Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 34 of 345
Found at i:9740897 original size:19 final size:18
Alignment explanation
Indices: 9740868--9740904 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
9740858 ATATTTACAT
9740868 AATAAATATATAATAATA
1 AATAAATATATAATAATA
9740886 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
9740905 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:9741239 original size:11 final size:11
Alignment explanation
Indices: 9741219--9741261 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
9741209 GTGTTCTCTA
9741219 AAAAATTCCTCC
1 AAAAA-TCCTCC
*
9741231 AAAAATCCTCT
1 AAAAATCCTCC
9741242 AAAAATCCTCTC
1 AAAAATCCTC-C
*
9741254 CAAAATCC
1 AAAAATCC
9741262 CCCCTCATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 15 0.56
12 12 0.44
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAATCCTCC
Found at i:9741346 original size:18 final size:18
Alignment explanation
Indices: 9741323--9741395 Score: 78
Period size: 18 Copynumber: 4.0 Consensus size: 18
9741313 ATAACAAGTA
9741323 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
9741341 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
* * *
9741359 ACGGT-TTAGTAGGGT-GTGG
1 -GGGTGAT-GGA-GGTAGTGG
9741378 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
9741396 ATGGTTTAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
17 3 0.07
18 28 0.64
19 10 0.23
20 3 0.07
ACGTcount: A:0.16, C:0.01, G:0.58, T:0.25
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:9741374 original size:29 final size:29
Alignment explanation
Indices: 9741341--9741440 Score: 74
Period size: 37 Copynumber: 3.2 Consensus size: 29
9741331 GAGGTAGTGG
9741341 GGGTGATGGAGGTAGTGGACGGTTTAGTA
1 GGGTGATGGAGGTAGTGGACGGTTTAGTA
*
9741370 GGGTGTGGGGGTGATGGAGGTAGTGGATGGTTTAGTA
1 --------GGGTGATGGAGGTAGTGGACGGTTTAGTA
* * ** *
9741407 AGGTGATGGAGTTAGTGTTCGGTTTAGTG
1 GGGTGATGGAGGTAGTGGACGGTTTAGTA
9741436 GGGTG
1 GGGTG
9741441 TTTAATTTGG
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
29 27 0.49
37 28 0.51
ACGTcount: A:0.17, C:0.02, G:0.50, T:0.31
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGACGGTTTAGTA
Found at i:9741387 original size:37 final size:37
Alignment explanation
Indices: 9741332--9741411 Score: 133
Period size: 37 Copynumber: 2.1 Consensus size: 37
9741322 AGGGTGATGG
9741332 AGGTAGTGGGGGTGATGGAGGTAGTGGACGGTTTAGTA
1 AGGT-GTGGGGGTGATGGAGGTAGTGGACGGTTTAGTA
* *
9741370 GGGTGTGGGGGTGATGGAGGTAGTGGATGGTTTAGTA
1 AGGTGTGGGGGTGATGGAGGTAGTGGACGGTTTAGTA
9741407 AGGTG
1 AGGTG
9741412 ATGGAGTTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 36 0.92
38 3 0.08
ACGTcount: A:0.19, C:0.01, G:0.53, T:0.28
Consensus pattern (37 bp):
AGGTGTGGGGGTGATGGAGGTAGTGGACGGTTTAGTA
Found at i:9743828 original size:39 final size:39
Alignment explanation
Indices: 9743784--9743960 Score: 248
Period size: 39 Copynumber: 4.5 Consensus size: 39
9743774 GTGTGAGATA
* * * *
9743784 TATATCCAGGCTAATTCCCGAAGGCGTTTGTACTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
9743823 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
* **
9743862 TATATCCGGGCTAAGTCCCGAATGCATTCATGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
* *
9743901 TATATCTGGGCTAAGTCCCGAAGGC-TTTGTGCTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
9743939 TATATCCGGGCTTAAAGTCCCG
1 TATATCCGGGC-T-AAGTCCCG
9743961 CATGCTTTGT
Statistics
Matches: 123, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
38 20 0.16
39 95 0.77
40 8 0.07
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
Found at i:9747358 original size:49 final size:49
Alignment explanation
Indices: 9747234--9747358 Score: 144
Period size: 49 Copynumber: 2.6 Consensus size: 49
9747224 ATGAAAGTTG
* * * * *
9747234 AACATGTGACCACATAACTACTGTCAACTGGGCTCTCGAGTTATACTCC
1 AACACGTGACCGCATAACCACTGTCAAATGGGCTCCCGAGTTATACTCC
* ** *
9747283 AACATGTGATTGCATAACCAATGTCAAATGGGCTCCCGAGTTATACTCC
1 AACACGTGACCGCATAACCACTGTCAAATGGGCTCCCGAGTTATACTCC
*
9747332 AATC-CGTGACCGCATAACCACCGTCAA
1 AA-CACGTGACCGCATAACCACTGTCAA
9747359 CTAGAAGCCC
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
49 62 0.98
50 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (49 bp):
AACACGTGACCGCATAACCACTGTCAAATGGGCTCCCGAGTTATACTCC
Found at i:9763469 original size:9 final size:8
Alignment explanation
Indices: 9763444--9763468 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9763434 ATGTATGTAT
9763444 ATAAAAAA
1 ATAAAAAA
9763452 ATAAAAAA
1 ATAAAAAA
9763460 ATAAAAAA
1 ATAAAAAA
9763468 A
1 A
9763469 AATGAATGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
ATAAAAAA
Found at i:9763873 original size:18 final size:20
Alignment explanation
Indices: 9763840--9763880 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
9763830 CTGTTTCAAC
*
9763840 TTTTTATTATTTAAAT-CAT
1 TTTTTATTATTAAAATACAT
9763859 TTTTTATT-TTAAAATACAT
1 TTTTTATTATTAAAATACAT
9763878 TTT
1 TTT
9763881 AACCTTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTATTATTAAAATACAT
Found at i:9764444 original size:18 final size:18
Alignment explanation
Indices: 9764423--9764460 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
9764413 TAGCAACTCC
9764423 TTTGCTTGCTGAAATTTG
1 TTTGCTTGCTGAAATTTG
9764441 TTTGCTTGCTGAAATTTG
1 TTTGCTTGCTGAAATTTG
9764459 TT
1 TT
9764461 CATGCCTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.11, G:0.21, T:0.53
Consensus pattern (18 bp):
TTTGCTTGCTGAAATTTG
Found at i:9768904 original size:20 final size:19
Alignment explanation
Indices: 9768860--9768905 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
9768850 TTCATGATTC
9768860 AAGGTTTGGGTTCGAGTTT
1 AAGGTTTGGGTTCGAGTTT
** *
9768879 TGGGTTTAGGGTTTGAGTTT
1 AAGGTTT-GGGTTCGAGTTT
9768899 AAGGTTT
1 AAGGTTT
9768906 TGAGTTCGGG
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.15, C:0.02, G:0.37, T:0.46
Consensus pattern (19 bp):
AAGGTTTGGGTTCGAGTTT
Found at i:9769067 original size:25 final size:25
Alignment explanation
Indices: 9769033--9769083 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
9769023 CTATCTGGGA
9769033 AAGGATTGTATGAAATAGTGTCGCC
1 AAGGATTGTATGAAATAGTGTCGCC
9769058 AAGGATTGTATGAAATAGTGTCGCC
1 AAGGATTGTATGAAATAGTGTCGCC
9769083 A
1 A
9769084 CATCATCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (25 bp):
AAGGATTGTATGAAATAGTGTCGCC
Found at i:9770532 original size:349 final size:353
Alignment explanation
Indices: 9769876--9770566 Score: 1097
Period size: 349 Copynumber: 2.0 Consensus size: 353
9769866 TTGGTTATAT
* ** *
9769876 TTATTTTATTTTATTTTTTTAAAATTTTTCTCTCTCTTCCCAAAAATCTAACGTCAGTTTCTACC
1 TTATTTTATTTTATTTTTTAAAAAAATTTCTCTCTCTTCCCAAAAATCTAACATCAGTTTCTACC
*
9769941 TTTCCTCTATTTTTTTCTGTCGTTTTCATCTTTTTATCTCTCATCTCCTCTACTTTTTTCTTCTC
66 TTTCCTCTATTTTTTTCTGTCGTTTTCATC-TTTTATCTCTCATCTCCTCTACTTCTTTCTTCTC
* *
