Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 43 of 125
Found at i:8568412 original size:22 final size:21
Alignment explanation
Indices: 8568386--8568465 Score: 79
Period size: 23 Copynumber: 3.5 Consensus size: 21
8568376 CGATGTTATG
8568386 ATATAAAAAATATAAATAAAT
1 ATATAAAAAATATAAATAAAT
*
8568407 AATATAAAAATAATATAACTTAAAT
1 -ATAT-AAAA-AATATAA-ATAAAT
*
8568432 TTATAAAAAATTATAAATAAAT
1 ATATAAAAAA-TATAAATAAAT
*
8568454 TTAATAAAAAAT
1 AT-ATAAAAAAT
8568466 TATATTTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
22 14 0.28
23 21 0.42
24 10 0.20
25 5 0.10
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATAAAAAATATAAATAAAT
Found at i:8569976 original size:30 final size:30
Alignment explanation
Indices: 8569903--8569998 Score: 120
Period size: 30 Copynumber: 3.2 Consensus size: 30
8569893 ATTAATTTAT
* * *
8569903 ATTAAAGGTTTATTTAGTTATAAATTAAATT
1 ATTAAAAGTTTATTTAGATATAAATTAAA-A
*
8569934 ATTAAAAATTTATTTAGATATAAATTAAAA
1 ATTAAAAGTTTATTTAGATATAAATTAAAA
* * *
8569964 ATTAATAGTTTATTTAAATGTAAATTAAAA
1 ATTAAAAGTTTATTTAGATATAAATTAAAA
8569994 ATTAA
1 ATTAA
8569999 CTACTTATTT
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 31 0.54
31 26 0.46
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (30 bp):
ATTAAAAGTTTATTTAGATATAAATTAAAA
Found at i:8570007 original size:30 final size:30
Alignment explanation
Indices: 8569943--8570013 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
8569933 TATTAAAAAT
* *
8569943 TTATTTAGATATAAATTAAAAATTAATAGT
1 TTATTTAAATATAAATTAAAAATTAATAGC
*
8569973 TTATTTAAATGTAAATTAAAAATTAACTA-C
1 TTATTTAAATATAAATTAAAAATTAA-TAGC
8570003 TTATTTAAATA
1 TTATTTAAATA
8570014 GAATAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 34 0.94
31 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (30 bp):
TTATTTAAATATAAATTAAAAATTAATAGC
Found at i:8574702 original size:22 final size:23
Alignment explanation
Indices: 8574666--8574713 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
8574656 AAAATTTTAA
* *
8574666 ATTATGTTTTTTTTAAATTATTT
1 ATTATGTTTTGTTTAAATAATTT
*
8574689 ATTAT-TTTTGTTTATATAATTT
1 ATTATGTTTTGTTTAAATAATTT
8574711 ATT
1 ATT
8574714 GTATTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (23 bp):
ATTATGTTTTGTTTAAATAATTT
Found at i:8587810 original size:31 final size:31
Alignment explanation
Indices: 8587772--8587833 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
8587762 TTATCATGAA
* *
8587772 TTGTTTTTGCCCTTATCGTGGCCCTTCTTAT
1 TTGTTTTTGCCCTTAGCCTGGCCCTTCTTAT
8587803 TTGTTTTTGCCCTTAGCCTGGCCCTTCTTAT
1 TTGTTTTTGCCCTTAGCCTGGCCCTTCTTAT
8587834 CATGTCTATC
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:0.06, C:0.27, G:0.16, T:0.50
Consensus pattern (31 bp):
TTGTTTTTGCCCTTAGCCTGGCCCTTCTTAT
Found at i:8595118 original size:25 final size:25
Alignment explanation
Indices: 8595080--8595128 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
8595070 TATAATAATC
* *
8595080 AAATGATAAATATTTATTTCAACAA
1 AAATGATAAATATTCATTTAAACAA
* *
8595105 AAATGATGAGTATTCATTTAAACA
1 AAATGATAAATATTCATTTAAACA
8595129 TACTCATGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (25 bp):
AAATGATAAATATTCATTTAAACAA
Found at i:8595228 original size:15 final size:15
Alignment explanation
Indices: 8595208--8595240 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8595198 AAAAGTATAT
8595208 ATATGTTTACATGAA
1 ATATGTTTACATGAA
*
8595223 ATATGTTTATATGAA
1 ATATGTTTACATGAA
8595238 ATA
1 ATA
8595241 ACAGTATCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (15 bp):
ATATGTTTACATGAA
Found at i:8601050 original size:31 final size:31
Alignment explanation
Indices: 8601012--8601076 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
8601002 CTAAGAAAAC
*
8601012 ATACTTTAGGAAGACCGAACTCAATTTCCAA
1 ATACTTTAGGAAGACCAAACTCAATTTCCAA
8601043 ATACTTTAGGAAGACCAAACTCAATTTCCAA
1 ATACTTTAGGAAGACCAAACTCAATTTCCAA
8601074 ATA
1 ATA
8601077 GAAGGAAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.26
Consensus pattern (31 bp):
ATACTTTAGGAAGACCAAACTCAATTTCCAA
Found at i:8602814 original size:2 final size:2
Alignment explanation
Indices: 8602809--8602835 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8602799 AAATCAAGTT
8602809 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
8602836 TGGCTAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8608576 original size:12 final size:12
Alignment explanation
Indices: 8608559--8608583 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8608549 AATCTTGTAA
8608559 CGAAGGCAAAGG
1 CGAAGGCAAAGG
8608571 CGAAGGCAAAGG
1 CGAAGGCAAAGG
8608583 C
1 C
8608584 AAAAGCAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.40, T:0.00
Consensus pattern (12 bp):
CGAAGGCAAAGG
Found at i:8608842 original size:28 final size:27
Alignment explanation
Indices: 8608797--8608857 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
8608787 ATTGTAATTA
* *
8608797 AAAAATTTTATAATAAAAAAATATGTTT
1 AAAAATGTTATAAGAAAAAAATAT-TTT
* *
8608825 ATAAATGTTATAAGAAAAATATATTTT
1 AAAAATGTTATAAGAAAAAAATATTTT
8608852 AAAAAT
1 AAAAAT
8608858 TTTAAGTGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (27 bp):
AAAAATGTTATAAGAAAAAAATATTTT
Found at i:8609263 original size:19 final size:18
Alignment explanation
Indices: 8609239--8609280 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
8609229 AACAAAATAT
8609239 TATTTTTTAAAATATAAAA
1 TATTTTTTAAAATAT-AAA
*
8609258 TATTTTTTTAAATATAAA
1 TATTTTTTAAAATATAAA
8609276 TATTT
1 TATTT
8609281 AAAAATATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTTTTAAAATATAAA
Found at i:8609288 original size:16 final size:16
Alignment explanation
Indices: 8609267--8609314 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
8609257 ATATTTTTTT
*
8609267 AAATATAAATATTTAA
1 AAATATAAATATATAA
* *
8609283 AAATATCATTATATAA
1 AAATATAAATATATAA
* *
8609299 ATATATAAATAAATAA
1 AAATATAAATATATAA
8609315 TTAAATAATT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:8609298 original size:24 final size:24
Alignment explanation
Indices: 8609269--8609335 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
8609259 ATTTTTTTAA
*
8609269 ATATAAATATTTAAAAATATCATT
1 ATATAAATATTTAAAAATATAATT
*
8609293 ATATAAATATATAAATAA-ATAATT
1 ATATAAATATTTAAA-AATATAATT
* * *
8609317 AAATAATTAATTAAAAATA
1 ATATAAATATTTAAAAATA
8609336 ATTTTTTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 2 0.06
24 31 0.89
25 2 0.06
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (24 bp):
ATATAAATATTTAAAAATATAATT
Found at i:8609312 original size:12 final size:12
Alignment explanation
Indices: 8609271--8609331 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
8609261 TTTTTTAAAT
*
8609271 ATAAATATTTAA
1 ATAAATAATTAA
* *
8609283 A-AATATCATTAT
1 ATAA-ATAATTAA
8609295 ATAAAT-ATATAA
1 ATAAATAAT-TAA
8609307 ATAAATAATTAA
1 ATAAATAATTAA
*
8609319 ATAATTAATTAA
1 ATAAATAATTAA
8609331 A
1 A
8609332 AATAATTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
11 4 0.10
12 32 0.80
13 4 0.10
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAAATAATTAA
Found at i:8611708 original size:13 final size:12
Alignment explanation
Indices: 8611676--8611730 Score: 58
Period size: 12 Copynumber: 4.5 Consensus size: 12
8611666 TATTAATTTT
*
8611676 AATTTTTTATAA
1 AATTTTTTATGA
8611688 AATTTTTTATGA
1 AATTTTTTATGA
*
8611700 AATTATTTTAAGA
1 AATT-TTTTATGA
*
8611713 AATAATTTTAT-A
1 AAT-TTTTTATGA
8611725 AATTTT
1 AATTTT
8611731 ATCTCAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
11 2 0.06
12 19 0.53
13 15 0.42
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (12 bp):
AATTTTTTATGA
Found at i:8612483 original size:31 final size:30
Alignment explanation
Indices: 8612443--8612533 Score: 89
Period size: 30 Copynumber: 3.0 Consensus size: 30
8612433 GTAATAGATC
8612443 TATTA-ATTTATATTATCATATCATATAAAA
1 TATTATATTTATATTAT-ATATCATATAAAA
* *
8612473 TATTATATTTATATTATATTTTATATAAAA
1 TATTATATTTATATTATATATCATATAAAA
* *
8612503 -ATTATTTATTATAATT-TATAATGATATAAAA
1 TATTATAT-TTAT-ATTATAT-ATCATATAAAA
8612534 ATATAAAATA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 6 0.12
30 23 0.44
31 23 0.44
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (30 bp):
TATTATATTTATATTATATATCATATAAAA
Found at i:8613253 original size:18 final size:18
Alignment explanation
Indices: 8613219--8613253 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8613209 AATAAAAGCA
*
8613219 AAAAATTAAATTTTTTAC
1 AAAAATTAAATTATTTAC
*
8613237 AAAAATTAACTTATTTA
1 AAAAATTAAATTATTTA
8613254 TAGATATAAG
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:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAAATTAAATTATTTAC
Found at i:8615984 original size:31 final size:31
Alignment explanation
Indices: 8615949--8616023 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
8615939 GATTTGATTT
8615949 AATTTTTTTAAAAATAATATATAATAT-AATA
1 AATTTTTTTAAAAATAATATA-AATATAAATA
** * * *
8615980 AATTTTTTTAAATTTAATCTAAATTTAAATT
1 AATTTTTTTAAAAATAATATAAATATAAATA
8616011 AATTTTTTTAAAA
1 AATTTTTTTAAAA
8616024 TCGATTTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 4 0.11
31 33 0.89
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (31 bp):
AATTTTTTTAAAAATAATATAAATATAAATA
Found at i:8616131 original size:10 final size:10
Alignment explanation
Indices: 8616116--8616141 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
8616106 TAGAGTTTTT
8616116 AATATATTTA
1 AATATATTTA
8616126 AATATATTTA
1 AATATATTTA
8616136 AATATA
1 AATATA
8616142 AAATAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
AATATATTTA
Found at i:8622850 original size:16 final size:16
Alignment explanation
Indices: 8622816--8622849 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8622806 AATTATAATA
*
8622816 TTTGATTTGATTTGAT
1 TTTGATTTAATTTGAT
8622832 TTTGATTTAATTT-AT
1 TTTGATTTAATTTGAT
8622847 TTT
1 TTT
8622850 TTTATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.68
Consensus pattern (16 bp):
TTTGATTTAATTTGAT
Found at i:8622974 original size:16 final size:17
