA
Statistics
Matches: 391, Mismatches: 49, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
176 141 0.36
177 128 0.33
178 108 0.28
179 14 0.04
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (176 bp):
AAATTATGTCAAAATTAAAGTATAGAGATTAAATATCAAATTTGAGTGAAATATAGGAAGCAAAA
CTAAAATTTAACCATTCTTATATAATCTTTAAAAAGTTGATGGATTAGAATTGAAATTTAGCCAT
AATTTTCTATGTCAAAAGAAAAGAAAGAAAGAATGGACATGTGTCT
Found at i:71116943 original size:18 final size:20
Alignment explanation
Indices: 71116916--71116959 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
71116906 AAATAGGGGC
*
71116916 TAAAATATTA-TTTT-ACTT
1 TAAAAAATTAGTTTTGACTT
71116934 TAAAAAATTAGTTTTGACTT
1 TAAAAAATTAGTTTTGACTT
71116954 TAAAAA
1 TAAAAA
71116960 CCATATGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.39
19 4 0.17
20 10 0.43
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (20 bp):
TAAAAAATTAGTTTTGACTT
Found at i:71121169 original size:21 final size:22
Alignment explanation
Indices: 71121143--71121190 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
71121133 AGAAGTATAT
**
71121143 TTATATTA-AAATTTATTTAAA
1 TTATATTAGAAAAATATTTAAA
71121164 TTATATTATGAAAAATATTTAAA
1 TTATATTA-GAAAAATATTTAAA
71121187 TTAT
1 TTAT
71121191 TTTTAGGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
23 15 0.65
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TTATATTAGAAAAATATTTAAA
Found at i:71135825 original size:22 final size:23
Alignment explanation
Indices: 71135777--71135832 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
71135767 ACTTTATGTT
71135777 TATT-ACATAA-AATTAATATTA
1 TATTAACATAATAATTAATATTA
*
71135798 TATTAACATAATAATTATTATT-
1 TATTAACATAATAATTAATATTA
*
71135820 TCTTAA-ATAATAA
1 TATTAACATAATAA
71135833 GTAAATACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 11 0.35
22 11 0.35
23 9 0.29
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (23 bp):
TATTAACATAATAATTAATATTA
Found at i:71143826 original size:43 final size:42
Alignment explanation
Indices: 71143691--71143861 Score: 315
Period size: 42 Copynumber: 4.0 Consensus size: 42
71143681 CCGTGGATGA
71143691 TAAGGATGATTTCATGGAATGAGTGTTTTTCCAATCTCATTT
1 TAAGGATGATTTCATGGAATGAGTGTTTTTCCAATCTCATTT
71143733 TAAGGATGATTTCATGGAATGAGTGTTTTTCCAATCTCATTT
1 TAAGGATGATTTCATGGAATGAGTGTTTTTCCAATCTCATTT
71143775 TAAGGATGATTTCATGGAATGAGTGTTTTTCCAAATCTCATTT
1 TAAGGATGATTTCATGGAATGAGTGTTTTTCC-AATCTCATTT
*
71143818 TAAGGATGATTTTGATGGAATGAGTGTTTTTCCAATCTCATTT
1 TAAGGATGA-TTTCATGGAATGAGTGTTTTTCCAATCTCATTT
71143861 T
1 T
71143862 TAGGCAAGTT
Statistics
Matches: 126, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
42 74 0.59
43 30 0.24
44 22 0.17
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.43
Consensus pattern (42 bp):
TAAGGATGATTTCATGGAATGAGTGTTTTTCCAATCTCATTT
Found at i:71152212 original size:42 final size:42
Alignment explanation
Indices: 71152149--71152252 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 42
71152139 CTTCGTTTTC
** *
71152149 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
71152192 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
71152233 TCGATGCCATAGCCCAACTA
1 TCGATGCCATAGCCCAACTA
71152253 CACGAATCAC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
41 2 0.04
42 51 0.94
43 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:71152402 original size:31 final size:31
Alignment explanation
Indices: 71152367--71152484 Score: 200
Period size: 31 Copynumber: 3.8 Consensus size: 31
71152357 CTTGTCACTT
*
71152367 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
71152398 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
71152429 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
71152460 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
71152485 TGTCATTTGT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 82 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:71152564 original size:50 final size:50
Alignment explanation
Indices: 71152460--71152736 Score: 518
Period size: 50 Copynumber: 5.5 Consensus size: 50
71152450 CACTGATCAG
* *
71152460 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
71152511 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
71152561 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
71152611 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
71152661 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
71152711 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
71152737 GTTGCCATGG
Statistics
Matches: 222, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
50 198 0.89
51 24 0.11
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:71154191 original size:31 final size:31
Alignment explanation
Indices: 71154149--71154210 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
71154139 AGTTATGAAA
71154149 TAACTTATAATGTCTAGAAAAAGTATTAATT
1 TAACTTATAATGTCTAGAAAAAGTATTAATT
* *
71154180 TAACTTGTAATGTCTATAAAAAGTATTAATT
1 TAACTTATAATGTCTAGAAAAAGTATTAATT
71154211 GAGAAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (31 bp):
TAACTTATAATGTCTAGAAAAAGTATTAATT
Found at i:71155374 original size:50 final size:51
Alignment explanation
Indices: 71155297--71155425 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