9770006 TCTCTTTTCGTTCCCCTTCAAGTCTGTTCACACTTTTTCTGTTCTTCGCGTTGCACTTCGGATTT
130 TCTCTTTTCGTTCCCCTTCAAGTATGTTCACACTTTTTCTGTTCTTCGCGTTGCACTTCAGATTT
* *
9770071 TGGTGTTCTTCGTGTGATTTGGGTAAGAGTGGTTACTTTTGTCTTTAGGTAACGGTTTCGATAAG
195 TGGTGTTCTTCGTGTGATTTGGGTAAGAGTGGTTACTTTTGTCTTTAGGTAACAGTTTCCATAAG
** *
9770136 CTGATTTGATTCATTTTCGTTGTTGTGGCATAATGGTGTTATAGGGAATTTGATTTCTATGAACT
260 CTGATTTGATTCATTTTCGTTGTAATGGCATAATGGTGTTATAGGGAATTTGATTTCTACGAACT
9770201 TGTTGTATAGGAGAAGGTTGCGAAATTGG
325 TGTTGTATAGGAGAAGGTTGCGAAATTGG
* *
9770230 TTATATTTATTTTATTTTTTAAAAAAATTTCTCTCTCTTTCCAAAAATCTAACATCAGTTTCTGC
1 TTAT-TTTATTTTATTTTTTAAAAAAATTTCTCTCTCTTCCCAAAAATCTAACATCAGTTTCTAC
*
9770295 CTTTCCTCTA-TTTTTT-TGTCGTTTTCATC-TTT-T-TGTC-TCTCCTCTACTTCTTTCTTCTC
65 CTTTCCTCTATTTTTTTCTGTCGTTTTCATCTTTTATCTCTCATCTCCTCTACTTCTTTCTTCTC
* * *
9770354 TCTTTTTTTCGTTTCCCTTCAAGTATGTTTACACTTTTTCTGTTCTTCGCGTTGCACTTCAGATT
130 TC-TCTTTTCGTTCCCCTTCAAGTATGTTCACACTTTTTCTGTTCTTCGCGTTGCACTTCAGATT
* *
9770419 TTGGTGTTCTTCGTGTGATTTGGGTAGGAGTGGTTACTTTTGTCTTTAGGTAACAGTTTCCCTAA
194 TTGGTGTTCTTCGTGTGATTTGGGTAAGAGTGGTTACTTTTGTCTTTAGGTAACAGTTTCCATAA
** * *
9770484 GCTGATTTGATTCATTTTTTTTGTAATGGCATAATGGTGTTGTAGGGAATTTGATTTCTGCGAAC
259 GCTGATTTGATTCATTTTCGTTGTAATGGCATAATGGTGTTATAGGGAATTTGATTTCTACGAAC
9770549 TTGTTGTATAGGAGAAGG
324 TTGTTGTATAGGAGAAGG
9770567 CTGGGAATAG
Statistics
Matches: 311, Mismatches: 24, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
348 23 0.07
349 197 0.63
350 1 0.00
351 3 0.01
353 13 0.04
354 10 0.03
355 64 0.21
ACGTcount: A:0.17, C:0.17, G:0.16, T:0.49
Consensus pattern (353 bp):
TTATTTTATTTTATTTTTTAAAAAAATTTCTCTCTCTTCCCAAAAATCTAACATCAGTTTCTACC
TTTCCTCTATTTTTTTCTGTCGTTTTCATCTTTTATCTCTCATCTCCTCTACTTCTTTCTTCTCT
CTCTTTTCGTTCCCCTTCAAGTATGTTCACACTTTTTCTGTTCTTCGCGTTGCACTTCAGATTTT
GGTGTTCTTCGTGTGATTTGGGTAAGAGTGGTTACTTTTGTCTTTAGGTAACAGTTTCCATAAGC
TGATTTGATTCATTTTCGTTGTAATGGCATAATGGTGTTATAGGGAATTTGATTTCTACGAACTT
GTTGTATAGGAGAAGGTTGCGAAATTGG
Found at i:9770963 original size:17 final size:18
Alignment explanation
Indices: 9770941--9770979 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9770931 TCTGGGTATA
* *
9770941 TGGGCC-ACACGGGCGTG
1 TGGGCCAACACAGGCATG
9770958 TGGGCCAACACAGGCATG
1 TGGGCCAACACAGGCATG
9770976 TGGG
1 TGGG
9770980 TTAAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.18, C:0.26, G:0.44, T:0.13
Consensus pattern (18 bp):
TGGGCCAACACAGGCATG
Found at i:9781510 original size:30 final size:30
Alignment explanation
Indices: 9781475--9781532 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
9781465 TAAACACTTC
9781475 CACACGGGT-GATCCACACGCTC-GTGTGTGA
1 CACACGGGTAGA-CCACACGC-CAGTGTGTGA
9781505 CACACGGGTAGACCACACGCCAGTGTGT
1 CACACGGGTAGACCACACGCCAGTGTGT
9781533 TATGGCCGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 1 0.04
30 23 0.88
31 2 0.08
ACGTcount: A:0.22, C:0.31, G:0.29, T:0.17
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCAGTGTGTGA
Found at i:9786896 original size:30 final size:30
Alignment explanation
Indices: 9786860--9786922 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
9786850 ACTTATTTTA
9786860 TTGTTAAATTTGTTATTATTTTAAAGGCAT
1 TTGTTAAATTTGTTATTATTTTAAAGGCAT
*
9786890 TTGTTAAATTTGTTATTATTTTAGAGGCAT
1 TTGTTAAATTTGTTATTATTTTAAAGGCAT
9786920 TTG
1 TTG
9786923 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.16, T:0.54
Consensus pattern (30 bp):
TTGTTAAATTTGTTATTATTTTAAAGGCAT
Found at i:9789140 original size:28 final size:29
Alignment explanation
Indices: 9789100--9789160 Score: 115
Period size: 28 Copynumber: 2.1 Consensus size: 29
9789090 AAGAAACTTA
9789100 AAGTATGAAAGGGAATACTAATGAAAACC
1 AAGTATGAAAGGGAATACTAATGAAAACC
9789129 AAGT-TGAAAGGGAATACTAATGAAAACC
1 AAGTATGAAAGGGAATACTAATGAAAACC
9789157 AAGT
1 AAGT
9789161 CAATTCAGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 28 0.88
29 4 0.12
ACGTcount: A:0.51, C:0.10, G:0.21, T:0.18
Consensus pattern (29 bp):
AAGTATGAAAGGGAATACTAATGAAAACC
Found at i:9794651 original size:13 final size:13
Alignment explanation
Indices: 9794633--9794657 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9794623 CGAAGACAGT
9794633 CACGGCCGTGTGA
1 CACGGCCGTGTGA
9794646 CACGGCCGTGTG
1 CACGGCCGTGTG
9794658 CACCCACACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.32, G:0.40, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTGA
Found at i:9798031 original size:47 final size:46
Alignment explanation
Indices: 9797949--9798039 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 46
9797939 TATTATTATT
* *
9797949 ATTATTATTAGTATATGTTTTATTATGTATGTATATATTTATGTAGC
1 ATTATTATTAGTATATGTTTTATTATCTATATATATA-TTATGTAGC
*
9797996 ATTATTATTAGTCAT-TTTTTTATT-TCTAATATATATATTATGTA
1 ATTATTATTAGT-ATATGTTTTATTATCT-ATATATATATTATGTA
9798040 AATATTTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
46 9 0.23
47 28 0.72
48 2 0.05
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (46 bp):
ATTATTATTAGTATATGTTTTATTATCTATATATATATTATGTAGC
Found at i:9798074 original size:23 final size:24
Alignment explanation
Indices: 9798016--9798150 Score: 84
Period size: 23 Copynumber: 5.8 Consensus size: 24
9798006 GTCATTTTTT
* *
9798016 TATTTCTAATATATATATTATGTA
1 TATTTTTAATATATATATTATATA
* *
9798040 AATATTTAATAT-TATATTATATA
1 TATTTTTAATATATATATTATATA
* *
9798063 TATTTTTCATATATGTCATGTATAT-
1 TATTTTTAATATATAT-AT-TATATA
* *
9798088 TGTTTTTAATAT-TATATTTTTATA
1 TATTTTTAATATATATA-TTATATA
* * *
9798112 TATTATT-ATGTATATATTTTA-A
1 TATTTTTAATATATATATTATATA
* *
9798134 TATTATTAGT-TATATAT
1 TATTTTTAATATATATAT
9798151 CTTTTATATT
Statistics
Matches: 88, Mismatches: 16, Indels: 16
0.73 0.13 0.13
Matches are distributed among these distances:
22 15 0.17
23 33 0.38
24 23 0.26
25 12 0.14
26 5 0.06
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (24 bp):
TATTTTTAATATATATATTATATA
Found at i:9798123 original size:39 final size:37
Alignment explanation
Indices: 9798061--9798139 Score: 97
Period size: 39 Copynumber: 2.1 Consensus size: 37
9798051 TTATATTATA
* *
9798061 TATATTTTTCATATATGTCATGTATATTGTTTTTAATAT
1 TATATTTTTCATATATATCATGTATA-T-ATTTTAATAT
*
9798100 TATATTTTT-ATATATTATTATGTATATATTTTAATAT
1 TATATTTTTCATATA-TATCATGTATATATTTTAATAT
9798137 TAT
1 TAT
9798140 TAGTTATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 12 0.33
38 6 0.17
39 18 0.50
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.61
Consensus pattern (37 bp):
TATATTTTTCATATATATCATGTATATATTTTAATAT
Found at i:9798295 original size:9 final size:9
Alignment explanation
Indices: 9798276--9798317 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
9798266 TCATTTCTAA
9798276 ATATA-TGT
1 ATATATTGT
9798284 ATATATTGT
1 ATATATTGT
*
9798293 ATATATTTT
1 ATATATTGT
9798302 ATATATAT-T
1 ATATAT-TGT
9798311 ATATATT
1 ATATATT
9798318 TTTAATGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 6 0.19