Alignment explanation
Indices: 8622953--8622986 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
8622943 AATAAAATTA
8622953 TATATATTTT-AATTTT
1 TATATATTTTAAATTTT
8622969 TATATATTTTAAATTTT
1 TATATATTTTAAATTTT
8622986 T
1 T
8622987 TAAAAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TATATATTTTAAATTTT
Found at i:8625642 original size:20 final size:20
Alignment explanation
Indices: 8625617--8625656 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8625607 CTTGAATGTT
8625617 TCATTAAAAGGAAAAGGATA
1 TCATTAAAAGGAAAAGGATA
8625637 TCATTAAAAGGAAAAGGATA
1 TCATTAAAAGGAAAAGGATA
8625657 GAAACTTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.20, T:0.20
Consensus pattern (20 bp):
TCATTAAAAGGAAAAGGATA
Found at i:8628897 original size:13 final size:13
Alignment explanation
Indices: 8628881--8628924 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
8628871 GCAATTTTTT
*
8628881 TATATTAGTAATA
1 TATATTATTAATA
8628894 TATA-TATTAA-A
1 TATATTATTAATA
8628905 TATATATATTAATA
1 TATAT-TATTAATA
8628919 TATATT
1 TATATT
8628925 TATATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
11 5 0.19
12 5 0.19
13 11 0.41
14 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (13 bp):
TATATTATTAATA
Found at i:8638767 original size:19 final size:19
Alignment explanation
Indices: 8638745--8638789 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
8638735 TTAGTGTTCT
*
8638745 ATTAGTTAGTTTTGAAGTG
1 ATTACTTAGTTTTGAAGTG
8638764 ATTACTTAGTTTTGAAGTG
1 ATTACTTAGTTTTGAAGTG
8638783 ATTACTT
1 ATTACTT
8638790 TGATAAGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.27, C:0.04, G:0.20, T:0.49
Consensus pattern (19 bp):
ATTACTTAGTTTTGAAGTG
Found at i:8639348 original size:45 final size:45
Alignment explanation
Indices: 8639298--8639384 Score: 117
Period size: 45 Copynumber: 1.9 Consensus size: 45
8639288 GAAAAATAAA
8639298 TATATTTTAT-TT-CATCCGAATATAT-GATACGAATATATAAATTTT
1 TATATTTTATATTACA--CGAATAT-TCGATACGAATATATAAATTTT
*
8639343 TATATTTTATATTACACGAATATTCGATACGCATATATAAAT
1 TATATTTTATATTACACGAATATTCGATACGAATATATAAAT
8639385 ATAATACCAG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
44 1 0.03
45 33 0.87
46 2 0.05
47 2 0.05
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (45 bp):
TATATTTTATATTACACGAATATTCGATACGAATATATAAATTTT
Found at i:8640908 original size:26 final size:27
Alignment explanation
Indices: 8640858--8640913 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
8640848 TATATTTGTT
8640858 AAAAATTTATAATTTAAATAATATATTA
1 AAAAATTTATAATTTAAAT-ATATATTA
8640886 AAAAATTT-TAAATTTAAAT-TATATTA
1 AAAAATTTAT-AATTTAAATATATATTA
8640912 AA
1 AA
8640914 TATTTCACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 9 0.33
27 1 0.04
28 17 0.63
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
AAAAATTTATAATTTAAATATATATTA
Found at i:8644059 original size:20 final size:18
Alignment explanation
Indices: 8644017--8644056 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
8644007 GTTTTTATTT
8644017 TATAAAAATTTAAAAAAA
1 TATAAAAATTTAAAAAAA
8644035 TATAAAAA-TTAATAAAAA
1 TATAAAAATTTAA-AAAAA
8644053 TATA
1 TATA
8644057 TAATTTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
TATAAAAATTTAAAAAAA
Found at i:8650556 original size:18 final size:19
Alignment explanation
Indices: 8650516--8650559 Score: 67
Period size: 17 Copynumber: 2.5 Consensus size: 19
8650506 TAATAAATTT
8650516 AAAATAAAATATGAATATA
1 AAAATAAAATATGAATATA
8650535 AAAAT-AAATAT-AATATA
1 AAAATAAAATATGAATATA
8650552 AAAA-AAAA
1 AAAATAAAA
8650560 AGGATGATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 13 0.54
18 6 0.25
19 5 0.21
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAATAAAATATGAATATA
Found at i:8651328 original size:20 final size:19
Alignment explanation
Indices: 8651284--8651328 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
8651274 ATTTATATAT
* *
8651284 TTTTAATAAATTAATTTTT
1 TTTTAATAAATAAATTTTA
8651303 TATTTAATAATATAAATTTTA
1 T-TTTAATAA-ATAAATTTTA
8651324 TTTTA
1 TTTTA
8651329 CATTAATTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 12 0.55
21 9 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTAATAAATAAATTTTA
Found at i:8651708 original size:27 final size:27
Alignment explanation
Indices: 8651696--8651751 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 27
8651686 ATTAATTATA
*
8651696 ATTAATATATATTTTTATTAAAAAAAT
1 ATTAATATATATTTTGATTAAAAAAAT
8651723 ATTAATATATA-TTT-A-TATAAAAAAT
1 ATTAATATATATTTTGATTA-AAAAAAT
8651748 ATTA
1 ATTA
8651752 CCTAAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 2 0.07
25 12 0.43
26 3 0.11
27 11 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
ATTAATATATATTTTGATTAAAAAAAT
Found at i:8651737 original size:25 final size:26
Alignment explanation
Indices: 8651696--8651751 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
8651686 ATTAATTATA
8651696 ATTAATATATATTTT-TATTAAAAAAAT
1 ATTAATATATATTTTATA-T-AAAAAAT
8651723 ATTAATATATA-TTTATATAAAAAAT
1 ATTAATATATATTTTATATAAAAAAT
8651748 ATTA
1 ATTA
8651752 CCTAAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 11 0.39
26 4 0.14
27 13 0.46
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTAATATATATTTTATATAAAAAAT
Found at i:8652506 original size:11 final size:11
Alignment explanation
Indices: 8652490--8652522 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
8652480 AATTTTAGAT
8652490 ATAATATAAAA
1 ATAATATAAAA
8652501 ATAATA-AAAA
1 ATAATATAAAA
8652511 AT-ATATAAAA
1 ATAATATAAAA
8652521 AT
1 AT
8652523 GATACGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 3 0.14
10 12 0.57
11 6 0.29
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:8653182 original size:23 final size:23
Alignment explanation
Indices: 8653164--8653211 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
8653154 CGATATGAAT
*
8653164 ATGAAAATAAATATAATATAAAA
1 ATGAAAATAAAAATAATATAAAA
* *
8653187 ATTAAAATAAAAATAAAATAAAA
1 ATGAAAATAAAAATAATATAAAA
8653210 AT
1 AT
8653212 ACTTTAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (23 bp):
ATGAAAATAAAAATAATATAAAA
Found at i:8653198 original size:11 final size:11
Alignment explanation
Indices: 8653167--8653212 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
8653157 TATGAATATG
*
8653167 AAAATAAATAT
1 AAAATAAAAAT
*
8653178 AATATAAAAATT
1 AAAATAAAAA-T
8653190 AAAATAAAAAT
1 AAAATAAAAAT
8653201 AAAATAAAAAT
1 AAAATAAAAAT
8653212 A
1 A
8653213 CTTTAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
11 21 0.68
12 10 0.32
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:8653212 original size:6 final size:6
Alignment explanation
Indices: 8653167--8653212 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
8653157 TATGAATATG
* * *
8653167 AAAATA AATAT- AATATA AAAATT AAAATA AAAAT- AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
8653213 CTTTAATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
5 10 0.29
6 24 0.71
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (6 bp):
AAAATA
Found at i:8659803 original size:45 final size:45
Alignment explanation
Indices: 8659736--8659830 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
8659726 AAAAATAAAA
* * *
8659736 TAAAATTTTAATCTTATCAAATGATGAGAGGATTCAGATTTTTGT
1 TAAATTTTTAATCCTATCAAATGATGAGAGGATTCAGATTTCTGT
* *
8659781 TAAATTTTTAATCCTATTAAATGATGGGAGGATTCAGATTTCTGT
1 TAAATTTTTAATCCTATCAAATGATGAGAGGATTCAGATTTCTGT
8659826 TAAAT
1 TAAAT
8659831 CTTACCAAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (45 bp):
TAAATTTTTAATCCTATCAAATGATGAGAGGATTCAGATTTCTGT
Found at i:8662884 original size:18 final size:18
Alignment explanation
Indices: 8662857--8662897 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
8662847 TCTTCTCTCT
*
8662857 CTTTCTCTTT-CTTTTTCC
1 CTTTCCCTTTCCTTTTT-C
8662875 CTTTCCCTTTCCTTTTTC
1 CTTTCCCTTTCCTTTTTC
8662893 CTTTC
1 CTTTC
8662898 TCTCAAACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (18 bp):
CTTTCCCTTTCCTTTTTC
Found at i:8663607 original size:20 final size:19
Alignment explanation
Indices: 8663572--8663629 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
8663562 TTGTAAAATT
*
8663572 GGTGAAATTGTGAAATTGG
1 GGTGAAATTATGAAATTGG
8663591 GGTGAAATTTATGAAATTGG
1 GGTGAAA-TTATGAAATTGG
**
8663611 TCTGAAATTATTGAAATTG
1 GGTGAAATTA-TGAAATTG
8663630 ATATTTAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.29
20 24 0.71
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (19 bp):
GGTGAAATTATGAAATTGG
Found at i:8670749 original size:22 final size:18
Alignment explanation
Indices: 8670720--8670774 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 18
8670710 CTTTTCTTTT
8670720 ATAAATCTTCTTATCTATCAA
1 ATAAATCTT-TTATC--TCAA
8670741 ATAATATCTTGTTAATCTCAA
1 ATAA-ATCTT-TT-ATCTCAA
8670762 ATAAATCTTTTAT
1 ATAAATCTTTTAT
8670775 GAGATTTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 5 0.16
21 12 0.39
22 7 0.23
23 3 0.10
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.45
Consensus pattern (18 bp):
ATAAATCTTTTATCTCAA
Found at i:8678823 original size:16 final size:15
Alignment explanation
Indices: 8678798--8678897 Score: 89
Period size: 15 Copynumber: 6.7 Consensus size: 15
8678788 TTTCTAAAAC
8678798 CCCTAAAATCCAAAT
1 CCCTAAAATCCAAAT
*
8678813 CCCTAAAAATCTAAAAT
1 CCCT-AAAATC-CAAAT
* * * *
8678830 CTCTTAAATCCGAAC
1 CCCTAAAATCCAAAT
*
8678845 CCCTAAAATTCAAA-
1 CCCTAAAATCCAAAT
8678859 CCC-AAAATCCAAAAT
1 CCCTAAAATCC-AAAT
8678874 CCCTAAAATCCAAA-
1 CCCTAAAATCCAAAT
*
8678888 CCCTTAAATC
1 CCCTAAAATC
8678898 AAAACCTCAA
Statistics
Matches: 68, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
13 6 0.09
14 15 0.22
15 22 0.32
16 18 0.26
17 7 0.10
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (15 bp):
CCCTAAAATCCAAAT
Found at i:8678896 original size:14 final size:14
Alignment explanation
Indices: 8678798--8678903 Score: 79
Period size: 14 Copynumber: 7.1 Consensus size: 14
8678788 TTTCTAAAAC
8678798 CCCTAAAATCCAAA
1 CCCTAAAATCCAAA
*
8678812 TCCCTAAAAATCTAAAA