71155287 GACCATGGCA
71155297 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
71155348 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
71155398 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
71155426 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:71155439 original size:31 final size:31
Alignment explanation
Indices: 71155401--71155549 Score: 253
Period size: 31 Copynumber: 4.8 Consensus size: 31
71155391 ACAAATGACA
*
71155401 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
71155432 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
71155463 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
71155494 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
71155525 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
71155550 AAGTGACAAG
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 113 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:71155642 original size:47 final size:47
Alignment explanation
Indices: 71155573--71155738 Score: 157
Period size: 47 Copynumber: 3.7 Consensus size: 47
71155563 CAAGTGATTT
* *
71155573 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
** * * *
71155620 CTGTATAAGACCATATCTGGGATATAACATCAGTGAGATATGTGATT
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
71155667 C-GTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * *
71155709 -TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CTGTATAAGACCATATCTGGGATATGGCATC
71155739 ATTATGTGAA
Statistics
Matches: 103, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
41 7 0.07
42 31 0.30
46 24 0.23
47 41 0.40
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:71155724 original size:42 final size:43
Alignment explanation
Indices: 71155668--71155782 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
71155658 TATGTGATTC
*
71155668 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
71155710 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
71155752 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
71155783 GAAAATGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:71182461 original size:18 final size:18
Alignment explanation
Indices: 71182440--71182528 Score: 87
Period size: 18 Copynumber: 5.1 Consensus size: 18
71182430 GAGGCATGCT
* *
71182440 CAGCAACAGCAGCATCAG
1 CAGCAACAGCAACAGCAG
*
71182458 CAGCAACAACAACAGCAG
1 CAGCAACAGCAACAGCAG
71182476 CAGCAACAGCAACAGCCA-
1 CAGCAACAGCAACAG-CAG
* *
71182494 CAGCAACAGCCACAAC-G
1 CAGCAACAGCAACAGCAG
*
71182511 C--CAACAGCAGCAGCAG
1 CAGCAACAGCAACAGCAG
71182527 CA
1 CA
71182529 AAGAGAAGGG
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
15 10 0.17
16 2 0.03
17 2 0.03
18 42 0.72
19 2 0.03
ACGTcount: A:0.43, C:0.37, G:0.19, T:0.01
Consensus pattern (18 bp):
CAGCAACAGCAACAGCAG
Found at i:71182479 original size:6 final size:6
Alignment explanation
Indices: 71182440--71182503 Score: 74
Period size: 6 Copynumber: 10.7 Consensus size: 6
71182430 GAGGCATGCT
* * * * *
71182440 CAGCAA CAGCAG CATCAG CAGCAA CAACAA CAGCAG CAGCAA CAGCAA
1 CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA
*
71182488 CAGCCA CAGCAA CAGC
1 CAGCAA CAGCAA CAGC
71182504 CACAACGCCA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.44, C:0.36, G:0.19, T:0.02
Consensus pattern (6 bp):
CAGCAA
Found at i:71182964 original size:28 final size:28
Alignment explanation
Indices: 71182902--71182956 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
71182892 AAAAAAAAAA
71182902 GTCATGTATTATTTCCTTTATTTGCTTG
1 GTCATGTATTATTTCCTTTATTTGCTTG
71182930 GTCATGTATTATTTCCTTTATTTGCTT
1 GTCATGTATTATTTCCTTTATTTGCTT
71182957 TGTTATGTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.13, T:0.58
Consensus pattern (28 bp):
GTCATGTATTATTTCCTTTATTTGCTTG
Found at i:71199954 original size:124 final size:123
Alignment explanation
Indices: 71199808--71200110 Score: 382
Period size: 124 Copynumber: 2.5 Consensus size: 123
71199798 TCATACTCAA
*
71199808 TTTTTTTCCTTTATTTGCTGAATGATTGTACCAAAAGATTCTATCATAAATTTTCAAAATTTTCA
1 TTTTTTTCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCATAAATTTTCAAAATTTTCA
* *
71199873 AATACTTCAAAACAAAATTTACACAATTT-CTTTTAG-CCATTACTTACATTTTACCCCC
66 AACACTTCAAAACAAAATTTACACAATTTAC-TTTAGTCCATTACTTACATATTA-CCCC
* * * **
71199931 TTTTTTTCCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCA-CAGTTTACCAATTTTTT
1 TTTTTTT-CCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCATAAATTT-TCAAAATTTT
* * **
71199995 CAAACACTTCAAAACAAAATTTATACTATTTACTTTAGTCTTTTACTTACATATTACCCC
64 CAAACACTTCAAAACAAAATTTACACAATTTACTTTAGTCCATTACTTACATATTACCCC
* * * **
71200055 TTTTTTT--TGTATTTGTTGAATTATTGTACCAAAAAATTCTATCATAGTTTTTCAAA
1 TTTTTTTCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCATAAATTTTCAAA
71200111 CACTTCAAAA
Statistics
Matches: 155, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
121 37 0.24
122 3 0.02
123 11 0.07
124 89 0.57
125 15 0.10
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (123 bp):
TTTTTTTCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCATAAATTTTCAAAATTTTCA
AACACTTCAAAACAAAATTTACACAATTTACTTTAGTCCATTACTTACATATTACCCC
Found at i:71202202 original size:23 final size:24
Alignment explanation