9 24 0.77
10 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (9 bp):
ATATATTGT
Found at i:9798306 original size:18 final size:18
Alignment explanation
Indices: 9798283--9798319 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9798273 TAAATATATG
9798283 TATATAT-TGTATATATTT
1 TATATATAT-TATATATTT
9798301 TATATATATTATATATTT
1 TATATATATTATATATTT
9798319 T
1 T
9798320 TAATGTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TATATATATTATATATTT
Found at i:9798675 original size:19 final size:19
Alignment explanation
Indices: 9798651--9798713 Score: 83
Period size: 19 Copynumber: 3.2 Consensus size: 19
9798641 ACATACATCT
9798651 TATTATTATTATTATTATA
1 TATTATTATTATTATTATA
9798670 TATTATTATTATTATTAGTA
1 TATTATTATTATTATTA-TA
9798690 TATGT-TTATTATATATGTATA
1 TAT-TATTATTAT-TAT-TATA
9798711 TAT
1 TAT
9798714 CTTTAATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
19 17 0.43
20 12 0.30
21 9 0.22
22 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TATTATTATTATTATTATA
Found at i:9798678 original size:22 final size:23
Alignment explanation
Indices: 9798650--9798701 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
9798640 TACATACATC
*
9798650 TTATTATTATTATTATTATAT-A
1 TTATTATTATTATTAGTATATGA
*
9798672 TTATTATTATTATTAGTATATGT
1 TTATTATTATTATTAGTATATGA
9798695 TTATTAT
1 TTATTAT
9798702 ATATGTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (23 bp):
TTATTATTATTATTAGTATATGA
Found at i:9798701 original size:3 final size:3
Alignment explanation
Indices: 9798650--9798686 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
9798640 TACATACATC
9798650 TTA TTA TTA TTA TTA TTA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
9798687 GTATATGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:9798733 original size:21 final size:21
Alignment explanation
Indices: 9798687--9798739 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
9798677 ATTATTATTA
* *
9798687 GTATATGTTTATTATATATGT
1 GTATATGTTTAATATATATAT
* *
9798708 ATATATCTTTAATATATATAT
1 GTATATGTTTAATATATATAT
9798729 GTATATGTTTA
1 GTATATGTTTA
9798740 TGCAGTATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (21 bp):
GTATATGTTTAATATATATAT
Found at i:9798835 original size:25 final size:25
Alignment explanation
Indices: 9798807--9798875 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
9798797 ATATTTAATA
9798807 ACTATATTATGTATTTATTTTTAAC
1 ACTATATTATGTATTTATTTTTAAC
* * * *
9798832 ACTATTTTATGTATATACTTTTAAT
1 ACTATATTATGTATTTATTTTTAAC
9798857 A-T-TATTATGTATTTATTTT
1 ACTATATTATGTATTTATTTT
9798876 AATATATATG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
23 14 0.38
24 1 0.03
25 22 0.59
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.59
Consensus pattern (25 bp):
ACTATATTATGTATTTATTTTTAAC
Found at i:9798893 original size:20 final size:22
Alignment explanation
Indices: 9798657--9798894 Score: 80
Period size: 20 Copynumber: 10.9 Consensus size: 22
9798647 ATCTTATTAT
*
9798657 TATTATTAT-TATATATTATTAT
1 TATTATTATGTATATATT-TTAA
* *
9798679 TATTATTA-GTATAT-GTTTAT
1 TATTATTATGTATATATTTTAA
9798699 TA-TA-TATGTATATATCTTTAA
1 TATTATTATGTATATAT-TTTAA
* *
9798720 TA-TATATATGTATATGTTTATGCAG
1 TATTAT-TATGTATATATTT-T--AA
* **
9798745 TATTATTA-ATA-AT-TGTTTTG
1 TATTATTATGTATATAT-TTTAA
**
9798765 TAACATTAT-TAT-TATTTCTAA
1 TATTATTATGTATATATTT-TAA
9798786 TATGTA-TA--TATATA-TTTAA
1 TAT-TATTATGTATATATTTTAA
*
9798805 TAACTATATTATGTATTTATTTTTAACA
1 T-A-T-TATTATGTATATA-TTTT-A-A
9798833 CTATT-TTATGTATATACTTTTAA
1 -TATTATTATGTATATA-TTTTAA
*
9798856 TATTATTATGTATTTATTTTAA
1 TATTATTATGTATATATTTTAA
*
9798878 TA-TA-TATGTACATATTT
1 TATTATTATGTATATATTT
9798895 ATGTAGTATT
Statistics
Matches: 168, Mismatches: 20, Indels: 58
0.68 0.08 0.24
Matches are distributed among these distances:
18 2 0.01
19 12 0.07
20 35 0.21
21 22 0.13
22 32 0.19
23 26 0.15
24 8 0.05
25 19 0.11
26 7 0.04
27 2 0.01
28 2 0.01
29 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (22 bp):
TATTATTATGTATATATTTTAA
Found at i:9798893 original size:24 final size:22
Alignment explanation
Indices: 9798850--9798912 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
9798840 ATGTATATAC
**
9798850 TTTTAATATTATTATGTATTTA
1 TTTTAATATTATTACATATTTA
9798872 TTTTAATATATATGTACATATTTA
1 TTTTAATAT-TAT-TACATATTTA
* *
9798896 -TGTAGTATTATTA-ATAT
1 TTTTAATATTATTACATAT
9798913 ATATATATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 4 0.11
21 2 0.06
22 12 0.34
23 9 0.26
24 8 0.23
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (22 bp):
TTTTAATATTATTACATATTTA
Found at i:9802843 original size:22 final size:22
Alignment explanation
Indices: 9802818--9802862 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
9802808 ATTCATGACT
9802818 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
*
9802840 AACATTCATTTGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
9802862 A
1 A
9802863 TTGAATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.47
Consensus pattern (22 bp):
AACATTCATTCGTCATTTATTC
Found at i:9802874 original size:34 final size:34
Alignment explanation
Indices: 9802834--9802898 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
9802824 CATTCGTCAT
9802834 TTATTCAACATTCATTTGTCATTTATTCATTGAA
1 TTATTCAACATTCATTTGTCATTTATTCATTGAA
9802868 TTATTCAACATTCATTTGTCATTTATTCATT
1 TTATTCAACATTCATTTGTCATTTATTCATT
9802899 CATCCATTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.52
Consensus pattern (34 bp):
TTATTCAACATTCATTTGTCATTTATTCATTGAA
Found at i:9811418 original size:14 final size:15
Alignment explanation
Indices: 9811383--9811415 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9811373 CGTTGAGGTA
*
9811383 TTTTCAATTTCTGTT
1 TTTTCAATTTATGTT
9811398 TTTTCAATTTATGTT
1 TTTTCAATTTATGTT
9811413 TTT
1 TTT
9811416 CAAAAATCAA
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:0.15, C:0.09, G:0.06, T:0.70
Consensus pattern (15 bp):
TTTTCAATTTATGTT
Found at i:9811489 original size:88 final size:88
Alignment explanation
Indices: 9811236--9811625 Score: 397
Period size: 88 Copynumber: 4.4 Consensus size: 88
9811226 TATCTGATTG
*
9811236 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG-CTGAGGTATTTTC-AA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGTCTGAGGTATTTTCAAA
* * *
9811299 TTCTGCTTTTCAATTTCTACTTTT
66 TTCTGTTTTTCAATTTAT-GTTTT
* * * * *
9811323 TAAAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTAAGCTTCAGGACACGT-TGAGGTATTTT
1 T----CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGTCTGAGGTATTTT
*
9811387 CAATTTCTGTTTTTTCAATTTATGTTTT
62 CAAATTCTG-TTTTTCAATTTATGTTTT
*
9811415 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACATGTC-AAGGTATTTTCA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC--GTCTGAGGTATTTTCA
* *
9811478 AAATCTGTTTTTCAAATTCA-G--TT
64 AATTCTGTTTTTC-AATTTATGTTTT
* *