1 -CCCT-AAAATC-CAAA
* * *
8678829 TCTCTTAAATCCGAAC
1 -CCCTAAAATCC-AAA
*
8678845 CCCTAAAATTCAAA
1 CCCTAAAATCCAAA
8678859 CCC-AAAATCCAAAA
1 CCCTAAAATCC-AAA
8678873 TCCCTAAAATCCAAA
1 -CCCTAAAATCCAAA
* *
8678888 CCCTTAAATCAAAA
1 CCCTAAAATCCAAA
8678902 CC
1 CC
8678904 TCAAACCATA
Statistics
Matches: 73, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
13 6 0.08
14 22 0.30
15 18 0.25
16 20 0.27
17 7 0.10
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.20
Consensus pattern (14 bp):
CCCTAAAATCCAAA
Found at i:8678910 original size:21 final size:22
Alignment explanation
Indices: 8678884--8678944 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
8678874 CCCTAAAATC
8678884 CAAACCCTTAAATCAAAACC-T
1 CAAACCCTTAAATCAAAACCTT
* * *
8678905 CAAACCATAAAATCCAAACCTT
1 CAAACCCTTAAATCAAAACCTT
* *
8678927 TAAACTCTTAAATTCAAA
1 CAAACCCTTAAA-TCAAA
8678945 CCCCAAAATC
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
21 17 0.57
22 9 0.30
23 4 0.13
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
CAAACCCTTAAATCAAAACCTT
Found at i:8678953 original size:36 final size:35
Alignment explanation
Indices: 8678878--8678958 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 35
8678868 CAAAATCCCT
*
8678878 AAAATCCAAACCCTTAAATCAAAACCTCAAACCAT
1 AAAATCCAAACCCTTAAATCAAAACCTCAAACCAC
* * * *
8678913 AAAATCCAAACCTTTAAACTCTTAAA-TTCAAACCCC
1 AAAATCCAAACCCTTAAA-TC-AAAACCTCAAACCAC
8678949 AAAATCCAAA
1 AAAATCCAAA
8678959 ATTCCTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
35 17 0.44
36 19 0.49
37 3 0.08
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.20
Consensus pattern (35 bp):
AAAATCCAAACCCTTAAATCAAAACCTCAAACCAC
Found at i:8678960 original size:43 final size:44
Alignment explanation
Indices: 8678818--8678969 Score: 118
Period size: 43 Copynumber: 3.5 Consensus size: 44
8678808 CAAATCCCTA
* * * * *
8678818 AAAATCTAAAATCTCTTAAATCCGAACCCCTAAAATTCAAA-CCC
1 AAAATCCAAAATCCCTAAAATCC-AAACCCTTAAATTCAAACCCC
*
8678862 AAAATCCAAAATCCCTAAAATCCAAACCCTTAAA-TCAAAACCTC
1 AAAATCCAAAATCCCTAAAATCCAAACCCTTAAATTC-AAACCCC
* ** *
8678906 -AAA-CCATAAAAT-CC-AAACCTTTAAACTCTTAAATTCAAACCCC
1 AAAATCC--AAAATCCCTAAA-ATCCAAACCCTTAAATTCAAACCCC
*
8678949 AAAATCCAAAATTCCTAAAAT
1 AAAATCCAAAATCCCTAAAAT
8678970 TCAAGCTTTA
Statistics
Matches: 86, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
42 7 0.08
43 39 0.45
44 35 0.41
45 5 0.06
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.22
Consensus pattern (44 bp):
AAAATCCAAAATCCCTAAAATCCAAACCCTTAAATTCAAACCCC
Found at i:8682415 original size:16 final size:16
Alignment explanation
Indices: 8682394--8682432 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
8682384 ATCATTAAAA
*
8682394 ATCATCGCAAATCATC
1 ATCATCACAAATCATC
*
8682410 ATCATCATAAATCATC
1 ATCATCACAAATCATC
*
8682426 ATTATCA
1 ATCATCA
8682433 ATCATTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.26, G:0.03, T:0.31
Consensus pattern (16 bp):
ATCATCACAAATCATC
Found at i:8687270 original size:36 final size:36
Alignment explanation
Indices: 8687181--8687271 Score: 119
Period size: 36 Copynumber: 2.5 Consensus size: 36
8687171 CTGTATAATT
* * * * *
8687181 ATATTTTTTTATTTAAACAAATTTAATCAGACAATC
1 ATATTTTTCTGTTCAAATAAATTTAATCAAACAATC
* *
8687217 ATATTTTTCTGATCAAATAAATTTATTCAAACAATC
1 ATATTTTTCTGTTCAAATAAATTTAATCAAACAATC
8687253 ATATTTTTCTGTTCAAATA
1 ATATTTTTCTGTTCAAATA
8687272 TCATTATTCA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (36 bp):
ATATTTTTCTGTTCAAATAAATTTAATCAAACAATC
Found at i:8687593 original size:31 final size:31
Alignment explanation
Indices: 8687555--8687619 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
8687545 ATGCTTTTGG
8687555 AGTTAGAATGATATTCAACAACATGTAGTCT
1 AGTTAGAATGATATTCAACAACATGTAGTCT
* *
8687586 AGTTAGAATGATATTCAACAACTTGTTGTCT
1 AGTTAGAATGATATTCAACAACATGTAGTCT
8687617 AGT
1 AGT
8687620 ATCAGTCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (31 bp):
AGTTAGAATGATATTCAACAACATGTAGTCT
Found at i:8698624 original size:33 final size:32
Alignment explanation
Indices: 8698587--8698654 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
8698577 AGATAATCGC
* *
8698587 ATTAAGTCAAAGTTGAAGATAAAAAGTGATAGG
1 ATTAAATCAAAGTCGAAGATAAAAA-TGATAGG
* *
8698620 ATTAAATCAAAGTCGAAGATGAAAATGATCGG
1 ATTAAATCAAAGTCGAAGATAAAAATGATAGG
8698652 ATT
1 ATT
8698655 TAGCTAAGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 9 0.29
33 22 0.71
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.25
Consensus pattern (32 bp):
ATTAAATCAAAGTCGAAGATAAAAATGATAGG
Found at i:8698740 original size:32 final size:32
Alignment explanation
Indices: 8698694--8698770 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 32
8698684 ATTTAAGTCG
* * * *
8698694 AAAATAAAAATGATTGGATTAAATCAAAATAA
1 AAAATGAAAGTGATTGAACTAAATCAAAATAA
* * **
8698726 AAAATGATAGTGATTGAACTAAATCAATATCG
1 AAAATGAAAGTGATTGAACTAAATCAAAATAA
8698758 AAAATGAAAGTGA
1 AAAATGAAAGTGA
8698771 CTAAAATAAG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.56, C:0.05, G:0.14, T:0.25
Consensus pattern (32 bp):
AAAATGAAAGTGATTGAACTAAATCAAAATAA
Found at i:8698908 original size:33 final size:32
Alignment explanation
Indices: 8698820--8698912 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 32
8698810 TAAGCCAAGT
* * * *
8698820 TAAAAAATTAAATGACTTGAATTGAATCGAGG
1 TAAAAAATTAAATGACTTGGACTGAACCGAAG
* *
8698852 TAAAAAATAAAAATGA-TCGGGACTGAACCGCAAG
1 TAAAAAAT-TAAATGACT-TGGACTGAACCG-AAG
*
8698886 TCAAAAATTAAATGACTTGGACTGAAC
1 TAAAAAATTAAATGACTTGGACTGAAC
8698913 TGAAATCGAA
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
32 9 0.19
33 29 0.60
34 10 0.21
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.23
Consensus pattern (32 bp):
TAAAAAATTAAATGACTTGGACTGAACCGAAG
Found at i:8701334 original size:20 final size:20
Alignment explanation
Indices: 8701309--8701346 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
8701299 CTGCTAACTG
8701309 CTAAGAGTCAAAACTTTCAT
1 CTAAGAGTCAAAACTTTCAT
8701329 CTAAGAGTCAAAACTTTC
1 CTAAGAGTCAAAACTTTC
8701347 CATCATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (20 bp):
CTAAGAGTCAAAACTTTCAT
Found at i:8702841 original size:216 final size:215
Alignment explanation
Indices: 8702439--8702846 Score: 543
Period size: 216 Copynumber: 1.9 Consensus size: 215
8702429 AATTAACACA
* * *
8702439 TTTGTTAAGTCGGTAATTTCTTCATAATGAGTTGTTAACTCAATGGTATTGAAATAACTTCAAAG
1 TTTGCTAAGTCGGTAATTTATTCACAATGAGTTGTTAACTCAATGGTATTGAAATAACTTCAAAG
* * * * * * **
8702504 TTGAAAGTTTTAAATTCAAACTTCAATAGTGATTTAAAAGACCAAAAAAATAAATTTGATCTCTT
66 TTGAAAATCTTAAATTCAAACTTCAATAGTGA-TCAAAAAACCAAAAAAAAAAAGTCAATCTCTT
* *
8702569 GATAATCAAATCTATAATACATGTACGTAAACATATGCACATATCACACATATTCGTATATGTGA
130 CAAAATCAAATCTATAATACATGTACGTAAACATATGCACATATCACACATATTCGTATATGTGA
8702634 TATGTGCATAATTGTATGCAT
195 TATGTGCATAATTGTATGCAT
* * *
8702655 TTTGCTAATTCGGTAATTTATTCACCAATGAGTTGTTAACTCAGTGGTATTGAAATCGACTTCAA
1 TTTGCTAAGTCGGTAATTTATTCA-CAATGAGTTGTTAACTCAATGGTATTGAAAT-AACTTCAA
* *
8702720 A-TTGAAAATCTTAAATTCAAACTTCAATTGTGA-CAAAAAACCAAAAAAAAAAAAGTCAATCTT
64 AGTTGAAAATCTTAAATTCAAACTTCAATAGTGATCAAAAAACC-AAAAAAAAAAAGTCAATCTC
* * ** *
8702783 TTCAAAATCAAA-CATGTAATACGTGTACGTAAACATATGCACATATTGCACGTATTCGTATATG
128 TTCAAAATCAAATC-TATAATACATGTACGTAAACATATGCACATATCACACATATTCGTATATG
8702847 CATTGCATCT
Statistics
Matches: 165, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
215 8 0.05
216 91 0.55
217 58 0.35
218 8 0.05
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (215 bp):
TTTGCTAAGTCGGTAATTTATTCACAATGAGTTGTTAACTCAATGGTATTGAAATAACTTCAAAG
TTGAAAATCTTAAATTCAAACTTCAATAGTGATCAAAAAACCAAAAAAAAAAAGTCAATCTCTTC
AAAATCAAATCTATAATACATGTACGTAAACATATGCACATATCACACATATTCGTATATGTGAT
ATGTGCATAATTGTATGCAT
Found at i:8709113 original size:14 final size:15
Alignment explanation
Indices: 8709094--8709122 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8709084 GGATGGTTTC
8709094 TGTTTTTT-TTTTTT
1 TGTTTTTTGTTTTTT
8709108 TGTTTTTTGTTTTTT
1 TGTTTTTTGTTTTTT
8709123 ACTTTTGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (15 bp):
TGTTTTTTGTTTTTT
Found at i:8709766 original size:6 final size:6
Alignment explanation
Indices: 8709757--8709791 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
8709747 ATTTACATTA
*
8709757 TTATTT TTATTT TTATTT TTATTT TT-TAT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
8709792 ATCTATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:8709790 original size:4 final size:4
Alignment explanation
Indices: 8709774--8709896 Score: 53
Period size: 4 Copynumber: 31.5 Consensus size: 4
8709764 TATTTTTATT
* *
8709774 TTTA TTT- TTTA TTTA TTTA TCTA -TTA -TTA CTATTA -TTA TTTA TTAA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -T-TTA TTTA TTTA TTTA
* ** * * * * *
8709820 TATA TAAA TTTTT TTTA ATTA TTTA TCTA TTAA TATA TTT- TATTA TTTA
1 TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA
* *
8709869 TTAA TATA TTTA -TTA -TTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
8709897 ATTACTTATC
Statistics
Matches: 88, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
3 18 0.20
4 65 0.74
5 2 0.02
6 3 0.03
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:8709869 original size:53 final size:52
Alignment explanation
Indices: 8709778--8709877 Score: 157
Period size: 53 Copynumber: 1.9 Consensus size: 52
8709768 TTTATTTTTA
*
8709778 TTTTTTATTTATTTATCTATTATTACTATTATTATTTATTAATATATAAATT
1 TTTTTTAATTATTTATCTATTATTACTATTATTATTTATTAATATATAAATT
*
8709830 TTTTTTAATTATTTATCTATTAATATA-TTTTATTATTTATTAATATAT
1 TTTTTTAATTATTTATCTATT-AT-TACTATTATTATTTATTAATATAT
8709878 TTATTATTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
52 20 0.45
53 22 0.50
54 2 0.05
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (52 bp):
TTTTTTAATTATTTATCTATTATTACTATTATTATTTATTAATATATAAATT
Found at i:8709911 original size:60 final size:55
Alignment explanation
Indices: 8709837--8709986 Score: 178
Period size: 56 Copynumber: 2.6 Consensus size: 55
8709827 ATTTTTTTTA