Indices: 71202172--71202216 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
71202162 AATATTTCCC
71202172 ACAAAAAA-AAAGATA-AAAAAAGT
1 ACAAAAAATAAA-ATACAAAAAAGT
71202195 ACAAAAAATAAAATACAAAAAA
1 ACAAAAAATAAAATACAAAAAA
71202217 AATAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.80, C:0.07, G:0.04, T:0.09
Consensus pattern (24 bp):
ACAAAAAATAAAATACAAAAAAGT
Found at i:71202207 original size:25 final size:24
Alignment explanation
Indices: 71202174--71202228 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
71202164 TATTTCCCAC
* *
71202174 AAAAAAAAAGATAAAAAAAGTACAA
1 AAAAAAAAAGACAAAAAAAATA-AA
* *
71202199 AAAATAAAATACAAAAAAAATAAA
1 AAAAAAAAAGACAAAAAAAATAAA
71202223 AAAAAA
1 AAAAAA
71202229 TTCTGTGGGT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.84, C:0.04, G:0.04, T:0.09
Consensus pattern (24 bp):
AAAAAAAAAGACAAAAAAAATAAA
Found at i:71202228 original size:11 final size:11
Alignment explanation
Indices: 71202174--71202228 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
71202164 TATTTCCCAC
71202174 AAAAAAAAAGAT
1 AAAAAAAAA-AT
** *
71202186 AAAAAAAGTAC
1 AAAAAAAAAAT
71202197 AAAAAATAAAAT
1 AAAAAA-AAAAT
*
71202209 ACAAAAAAAAT
1 AAAAAAAAAAT
71202220 AAAAAAAAA
1 AAAAAAAAA
71202229 TTCTGTGGGT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
11 20 0.59
12 14 0.41
ACGTcount: A:0.84, C:0.04, G:0.04, T:0.09
Consensus pattern (11 bp):
AAAAAAAAAAT
Found at i:71219066 original size:16 final size:17
Alignment explanation
Indices: 71219044--71219088 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
71219034 CTTTTGTAGG
71219044 ATTAATATATTAAAATT
1 ATTAATATATTAAAATT
*
71219061 -TTAATA-ATTAAATTT
1 ATTAATATATTAAAATT
71219076 ATTAATATTATTA
1 ATTAATA-TATTA
71219089 TATTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.33
16 12 0.50
18 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTAATATATTAAAATT
Found at i:71220314 original size:25 final size:25
Alignment explanation
Indices: 71220286--71220333 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
71220276 AAATTTTCAA
*
71220286 TACA-AATTATTAACTTATCAAAATG
1 TACATAATTATTAACATA-CAAAATG
*
71220311 TACATAATTTTTAACATACAAAA
1 TACATAATTATTAACATACAAAA
71220334 AAAAATTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 9 0.45
26 11 0.55
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.35
Consensus pattern (25 bp):
TACATAATTATTAACATACAAAATG
Found at i:71221298 original size:3 final size:3
Alignment explanation
Indices: 71221290--71221339 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
71221280 GTTATGACTT
71221290 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
71221338 TT
1 TT
71221340 CTCTCTTTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:71223125 original size:20 final size:20
Alignment explanation
Indices: 71223096--71223133 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
71223086 CAATATTTGT
*
71223096 GGTTCAAAGTTCTGGATTGA
1 GGTTCAAAGTTCAGGATTGA
*
71223116 GGTTCTAAGTTCAGGATT
1 GGTTCAAAGTTCAGGATT
71223134 CAGGATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.37
Consensus pattern (20 bp):
GGTTCAAAGTTCAGGATTGA
Found at i:71224779 original size:10 final size:10
Alignment explanation
Indices: 71224765--71224797 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
71224755 AAAAAATATT
71224765 AAAAAAGAAA
1 AAAAAAGAAA
*
71224775 CAAAAAGAAA
1 AAAAAAGAAA
71224785 AAAAAAGAAA
1 AAAAAAGAAA
71224795 AAA
1 AAA
71224798 CAAAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:71229666 original size:5 final size:5
Alignment explanation
Indices: 71229656--71229699 Score: 79
Period size: 5 Copynumber: 8.6 Consensus size: 5
71229646 TATATTAAGA
71229656 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAGT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA-T ATA
71229700 TTTATTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 34 0.89
6 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:71230245 original size:17 final size:17
Alignment explanation
Indices: 71230223--71230256 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
71230213 ATCCACTAAT
*
71230223 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
71230240 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
71230257 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:71234884 original size:17 final size:17
Alignment explanation
Indices: 71234862--71234895 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
71234852 ATCCACTAAT
*
71234862 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
71234879 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
71234896 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:71237204 original size:5 final size:5
Alignment explanation
Indices: 71237191--71237263 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
71237181 TTGTTTTATG
71237191 TATATA TATAA TATAA TATAA TAT-A T-TAA TGATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
71237239 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
71237264 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:71237216 original size:19 final size:19
Alignment explanation
Indices: 71237192--71237234 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