9811501 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGTACTGAGCTATTTTCA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACGT-CTGAGGTATTTTCA
* * * *
9811565 ATTTCTATTTTT-AATGTCTGTTTT
64 AATTCTGTTTTTCAATTTATGTTTT
* **
9811589 T-AAAGAGTCAACTCATATTGCGAGAAATGAGTTGAGC
1 TCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGC
9811626 TCAAGATTAC
Statistics
Matches: 255, Mismatches: 29, Indels: 37
0.79 0.09 0.12
Matches are distributed among these distances:
85 5 0.02
86 45 0.18
87 32 0.13
88 74 0.29
89 23 0.09
91 54 0.21
92 11 0.04
93 11 0.04
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (88 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGTCTGAGGTATTTTCAAA
TTCTGTTTTTCAATTTATGTTTT
Found at i:9811604 original size:174 final size:174
Alignment explanation
Indices: 9811236--9811625 Score: 438
Period size: 174 Copynumber: 2.2 Consensus size: 174
9811226 TATCTGATTG
* *
9811236 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTAAGGTATTTTCAAAT
* * *
9811301 CTGCTTTTCAATTTCTACTTTTTAAAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTAAGCTT
66 CTGCTTTTCAAATTCTAC-GTTT---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCTT
* * *
9811366 CAGGACACGTTGAGGTATTTTCAATTTCTGTTTTTTCAATTTATGTTTT
127 -AGGACACGTTGAGCTATTTTCAATTTCTGATTTTTCAATGTATGTTTT
*
9811415 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACATG-TCAAGGTATTTTCA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC--GCT-AAGGTATTTTC-
* * *
9811478 AAATCTGTTTTTCAAATTC-A-GTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
62 AAATCTGCTTTTCAAATTCTACGTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAG-CT
* *
9811540 T-GGCTCACGTACTGAGCTATTTTCAATTTCT-ATTTTT-AATGTCTGTTTT
126 TAGG-ACACGT--TGAGCTATTTTCAATTTCTGATTTTTCAATGTATGTTTT
* **
9811589 T-AAAGAGTCAACTCATATTGCGAGAAATGAGTTGAGC
1 TCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGC
9811626 TCAAGATTAC
Statistics
Matches: 185, Mismatches: 17, Indels: 23
0.82 0.08 0.10
Matches are distributed among these distances:
173 5 0.03
174 77 0.42
175 8 0.04
176 18 0.10
178 8 0.04
179 41 0.22
180 12 0.06
181 16 0.09
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (174 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTAAGGTATTTTCAAAT
CTGCTTTTCAAATTCTACGTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCTTAGGA
CACGTTGAGCTATTTTCAATTTCTGATTTTTCAATGTATGTTTT
Found at i:9813582 original size:24 final size:23
Alignment explanation
Indices: 9813468--9813575 Score: 81
Period size: 24 Copynumber: 4.3 Consensus size: 23
9813458 TTCTAATATG
*
9813468 TATATATTATGTAAATATTTTAA
1 TATATATTATGTATATATTTTAA
* *
9813491 TATTATATTATATATATATTTTTCA
1 TA-TATATTATGTATATA-TTTTAA
*
9813516 TATATGTTATGTATATATGTTTTTAA
1 TATATATTATGTATATA---TTTTAA
* * *
9813542 TATTATATTTTTTATATATTATTATG
1 TA-TATATTATGTATATATT-TTA-A
9813568 TATATATT
1 TATATATT
9813576 TTAATATTAT
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
23 2 0.03
24 28 0.41
25 16 0.24
26 10 0.15
27 12 0.18
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (23 bp):
TATATATTATGTATATATTTTAA
Found at i:9813587 original size:41 final size:42
Alignment explanation
Indices: 9813493--9813587 Score: 115
Period size: 41 Copynumber: 2.3 Consensus size: 42
9813483 TATTTTAATA
*
9813493 TTATATTATATATATATTTTTCATATATGTTATGTATATATGT
1 TTATATTAT-TATATATTTTTCATATATATTATGTATATATGT
* *
9813536 TTTTAATATTATAT-TTTTT-ATATATTATTATGTATATAT-T
1 TTATATTATTATATATTTTTCATATA-TATTATGTATATATGT
9813576 TTAATATTATTA
1 TT-ATATTATTA
9813588 GTTATATATC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
40 8 0.18
41 25 0.56
42 5 0.11
43 7 0.16
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (42 bp):
TTATATTATTATATATTTTTCATATATATTATGTATATATGT
Found at i:9813740 original size:9 final size:9
Alignment explanation
Indices: 9813721--9813762 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
9813711 TCATTTCTAA
9813721 ATATA-TGT
1 ATATATTGT
9813729 ATATATTGT
1 ATATATTGT
*
9813738 ATATATTTT
1 ATATATTGT
9813747 ATATATAT-T
1 ATATAT-TGT
9813756 ATATATT
1 ATATATT
9813763 TTTAATGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 6 0.19
9 24 0.77
10 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (9 bp):
ATATATTGT
Found at i:9813751 original size:18 final size:18
Alignment explanation
Indices: 9813728--9813764 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9813718 TAAATATATG
9813728 TATATAT-TGTATATATTT
1 TATATATAT-TATATATTT
9813746 TATATATATTATATATTT
1 TATATATATTATATATTT
9813764 T
1 T
9813765 TAATGTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TATATATATTATATATTT
Found at i:9814095 original size:3 final size:3
Alignment explanation
Indices: 9814087--9814120 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
9814077 TACATACATC
9814087 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9814121 ATATGTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9814152 original size:21 final size:21
Alignment explanation
Indices: 9814118--9814158 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9814108 TTATTATTAT
*
9814118 TATATATGTATATATCTTTAA
1 TATATATATATATATCTTTAA
* *
9814139 TATATATATGTATATGTTTA
1 TATATATATATATATCTTTA
9814159 TGCAGTATTA
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:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (21 bp):
TATATATATATATATCTTTAA
Found at i:9814271 original size:25 final size:25
Alignment explanation
Indices: 9814210--9814295 Score: 88
Period size: 25 Copynumber: 3.5 Consensus size: 25
9814200 AATATGTATA
* *
9814210 TATATATTTTTAATAACTATATTATG
1 TATATATTTTTAA-CACTATTTTATG
*
9814236 TATGTATTTTTAACACTATTTTATG
1 TATATATTTTTAACACTATTTTATG
*
9814261 TATATACTTTT--CA-TATTTTTATG
1 TATATATTTTTAACACTA-TTTTATG
*
9814284 TATTTATTTTTA
1 TATATATTTTTA
9814296 TATATGTACA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
22 2 0.04
23 18 0.35
25 19 0.37
26 12 0.24
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (25 bp):
TATATATTTTTAACACTATTTTATG
Found at i:9814294 original size:23 final size:23
Alignment explanation
Indices: 9814231--9814298 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
9814221 AATAACTATA
*
9814231 TTATGTATGTATTTTTAACACTA-TT
1 TTATGTATATATTTTT--CA-TATTT
*
9814256 TTATGTATATACTTTTCATATTT
1 TTATGTATATATTTTTCATATTT
*
9814279 TTATGTATTTATTTTT-ATAT
1 TTATGTATATATTTTTCATAT
9814299 ATGTACATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
22 6 0.16
23 18 0.47
25 14 0.37
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (23 bp):
TTATGTATATATTTTTCATATTT
Found at i:9814309 original size:22 final size:21
Alignment explanation
Indices: 9814284--9814386 Score: 74
Period size: 24 Copynumber: 4.8 Consensus size: 21
9814274 TATTTTTATG
9814284 TATTTATTTTTATATATGTACA
1 TATTTATTTTTATATATGTA-A
**
9814306 TATTTATTAATAT-TAT-TAA
1 TATTTATTTTTATATATGTAA