* * *
8709837 ATTATTTATCTATTAATATATTTTATTATTTATTAATATATTTATTATTATTTATTTATT
1 ATTATTTATCTATTAATATATTTT-TTATTTATT-AT-TATTTA-T-CTATTCATATATT
*
8709897 ATTACTTATCTATTAATATATATGTTTT-TTTATTATTATTTATCTATTCATATATT
1 ATTATTTATCTATTAATATAT-T-TTTTATTTATTATTATTTATCTATTCATATATT
*
8709953 ATTATTTATCTATTAATATTTTTTTTATTT-TTAT
1 ATTATTTATCTATTAATATATTTTTTATTTATTAT
8709987 CTTTTCGATT
Statistics
Matches: 81, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
54 8 0.10
55 4 0.05
56 29 0.36
57 1 0.01
58 6 0.07
59 2 0.02
60 26 0.32
61 3 0.04
62 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (55 bp):
ATTATTTATCTATTAATATATTTTTTATTTATTATTATTTATCTATTCATATATT
Found at i:8709966 original size:8 final size:7
Alignment explanation
Indices: 8709754--8709986 Score: 97
Period size: 7 Copynumber: 33.6 Consensus size: 7
8709744 CTCATTTACA
8709754 TTATTAT
1 TTATTAT
8709761 TT-TTAT
1 TTATTAT
8709767 TT-TTAT
1 TTATTAT
8709773 TT-TTAT
1 TTATTAT
*
8709779 TTTTTAT
1 TTATTAT
8709786 TTATTTAT
1 TTA-TTAT
*
8709794 CTATTA-
1 TTATTAT
*
8709800 TTACTA-
1 TTATTAT
8709806 TTATTAT
1 TTATTAT
8709813 TTATTAAT
1 TTATT-AT
* *
8709821 ATATAAAT
1 TTAT-TAT
8709829 TT-TT-T
1 TTATTAT
8709834 TTAATTAT
1 TT-ATTAT
8709842 TTATCTAT
1 TTAT-TAT
*
8709850 TAATATATT
1 TTAT-TA-T
8709859 TTATTAT
1 TTATTAT
8709866 TTATTA-
1 TTATTAT
*
8709872 ATA-TAT
1 TTATTAT
8709878 TTATTA-
1 TTATTAT
8709884 TTATTTAT
1 TTA-TTAT
8709892 TTATTA-
1 TTATTAT
8709898 TTACTTAT
1 TTA-TTAT
*
8709906 CTATTAAT
1 TTATT-AT
8709914 ATATATGT-T
1 -T-TAT-TAT
*
8709923 TTTTTA-
1 TTATTAT
8709929 TTATTAT
1 TTATTAT
8709936 TTATCTAT
1 TTAT-TAT
*
8709944 TCA-TAT
1 TTATTAT
8709950 ATTATTAT
1 -TTATTAT
8709958 TTATCTA-
1 TTAT-TAT
*
8709965 TTAATAT
1 TTATTAT
8709972 TT-TT-T
1 TTATTAT
8709977 TTATT-T
1 TTATTAT
8709983 TTAT
1 TTAT
8709987 CTTTTCGATT
Statistics
Matches: 176, Mismatches: 22, Indels: 57
0.69 0.09 0.22
Matches are distributed among these distances:
5 8 0.05
6 56 0.32
7 58 0.33
8 45 0.26
9 5 0.03
10 3 0.02
11 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (7 bp):
TTATTAT
Found at i:8710800 original size:4 final size:4
Alignment explanation
Indices: 8710793--8710903 Score: 63
Period size: 4 Copynumber: 27.2 Consensus size: 4
8710783 GTTTTTTTTA
*
8710793 TATT TATT TATT TATT TAAT TA-T TA-T TA-T TA-T TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
* * * *
8710837 AGATT ATAAT TATT TA-G TATT T-TT TATTT TATTT TATTT TATT TTTT
1 -TATT -TATT TATT TATT TATT TATT TA-TT TA-TT TA-TT TATT TATT
8710884 TATTT TATCT TATTT TATT T
1 TA-TT TAT-T TA-TT TATT T
8710904 TTTGATTTTC
Statistics
Matches: 90, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
3 17 0.19
4 42 0.47
5 30 0.33
6 1 0.01
ACGTcount: A:0.26, C:0.01, G:0.02, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:8710824 original size:25 final size:25
Alignment explanation
Indices: 8710796--8710885 Score: 73
Period size: 25 Copynumber: 3.6 Consensus size: 25
8710786 TTTTTTATAT
8710796 TTATTTATTTATTTAATTATTATTA
1 TTATTTATTTATTTAATTATTATTA
*
8710821 TTA-TTATTTATTT-ATTAGATTATAA
1 TTATTTATTTATTTAATT--ATTATTA
*
8710846 TTATTTAGTATT-TTTTATT-TTATT-
1 TTATTTA-T-TTATTTAATTATTATTA
*
8710870 TTATTTTATTTTTTTA
1 TTA-TTTATTTATTTA
8710886 TTTTATCTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
23 5 0.09
24 17 0.31
25 20 0.37
26 3 0.06
27 4 0.07
28 5 0.09
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (25 bp):
TTATTTATTTATTTAATTATTATTA
Found at i:8710828 original size:28 final size:28
Alignment explanation
Indices: 8710796--8710888 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 28
8710786 TTTTTTATAT
8710796 TTATTTATTTATTTAATTATTATTATTA
1 TTATTTATTTATTTAATTATTATTATTA
*
8710824 TTATTTATTTA-TTAGATTATAATTATTTA
1 TTATTTATTTATTTA-ATTATTATTA-TTA
* *
8710853 GTATTT-TTTATTTTATT-TTATT-TTA
1 TTATTTATTTATTTAATTATTATTATTA
*
8710878 TTTTTTTATTT
1 -TTATTTATTT
8710889 TATCTTATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
25 3 0.06
26 4 0.07
27 10 0.19
28 27 0.50
29 10 0.19
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (28 bp):
TTATTTATTTATTTAATTATTATTATTA
Found at i:8710868 original size:5 final size:5
Alignment explanation
Indices: 8710858--8710904 Score: 71
Period size: 5 Copynumber: 9.8 Consensus size: 5
8710848 ATTTAGTATT
*
8710858 TTTTA TTTTA TTTTA TTTTA -TTT- TTTTA TTTTA TCTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
8710905 TTGATTTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
4 6 0.16
5 32 0.84
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:8710886 original size:18 final size:18
Alignment explanation
Indices: 8710854--8710912 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
8710844 AATTATTTAG
*
8710854 TATTTT-TTATTTTATTT
1 TATTTTATTTTTTTATTT
8710871 TATTTTATTTTTTTATTT
1 TATTTTATTTTTTTATTT
*
8710889 TATCTTATTTTATTT-TTT
1 TATTTTATTTT-TTTATTT
*
8710907 GATTTT
1 TATTTT
8710913 CTTTAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 6 0.17
18 27 0.75
19 3 0.08
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (18 bp):
TATTTTATTTTTTTATTT
Found at i:8710886 original size:23 final size:23
Alignment explanation
Indices: 8710856--8710912 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
8710846 TTATTTAGTA
*
8710856 TTTTTTATTTTATTTTATTTTAT
1 TTTTTTATTTTATCTTATTTTAT
8710879 TTTTTTATTTTATCTTATTTTAT
1 TTTTTTATTTTATCTTATTTTAT
*
8710902 TTTTTGATTTT
1 TTTTTTATTTT
8710913 CTTTAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.81
Consensus pattern (23 bp):
TTTTTTATTTTATCTTATTTTAT
Found at i:8711071 original size:118 final size:117
Alignment explanation
Indices: 8710930--8711209 Score: 397
Period size: 118 Copynumber: 2.4 Consensus size: 117
8710920 TAAAATTTCA
* * **
8710930 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAATTTTTCTAAAAAA
1 AAAAAATTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGATTTCTAAAAAA
* *
8710995 TATTTTTT-AGAAAAAGTT-AAAAGTATCAATTTTTTTTGAAAATAA-TTTTTT
66 T-TTTTTTGAGAAAAAGTTGAAAA-TATCAATTTTTCTTGAAAATAAGTTTTAT
*
8711046 AAAAAAGGGTT-TTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGATTTCTAAA
1 AAAAAA---TTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGATTTCTAAA
*
8711110 AAGTTTTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAGTTTTAT
63 AAATTTTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAGTTTTAT
* *
8711165 AAAAAATTATTTTCGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAAAATTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
8711210 TATAAAAGCA
Statistics
Matches: 146, Mismatches: 11, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
116 8 0.05
117 39 0.27
118 83 0.57
119 16 0.11
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.41
Consensus pattern (117 bp):
AAAAAATTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGATTTCTAAAAAA
TTTTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAGTTTTAT
Found at i:8711145 original size:28 final size:28
Alignment explanation
Indices: 8711114--8711205 Score: 66
Period size: 29 Copynumber: 3.2 Consensus size: 28
8711104 TCTAAAAAGT
8711114 TTTTTTGAGAAAAAGTTGAAAATATCAA
1 TTTTTTGAGAAAAAGTTGAAAATATCAA
*
8711142 TTTTTCTTGA-AAATAAGTTTTATAAA-A--AA
1 -TTTT-TTGAGAAA-AAG-TTGA-AAATATCAA
* *
8711171 TTATTTTCGAGGAAAAGTTGAAAGTATCAA
1 TT-TTTT-GAGAAAAAGTTGAAAATATCAA
8711201 TTTTT
1 TTTTT
8711206 CTTGTATAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 20
0.67 0.05 0.27
Matches are distributed among these distances:
27 2 0.04
28 8 0.16
29 19 0.39
30 13 0.27
31 4 0.08
32 3 0.06
ACGTcount: A:0.41, C:0.04, G:0.13, T:0.41
Consensus pattern (28 bp):
TTTTTTGAGAAAAAGTTGAAAATATCAA
Found at i:8711205 original size:59 final size:59
Alignment explanation
Indices: 8710925--8711209 Score: 355
Period size: 58 Copynumber: 4.8 Consensus size: 59
8710915 TTAAATAAAA
* * *
8710925 TTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATAATT
1 TTTCTAAAAAATTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAGT
* * * *
8710984 TTTCTAAAAAA-TATTTTTTAGAAAAAGTTAAAAGTATCAATTTTTTTTGAAAATAA-T
1 TTTCTAAAAAATTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGT
* * * *
8711041 TTTTTAAAAAAGGGTT-TTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGA
1 TTTCTAAAAAA---TTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGT
* * *
8711102 TTTCTAAAAAGTT-TTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAGT
1 TTTCTAAAAAATTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGT
* *
8711160 TTTATAAAAAATTATTTTCGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 TTTCTAAAAAATTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
8711210 TATAAAAGCA
Statistics
Matches: 196, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
57 11 0.06
58 89 0.45
59 47 0.24
60 39 0.20
61 10 0.05
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.41
Consensus pattern (59 bp):
TTTCTAAAAAATTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGT
Found at i:8721650 original size:9 final size:9
Alignment explanation
Indices: 8721636--8721681 Score: 58
Period size: 9 Copynumber: 5.0 Consensus size: 9
8721626 GTACTATGCT
*
8721636 TAAAAAATA
1 TAAAAAAAA
8721645 TAAAAAAAA
1 TAAAAAAAA
8721654 TAAAAAAAA
1 TAAAAAAAA
8721663 TAAAAATAAA
1 TAAAAA-AAA
8721673 -AAGAAAAAA
1 TAA-AAAAAA
8721682 AAGGTGAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
9 28 0.82
10 6 0.18
ACGTcount: A:0.85, C:0.00, G:0.02, T:0.13
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:8721662 original size:20 final size:21
Alignment explanation
Indices: 8721637--8721683 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
8721627 TACTATGCTT
* *
8721637 AAAAAATATAAA-AAAAATAA
1 AAAAAATAAAAATAAAAAGAA
8721657 AAAAAATAAAAATAAAAAGAA
1 AAAAAATAAAAATAAAAAGAA
8721678 AAAAAA
1 AAAAAA
8721684 GGTGAATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.87, C:0.00, G:0.02, T:0.11
Consensus pattern (21 bp):
AAAAAATAAAAATAAAAAGAA
Found at i:8722831 original size:42 final size:41
Alignment explanation
Indices: 8722730--8722997 Score: 175