71237182 TGTTTTATGT
71237192 ATATATATAAT-ATAATATA
1 ATATAT-TAATGATAATATA
71237211 ATATATTAATGATAATATA
1 ATATATTAATGATAATATA
71237230 ATATA
1 ATATA
71237235 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATATTAATGATAATATA
Found at i:71237244 original size:24 final size:24
Alignment explanation
Indices: 71237198--71237262 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
71237188 ATGTATATAT
* * *
71237198 ATAATATAATATAATATATTAATG
1 ATAATATAATATAATAAAATAATC
71237222 ATAATATAATATAA-AAACATAATC
1 ATAATATAATATAATAAA-ATAATC
*
71237246 ATTACTATAATATAATA
1 A-TAATATAATATAATA
71237263 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 19 0.56
25 12 0.35
26 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (24 bp):
ATAATATAATATAATAAAATAATC
Found at i:71240244 original size:64 final size:64
Alignment explanation
Indices: 71240135--71240264 Score: 179
Period size: 64 Copynumber: 2.0 Consensus size: 64
71240125 ATAAACATCT
* * * *
71240135 TGATCGGTAGTAATCTTGCATATGTTGCAAACATACTGCATCTCTTTGTGAGCGTCCTGTTATA
1 TGATCGGTAGTAATCTTGCATATGTTGCAAACATACCGCAGCTCTTTATGAGCATCCTGTTATA
* * * **
71240199 TGATTGGTAGTGATCTTGCATGTGTTGCGGACATACCGCAGCTCTTTATGAGCATCCTGTTATA
1 TGATCGGTAGTAATCTTGCATATGTTGCAAACATACCGCAGCTCTTTATGAGCATCCTGTTATA
71240263 TG
1 TG
71240265 GCTCTCTGGA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (64 bp):
TGATCGGTAGTAATCTTGCATATGTTGCAAACATACCGCAGCTCTTTATGAGCATCCTGTTATA
Found at i:71242832 original size:35 final size:35
Alignment explanation
Indices: 71242761--71242925 Score: 217
Period size: 35 Copynumber: 4.7 Consensus size: 35
71242751 TGGAAAAATG
* *
71242761 TGAAACGTAGTTATGGTA-TTTCCATACCGAGTTA
1 TGAAACGTAGGTATGGTATTTTCCATACTGAGTTA
* * *
71242795 TGATACGTAGGTATGGTAATTTCCATACTGAGCTA
1 TGAAACGTAGGTATGGTATTTTCCATACTGAGTTA
* *
71242830 TGATACGTAGGTATGGTATTTTCCATA-TCGAGTTG
1 TGAAACGTAGGTATGGTATTTTCCATACT-GAGTTA
* *
71242865 TGAAACGTAGGTTTGGTATTTTCCATACTGAGTTG
1 TGAAACGTAGGTATGGTATTTTCCATACTGAGTTA
*
71242900 TGAAATGTAGGTATGGTATTTTCCAT
1 TGAAACGTAGGTATGGTATTTTCCAT
71242926 GAGGAAAACC
Statistics
Matches: 117, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
34 17 0.15
35 99 0.85
36 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (35 bp):
TGAAACGTAGGTATGGTATTTTCCATACTGAGTTA
Found at i:71250553 original size:20 final size:21
Alignment explanation
Indices: 71250521--71250565 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
71250511 ATATATTAAA
71250521 ATTTAAAATTTATTTTG-AAT
1 ATTTAAAATTTATTTTGTAAT
71250541 ATTTGAAAA-TTATTTTGTAAT
1 ATTT-AAAATTTATTTTGTAAT
71250562 ATTT
1 ATTT
71250566 TGTAATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (21 bp):
ATTTAAAATTTATTTTGTAAT
Found at i:71257278 original size:40 final size:40
Alignment explanation
Indices: 71257223--71257304 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
71257213 TGTTTAGAGA
71257223 TAGCAAAACAAATCATGGTAAAGCACTCACTTCAAAAAAC
1 TAGCAAAACAAATCATGGTAAAGCACTCACTTCAAAAAAC
*
71257263 TAGCAAAATAAATCATGGTAAAGCACTCACTTCAAAAAAC
1 TAGCAAAACAAATCATGGTAAAGCACTCACTTCAAAAAAC
71257303 TA
1 TA
71257305 AGTTTCCCAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.50, C:0.21, G:0.10, T:0.20
Consensus pattern (40 bp):
TAGCAAAACAAATCATGGTAAAGCACTCACTTCAAAAAAC
Found at i:71258694 original size:52 final size:54
Alignment explanation
Indices: 71258575--71258687 Score: 185
Period size: 54 Copynumber: 2.1 Consensus size: 54
71258565 ATGGTAAGGG
*
71258575 TTAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATGTATGTAGTTTTAA
1 TTAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATGTATGTAATTTTAA
* *
71258629 TTGATTTTAATTTTTGAATATTATTTAATA-TTTTTT-ATTTATGTAATTTTAA
1 TTAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATGTATGTAATTTTAA
71258681 TTAATTT
1 TTAATTT
71258688 GTATTTTATA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
52 20 0.36
53 6 0.11
54 29 0.53
ACGTcount: A:0.30, C:0.01, G:0.06, T:0.63
Consensus pattern (54 bp):
TTAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATGTATGTAATTTTAA
Found at i:71259448 original size:15 final size:15
Alignment explanation
Indices: 71259428--71259457 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
71259418 TAACGAGGTA
71259428 AATTTTTTATTTGAT
1 AATTTTTTATTTGAT
71259443 AATTTTTTATTTGAT
1 AATTTTTTATTTGAT
71259458 TTTATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
AATTTTTTATTTGAT
Found at i:71262371 original size:14 final size:14
Alignment explanation
Indices: 71262352--71262383 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
71262342 AGGTCATTTA
71262352 GCCCAACCAAACTG
1 GCCCAACCAAACTG
71262366 GCCCAACCAAACTG
1 GCCCAACCAAACTG
71262380 GCCC
1 GCCC
71262384 GGTGATTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:71267110 original size:14 final size:14
Alignment explanation
Indices: 71267091--71267120 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
71267081 GTCATTTAGG
71267091 CCAACCAAACTGGC
1 CCAACCAAACTGGC
71267105 CCAACCAAACTGGC
1 CCAACCAAACTGGC
71267119 CC
1 CC
71267121 GGTGATTTGA
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:0.33, C:0.47, G:0.13, T:0.07
Consensus pattern (14 bp):
CCAACCAAACTGGC