9814325 TATTT-TTTTTAT-TATGT-A
1 TATTTATTTTTATATATGTAA
9814343 TATTAGTATTTTATATATATTGT-A
1 TATT--TATTTT-TATATA-TGTAA
9814367 TATGTTCATTTTATATATAT
1 TAT-TT-ATTTT-TATATAT
9814387 TATGTATATA
Statistics
Matches: 68, Mismatches: 4, Indels: 17
0.76 0.04 0.19
Matches are distributed among these distances:
18 13 0.19
19 7 0.10
20 3 0.04
21 7 0.10
22 14 0.21
23 4 0.06
24 19 0.28
25 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (21 bp):
TATTTATTTTTATATATGTAA
Found at i:9814394 original size:13 final size:12
Alignment explanation
Indices: 9814334--9814413 Score: 58
Period size: 13 Copynumber: 6.2 Consensus size: 12
9814324 ATATTTTTTT
9814334 TATTATGTATATTA
1 TATT-TGTATA-TA
9814348 GTATTT-TATATA
1 -TATTTGTATATA
*
9814360 TA-TTGTATATGT
1 TATTTGTATAT-A
9814372 TCATTT-TATATA
1 T-ATTTGTATATA
9814384 TATTATGTATATA
1 TATT-TGTATATA
9814397 TATTTAGTATTATA
1 TATTT-GTA-TATA
9814411 TAT
1 TAT
9814414 ACACTTTTCA
Statistics
Matches: 55, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
10 2 0.04
11 10 0.18
12 6 0.11
13 23 0.42
14 10 0.18
15 4 0.07
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.57
Consensus pattern (12 bp):
TATTTGTATATA
Found at i:9814401 original size:24 final size:24
Alignment explanation
Indices: 9814334--9814401 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
9814324 ATATTTTTTT
9814334 TATTATGTATATTAGTATTTTATATA
1 TATTATGTATA-TA-TATTTTATATA
*
9814360 TA-T-TGTATATGTTCATTTTATATA
1 TATTATGTATAT-AT-ATTTTATATA
9814384 TATTATGTATATATATTT
1 TATTATGTATATATATTT
9814402 AGTATTATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
23 2 0.06
24 22 0.61
25 3 0.08
26 9 0.25
ACGTcount: A:0.32, C:0.01, G:0.07, T:0.59
Consensus pattern (24 bp):
TATTATGTATATATATTTTATATA
Found at i:9814535 original size:21 final size:22
Alignment explanation
Indices: 9814510--9814553 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
9814500 TATATATGTT
9814510 CGCCTCTATTT-ATGTTTAATA
1 CGCCTCTATTTCATGTTTAATA
*
9814531 CGCCTCTATTTCGTGTTTAATA
1 CGCCTCTATTTCATGTTTAATA
9814553 C
1 C
9814554 TATTATTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.45
Consensus pattern (22 bp):
CGCCTCTATTTCATGTTTAATA
Found at i:9822807 original size:28 final size:28
Alignment explanation
Indices: 9822767--9822880 Score: 140
Period size: 28 Copynumber: 4.0 Consensus size: 28
9822757 AACAATTCAC
* *
9822767 TGTCCCCCACTTTAGCTTGTACTTGTAT
1 TGTCCGCCACTTTAGCTTGTACTTGGAT
*
9822795 TGTCCACCACTTT-GACTTGTACTTTGGAT
1 TGTCCGCCACTTTAG-CTTGTAC-TTGGAT
* *
9822824 TGTCCGCCATTTTAGCTTGTACTTGGAC
1 TGTCCGCCACTTTAGCTTGTACTTGGAT
* *
9822852 TGTCCGCCGCTTTAGCTTGCACTTGGAT
1 TGTCCGCCACTTTAGCTTGTACTTGGAT
9822880 T
1 T
9822881 TTTCGTCATT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.01
28 49 0.66
29 23 0.31
30 1 0.01
ACGTcount: A:0.14, C:0.26, G:0.19, T:0.40
Consensus pattern (28 bp):
TGTCCGCCACTTTAGCTTGTACTTGGAT
Found at i:9830646 original size:3 final size:3
Alignment explanation
Indices: 9830634--9830889 Score: 95
Period size: 3 Copynumber: 86.7 Consensus size: 3
9830624 GTTACTTTGC
* * *
9830634 TAT T-T TAT TAT TAA AAT TGAT TAAT T-T TAT T-T TAT TGT TAAT T-T
1 TAT TAT TAT TAT TAT TAT T-AT T-AT TAT TAT TAT TAT TAT T-AT TAT
* * *
9830678 TAT TAT TAT TAC TAT TAT TAT TAT TACT T-T TAT TCT T-T TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * * * * * * *
9830722 CAT TAT TGT TAC TGT T-T CTCT TGT TGT TTT TAT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
9830767 TAG TAT TAT TAT CAT TCCT TAG T-T TAT TAC TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
9830811 TAT TAT TTT CTAC TAC TAT TCT TAT TAA TA- TAC TAT TAC TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
9830856 TAT TAT T-T TCT AATT TAT TAT TAT TA- TAT TAT TA
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA
9830890 CCATTGCTAT
Statistics
Matches: 187, Mismatches: 47, Indels: 38
0.69 0.17 0.14
Matches are distributed among these distances:
2 22 0.12
3 149 0.80
4 16 0.09
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:9830676 original size:17 final size:19
Alignment explanation
Indices: 9830635--9830687 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 19
9830625 TTACTTTGCT
9830635 ATTTTATTATTAAAATTGATTA
1 ATTTTATTATT---ATTGATTA
9830657 ATTTTATT-TTATTG-TTA
1 ATTTTATTATTATTGATTA
9830674 ATTTTATTATTATT
1 ATTTTATTATTATT
9830688 ACTATTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 11 0.37
18 9 0.30
21 2 0.07
22 8 0.27
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (19 bp):
ATTTTATTATTATTGATTA
Found at i:9830981 original size:3 final size:3
Alignment explanation
Indices: 9830973--9831005 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
9830963 ATTTATTTAC
*
9830973 ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9831006 TATTTTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:9831357 original size:18 final size:18
Alignment explanation
Indices: 9831305--9831357 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
9831295 GTTATATATA
9831305 TATATATA-TATTATTTTT
1 TATATATACTATT-TTTTT
*
9831323 TATATTCAAACTATTTTTTT
1 TATA-T-ATACTATTTTTTT
*
9831343 TATATATACTGTTTT
1 TATATATACTATTTT
9831358 CACATATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 12 0.41
19 2 0.07
20 11 0.38
21 4 0.14
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (18 bp):
TATATATACTATTTTTTT
Found at i:9834443 original size:24 final size:21
Alignment explanation
Indices: 9834415--9834503 Score: 81
Period size: 21 Copynumber: 4.1 Consensus size: 21
9834405 ACAAAAAAGA
*
9834415 TTTGTCTAAGTCACTTCATTTCTT
1 TTTGTCCAAGTCACTTC---TCTT
*
9834439 TTTGTCCAAGTTACTTCTCTT
1 TTTGTCCAAGTCACTTCTCTT
**
9834460 TTTGTCCAAGTTGCTTCTCTT
1 TTTGTCCAAGTCACTTCTCTT
* * *
9834481 TTTGTCTAACTCGCTTC-CTT
1 TTTGTCCAAGTCACTTCTCTT
9834501 TTT
1 TTT
9834504 TCTTAGAGTT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
20 6 0.10
21 38 0.64
24 15 0.25
ACGTcount: A:0.12, C:0.24, G:0.10, T:0.54
Consensus pattern (21 bp):
TTTGTCCAAGTCACTTCTCTT
Found at i:9834461 original size:21 final size:21
Alignment explanation
Indices: 9834435--9834486 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
9834425 TCACTTCATT
9834435 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
9834456 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
9834477 TCTTTTTGTC
1 TCTTTTTGTC
9834487 TAACTCGCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.10, C:0.23, G:0.12, T:0.56
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:9837132 original size:34 final size:35
Alignment explanation
Indices: 9837094--9837175 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 35
9837084 GAGCATGTTT
** * *
9837094 TTTGCTACTGAATCAATTTGTTATTAGCATAAT-A
1 TTTGCTACTGAATCAAACTATTATAAGCATAATGA
* *
9837128 TTTGCCATTGAATCAAACTATTATAAGCATAATGA
1 TTTGCTACTGAATCAAACTATTATAAGCATAATGA
9837163 -TTGCTACTAGAAT