Period size: 42 Copynumber: 6.4 Consensus size: 41
8722720 AAGTTGTGAT
** * * * * *
8722730 GCCTCT-ATTTAGAGGAGTAATTTACTTTCAAAAGTGGTTAT
1 GCCTCTGA-TTAGAGGAGCCATTTATTTTTAAAAATCGTTAA
* *
8722771 GCCTTTGATTAGAGGAGCCTTTTACTTTTTAAAAATCGTTAA
1 GCCTCTGATTAGAGGAGCCATTTA-TTTTTAAAAATCGTTAA
* * * *
8722813 GCCTCTGATTAGAAGAGCCATTTATTTTTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTAAAAATCGTTAA
* ** * *
8722854 GCCTCTGTTTAGAGGAGCTTTGTTTATTGTTT--AAGTCGTTGA
1 GCCTCTGATTAGAGGAGC--CATTTATT-TTTAAAAATCGTTAA
* * * *
8722896 GCCTCTGATTAGAGGAGCAATTAACTTTTCAAAAATCGCTAA
1 GCCTCTGATTAGAGGAGCCATTTA-TTTTTAAAAATCGTTAA
* * * * *
8722938 GCCTCTGATTAGAGAAGCAATTTACTTTTCAAAAGTCATTGAA
1 GCCTCTGATTAGAGGAGCCATTTA-TTTTTAAAAATCGTT-AA
* *
8722981 -CTTCTGCTTAGAGGAGC
1 GCCTCTGATTAGAGGAGC
8722998 TTTAATCAAA
Statistics
Matches: 183, Mismatches: 35, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
40 5 0.03
41 50 0.27
42 117 0.64
43 8 0.04
44 3 0.02
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (41 bp):
GCCTCTGATTAGAGGAGCCATTTATTTTTAAAAATCGTTAA
Found at i:8722847 original size:83 final size:83
Alignment explanation
Indices: 8722771--8722951 Score: 197
Period size: 83 Copynumber: 2.2 Consensus size: 83
8722761 AAGTGGTTAT
* *
8722771 GCCTTTGATTAGAGGAGC-CT-TTTACTT-TTTAAAAATCGTTAAGCCTCTGATTAGAAGAGCCA
1 GCCTCTGATTAGAGGAGCTCTGTTTA-TTGTTT--AAATCGTTAAGCCTCTGATTAGAAGAGCAA
* *
8722833 TTTATTTTTCAAAGTCGTTGA
63 TTAACTTTTCAAAGTCGTTGA
* * * * *
8722854 GCCTCTGTTTAGAGGAGCTTTGTTTATTGTTTAAGTCGTTGAGCCTCTGATTAGAGGAGCAATTA
1 GCCTCTGATTAGAGGAGCTCTGTTTATTGTTTAAATCGTTAAGCCTCTGATTAGAAGAGCAATTA
* * *
8722919 ACTTTTCAAAAATCGCTAA
66 ACTTTTC-AAAGTCGTTGA
8722938 GCCTCTGATTAGAG
1 GCCTCTGATTAGAG
8722952 AAGCAATTTA
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
83 50 0.62
84 24 0.30
85 7 0.09
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (83 bp):
GCCTCTGATTAGAGGAGCTCTGTTTATTGTTTAAATCGTTAAGCCTCTGATTAGAAGAGCAATTA
ACTTTTCAAAGTCGTTGA
Found at i:8722939 original size:125 final size:126
Alignment explanation
Indices: 8722771--8723000 Score: 329
Period size: 125 Copynumber: 1.8 Consensus size: 126
8722761 AAGTGGTTAT
* ** * * * *
8722771 GCCTTTGATTAGAGGAGCCTTTTACTTTTTAAAAATCGTTAAGCCTCTGATTAGA-AGAGCCATT
1 GCCTCTGATTAGAGGAGCAATTAACTTTTCAAAAATCGCTAAGCCTCTGATTAGAGA-AGCAATT
* * * *
8722835 TATTTTTC-AAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTGTTTAAGTCGTTGA
65 TACTTTTCAAAAGTCATTGAACCTCTGCTTAGAGGAGCTTTGTTTATTGTTTAAGTCGTTGA
8722896 GCCTCTGATTAGAGGAGCAATTAACTTTTCAAAAATCGCTAAGCCTCTGATTAGAGAAGCAATTT
1 GCCTCTGATTAGAGGAGCAATTAACTTTTCAAAAATCGCTAAGCCTCTGATTAGAGAAGCAATTT
*
8722961 ACTTTTCAAAAGTCATTGAACTTCTGCTTAGAGGAGCTTT
66 ACTTTTCAAAAGTCATTGAACCTCTGCTTAGAGGAGCTTT
8723001 AATCAAAATT
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
125 62 0.68
126 29 0.32
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (126 bp):
GCCTCTGATTAGAGGAGCAATTAACTTTTCAAAAATCGCTAAGCCTCTGATTAGAGAAGCAATTT
ACTTTTCAAAAGTCATTGAACCTCTGCTTAGAGGAGCTTTGTTTATTGTTTAAGTCGTTGA
Found at i:8723221 original size:4 final size:4
Alignment explanation
Indices: 8723212--8723399 Score: 50
Period size: 4 Copynumber: 49.8 Consensus size: 4
8723202 ATTTTTAATT
* *
8723212 TTTA TTTA TTTA TCTA -TTA -TTA CTATTA -TTA TTTA TTAATA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA -T-TTA TTTA TTTA TT--TA TTTA
* * * * *
8723257 ATT- TTT- TTTA ATTA TTTA TCTA TTAA TATA -TT- TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * *
8723301 TTTA -TTA -TTA -TTA TTTA TCTA TTAA TATA TATA TGT- TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * *
8723344 -TTA -TTA TTTA TCTA TTCA TATA -TTA -TTA TTTA TCTA TTAATA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA
8723390 TTT- TTTA TTT
1 TTTA TTTA TTT
8723400 TTATCTTTTC
Statistics
Matches: 137, Mismatches: 31, Indels: 32
0.69 0.16 0.16
Matches are distributed among these distances:
3 44 0.32
4 84 0.61
6 9 0.07
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:8723315 original size:43 final size:41
Alignment explanation
Indices: 8723201--8723373 Score: 134
Period size: 43 Copynumber: 4.2 Consensus size: 41
8723191 TTGTTATTTT
8723201 TATTTTTAATT-TTTATTTATTTATCTATTA-TTA-CTATT-AT-
1 TATTTTT-ATTATTTA-TT-TTTAT-TATTATTTATCTATTAATA
* * *
8723241 TATTTATTAATATATAATTTTTTTTAATTATTTATCTATTAATA
1 TATTT-TTATTAT-TTATTTTTATT-ATTATTTATCTATTAATA
8723285 TATTTTTATTTATTTATTTATTATTATTATTTATCTATTAATA
1 TATTTTTA-TTATTTATTT-TTATTATTATTTATCTATTAATA
*
8723328 TA----TA-TATGTT-TTTTTATTATTATTTATCTATTCATA
1 TATTTTTATTAT-TTATTTTTATTATTATTTATCTATTAATA
*
8723364 TATTATTATT
1 TATTTTTATT
8723374 TATCTATTAA
Statistics
Matches: 110, Mismatches: 7, Indels: 31
0.74 0.05 0.21
Matches are distributed among these distances:
36 24 0.22
37 6 0.05
38 2 0.02
39 3 0.03
40 17 0.15
41 9 0.08
42 7 0.06
43 30 0.27
44 12 0.11
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (41 bp):
TATTTTTATTATTTATTTTTATTATTATTTATCTATTAATA
Found at i:8723331 original size:77 final size:78
Alignment explanation
Indices: 8723209--8723381 Score: 228
Period size: 77 Copynumber: 2.2 Consensus size: 78
8723199 TTTATTTTTA
* *
8723209 ATTTTTATTTATTTATCTATTATTACTATTATTATTTATTAATATATAAT-TTTTTTTA-ATTAT
1 ATTTTTATTTATTTATTTATTATTACTATTATTATTTAATAATATAT-ATGTTTTTTTATATTAT
8723272 TTATCTATTAATAT
65 TTATCTATTAATAT
*
8723286 ATTTTTATTTATTTATTTATTATTATTATTTATCTA-TTAAT-ATATATATGTTTTTTTATTATT
1 ATTTTTATTTATTTATTTATTATTACTA-TTAT-TATTTAATAATATATATGTTTTTTTA-TATT
*
8723349 ATTTATCTATTCATAT
63 ATTTATCTATTAATAT
* *
8723365 ATTATTATTTATCTATT
1 ATTTTTATTTATTTATT
8723382 AATATATATT
Statistics
Matches: 85, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
76 2 0.02
77 40 0.47
78 8 0.09
79 35 0.41
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (78 bp):
ATTTTTATTTATTTATTTATTATTACTATTATTATTTAATAATATATATGTTTTTTTATATTATT
TATCTATTAATAT
Found at i:8723367 original size:22 final size:22
Alignment explanation
Indices: 8723342--8723397 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
8723332 TATGTTTTTT
*
8723342 TATTATTATTTATCTATTCATA
1 TATTATTATTTATCTATTAATA
8723364 TATTATTATTTATCTATTAATA
1 TATTATTATTTATCTATTAATA
*
8723386 TA-TATTTTTTAT
1 TATTATTATTTAT
8723398 TTTTATCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 9 0.28
22 23 0.72
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTATTTATCTATTAATA
Found at i:8723374 original size:79 final size:77
Alignment explanation
Indices: 8723213--8723381 Score: 234
Period size: 79 Copynumber: 2.2 Consensus size: 77
8723203 TTTTTAATTT
* *
8723213 TTATTTATTTATCTATTATTACTATTATTATTTATTAATATATAATTTTTTTTAATTATTTATCT
1 TTATTTATTTATTTATTATTACTATTATTATCTATTAATATATAATTTTTTTTAATTATTTATCT
*
8723278 ATTAATATATTT
66 ATTAATATATTA
*
8723290 TTATTTATTTATTTATTATTATTA-T-TTATCTATTAATATATATATGTTTTTTTATTATTATTT
1 TTATTTATTTATTTATTATTACTATTATTATCTATTAATATATA-AT-TTTTTTTA--ATTATTT
*
8723353 ATCTATTCATATATTA
62 ATCTATTAATATATTA
*
8723369 TTATTTATCTATT
1 TTATTTATTTATT
8723382 AATATATATT
Statistics
Matches: 82, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
75 16 0.20
76 3 0.04
77 30 0.37
79 33 0.40
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (77 bp):
TTATTTATTTATTTATTATTACTATTATTATCTATTAATATATAATTTTTTTTAATTATTTATCT
ATTAATATATTA
Found at i:8723382 original size:36 final size:36
Alignment explanation
Indices: 8723228--8723382 Score: 135
Period size: 36 Copynumber: 4.2 Consensus size: 36
8723218 TATTTATCTA
* *
8723228 TTATTACTATTA-TTATTTATTAATATATA-ATT-T
1 TTATTATTATTATTTATCTATTAATATATATATTAT
*
8723261 TT-TT-TAATTATTTATCTATTAATATATTTTTATTTATTTAT
1 TTATTATTATTATTTATCTATTAATATA----TA--TA-TTAT
8723302 TTATTATTATTATTTATCTATTAATATATATATGT-T
1 TTATTATTATTATTTATCTATTAATATATATAT-TAT
* *
8723338 TTTTTATTATTATTTATCTATTCATATAT-TATTAT
1 TTATTATTATTATTTATCTATTAATATATATATTAT
8723373 TTATCTATTA
1 TTAT-TATTA
8723383 ATATATATTT
Statistics
Matches: 100, Mismatches: 7, Indels: 27
0.75 0.05 0.20
Matches are distributed among these distances:
31 4 0.04
32 16 0.16
33 2 0.02
34 1 0.01
35 7 0.07
36 36 0.36
37 3 0.03
39 3 0.03
40 2 0.02
41 3 0.03
42 2 0.02
43 21 0.21
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.64
Consensus pattern (36 bp):
TTATTATTATTATTTATCTATTAATATATATATTAT
Found at i:8724279 original size:20 final size:19
Alignment explanation
Indices: 8724256--8724315 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 19
8724246 ATTATAATTA
8724256 TTTAGTATTTCTTAT-TTTAT
1 TTTAGTA-TT-TTATCTTTAT
*
8724276 TTTATTATTTTATCTTTAT
1 TTTAGTATTTTATCTTTAT
*
8724295 TTTTGT-TTTTATCTTT-T
1 TTTAGTATTTTATCTTTAT
8724312 TTTA
1 TTTA
8724316 TTTTTTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 4 0.11
18 14 0.40
19 11 0.31
20 6 0.17
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTAGTATTTTATCTTTAT
Found at i:8724304 original size:18 final size:18
Alignment explanation
Indices: 8724283--8724324 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
8724273 TATTTTATTA
8724283 TTTTATCTTTATTTT-TGT
1 TTTTATCTTT-TTTTATGT
*
8724301 TTTTATCTTTTTTTATTT
1 TTTTATCTTTTTTTATGT
8724319 TTTTAT
1 TTTTAT
8724325 TTTCTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTATCTTTTTTTATGT
Found at i:8724429 original size:58 final size:58
Alignment explanation
Indices: 8724346--8724563 Score: 287
Period size: 57 Copynumber: 3.8 Consensus size: 58
8724336 AAAATTCCAA
* *
8724346 AAAAAATATTTTTGAGGAGAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
* * * *
8724404 AAAAAATATTTTTTAGGAAATGTTGAAAGTATTAATTTTCCTTGAAAA-AAGTTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
* * * * *
8724461 AAAAAATGTTTTCGAAAAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAA-TTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
* *
8724518 AAAAAAGGTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAAAA--TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
8724564 TACCAAAGCA
Statistics
Matches: 138, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
57 60 0.43
58 46 0.33