Found at i:71268981 original size:152 final size:152
Alignment explanation
Indices: 71268705--71269011 Score: 614
Period size: 152 Copynumber: 2.0 Consensus size: 152
71268695 AAACTAACCA
71268705 AATTATATCAATAATGTTATACTTTAACATATTAAGATACCTTGGCCGAATGTTAAAAAAAATCA
1 AATTATATCAATAATGTTATACTTTAACATATTAAGATACCTTGGCCGAATGTTAAAAAAAATCA
71268770 ATTATATAACAGCACATAAATGTTTCCTATATAGCCGATTATACAAGATCAATTATATCATCACA
66 ATTATATAACAGCACATAAATGTTTCCTATATAGCCGATTATACAAGATCAATTATATCATCACA
71268835 TAGACAATTACATATAGGGCTG
131 TAGACAATTACATATAGGGCTG
71268857 AATTATATCAATAATGTTATACTTTAACATATTAAGATACCTTGGCCGAATGTTAAAAAAAATCA
1 AATTATATCAATAATGTTATACTTTAACATATTAAGATACCTTGGCCGAATGTTAAAAAAAATCA
71268922 ATTATATAACAGCACATAAATGTTTCCTATATAGCCGATTATACAAGATCAATTATATCATCACA
66 ATTATATAACAGCACATAAATGTTTCCTATATAGCCGATTATACAAGATCAATTATATCATCACA
71268987 TAGACAATTACATATAGGGCTG
131 TAGACAATTACATATAGGGCTG
71269009 AAT
1 AAT
71269012 ACACAAAATT
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 155 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (152 bp):
AATTATATCAATAATGTTATACTTTAACATATTAAGATACCTTGGCCGAATGTTAAAAAAAATCA
ATTATATAACAGCACATAAATGTTTCCTATATAGCCGATTATACAAGATCAATTATATCATCACA
TAGACAATTACATATAGGGCTG
Found at i:71269780 original size:24 final size:24
Alignment explanation
Indices: 71269748--71269797 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
71269738 ATGGGTAAAT
*
71269748 TACCATTTTACCCTTAATATTTCA
1 TACCATTTTACCCCTAATATTTCA
71269772 TACCATTTTACCCCTAATATTTCA
1 TACCATTTTACCCCTAATATTTCA
71269796 TA
1 TA
71269798 GTTTTACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (24 bp):
TACCATTTTACCCCTAATATTTCA
Found at i:71272357 original size:8 final size:8
Alignment explanation
Indices: 71272344--71272391 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
71272334 AATAAAGGTG
71272344 GTTAGTCT
1 GTTAGTCT
71272352 GTTAGTCT
1 GTTAGTCT
*
71272360 GTTAGTGT
1 GTTAGTCT
*
71272368 GTTAGCTACA
1 GTTAG-T-CT
71272378 GTTAGTCT
1 GTTAGTCT
*
71272386 GCTAGT
1 GTTAGT
71272392 TACTGAAAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
8 26 0.79
9 2 0.06
10 5 0.15
ACGTcount: A:0.17, C:0.12, G:0.27, T:0.44
Consensus pattern (8 bp):
GTTAGTCT
Found at i:71275184 original size:81 final size:81
Alignment explanation
Indices: 71275047--71275208 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
71275037 CTGACAAGGT
71275047 CACCTAATCCAATACTCTCTCCTTCTAACAACCCTATGAATAGCTCACCCCATACTAGCATGTCT
1 CACCTAATCCAATACTCTCTCCTTCTAACAACCCTATGAATAGCTCACCCCATACTAGCATGTCT
71275112 AATCTGTCCCCTCACC
66 AATCTGTCCCCTCACC
*
71275128 CACCTAATCCAATACTCTCTCCTTCTAACAACCCTATGAATAGCTCACCCCGTACTAGCATGTCT
1 CACCTAATCCAATACTCTCTCCTTCTAACAACCCTATGAATAGCTCACCCCATACTAGCATGTCT
71275193 AATCTGTCCCCTCACC
66 AATCTGTCCCCTCACC
71275209 TACCCCTACT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.27, C:0.40, G:0.07, T:0.27
Consensus pattern (81 bp):
CACCTAATCCAATACTCTCTCCTTCTAACAACCCTATGAATAGCTCACCCCATACTAGCATGTCT
AATCTGTCCCCTCACC
Found at i:71276925 original size:8 final size:8
Alignment explanation
Indices: 71276912--71276951 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
71276902 AATAAAGGTG
71276912 GTTAGTCT
1 GTTAGTCT
71276920 GTTAGTCT
1 GTTAGTCT
*
71276928 GTTAGCTACA
1 GTTAG-T-CT
71276938 GTTAGTCT
1 GTTAGTCT
71276946 GTTAGT
1 GTTAGT
71276952 TAATATCTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 20 0.71
9 2 0.07
10 6 0.21
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.45
Consensus pattern (8 bp):
GTTAGTCT
Found at i:71277423 original size:34 final size:33
Alignment explanation
Indices: 71277385--71277478 Score: 118
Period size: 34 Copynumber: 2.8 Consensus size: 33
71277375 AAACACTAAT
* *
71277385 CCCTAATTTGATTTATTTATTTAAAACCCTTAAA
1 CCCTAATTT-ATTTATTTATTTAAAAACCATAAA
*
71277419 CCCTAATTTACTTAATTTATTTAAAAACCATAAA
1 CCCTAATTTA-TTTATTTATTTAAAAACCATAAA
*
71277453 CCCTAATTTAATTATTT-TTTATAAAA
1 CCCTAATTTATTTATTTATTTA-AAAA
71277479 TAACACTAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
32 4 0.08
33 10 0.19
34 39 0.74
ACGTcount: A:0.39, C:0.16, G:0.01, T:0.44
Consensus pattern (33 bp):
CCCTAATTTATTTATTTATTTAAAAACCATAAA
Found at i:71277579 original size:34 final size:35
Alignment explanation
Indices: 71277515--71277592 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 35
71277505 AAATCCACTA
*
71277515 AAACCTTAAATCCTAACTTATTTTAACAAAAACAT
1 AAACCTTAAATCCTAAATTATTTTAACAAAAACAT
* * * *
71277550 AAACCTTAAA-CGTAAATTATTTTAGCAAAACCCT
1 AAACCTTAAATCCTAAATTATTTTAACAAAAACAT
71277584 AAA-CTTAAA
1 AAACCTTAAA
71277593 AACCCAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
33 6 0.16
34 22 0.58
35 10 0.26
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.29
Consensus pattern (35 bp):
AAACCTTAAATCCTAAATTATTTTAACAAAAACAT
Found at i:71278667 original size:19 final size:20
Alignment explanation
Indices: 71278643--71278685 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
71278633 ATTTCATTAA
71278643 TTTAAATAATGTT-AATT-TT
1 TTTAAA-AATGTTAAATTATT
*
71278662 TTTAAAAATTTTAAATTATT
1 TTTAAAAATGTTAAATTATT
71278682 TTTA
1 TTTA
71278686 TTGTGTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 10 0.48
20 6 0.29