1 TTTGCTACT-GAAT
9837176 TTTTTGTTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
34 33 0.87
35 5 0.13
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.39
Consensus pattern (35 bp):
TTTGCTACTGAATCAAACTATTATAAGCATAATGA
Found at i:9837500 original size:21 final size:21
Alignment explanation
Indices: 9837443--9837504 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
9837433 CACCCTTTTT
*
9837443 ATTACCAGTGGTTTATCCAC-
1 ATTACAAGTGGTTTATCCACA
* * **
9837463 A--ACGATTGGTTCGTCCACA
1 ATTACAAGTGGTTTATCCACA
9837482 ATTACAAGTGGTTTATCCACA
1 ATTACAAGTGGTTTATCCACA
9837503 AT
1 AT
9837505 GTTGTGTAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
18 13 0.42
19 1 0.03
20 1 0.03
21 16 0.52
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (21 bp):
ATTACAAGTGGTTTATCCACA
Found at i:9838760 original size:33 final size:34
Alignment explanation
Indices: 9838708--9838771 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
9838698 TTCAGTCAAA
9838708 ATTTTATAATATTATAAATAA-TATATATTTTATT
1 ATTTTATAATATTATAAATAATTATA-ATTTTATT
9838742 ATTTTA-AATAATT-TAAATAATTATAATTTT
1 ATTTTATAAT-ATTATAAATAATTATAATTTT
9838772 TTACACGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
33 15 0.54
34 13 0.46
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (34 bp):
ATTTTATAATATTATAAATAATTATAATTTTATT
Found at i:9840818 original size:32 final size:31
Alignment explanation
Indices: 9840760--9840819 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
9840750 GTAAATACTC
* * * *
9840760 AAAATTTGAGGGATTAAAGTGTAAATATAAA
1 AAAAGTTGAAGGACTAAAGTGCAAATATAAA
9840791 AAAAGTTGAAGGACTAATAGTGCAAATAT
1 AAAAGTTGAAGGACTAA-AGTGCAAATAT
9840820 TTTAAGGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 14 0.58
32 10 0.42
ACGTcount: A:0.50, C:0.03, G:0.20, T:0.27
Consensus pattern (31 bp):
AAAAGTTGAAGGACTAAAGTGCAAATATAAA
Found at i:9848180 original size:10 final size:9
Alignment explanation
Indices: 9848114--9848211 Score: 67
Period size: 9 Copynumber: 10.7 Consensus size: 9
9848104 TGACAAATAG
*
9848114 AAAAAATAT
1 AAAAATTAT
*
9848123 AAATATTA-
1 AAAAATTAT
9848131 AAAAA-TAT
1 AAAAATTAT
*
9848139 TAAAATTGAT
1 AAAAATT-AT
*
9848149 ATAAACTTAT
1 A-AAAATTAT
* *
9848159 TAGAATTAT
1 AAAAATTAT
9848168 AAAAATATAT
1 AAAAAT-TAT
9848178 AAAAACTTAT
1 AAAAA-TTAT
*
9848188 AAATATTAT
1 AAAAATTAT
9848197 AAAAA-TAT
1 AAAAATTAT
9848205 AATAAAT
1 AA-AAAT
9848212 CCAAATAAGT
Statistics
Matches: 68, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
7 2 0.03
8 13 0.19
9 28 0.41
10 19 0.28
11 6 0.09
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:9848189 original size:20 final size:19
Alignment explanation
Indices: 9848164--9848201 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
9848154 CTTATTAGAA
9848164 TTATAAAAATATATAAAAAC
1 TTATAAAAAT-TATAAAAAC
*
9848184 TTATAAATATTATAAAAA
1 TTATAAAAATTATAAAAA
9848202 TATAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
TTATAAAAATTATAAAAAC
Found at i:9848209 original size:20 final size:20
Alignment explanation
Indices: 9848165--9848211 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
9848155 TTATTAGAAT
9848165 TATAA-AAATATATAAAAAC
1 TATAATAAATATATAAAAAC
9848184 T-T-ATAAATATTATAAAAA-
1 TATAATAAATA-TATAAAAAC
9848202 TATAATAAAT
1 TATAATAAAT
9848212 CCAAATAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 1 0.04
18 7 0.29
19 10 0.42
20 6 0.25
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
TATAATAAATATATAAAAAC
Found at i:9848875 original size:21 final size:21
Alignment explanation
Indices: 9848849--9848904 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
9848839 CATTTTAATC
*
9848849 ATTTTAAATAATTTTTATAGA
1 ATTTTAAATAATTTTTATAAA
9848870 ATTTT-AATACATTTTTATAAA
1 ATTTTAAATA-ATTTTTATAAA
*
9848891 ATCTTAAAT-ATTTT
1 ATTTTAAATAATTTT
9848905 AAATATGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 9 0.29
21 19 0.61
22 3 0.10
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (21 bp):
ATTTTAAATAATTTTTATAAA
Found at i:9848938 original size:12 final size:12
Alignment explanation
Indices: 9848921--9848946 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9848911 GCTTTATTAA
9848921 TTTTATCATTTT
1 TTTTATCATTTT
9848933 TTTTATCATTTT
1 TTTTATCATTTT
9848945 TT
1 TT
9848947 AGAATTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTATCATTTT
Found at i:9848944 original size:10 final size:10
Alignment explanation
Indices: 9848921--9849059 Score: 56
Period size: 10 Copynumber: 14.1 Consensus size: 10
9848911 GCTTTATTAA
9848921 TTTTATCATTTT
1 TTTTATCA--TT
9848933 TTTTATCATT
1 TTTTATCATT
**
9848943 TTTTAGAATT
1 TTTTATCATT
* **
9848953 TATTAGAATTT
1 TTTTATCA-TT
9848964 TTTTAT-ATT
1 TTTTATCATT
* *
9848973 TTTTATAAGT
1 TTTTATCATT
* *
9848983 TTATATCAAT
1 TTTTATCATT
*
9848993 TTTCAT-A-T
1 TTTTATCATT
9849001 TTTT-TCATAT
1 TTTTATCAT-T
*
9849011 TTTTATGATT
1 TTTTATCATT
*
9849021 TTTTATGA-T
1 TTTTATCATT
* *
9849030 TGTTAT-AAT
1 TTTTATCATT
*
9849039 TTTTATGATT
1 TTTTATCATT
*
9849049 TTTAATCATT
1 TTTTATCATT
9849059 T
1 T
9849060 ATGAGAAAAA
Statistics
Matches: 101, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
7 1 0.01
8 6 0.06
9 21 0.21
10 56 0.55
11 9 0.09
12 8 0.08
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.65
Consensus pattern (10 bp):
TTTTATCATT
Found at i:9848976 original size:9 final size:10
Alignment explanation
Indices: 9848931--9849051 Score: 60
Period size: 10 Copynumber: 12.5 Consensus size: 10
9848921 TTTTATCATT
*
9848931 TTTTTTATCA
1 TTTTTTATGA
9848941 TTTTTTA-GAA
1 TTTTTTATG-A
*
9848951 TTTATTA-GAA
1 TTTTTTATG-A
9848961 TTTTTTTAT-A
1 -TTTTTTATGA
*
9848971 TTTTTTATAA
1 TTTTTTATGA
* * *
9848981 GTTTATATCA
1 TTTTTTATGA
* *
9848991 ATTTTCAT-A
1 TTTTTTATGA
9849000 TTTTTTCAT-A
1 TTTTTT-ATGA
9849010 -TTTTTATGA
1 TTTTTTATGA
9849019 TTTTTTATGA
1 TTTTTTATGA
*
9849029 -TTGTTAT-A
1 TTTTTTATGA
*
9849037 ATTTTTATGA
1 TTTTTTATGA
9849047 TTTTT
1 TTTTT
9849052 AATCATTTAT
Statistics
Matches: 88, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
8 3 0.03
9 31 0.35
10 48 0.55
11 6 0.07
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (10 bp):
TTTTTTATGA
Found at i:9848994 original size:31 final size:31
Alignment explanation
Indices: 9848919--9848995 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
9848909 ATGCTTTATT
*
9848919 AATTT-TATCATTTTTTTTATCATTTTTTAG
1 AATTTATATCAATTTTTTTATCATTTTTTAG
* *
9848949 AATTTAT-TAGAATTTTTTTAT-ATTTTTTAT
1 AATTTATAT-CAATTTTTTTATCATTTTTTAG
9848979 AAGTTTATATCAATTTT
1 AA-TTTATATCAATTTT
9848996 CATATTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 16 0.41
31 22 0.56
32 1 0.03
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (31 bp):
AATTTATATCAATTTTTTTATCATTTTTTAG
Found at i:9849022 original size:18 final size:18
Alignment explanation
Indices: 9848963--9849052 Score: 67