59 32 0.23
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.39
Consensus pattern (58 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
Found at i:8724466 original size:13 final size:14
Alignment explanation
Indices: 8724447--8724480 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
8724437 AATTTTCCTT
8724447 GAAAAAA-GTTTTC
1 GAAAAAATGTTTTC
*
8724460 TAAAAAATGTTTTC
1 GAAAAAATGTTTTC
8724474 GAAAAAA
1 GAAAAAA
8724481 AGTTGAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (14 bp):
GAAAAAATGTTTTC
Found at i:8724466 original size:115 final size:115
Alignment explanation
Indices: 8724346--8724563 Score: 296
Period size: 115 Copynumber: 1.9 Consensus size: 115
8724336 AAAATTCCAA
* ** * *
8724346 AAAAAATATTTTTGAGGAGAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAA-
1 AAAAAATATTTTCGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA-TTTTCTAAAAAAG
* * *
8724410 TATTTTTT-AGGAAATGTTGAAAGTATTAATTTTCCTTGAAAAAAGTTTTCT
65 T-TTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAAAAGTTTTCT
* *
8724461 AAAAAATGTTTTCGAAAAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAATTTTCTAAAAAAGG
1 AAAAAATATTTTCGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAATTTTCTAAAAAA-G
*
8724526 TTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
65 TTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
8724564 TACCAAAGCA
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
114 12 0.13
115 50 0.56
116 27 0.30
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.39
Consensus pattern (115 bp):
AAAAAATATTTTCGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAATTTTCTAAAAAAGT
TTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAAAAGTTTTCT
Found at i:8731826 original size:22 final size:20
Alignment explanation
Indices: 8731796--8731843 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
8731786 AAGTATTAAA
8731796 AATAATTTTATGAATATATTTT
1 AATAATTTTA--AATATATTTT
*
8731818 AATATTTTTAAATATATTTT
1 AATAATTTTAAATATATTTT
8731838 AA-AATT
1 AATAATT
8731844 AAAATTACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 12 0.50
22 9 0.38
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
AATAATTTTAAATATATTTT
Found at i:8731831 original size:10 final size:11
Alignment explanation
Indices: 8731795--8731840 Score: 53
Period size: 10 Copynumber: 4.3 Consensus size: 11
8731785 AAAGTATTAA
8731795 AAATA-ATTTT
1 AAATATATTTT
8731805 ATGAATATATTTT
1 A--AATATATTTT
8731818 -AATAT-TTTT
1 AAATATATTTT
8731827 AAATATATTTT
1 AAATATATTTT
8731838 AAA
1 AAA
8731841 ATTAAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
9 4 0.13
10 11 0.35
11 7 0.23
12 4 0.13
13 5 0.16
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (11 bp):
AAATATATTTT
Found at i:8732491 original size:23 final size:23
Alignment explanation
Indices: 8732461--8732509 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
8732451 ATTCAAATGG
8732461 ATGATTGATTTGCATTTGCATTT
1 ATGATTGATTTGCATTTGCATTT
8732484 ATGATTGATTTGCATTTGCATTT
1 ATGATTGATTTGCATTTGCATTT
8732507 ATG
1 ATG
8732510 TAAAGAAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.22, C:0.08, G:0.18, T:0.51
Consensus pattern (23 bp):
ATGATTGATTTGCATTTGCATTT
Found at i:8737387 original size:13 final size:14
Alignment explanation
Indices: 8737316--8737388 Score: 51
Period size: 14 Copynumber: 4.9 Consensus size: 14
8737306 ATATATTTTT
8737316 TAAATATTAAAAAAA
1 TAAATATT-AAAAAA
* *
8737331 TACTATATGAAAATAA
1 TA-AATATTAAAA-AA
*
8737347 T-AATAATAAATAATA
1 TAAATATTAAA-AA-A
8737362 TTAAATATTAAAAAA
1 -TAAATATTAAAAAA
8737377 TAAAT-TTAAAAA
1 TAAATATTAAAAA
8737389 TACATTAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
13 7 0.15
14 12 0.26
15 9 0.20
16 10 0.22
17 8 0.17
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (14 bp):
TAAATATTAAAAAA
Found at i:8737606 original size:12 final size:12
Alignment explanation
Indices: 8737589--8737637 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 12
8737579 AATTATTTTT
8737589 TTTAATTTTATA
1 TTTAATTTTATA
8737601 TTTAATTATATATATA
1 TTTAA-T-T-T-TATA
8737617 TTTAATTTTATA
1 TTTAATTTTATA
8737629 TTTATATTT
1 TTTA-ATTT
8737638 AAAATAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
12 13 0.41
13 6 0.19
14 2 0.06
15 2 0.06
16 9 0.28
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTAATTTTATA
Found at i:8737618 original size:16 final size:17
Alignment explanation
Indices: 8737597--8737639 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
8737587 TTTTTAATTT
8737597 TATATTTAA-TTATATA
1 TATATTTAATTTATATA
*
8737613 TATATTTAATTTTATATT
1 TATATTTAA-TTTATATA
8737631 TATATTTAA
1 TATATTTAA
8737640 AATAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
18 15 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATATTTAATTTATATA
Found at i:8737647 original size:18 final size:18
Alignment explanation
Indices: 8737591--8737653 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
8737581 TTATTTTTTT
8737591 TAAT-TTTATATTT--AA
1 TAATATTTATATTTAAAA
* * **
8737606 TTATATATATATTTAATT
1 TAATATTTATATTTAAAA
*
8737624 TTATATTTATATTTAAAA
1 TAATATTTATATTTAAAA
8737642 TAATATTT-TATT
1 TAATATTTATATT
8737654 AATTTCGAGT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
15 3 0.08
16 8 0.22
17 4 0.11
18 22 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TAATATTTATATTTAAAA
Found at i:8742407 original size:30 final size:29
Alignment explanation
Indices: 8742371--8742439 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
8742361 TATTAAATAA
*
8742371 AAATAAAATATTTAAAAGTTCAATTCAATG
1 AAATAAAATATTTAAAAGCTCAATT-AATG
* * *
8742401 AAAT-AAATATTTGAGAGCTCAATTAATT
1 AAATAAAATATTTAAAAGCTCAATTAATG
8742429 ATAATAAAATA
1 A-AATAAAATA
8742440 ATAAAAATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 4 0.12
29 20 0.61
30 9 0.27
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.33
Consensus pattern (29 bp):
AAATAAAATATTTAAAAGCTCAATTAATG
Found at i:8745731 original size:8 final size:9
Alignment explanation
Indices: 8745713--8745742 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
8745703 ATTTGTGAGA
8745713 TTTTTATTT
1 TTTTTATTT
8745722 TTTTTATTT
1 TTTTTATTT
8745731 TTTTTATTT
1 TTTTTATTT
8745740 TTT
1 TTT
8745743 ATGTATCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTATTT
Found at i:8747426 original size:23 final size:24
Alignment explanation
Indices: 8747376--8747422 Score: 80
Period size: 22 Copynumber: 2.0 Consensus size: 24
8747366 ATACACAAGC
8747376 ATTTAATATATATATTTTTATTAA
1 ATTTAATATATATATTTTTATTAA
8747400 ATTT-ATATATA-ATTTTTATTAA
1 ATTTAATATATATATTTTTATTAA
8747422 A
1 A
8747423 ATTTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 12 0.52
23 7 0.30
24 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTAATATATATATTTTTATTAA
Found at i:8747427 original size:12 final size:12
Alignment explanation
Indices: 8747389--8747429 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
8747379 TAATATATAT
8747389 ATTTTTATT-AA
1 ATTTTTATTAAA
* *
8747400 ATTTATA-TATA
1 ATTTTTATTAAA
8747411 ATTTTTATTAAA
1 ATTTTTATTAAA
8747423 ATTTTTA
1 ATTTTTA
8747430 AAATCATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
10 1 0.04
11 13 0.54
12 10 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTTTTATTAAA
Found at i:8753737 original size:10 final size:9
Alignment explanation
Indices: 8753721--8753748 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
8753711 AAATAATATA
8753721 TAAAAAAAT
1 TAAAAAAAT
8753730 TAAAAAAAT
1 TAAAAAAAT
8753739 TAAAAAAAT
1 TAAAAAAAT
8753748 T
1 T
8753749 TTTTTTTACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:8755081 original size:44 final size:43
Alignment explanation
Indices: 8754889--8755239 Score: 303
Period size: 44 Copynumber: 8.0 Consensus size: 43
8754879 CTTTTTTTTT
* * * * *
8754889 TTTAAAGAGGTCCTTTAAACAGAGG-TTCAACGACATTTTTGAAAA
1 TTTAAAAAGCTCCTCTAAGCAGAGGCTT-AACGAC--TTTTAAAAA
* * * * * ** *
8754934 TTTAAAAAACTCCTATGAGTAAAGGCTCCACAACTTTTAAAAA
1 TTTAAAAAGCTCCTCTAAGCAGAGGCTTAACGACTTTTAAAAA
* * * *
8754977 TTTAAAAATGCTTCTCTAGGCAGAGGCTT-ACAACTTTTGAAAA
1 TTTAAAAA-GCTCCTCTAAGCAGAGGCTTAACGACTTTTAAAAA
* * * * *
8755020 TTTAAAAAGGTTCCTCTAAACAGAGGCTCAATGACTTTTGAAAA
1 TTTAAAAA-GCTCCTCTAAGCAGAGGCTTAACGACTTTTAAAAA
*
8755064 TTTAAAGAAGCTTCTCTAAGCAGAGGCTTAACGACTTTTAAAAA
1 TTTAAA-AAGCTCCTCTAAGCAGAGGCTTAACGACTTTTAAAAA
* * * * *
8755108 TTTAAAGAGAATCCTTTAAGCAGATGCTTAACAACTTTTAAAAA
1 TTTAAAAAG-CTCCTCTAAGCAGAGGCTTAACGACTTTTAAAAA
* * * *
8755152 TTTAAAGAGGCTCCTCTAAGTAGAGGCTCAACAACTTTTAAAAA
1 TTTAAA-AAGCTCCTCTAAGCAGAGGCTTAACGACTTTTAAAAA
*
8755196 TTTAAAAAGGCTCCTCTAAGTAGAGGCTTAACGAC-TTTAAAAA
1 TTTAAAAA-GCTCCTCTAAGCAGAGGCTTAACGACTTTTAAAAA
8755239 T
1 T
8755240 CTCATCTTGG
Statistics
Matches: 248, Mismatches: 51, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
43 64 0.26
44 159 0.64
45 24 0.10
46 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (43 bp):
TTTAAAAAGCTCCTCTAAGCAGAGGCTTAACGACTTTTAAAAA
Found at i:8755155 original size:88 final size:88
Alignment explanation
Indices: 8754963--8755239 Score: 344
Period size: 88 Copynumber: 3.2 Consensus size: 88
8754953 TAAAGGCTCC
* *
8754963 ACAACTTTTAAAAATTTAAA-AATGCTTCTCTAGGCAGAGGCTT-ACAACTTTTGAAAATTTAAA
1 ACAACTTTTAAAAATTTAAAGAA-GCTTCTCTAAGCAGAGGCTTAACAACTTTTAAAAATTTAAA
* * *
8755026 AAGGTTCCTCTAAACAGAGGCTCA
65 AAGGATCCTCTAAGCAGAGGCTTA
** * * *
8755050 ATGACTTTTGAAAATTTAAAGAAGCTTCTCTAAGCAGAGGCTTAACGACTTTTAAAAATTTAAAG
1 ACAACTTTTAAAAATTTAAAGAAGCTTCTCTAAGCAGAGGCTTAACAACTTTTAAAAATTTAAAA
* * *
8755115 AGAATCCTTTAAGCAGATGCTTA
66 AGGATCCTCTAAGCAGAGGCTTA
* * * *
8755138 ACAACTTTTAAAAATTTAAAGAGGCTCCTCTAAGTAGAGGCTCAACAACTTTTAAAAATTTAAAA
1 ACAACTTTTAAAAATTTAAAGAAGCTTCTCTAAGCAGAGGCTTAACAACTTTTAAAAATTTAAAA
* *
8755203 AGGCTCCTCTAAGTAGAGGCTTA
66 AGGATCCTCTAAGCAGAGGCTTA
*
8755226 ACGAC-TTTAAAAAT
1 ACAACTTTTAAAAAT
8755240 CTCATCTTGG
Statistics
Matches: 160, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
87 45 0.28
88 115 0.72