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTAAAAATGTTAAATTATT
Found at i:71279243 original size:17 final size:17
Alignment explanation
Indices: 71279221--71279253 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
71279211 TGTGAACGGG
71279221 TAAAGATTGCATCCTAC
1 TAAAGATTGCATCCTAC
*
71279238 TAAAGATTGTATCCTA
1 TAAAGATTGCATCCTA
71279254 GTATCACACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (17 bp):
TAAAGATTGCATCCTAC
Found at i:71279999 original size:32 final size:32
Alignment explanation
Indices: 71279950--71280029 Score: 110
Period size: 32 Copynumber: 2.5 Consensus size: 32
71279940 CATTTAATAA
71279950 GTTTGCATATTTAATTATGACTTGCATTATAT
1 GTTTGCATATTTAATTATGACTTGCATTATAT
* * *
71279982 GTTTGCATCTTTGATTATGACTTGCATTATGT
1 GTTTGCATATTTAATTATGACTTGCATTATAT
71280014 GTTCTGC--ATTTAATTA
1 GTT-TGCATATTTAATTA
71280030 AGTCATGCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 7 0.17
32 32 0.76
33 3 0.07
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (32 bp):
GTTTGCATATTTAATTATGACTTGCATTATAT
Found at i:71280177 original size:49 final size:48
Alignment explanation
Indices: 71280071--71280177 Score: 110
Period size: 49 Copynumber: 2.2 Consensus size: 48
71280061 AATGTATGTG
* *
71280071 TTTTAATTATGTCATGTATTAAGTAGCTTCTATGTCAATTAAGTTGCA
1 TTTTAATTATGTCATGCATTAAGTAACTTCTATGTCAATTAAGTTGCA
* * * *
71280119 TATTAAATTATGTCATGCATTATGTAACTCATTTAT-TC-ATTTAGTTTGCA
1 T-TTTAATTATGTCATGCATTAAGTAACT--TCTATGTCAATTAAG-TTGCA
71280169 TTTTAATTA
1 TTTTAATTA
71280178 AACCATGCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
48 1 0.02
49 35 0.73
50 8 0.17
51 4 0.08
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.49
Consensus pattern (48 bp):
TTTTAATTATGTCATGCATTAAGTAACTTCTATGTCAATTAAGTTGCA
Found at i:71281450 original size:5 final size:5
Alignment explanation
Indices: 71281440--71281474 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
71281430 AAATAGAAAG
71281440 ATTTT ATTTT ATTATTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT A-T-TTT ATTTT ATTTT ATTTT ATT
71281475 AATTTAGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 22 0.79
6 2 0.07
7 4 0.14
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:71284240 original size:95 final size:95
Alignment explanation
Indices: 71284077--71284268 Score: 375
Period size: 95 Copynumber: 2.0 Consensus size: 95
71284067 TTTAACTACT
71284077 AGTGTACCGAATGGGCTTAGATAGTGTGGACGACTTTGACTTTGGGATCCCCGAGAACGTAGCTA
1 AGTGTACCGAATGGGCTTAGATAGTGTGGACGACTTTGACTTTGGGATCCCCGAGAACGTAGCTA
*
71284142 ACGAACAAGATCTATAAAACAGAGGATTAA
66 ACGAACAAGATCTATAAAACAGAGGACTAA
71284172 AGTGTACCGAATGGGCTTAGATAGTGTGGACGACTTTGACTTTGGGATCCCCGAGAACGTAGCTA
1 AGTGTACCGAATGGGCTTAGATAGTGTGGACGACTTTGACTTTGGGATCCCCGAGAACGTAGCTA
71284237 ACGAACAAGATCTATAAAACAGAGGACTAA
66 ACGAACAAGATCTATAAAACAGAGGACTAA
71284267 AG
1 AG
71284269 CAACATAGTA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (95 bp):
AGTGTACCGAATGGGCTTAGATAGTGTGGACGACTTTGACTTTGGGATCCCCGAGAACGTAGCTA
ACGAACAAGATCTATAAAACAGAGGACTAA
Found at i:71284873 original size:39 final size:39
Alignment explanation
Indices: 71284818--71285002 Score: 334
Period size: 39 Copynumber: 4.7 Consensus size: 39
71284808 TTCCAACCCA
* *
71284818 AATGCCTTCGGAACTTAGCCCGGATATAACATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
71284857 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
71284896 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
71284935 AATGCCTTCGGGACTTAACCCGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
71284974 AATGCCTTCGGGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
71285003 ATCTCACACA
Statistics
Matches: 140, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 140 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
Found at i:71287906 original size:14 final size:13
Alignment explanation
Indices: 71287877--71287921 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
71287867 AGTGGGTGGA
71287877 AATAATATT-A-T
1 AATAATATTAAGT
71287888 AATAATATTAAAGT
1 AATAATATT-AAGT
*
71287902 TATAATA-TAAGT
1 AATAATATTAAGT
71287914 AATAATAT
1 AATAATAT
71287922 GTATATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 9 0.32
12 10 0.36
13 2 0.07
14 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AATAATATTAAGT
Found at i:71289213 original size:50 final size:50
Alignment explanation
Indices: 71289032--71289225 Score: 160
Period size: 50 Copynumber: 3.9 Consensus size: 50
71289022 ATCTTGTATT
** * * *
71289032 TATTCGGCCGCATAGGTATGTACATATGTGAAGTTATATTGGATCTTGAA
1 TATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGATCTTGAA
* * * * *
71289082 TATTCGACCATGA-AGGTATGCACAAAAGTGATATTATATTTGAAT-TTGTA
1 TATTCGGCCAT-ATAGGTATGCACATATGTGATGTTATATTTG-ATCTTGAA
* * * * * *
71289132 TATTCGGCCATAT-GAGTAAGTACTTAGGTGATGTTAAATTTGATCTTGCA
1 TATTCGGCCATATAG-GTATGCACATATGTGATGTTATATTTGATCTTGAA
* * * *
71289182 TATTTGGCCATATAGGTATGCACATTTGTGATATTATCTTTGAT
1 TATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGAT
71289226 TCTCTATAAT
Statistics
Matches: 110, Mismatches: 28, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
49 4 0.04
50 102 0.93
51 4 0.04
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (50 bp):
TATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGATCTTGAA
Found at i:71289247 original size:100 final size:100
Alignment explanation
Indices: 71289059--71289248 Score: 222
Period size: 100 Copynumber: 1.9 Consensus size: 100
71289049 ATGTACATAT
*
71289059 GTGAAGTTATATTGGATCTTGAATATTCGACCATGAAGGTATGCACAAAAGTGATATTATATTTG
1 GTGAAGTTAAATTGGATCTTGAATATTCGACCATGAAGGTATGCACAAAAGTGATATTATATTTG
* * * *
71289124 AATTTGTATATTCGGCCATATGAGTAAGTACTTAG
66 AATTTCTATAATCGACCAAATGAGTAAGTACTTAG
* * * * * *** *
71289159 GTGATGTTAAATTTGATCTTGCATATTTGGCCAT-ATAGGTATGCACATTTGTGATATTATCTTT
1 GTGAAGTTAAATTGGATCTTGAATATTCGACCATGA-AGGTATGCACAAAAGTGATATTATATTT
71289223 G-ATTCTCTATAATCGACCAAATGAGT
65 GAATT-TCTATAATCGACCAAATGAGT
71289249 GATGTTGGCT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
99 4 0.05
100 70 0.95
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (100 bp):
GTGAAGTTAAATTGGATCTTGAATATTCGACCATGAAGGTATGCACAAAAGTGATATTATATTTG
AATTTCTATAATCGACCAAATGAGTAAGTACTTAG
Found at i:71289675 original size:14 final size:13
Alignment explanation
Indices: 71289646--71289690 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
71289636 AGTGGGTGGA
71289646 AATAATATT-A-T
1 AATAATATTAAGT
71289657 AATAATATTAAAGT
1 AATAATATT-AAGT
*
71289671 TATAATA-TAAGT
1 AATAATATTAAGT
71289683 AATAATAT
1 AATAATAT
71289691 GTATATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 9 0.32
12 10 0.36
13 2 0.07
14 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AATAATATTAAGT
Found at i:71290462 original size:40 final size:41
Alignment explanation
Indices: 71290403--71290482 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 41
71290393 TCATTTATTT
71290403 TTTTTATATAACTTAGTTTAATATGCTATTTGGAATCTATA
1 TTTTTATATAACTTAGTTTAATATGCTATTTGGAATCTATA
*
71290444 TTTTT-TATAACTTAGTTTAATATGCTGTTTGGAATCTAT
1 TTTTTATATAACTTAGTTTAATATGCTATTTGGAATCTAT
71290483 TGATTCATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 33 0.87
41 5 0.13
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.53
Consensus pattern (41 bp):
TTTTTATATAACTTAGTTTAATATGCTATTTGGAATCTATA
Found at i:71290875 original size:22 final size:22
Alignment explanation
Indices: 71290850--71290892 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
71290840 TATTCGGCCG
71290850 CATAGGTATGTACATATGTGAA
1 CATAGGTATGTACATATGTGAA
71290872 CATAGGTATGTACATATGTGA
1 CATAGGTATGTACATATGTGA
71290893 CGTTATATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.33
Consensus pattern (22 bp):
CATAGGTATGTACATATGTGAA
Found at i:71297565 original size:39 final size:39
Alignment explanation
Indices: 71297510--71297674 Score: 267
Period size: 39 Copynumber: 4.2 Consensus size: 39
71297500 TTCTAACCCA
* * *
71297510 AATGCCTTCGGAACTTAGCCTGGATATAACATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
71297549 AATGCCTTCGGGACTTAGCCCGAATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
71297588 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
71297627 AATGCCTTCGGGACTTAACCCAGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
71297666 AATGCCTTC
1 AATGCCTTC
71297675 CGGTTAAAAT
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 117 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
Found at i:71298153 original size:9 final size:9
Alignment explanation
Indices: 71298134--71298171 Score: 69
Period size: 9 Copynumber: 4.3 Consensus size: 9
71298124 ATTTAATACG
71298134 TATAT-ATA
1 TATATCATA
71298142 TATATCATA
1 TATATCATA
71298151 TATATCATA
1 TATATCATA
71298160 TATATCATA
1 TATATCATA
71298169 TAT
1 TAT
71298172 TTAAGGTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 5 0.17
9 24 0.83
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (9 bp):
TATATCATA
Found at i:71301114 original size:35 final size:35
Alignment explanation
Indices: 71301065--71301134 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
71301055 AACTTTTCTG
*
71301065 CAAGAACATCCAAGTGCGCAAGATGGAAAAATTAA
1 CAAGAACATCCAAGTGCACAAGATGGAAAAATTAA
* * *
71301100 CAAGAACATTCAAGTGCACGAGATGGAAAACTTAA
1 CAAGAACATCCAAGTGCACAAGATGGAAAAATTAA
71301135 GTCTCAATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (35 bp):
CAAGAACATCCAAGTGCACAAGATGGAAAAATTAA
Found at i:71302570 original size:5 final size:5
Alignment explanation
Indices: 71302553--71302598 Score: 78
Period size: 5 Copynumber: 9.6 Consensus size: 5
71302543 AAATAGAAAG
71302553 ATTTT A-TTT -TTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
71302599 AATTTAGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 6 0.15
5 33 0.85
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:71302902 original size:16 final size:17
Alignment explanation
Indices: 71302872--71302903 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
71302862 AAGCATGAAC
71302872 AATTTCATGCTTAGCTA
1 AATTTCATGCTTAGCTA
71302889 AATTTCAT-CTTAGCT
1 AATTTCATGCTTAGCT
71302904 TTAGGCCGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (17 bp):
AATTTCATGCTTAGCTA
Found at i:71305462 original size:55 final size:56
Alignment explanation
Indices: 71305397--71305511 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
71305387 AGCATGGCTG
* * * *
71305397 CCAGATACAGA-AAATGTGACAGAGTCACCATATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