Period size: 18 Copynumber: 4.8 Consensus size: 18
9848953 TATTAGAATT
9848963 TTTTTAT-ATTTTTTATAA
1 TTTTTATGA-TTTTTATAA
* * * *
9848981 GTTTATATCAATTTTCATAT
1 -TTTTTAT-GATTTTTATAA
*
9849001 TTTTTCAT-ATTTTTATGAT
1 TTTTT-ATGATTTTTAT-AA
*
9849020 TTTTTATGATTGTTATAA
1 TTTTTATGATTTTTATAA
9849038 TTTTTATGATTTTTA
1 TTTTTATGATTTTTA
9849053 ATCATTTATG
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
18 24 0.41
19 24 0.41
20 9 0.16
21 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (18 bp):
TTTTTATGATTTTTATAA
Found at i:9849052 original size:9 final size:9
Alignment explanation
Indices: 9849009--9849052 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
9848999 ATTTTTTCAT
9849009 ATTTTTATG
1 ATTTTTATG
9849018 ATTTTTTATG
1 A-TTTTTATG
* *
9849028 ATTGTTATA
1 ATTTTTATG
9849037 ATTTTTATG
1 ATTTTTATG
9849046 ATTTTTA
1 ATTTTTA
9849053 ATCATTTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 21 0.70
10 9 0.30
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (9 bp):
ATTTTTATG
Found at i:9849228 original size:28 final size:29
Alignment explanation
Indices: 9849196--9849264 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
9849186 TTAATCAATG
* * *
9849196 ACAGGG-CTTAATAGGGTACGGATTTTAT
1 ACAGGGACTTAACAGAGTACGAATTTTAT
*
9849224 ACAGGGACTTAACAGAGTTCGAATTTTAT
1 ACAGGGACTTAACAGAGTACGAATTTTAT
* *
9849253 ACAAGAACTTAA
1 ACAGGGACTTAA
9849265 TTGATTTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 6 0.18
29 28 0.82
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (29 bp):
ACAGGGACTTAACAGAGTACGAATTTTAT
Found at i:9857676 original size:12 final size:12
Alignment explanation
Indices: 9857659--9857688 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9857649 AAAGACTTCC
*
9857659 GTTTTCTTCTTT
1 GTTTTCTTCTGT
9857671 GTTTTCTTCTGT
1 GTTTTCTTCTGT
9857683 GTTTTC
1 GTTTTC
9857689 AGTTCATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.13, T:0.70
Consensus pattern (12 bp):
GTTTTCTTCTGT
Found at i:9864725 original size:6 final size:6
Alignment explanation
Indices: 9864716--9864740 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9864706 AAGAATAAGA
9864716 ACAAGC ACAAGC ACAAGC ACAAGC A
1 ACAAGC ACAAGC ACAAGC ACAAGC A
9864741 AATGTTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.32, G:0.16, T:0.00
Consensus pattern (6 bp):
ACAAGC
Found at i:9865670 original size:18 final size:18
Alignment explanation
Indices: 9865649--9865689 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
9865639 TAATTATTAC
* *
9865649 TAAAATATAATATAATAA
1 TAAAACATAAAATAATAA
*
9865667 TAAAGCATAAAATAATAA
1 TAAAACATAAAATAATAA
9865685 TAAAA
1 TAAAA
9865690 GAAACAAAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (18 bp):
TAAAACATAAAATAATAA
Found at i:9870159 original size:22 final size:22
Alignment explanation
Indices: 9870130--9870186 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
9870120 TAGCACGTTA
9870130 AGTGCTCTCTGTTTAGCACATCT
1 AGTGCTCTCTGTTTAGCA-ATCT
* * *
9870153 -GTGCTCTCTGTATAGCATTTT
1 AGTGCTCTCTGTTTAGCAATCT
9870174 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
9870187 CGTTTGTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCAATCT
Found at i:9873326 original size:13 final size:13
Alignment explanation
Indices: 9873308--9873333 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9873298 GGGTCGTCAC
9873308 ATTCTTATGTTAA
1 ATTCTTATGTTAA
9873321 ATTCTTATGTTAA
1 ATTCTTATGTTAA
9873334 TACAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
ATTCTTATGTTAA
Found at i:9876977 original size:18 final size:18
Alignment explanation
Indices: 9876956--9876996 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
9876946 TAATTATTAC
* *
9876956 TAAAATATAATATAATAA
1 TAAAACATAAAATAATAA
*
9876974 TAAAGCATAAAATAATAA
1 TAAAACATAAAATAATAA
9876992 TAAAA
1 TAAAA
9876997 GAAACAAAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (18 bp):
TAAAACATAAAATAATAA
Found at i:9879550 original size:16 final size:16
Alignment explanation
Indices: 9879529--9879562 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
9879519 ACCTGTGTTA
9879529 TTGTGTGAACTCATGT
1 TTGTGTGAACTCATGT
9879545 TTGTGTGAACTCATGT
1 TTGTGTGAACTCATGT
9879561 TT
1 TT
9879563 TACGTTGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.47
Consensus pattern (16 bp):
TTGTGTGAACTCATGT
Found at i:9881679 original size:46 final size:46
Alignment explanation
Indices: 9881535--9881784 Score: 380
Period size: 46 Copynumber: 5.5 Consensus size: 46
9881525 TATTCATTTA
*
9881535 TATCTTTCAACCATGGTCTTATTTATTTCCTATCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTATCATGTTGCCATGG
* *
9881581 TATCTTTCAGCCATGGTCTT-TTCACTTCCTATCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTATCATGTTGCCATGG
* *
9881626 TATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGCTT-CCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTATCATG-TTGCCATGG
*
9881672 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTATCATGTTGCCATGG
* *
9881718 TATCTTTCAACCATGGTCTTATTCATTT-CTCATCATATTGCCATAG
1 TATCTTTCAACCATGGTCTTATTCATTTCCT-ATCATGTTGCCATGG
*
9881764 TATCTTTCAACTATGGTCTTA
1 TATCTTTCAACCATGGTCTTA
9881785 CATATCTGAA
Statistics
Matches: 188, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
45 46 0.24
46 140 0.74
47 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.13, T:0.44
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTATTCATTTCCTATCATGTTGCCATGG
Found at i:9881825 original size:137 final size:136
Alignment explanation
Indices: 9881536--9881817 Score: 363
Period size: 137 Copynumber: 2.1 Consensus size: 136
9881526 ATTCATTTAT
* *
9881536 ATCTTTCAACCATGGTCTTATTTATTTCCTATCATGTTGCCATGGTATCTTTCAGCCATGGTCTT
1 ATCTTTCAACCATGGTCTTATTCATTTCCTATCATGTTGCCATGGTATCTTTCAACCATGGTCTT
* * * * *
9881601 TTCACTTCCTATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGCTT
66 TTCACTTCCTATCATATTGCCATAGTATCTTTCAACCATGGTCTTA-TCATTATCTGTCATGATG
***
9881666 CCATGGT
130 CCATAAC
*
9881673 ATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTT
1 ATCTTTCAACCATGGTCTTATTCATTTCCTATCATGTTGCCATGGTATCTTTCAACCATGGTCTT
* * *
9881738 ATTCA-TTTCTCATCATATTGCCATAGTATCTTTCAACTATGGTCTTA-CA-TATCTGAATCGTG
66 -TTCACTTCCT-ATCATATTGCCATAGTATCTTTCAACCATGGTCTTATCATTATCTG--TCATG
9881800 ATGCCATAAC
127 ATGCCATAAC
*
9881810 GTCTTTCA
1 ATCTTTCA
9881818 GCTATGGTTA
Statistics
Matches: 126, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
135 5 0.04
136 2 0.02
137 82 0.65
138 37 0.29
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (136 bp):
ATCTTTCAACCATGGTCTTATTCATTTCCTATCATGTTGCCATGGTATCTTTCAACCATGGTCTT
TTCACTTCCTATCATATTGCCATAGTATCTTTCAACCATGGTCTTATCATTATCTGTCATGATGC
CATAAC
Found at i:9881852 original size:43 final size:44
Alignment explanation
Indices: 9881766--9881877 Score: 138
Period size: 43 Copynumber: 2.5 Consensus size: 44
9881756 TGCCATAGTA
* * **