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (88 bp):
ACAACTTTTAAAAATTTAAAGAAGCTTCTCTAAGCAGAGGCTTAACAACTTTTAAAAATTTAAAA
AGGATCCTCTAAGCAGAGGCTTA
Found at i:8755167 original size:132 final size:129
Alignment explanation
Indices: 8754889--8755239 Score: 400
Period size: 132 Copynumber: 2.7 Consensus size: 129
8754879 CTTTTTTTTT
* * * * *
8754889 TTTAAAGAGGTCCTTTAAACAGAGGTTCAACGACATTTTTGAAAATTTAAAAAACTCCTATGAGT
1 TTTAAAGAGGTCCTCTAAACAGAGGCTCAACGAC--TTTTGAAAATTTAAAAAGCTCCTCTAAGT
* ** * * * * *
8754954 AAAGGCTCCACAACTTTTAAAAATTTAAAAATGCTTCTCTAGGCAGAGGCTTACAACTTTTGAAA
64 AGAGGCTTAACGACTTTTAAAAATTTAAAAATGATCCTCTAAGCAGAGGCTTACAACTTTTAAAA
8755019 A
129 A
* * * *
8755020 TTTAAAAAGGTTCCTCTAAACAGAGGCTCAATGACTTTTGAAAATTTAAAGAAGCTTCTCTAAGC
1 TTTAAAGAGG-TCCTCTAAACAGAGGCTCAACGACTTTTGAAAATTTAAA-AAGCTCCTCTAAGT
* * *
8755085 AGAGGCTTAACGACTTTTAAAAATTTAAAGA-GAATCCTTTAAGCAGATGCTTAACAACTTTTAA
64 AGAGGCTTAACGACTTTTAAAAATTTAAAAATG-ATCCTCTAAGCAGAGGCTT-ACAACTTTTAA
8755149 AAA
127 AAA
** * *
8755152 TTTAAAGAGGCTCCTCTAAGTAGAGGCTCAACAACTTTTAAAAATTTAAAAAGGCTCCTCTAAGT
1 TTTAAAGAGG-TCCTCTAAACAGAGGCTCAACGACTTTTGAAAATTTAAAAA-GCTCCTCTAAGT
8755217 AGAGGCTTAACGAC-TTTAAAAAT
64 AGAGGCTTAACGACTTTTAAAAAT
8755240 CTCATCTTGG
Statistics
Matches: 186, Mismatches: 29, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
130 16 0.09
131 69 0.37
132 101 0.54
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (129 bp):
TTTAAAGAGGTCCTCTAAACAGAGGCTCAACGACTTTTGAAAATTTAAAAAGCTCCTCTAAGTAG
AGGCTTAACGACTTTTAAAAATTTAAAAATGATCCTCTAAGCAGAGGCTTACAACTTTTAAAAA
Found at i:8755267 original size:49 final size:49
Alignment explanation
Indices: 8755161--8755408 Score: 278
Period size: 49 Copynumber: 5.2 Consensus size: 49
8755151 ATTTAAAGAG
* *
8755161 GCTCCTCTAAGTAGAGGCTCAACAACTTTTAAAA----AT-TT-AAAAA
1 GCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAA
* * * *
8755204 GGCTCCTCTAAGTAGAGGCTTAACGACTTTAAAAATCTCATCTTGGAAAA
1 -GCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAA
8755254 GCTCATCTAAGTAGAGGCTCAA-AGACTTTAAAAATCTCATCTTGAAAAA
1 GCTCATCTAAGTAGAGGCTCAACA-ACTTTAAAAATCTCATCTTGAAAAA
* * * *
8755303 GCTCATCTAAGTAAAGGCTCAACAACTTTAAAACTTTC-TCTTGAAAGAG
1 GCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAA-AA
* * * * *
8755352 GCTCCTCTAAGTAGAGACTCTACAACTTTAAAAATTTTATCTTGAAAAA
1 GCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAA
8755401 GCTCATCT
1 GCTCATCT
8755409 TGAAAAAGCT
Statistics
Matches: 174, Mismatches: 20, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
44 31 0.18
48 10 0.06
49 120 0.69
50 13 0.07
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.29
Consensus pattern (49 bp):
GCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAA
Found at i:8755408 original size:15 final size:15
Alignment explanation
Indices: 8755390--8755423 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
8755380 TAAAAATTTT
8755390 ATCTTGAAAAAGCTC
1 ATCTTGAAAAAGCTC
8755405 ATCTTGAAAAAGCTC
1 ATCTTGAAAAAGCTC
8755420 ATCT
1 ATCT
8755424 AAGTAGAGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (15 bp):
ATCTTGAAAAAGCTC
Found at i:8755433 original size:162 final size:162
Alignment explanation
Indices: 8755234--8755565 Score: 436
Period size: 162 Copynumber: 2.0 Consensus size: 162
8755224 TAACGACTTT
* *
8755234 AAAAATCTCATCTTGGAAAAGCTCATCTAAGTAGAGGCTCAA-AGACTTTAAAAATCTCATCTTG
1 AAAAAGCTCATCTTGAAAAAGCTCATCTAAGTAGAGGCTCAACA-ACTTTAAAAATCTC-TCTTG
* * * *
8755298 AAA-AAGCTCATCTAAGTAAAGGCTCAACAACTTT-AAAACTTTCTCTTGAAAGAGGCTCCTCTA
64 AAAGAAGCTCATCTAAGTAAAGACTCAACAACTTTAAAAACTTTATCTTGAAA-AAGCTCATCTA
* * *
8755361 AGTAGAGACTCTACAACTTTAAAAATTTTATCTTG
128 AGTAGAGACTCAACAACTTTAAAAATCTCATCTTG
* *
8755396 AAAAAGCTCATCTTGAAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAACTTTCTCTTGAA
1 AAAAAGCTCATCTTGAAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATCTCTCTTGAA
* * * * *
8755461 AGAGGCTCCTCTAAGTAGAGACTCTACAACTTTAAAAATTTTATCTTGAAAAAGCTCATCTAAGT
66 AGAAGCTCATCTAAGTAAAGACTCAACAACTTTAAAAACTTTATCTTGAAAAAGCTCATCTAAGT
* ** *
8755526 AGAGGCTCAATGACTTTAAAAATCTCATTTTG
131 AGAGACTCAACAACTTTAAAAATCTCATCTTG
8755558 AAAAAGCT
1 AAAAAGCT
8755566 TTTTTAAGTA
Statistics
Matches: 147, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
161 8 0.05
162 123 0.84
163 16 0.11
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.30
Consensus pattern (162 bp):
AAAAAGCTCATCTTGAAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATCTCTCTTGAA
AGAAGCTCATCTAAGTAAAGACTCAACAACTTTAAAAACTTTATCTTGAAAAAGCTCATCTAAGT
AGAGACTCAACAACTTTAAAAATCTCATCTTG
Found at i:8755443 original size:64 final size:64
Alignment explanation
Indices: 8755341--8755461 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 64
8755331 TAAAACTTTC
* * * *
8755341 TCTTGAAAGAGGCTCCTCTAAGTAGAGACTCTACAACTTTAAAAATTTTATCTTGAAAAAGCTCA
1 TCTTGAAAGAAGCTCATCTAAGTAGAGACTCAACAACTTT-AAAACTTTATCTTGAAAAAGCTCA
* *
8755406 TCTTGAAA-AAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAACTTTCTCTTGAAA
1 TCTTGAAAGAAGCTCATCTAAGTAGAGACTCAACAACTTTAAAACTTTATCTTGAAA
8755462 GAGGCTCCTC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
63 15 0.30
64 27 0.54
65 8 0.16
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (64 bp):
TCTTGAAAGAAGCTCATCTAAGTAGAGACTCAACAACTTTAAAACTTTATCTTGAAAAAGCTCA
Found at i:8755477 original size:49 final size:48
Alignment explanation
Indices: 8755406--8755652 Score: 307
Period size: 49 Copynumber: 5.1 Consensus size: 48
8755396 AAAAAGCTCA
*
8755406 TCTTGAAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAACTTTC
1 TCTTGAAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATTTC
* * * * *
8755454 TCTTGAAAGAGGCTCCTCTAAGTAGAGACTCTACAACTTTAAAAATTTTA
1 TCTTGAAA-AAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAAA-TTTC
** *
8755504 TCTTGAAAAAGCTCATCTAAGTAGAGGCTCAATGACTTTAAAAATCTC
1 TCTTGAAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATTTC
* ** * *
8755552 ATTTTGAAAAAGCTTTTTTAAGTAGAGGCTCAACAACTTT-AAAATTTA
1 -TCTTGAAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATTTC
* *
8755600 TCTTGAAAAAGCTCCTCTAAGTAGAGGTTCAACAACTTTAAAAATTTC
1 TCTTGAAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATTTC
8755648 ATCTT
1 -TCTT
8755653 TTCTCGAAAT
Statistics
Matches: 166, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
47 34 0.20
48 23 0.14
49 98 0.59
50 11 0.07
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.32
Consensus pattern (48 bp):
TCTTGAAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATTTC
Found at i:8755481 original size:113 final size:113
Alignment explanation
Indices: 8755283--8755521 Score: 460
Period size: 113 Copynumber: 2.1 Consensus size: 113
8755273 CAAAGACTTT
*
8755283 AAAAATCTCATCTTGAAAAAGCTCATCTAAGTAAAGGCTCAACAACTTTAAAACTTTCTCTTGAA
1 AAAAAGCTCATCTTGAAAAAGCTCATCTAAGTAAAGGCTCAACAACTTTAAAACTTTCTCTTGAA
8755348 AGAGGCTCCTCTAAGTAGAGACTCTACAACTTTAAAAATTTTATCTTG
66 AGAGGCTCCTCTAAGTAGAGACTCTACAACTTTAAAAATTTTATCTTG
*
8755396 AAAAAGCTCATCTTGAAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAACTTTCTCTTGAA
1 AAAAAGCTCATCTTGAAAAAGCTCATCTAAGTAAAGGCTCAACAACTTTAAAACTTTCTCTTGAA
8755461 AGAGGCTCCTCTAAGTAGAGACTCTACAACTTTAAAAATTTTATCTTG
66 AGAGGCTCCTCTAAGTAGAGACTCTACAACTTTAAAAATTTTATCTTG
8755509 AAAAAGCTCATCT
1 AAAAAGCTCATCT
8755522 AAGTAGAGGC
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 124 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (113 bp):
AAAAAGCTCATCTTGAAAAAGCTCATCTAAGTAAAGGCTCAACAACTTTAAAACTTTCTCTTGAA
AGAGGCTCCTCTAAGTAGAGACTCTACAACTTTAAAAATTTTATCTTG
Found at i:8755638 original size:96 final size:99
Alignment explanation
Indices: 8755405--8755652 Score: 351
Period size: 98 Copynumber: 2.5 Consensus size: 99
8755395 GAAAAAGCTC
* *
8755405 ATCTTGAAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAACTTTC-TCTTGAAAGAGGCTC
1 ATCTTGAAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAGAAGCTC
*
8755469 CTCTAAGTAGAGACTCTACAACTTTAAAAATTTT
66 CTCTAAGTAGAGACTCAACAACTTTAAAAATTTT
** * * *
8755503 ATCTTGAAAAAGCTCATCTAAGTAGAGGCTCAATGACTTTAAAAATCTCATTTTGAAA-AAGCTT
1 ATCTTGAAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAGAAGCTC
* * *
8755567 TTTTAAGTAGAGGCTCAACAACTTT-AAAA-TTT
66 CTCTAAGTAGAGACTCAACAACTTTAAAAATTTT
* *
8755599 ATCTTGAAAAAGCTCCTCTAAGTAGAGGTTCAACAACTTTAAAAATTTCATCTT
1 ATCTTGAAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATTTCATCTT
8755653 TTCTCGAAAT
Statistics
Matches: 132, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
96 51 0.39
97 4 0.03
98 70 0.53
99 7 0.05
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (99 bp):
ATCTTGAAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAGAAGCTC
CTCTAAGTAGAGACTCAACAACTTTAAAAATTTT
Found at i:8757430 original size:16 final size:16
Alignment explanation
Indices: 8757409--8757464 Score: 112
Period size: 16 Copynumber: 3.5 Consensus size: 16
8757399 AAAAAGCATA
8757409 GATCTTGTTAGATATG
1 GATCTTGTTAGATATG
8757425 GATCTTGTTAGATATG
1 GATCTTGTTAGATATG
8757441 GATCTTGTTAGATATG
1 GATCTTGTTAGATATG
8757457 GATCTTGT
1 GATCTTGT
8757465 CAGCATAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.45
Consensus pattern (16 bp):
GATCTTGTTAGATATG
Found at i:8769150 original size:15 final size:13
Alignment explanation
Indices: 8769122--8769184 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 13
8769112 TAAACCGATC
*
8769122 AGAACAAAACAAAA
1 AGAA-AAAAGAAAA
8769136 AGAAGAAAAGGAAAA
1 AGAA-AAAA-GAAAA
8769151 AGAAAGAAAGAAAGA
1 AGAAA-AAAGAAA-A
8769166 AGAAAAATAGAAAA
1 AGAAAAA-AGAAAA
8769180 AGAAA
1 AGAAA
8769185 GAAAAAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 21 0.49
15 22 0.51
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.02
Consensus pattern (13 bp):
AGAAAAAAGAAAA
Found at i:8769179 original size:29 final size:27
Alignment explanation
Indices: 8769134--8769188 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 27
8769124 AACAAAACAA
*
8769134 AAAGAAGAAAAGGAAAAAGAAAGAAAG
1 AAAGAAGAAAAAGAAAAAGAAAGAAAG
8769161 AAAGAAGAAAAATAGAAAAAGAAAGAAA