71305453 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
71305508 CCAG
1 CCAG
71305512 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.58
56 20 0.40
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:71305508 original size:28 final size:27
Alignment explanation
Indices: 71305430--71305511 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
71305420 GTCACCATAT
*
71305430 ACAGATATTTTGTGGCAGTGCCACCAGA
1 ACAGATAATTTGTGGCA-TGCCACCAGA
** *
71305458 ACAGAT-ATACGTGGCAGGGCCACCAGA
1 ACAGATAATTTGTGGCA-TGCCACCAGA
71305485 ACAGATAATTTGTGGCATAGCCACCAG
1 ACAGATAATTTGTGGCAT-GCCACCAG
71305512 GACGCTTCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
27 23 0.51
28 22 0.49
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.20
Consensus pattern (27 bp):
ACAGATAATTTGTGGCATGCCACCAGA
Found at i:71305664 original size:28 final size:28
Alignment explanation
Indices: 71305617--71305680 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
71305607 AAATTAACCC
*
71305617 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
71305645 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
71305673 TAGGGGTA
1 TAGGGGTA
71305681 CTCTAGTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:71305933 original size:8 final size:8
Alignment explanation
Indices: 71305917--71305948 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
71305907 CCCAAAATAC
71305917 CGGCTTTT
1 CGGCTTTT
*
71305925 CGGCATTT
1 CGGCTTTT
71305933 CGGCTTTT
1 CGGCTTTT
71305941 CGGCTTTT
1 CGGCTTTT
71305949 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:71316076 original size:55 final size:56
Alignment explanation
Indices: 71316011--71316125 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
71316001 AGCATGGCTG
* *
71316011 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
71316067 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
71316122 CCAG
1 CCAG
71316126 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:71316088 original size:27 final size:27
Alignment explanation
Indices: 71316036--71316125 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
71316026 GTGACAGAGT
71316036 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
71316065 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
71316092 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
71316120 CACCAG
1 CACCAG
71316126 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:71321702 original size:24 final size:24
Alignment explanation
Indices: 71321663--71321709 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
71321653 AAAAGAAGAA
71321663 ATTCAAGAATAAAAATAAATAAAG
1 ATTCAAGAATAAAAATAAATAAAG
71321687 ATTCAA-AATAATAAATAAATAAA
1 ATTCAAGAATAA-AAATAAATAAA
71321710 ATGAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (24 bp):
ATTCAAGAATAAAAATAAATAAAG
Found at i:71326927 original size:21 final size:21
Alignment explanation
Indices: 71326889--71326929 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
71326879 TTGCCTAAGA
*
71326889 TGTGAATTGGACTGAATTGAG
1 TGTGAATTGGACTAAATTGAG
* *
71326910 TGTGAATTGTATTAAATTGA
1 TGTGAATTGGACTAAATTGA
71326930 TGCTAAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.39
Consensus pattern (21 bp):
TGTGAATTGGACTAAATTGAG
Found at i:71329240 original size:26 final size:24
Alignment explanation
Indices: 71329210--71329257 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
71329200 ATAAAAAATT
*
71329210 TTAAAAATATAATAAATCAAATATAC
1 TTAAAAACATAA-AAA-CAAATATAC
71329236 TTAAAAACATAAAAACAAATAT
1 TTAAAAACATAAAAACAAATAT
71329258 TAAAACAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (24 bp):
TTAAAAACATAAAAACAAATATAC
Found at i:71335050 original size:25 final size:25
Alignment explanation
Indices: 71335020--71335077 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
71335010 GGCTCGCATG
* *
71335020 AGCTTCCCATTATGCAGCCCGAATA
1 AGCTTCCCATTATACAACCCGAATA
* * *
71335045 AGCTTCCCGTTATACAACCTGGATA
1 AGCTTCCCATTATACAACCCGAATA
71335070 AGCTTCCC
1 AGCTTCCC
71335078 GTTACATGGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (25 bp):
AGCTTCCCATTATACAACCCGAATA
Found at i:71335114 original size:25 final size:25
Alignment explanation
Indices: 71335067--71335114 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
71335057 TACAACCTGG
* *
71335067 ATAAGCTTCCCGTTACATGGCTCAT
1 ATAAGCTTACCGTTACATAGCTCAT
* *
71335092 ATAAGCTTACTGTTATATAGCTC
1 ATAAGCTTACCGTTACATAGCTC
71335115 GAGAAAGGGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (25 bp):
ATAAGCTTACCGTTACATAGCTCAT
Found at i:71336110 original size:27 final size:30
Alignment explanation
Indices: 71336044--71336128 Score: 84
Period size: 32 Copynumber: 2.8 Consensus size: 30
71336034 ATATATTTAA
* *
71336044 ACCACAATTAGAATTTCATATATATAAATAT
1 ACCA-AATTAAAATTTCATATATACAAATAT
71336075 ACCAAATTAAAATTT-ATATATACAAATTACAT
1 ACCAAATTAAAATTTCATATATACAAA-T--AT
**
71336107 ATTAAATTAAAA-TTCATATATA
1 ACCAAATTAAAATTTCATATATA
71336129 ATTTTAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
29 10 0.22
30 11 0.24
31 6 0.13
32 19 0.41
ACGTcount: A:0.52, C:0.11, G:0.01, T:0.36
Consensus pattern (30 bp):
ACCAAATTAAAATTTCATATATACAAATAT
Done.