1 AAAGAAG-AAAA-AGAAAAAGAAAGAAA
8769189 AAAATATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 7 0.28
28 4 0.16
29 14 0.56
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (27 bp):
AAAGAAGAAAAAGAAAAAGAAAGAAAG
Found at i:8770642 original size:2 final size:2
Alignment explanation
Indices: 8770635--8770666 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8770625 ACTTTACAAT
8770635 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8770667 AATAGCATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8777492 original size:76 final size:77
Alignment explanation
Indices: 8777363--8777522 Score: 268
Period size: 76 Copynumber: 2.1 Consensus size: 77
8777353 TTTCTTTTTG
* *
8777363 AATTTCTAAAATTTTTCACAATTTGGACCTAGTTAGAAATTCTTTTTAGTTTTTCTTTG-GAAAA
1 AATTACTAAAATTTTTCACAATTTGGACCTAGTTAGAAATTCTTTTTAGTTTTTCTTTGAAAAAA
8777427 AAATAATATAAC
66 AAATAATATAAC
* * *
8777439 AATTACTAAAATTTTTCACAATTTGGACTTAGTTAGAAATTCTTTTTATTTTTTTTTTGAAAAAA
1 AATTACTAAAATTTTTCACAATTTGGACCTAGTTAGAAATTCTTTTTAGTTTTTCTTTGAAAAAA
8777504 AAATAATATAAC
66 AAATAATATAAC
8777516 AATTACT
1 AATTACT
8777523 TTTATTGAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
76 55 0.71
77 23 0.29
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.44
Consensus pattern (77 bp):
AATTACTAAAATTTTTCACAATTTGGACCTAGTTAGAAATTCTTTTTAGTTTTTCTTTGAAAAAA
AAATAATATAAC
Found at i:8778948 original size:3 final size:3
Alignment explanation
Indices: 8778906--8779038 Score: 82
Period size: 3 Copynumber: 44.7 Consensus size: 3
8778896 AAAAGAAAAG
* *
8778906 ATA A-A ATA A-A ATA A-A ATA ATA A-A AAA ATAA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
* * *
8778948 ATA ATAA ATA A-A AGTAA ATA ATAA ATA ATA A-A CAAA AAA AGA A-A
1 ATA AT-A ATA ATA A-T-A ATA AT-A ATA ATA ATA -ATA ATA ATA ATA
* * * *
8778992 ATA ATA ATA ATG CTA ATA ATA ATA ATA ATA ATA AAA ATA AAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
8779039 GTGGGTCTAT
Statistics
Matches: 105, Mismatches: 12, Indels: 26
0.73 0.08 0.18
Matches are distributed among these distances:
2 13 0.12
3 79 0.75
4 11 0.10
5 2 0.02
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (3 bp):
ATA
Found at i:8778950 original size:27 final size:28
Alignment explanation
Indices: 8778909--8779037 Score: 110
Period size: 27 Copynumber: 4.8 Consensus size: 28
8778899 AGAAAAGATA
8778909 AAATAA-AATAA-AATAATAAAAAAA-T
1 AAATAATAATAATAATAATAAAAAAAGT
*
8778934 AAATAATGATAATAATAATAAATAAAAGT
1 AAATAATAATAATAATAATAAA-AAAAGT
* *
8778963 AAATAAT-A-AATAATAAACAAAAAAAGA
1 AAATAATAATAATAAT-AATAAAAAAAGT
** *
8778990 AAATAATAATAATGCTAATAATAATAA-T
1 AAATAATAATAATAATAATAA-AAAAAGT
* *
8779018 -AATAATAAAAATAAAAATAA
1 AAATAATAATAATAATAATAA
8779038 TGTGGGTCTA
Statistics
Matches: 84, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
25 6 0.07
26 4 0.05
27 43 0.51
28 15 0.18
29 16 0.19
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (28 bp):
AAATAATAATAATAATAATAAAAAAAGT
Found at i:8779365 original size:43 final size:44
Alignment explanation
Indices: 8779221--8779414 Score: 248
Period size: 44 Copynumber: 4.4 Consensus size: 44
8779211 AAAACTTTAT
* * * *
8779221 CAAAGCT-CTCTAATCAGAGGCTCAATGACTTTTGAAAAGACAAA
1 CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGGAAAA-ATAAA
* * *
8779265 CAAAGCTTCTCTAAGCAGAGGCTCAATGACTTTGGACAAATAAA
1 CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGGAAAAATAAA
* *
8779309 CAAAGCTCTTCTAAGCAGAGGCTCAACAACTTT-GAAAAATAAA
1 CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGGAAAAATAAA
* *
8779352 CAAAGCTCCTCTAAGCAGAGGCTTAACGACTTTGGAAAGATAAA
1 CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGGAAAAATAAA
* *
8779396 CAAAACTACTCTAAGCAGA
1 CAAAGCTCCTCTAAGCAGA
8779415 ATCACCACAA
Statistics
Matches: 133, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
43 39 0.29
44 66 0.50
45 28 0.21
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.21
Consensus pattern (44 bp):
CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGGAAAAATAAA
Found at i:8779370 original size:87 final size:88
Alignment explanation
Indices: 8779221--8779414 Score: 268
Period size: 87 Copynumber: 2.2 Consensus size: 88
8779211 AAAACTTTAT
* ** *
8779221 CAAAGCTCTCTAATCAGAGGCTCAATGACTTTTGAAAAGACAAACAAAGCTTCTCTAAGCAGAGG
1 CAAAGCTCTCTAAGCAGAGGCTCAACAACTTTTGAAAAGACAAACAAAGCTCCTCTAAGCAGAGG
*
8779286 CTCAATGACTTTGGACAA-ATAAA
66 CTCAACGACTTTGGA-AAGATAAA
*
8779309 CAAAGCTCTTCTAAGCAGAGGCTCAACAAC-TTTGAAAA-ATAAACAAAGCTCCTCTAAGCAGAG
1 CAAAGCTC-TCTAAGCAGAGGCTCAACAACTTTTGAAAAGACAAACAAAGCTCCTCTAAGCAGAG
*
8779372 GCTTAACGACTTTGGAAAGATAAA
65 GCTCAACGACTTTGGAAAGATAAA
*
8779396 CAAAACTACTCTAAGCAGA
1 CAAAGCT-CTCTAAGCAGA
8779415 ATCACCACAA
Statistics
Matches: 95, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
86 2 0.02
87 58 0.61
88 17 0.18
89 18 0.19
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.21
Consensus pattern (88 bp):
CAAAGCTCTCTAAGCAGAGGCTCAACAACTTTTGAAAAGACAAACAAAGCTCCTCTAAGCAGAGG
CTCAACGACTTTGGAAAGATAAA
Found at i:8779430 original size:87 final size:87
Alignment explanation
Indices: 8779250--8779437 Score: 238
Period size: 87 Copynumber: 2.2 Consensus size: 87
8779240 GCTCAATGAC
* * * *
8779250 TTTTGAAAAGACAAACAAAGCTTCTCTAAGCAGAGGCTCAATGACTTTGGACAAATAAACAAAGC
1 TTTTGAAAA-ATAAACAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGGACAAATAAACAAAAC
* *
8779315 TCTTCTAAGCAGAGGCTCAACAA
65 TCTTCTAAGCAGAAGCACAACAA
* *
8779338 CTTTGAAAAATAAACAAAGCTCCTCTAAGCAGAGGCTTAACGACTTTGGA-AAGATAAACAAAAC
1 TTTTGAAAAATAAACAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGGACAA-ATAAACAAAAC
* *
8779402 TAC-TCTAAGCAGAATCACCACAA
65 T-CTTCTAAGCAGAAGCACAACAA
8779425 TTTTG-AAAATAAA
1 TTTTGAAAAATAAA
8779438 TTGCTCCTCT
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
86 10 0.11
87 68 0.78
88 9 0.10
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.22
Consensus pattern (87 bp):
TTTTGAAAAATAAACAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGGACAAATAAACAAAACT
CTTCTAAGCAGAAGCACAACAA
Found at i:8779479 original size:41 final size:42
Alignment explanation
Indices: 8779418--8779563 Score: 192
Period size: 41 Copynumber: 3.5 Consensus size: 42
8779408 AAGCAGAATC
*
8779418 ACCACAA-TTTTGAAAATAAATTGCTCCTCTAAATAGAGGC-
1 ACCACAACTTTTGAAAATAAATTGCTCTTCTAAATAGAGGCA
*
8779458 ACCACAACTTTTGAAAATAAATTGCTCTTCTAAACAGAGGCA
1 ACCACAACTTTTGAAAATAAATTGCTCTTCTAAATAGAGGCA
* * *
8779500 ACCACGACTTTTAAAAAAATAAATTGTTCTTCTAAATAGAGGCA
1 ACCACAACTTTT--GAAAATAAATTGCTCTTCTAAATAGAGGCA
*
8779544 ACCACGAC-TTTGAAAA-AAAT
1 ACCACAACTTTTGAAAATAAAT
8779564 AAATCATGTC
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
40 11 0.12
41 35 0.37
42 11 0.12
43 3 0.03
44 35 0.37
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (42 bp):
ACCACAACTTTTGAAAATAAATTGCTCTTCTAAATAGAGGCA
Found at i:8779531 original size:44 final size:44
Alignment explanation
Indices: 8779430--8779567 Score: 201
Period size: 44 Copynumber: 3.2 Consensus size: 44
8779420 CACAATTTTG
* * *
8779430 AAAATAAATTGCTCCTCTAAATAGAGGC-ACCACAACTTTT--G
1 AAAATAAATTGCTCTTCTAAATAGAGGCAACCACGACTTTTAAA
*
8779471 AAAATAAATTGCTCTTCTAAACAGAGGCAACCACGACTTTTAAA
1 AAAATAAATTGCTCTTCTAAATAGAGGCAACCACGACTTTTAAA
* *
8779515 AAAATAAATTGTTCTTCTAAATAGAGGCAACCACGACTTTGAAA
1 AAAATAAATTGCTCTTCTAAATAGAGGCAACCACGACTTTTAAA
8779559 AAAATAAAT
1 AAAATAAAT
8779568 CATGTCCAAA
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
41 26 0.30
42 11 0.13
44 50 0.57
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (44 bp):
AAAATAAATTGCTCTTCTAAATAGAGGCAACCACGACTTTTAAA
Found at i:8779915 original size:21 final size:21
Alignment explanation
Indices: 8779889--8780190 Score: 185
Period size: 21 Copynumber: 14.1 Consensus size: 21
8779879 TTCACACCTT
8779889 AAAGATTCTCATTTGAAATTC
1 AAAGATTCTCATTTGAAATTC
* *
8779910 AAAGATTTTCATTTGAAATTT
1 AAAGATTCTCATTTGAAATTC
* * * *
8779931 AAATATTCTTATTTAAAATGC
1 AAAGATTCTCATTTGAAATTC
* *
8779952 AAAGATTTTCATTTGAAAACGTTTT
1 AAAGATTCTCATTTG-AAA---TTC
*
8779977 AAAGATTCTCATTT-AAGACTC
1 AAAGATTCTCATTTGAA-ATTC
*
8779998 AAAGATTCTCATTTGAAAACATCTT
1 AAAGATTCTCATTTG--AA-AT-TC
* *
8780023 AAAGATTTTCATTT-AAGACTC
1 AAAGATTCTCATTTGAA-ATTC
8780044 AAAGATTCTCATTTGAAAATGTC
1 AAAGATTCTCATTTG-AAAT-TC
* *
8780067 TTAAAAATTCTCATTT-AAGACTC
1 --AAAGATTCTCATTTGAA-ATTC
8780090 AAAGATTCTCATTTG------
1 AAAGATTCTCATTTGAAATTC
* * * *
8780105 -AGGATTTCTTATTTAAAACTC
1 AAAGA-TTCTCATTTGAAATTC
* * *
8780126 AAATATTCTCATTTGACACTC
1 AAAGATTCTCATTTGAAATTC
*
8780147 AAAGATTTTCATTTGAAATTC
1 AAAGATTCTCATTTGAAATTC
8780168 AAAGATTCTCATTTG-AATTC
1 AAAGATTCTCATTTGAAATTC
8780188 AAA
1 AAA
8780191 TTTTCATCAA
Statistics
Matches: 215, Mismatches: 42, Indels: 49
0.70 0.14 0.16
Matches are distributed among these distances:
14 3 0.01
15 8 0.04
20 8 0.04
21 131 0.61
22 9 0.04
23 10 0.05
24 5 0.02
25 41 0.19
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
AAAGATTCTCATTTGAAATTC
Found at i:8780001 original size:46 final size:46
Alignment explanation
Indices: 8779886--8780105 Score: 281
Period size: 46 Copynumber: 4.9 Consensus size: 46
8779876 GGGTTCACAC
* *
8779886 CTTAAAGATTCTCATTTGAA-ATTCAAAGATTTTCATTTG-AAA--T
1 CTTAAAGATTCTCATTT-AAGACTCAAAGATTCTCATTTGAAAACGT
* * * *
8779929 -TTAAATATTCTTATTTAA-AATGCAAAGATTTTCATTTGAAAACGT
1 CTTAAAGATTCTCATTTAAGACT-CAAAGATTCTCATTTGAAAACGT
* *
8779974 TTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACAT
1 CTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACGT
* *
8780020 CTTAAAGATTTTCATTTAAGACTCAAAGATTCTCATTTGAAAATGT
1 CTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACGT
*
8780066 CTTAAAAATTCTCATTTAAGACTCAAAGATTCTCATTTGA
1 CTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGA
8780106 GGATTTCTTA
Statistics
Matches: 157, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
41 4 0.03
42 30 0.19
43 3 0.02
45 1 0.01
46 117 0.75
47 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (46 bp):
CTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACGT
Done.