9881766 TCTTTCAACTATGGTCTTACAT-ATCTGAATCGTGATGCCATAACG
1 TCTTTCAGCTATGG-CTTAC-TCGTCTGAATCACGATGCCATAACG
*
9881811 TCTTTCAGCTATGG-TTACTCGTCTGAATCACGATGCTATAACG
1 TCTTTCAGCTATGGCTTACTCGTCTGAATCACGATGCCATAACG
9881854 TCTTTCAGCTATGGCTTTACTCGT
1 TCTTTCAGCTATGGC-TTACTCGT
9881878 TTCTGGTATG
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.02
43 37 0.63
45 21 0.36
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (44 bp):
TCTTTCAGCTATGGCTTACTCGTCTGAATCACGATGCCATAACG
Found at i:9883650 original size:11 final size:11
Alignment explanation
Indices: 9883634--9883681 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
9883624 CTTTATATAC
9883634 TAATAAAATAA
1 TAATAAAATAA
*
9883645 TAATAAAATATCT
1 TAATAAAATA--A
* *
9883658 TATTAAAATAT
1 TAATAAAATAA
9883669 TAATAAAATAA
1 TAATAAAATAA
9883680 TA
1 TA
9883682 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:9893163 original size:9 final size:9
Alignment explanation
Indices: 9893151--9893260 Score: 60
Period size: 9 Copynumber: 11.4 Consensus size: 9
9893141 ATTTTAAATA
9893151 TTTTTATAT
1 TTTTTATAT
9893160 TTTTGTA-ATT
1 TTTT-TATA-T
*
9893170 TTTTTACGAT
1 TTTTTA-TAT
*
9893180 TTTTATATTT
1 TTTT-TATAT
9893190 TTTTTATAT
1 TTTTTATAT
**
9893199 TTTCTTGCACT
1 TTT-TTATA-T
*
9893210 TTTCTATAT
1 TTTTTATAT
*
9893219 TTTTTACAT
1 TTTTTATAT
*
9893228 TTGTTATGAT
1 TTTTTAT-AT
* *
9893238 TTTCTATAA
1 TTTTTATAT
9893247 TTTTTATGAT
1 TTTTTAT-AT
9893257 TTTT
1 TTTT
9893261 AACAATTTTA
Statistics
Matches: 75, Mismatches: 17, Indels: 17
0.69 0.16 0.16
Matches are distributed among these distances:
9 34 0.45
10 34 0.45
11 7 0.09
ACGTcount: A:0.20, C:0.06, G:0.05, T:0.68
Consensus pattern (9 bp):
TTTTTATAT
Found at i:9893175 original size:19 final size:19
Alignment explanation
Indices: 9893142--9893201 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 19
9893132 ATATATAAAA
*
9893142 TTTTA-AATATTTTTATAT
1 TTTTATAATTTTTTTATAT
* *
9893160 TTTTGTAATTTTTTTACGAT
1 TTTTATAATTTTTTTA-TAT
*
9893180 TTTTATATTTTTTTTATAT
1 TTTTATAATTTTTTTATAT
9893199 TTT
1 TTT
9893202 CTTGCACTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 4 0.12
19 14 0.41
20 16 0.47
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTATAATTTTTTTATAT
Found at i:9893212 original size:20 final size:19
Alignment explanation
Indices: 9893189--9893251 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
9893179 TTTTTATATT
*
9893189 TTTTTTATATTTTCTTGCA
1 TTTTTTATATTTTCTTACA
*
9893208 CTTTTCTATATTTT-TTACA
1 -TTTTTTATATTTTCTTACA
*
9893227 TTTGTTATGATTTTCTATA-A
1 TTTTTTAT-ATTTTCT-TACA
9893247 TTTTT
1 TTTTT
9893252 ATGATTTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 6 0.17
19 9 0.26
20 18 0.51
21 2 0.06
ACGTcount: A:0.19, C:0.10, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTTTATATTTTCTTACA
Found at i:9893224 original size:29 final size:27
Alignment explanation
Indices: 9893150--9893261 Score: 86
Period size: 28 Copynumber: 3.9 Consensus size: 27
9893140 AATTTTAAAT
* *
9893150 ATTTT-TATATTTTTGTAATTTTTTTACG
1 ATTTTCTATATTTTT-T-ATATTTTTATG
9893178 ATTTT-TATATTTTTTTTATATTTTCT-TG
1 ATTTTCTATA--TTTTTTATATTTT-TATG
*
9893206 CACTTTTCTATATTTTTTACATTTGTTATG
1 -A-TTTTCTATATTTTTTATATTT-TTATG
*
9893236 ATTTTCTATAATTTTTATGATTTTTA
1 ATTTTCTATATTTTTTAT-ATTTTTA
9893262 ACAATTTTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 18
0.75 0.05 0.19
Matches are distributed among these distances:
28 34 0.49
29 20 0.29
30 12 0.17
31 4 0.06
ACGTcount: A:0.21, C:0.06, G:0.05, T:0.67
Consensus pattern (27 bp):
ATTTTCTATATTTTTTATATTTTTATG
Found at i:9893267 original size:19 final size:18
Alignment explanation
Indices: 9893219--9893269 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
9893209 TTTTCTATAT
9893219 TTTTTAC-ATTTGTTATGA
1 TTTTTACAATTT-TTATGA
*
9893237 TTTTCTATAATTTTTATGA
1 TTTT-TACAATTTTTATGA
9893256 TTTTTAACAATTTT
1 TTTTT-ACAATTTT
9893270 AAATAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 5 0.18
19 19 0.68
20 4 0.14
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.63
Consensus pattern (18 bp):
TTTTTACAATTTTTATGA
Found at i:9893838 original size:27 final size:27
Alignment explanation
Indices: 9893808--9893881 Score: 98
Period size: 29 Copynumber: 2.7 Consensus size: 27
9893798 ATCGACTCAA
9893808 ATTTTAAATAATTTAAAAAATAAATAT
1 ATTTTAAATAATTTAAAAAATAAATAT
*
9893835 A-TTTATTATATATTATAAAAAATAAATAT
1 ATTTTA-AATA-ATT-TAAAAAATAAATAT
9893864 ATTTTAAATAA-TTAAAAA
1 ATTTTAAATAATTTAAAAA
9893882 TGATATAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
26 10 0.24
27 5 0.12
28 4 0.10
29 18 0.44
30 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
ATTTTAAATAATTTAAAAAATAAATAT
Found at i:9898917 original size:18 final size:18
Alignment explanation
Indices: 9898896--9898969 Score: 87
Period size: 18 Copynumber: 4.1 Consensus size: 18
9898886 AGTCACTCTT
*
9898896 TAACAGTCAGTTATTCAG
1 TAACAGTCAATTATTCAG
*
9898914 TAAC-GATAAATTATTCAG
1 TAACAG-TCAATTATTCAG
9898932 TAACAGTCAATTATTCAG
1 TAACAGTCAATTATTCAG
** *
9898950 TAGTAGTCAATTATCCAG
1 TAACAGTCAATTATTCAG
9898968 TA
1 TA
9898970 CCTTTATTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.02
18 46 0.96
19 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.34
Consensus pattern (18 bp):
TAACAGTCAATTATTCAG
Found at i:9899928 original size:15 final size:17
Alignment explanation
Indices: 9899889--9899935 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
9899879 TAATAACAAT
9899889 AAAATATTTATATTAAA
1 AAAATATTTATATTAAA
**
9899906 AATCTATTTA-A-TAAA
1 AAAATATTTATATTAAA
9899921 AAAATATTTAT-TTAA
1 AAAATATTTATATTAA
9899936 CACTTGTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
15 12 0.50
16 4 0.17
17 8 0.33
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAATATTTATATTAAA
Found at i:9900271 original size:149 final size:148
Alignment explanation
Indices: 9900029--9900301 Score: 318
Period size: 149 Copynumber: 1.8 Consensus size: 148
9900019 TATAAAAATC
* *
9900029 TATTTACTTAAATAAAAAGCAATTAAATAAAATATATTACAATTGTATAAATATATGTATTACAC
1 TATTTACTTAAATAAAAAGCAAATAAATAAAATATATTACAAATGTATAAATATATGTATTACAC
* * * ***
9900094 TTGTAAATTTTATTTACCATACATTTGTCTTTATTTAATTTATTTCATAATAT-AATATCAATTT
66 -TATAAATTTTATTTACCACACACTTGTCACAATTTAATTTATTT-ATAATATAAATATCAATTT
9900158 AATAATAACAATAACATTAA
129 AATAATAACAATAACATTAA
* * * * ** *
9900178 TATTTACTTAAATAATAAGTAAATACAT-ACATATATTACAAATGTATGTATAATATTTATTACA
1 TATTTACTTAAATAAAAAGCAAATAAATAAAATATATTACAAATGTATAAAT-ATATGTATTACA
* * *
9900242 C-ATATATTTTATTTTTATCACACACTTGTCACAATTTAATTTATTTATCATATAAATATC
65 CTATAAATTTTA--TTTACCACACACTTGTCACAATTTAATTTATTTATAATATAAATATC
9900302 CTATAATATA
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
147 8 0.08
148 25 0.25
149 69 0.68
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (148 bp):
TATTTACTTAAATAAAAAGCAAATAAATAAAATATATTACAAATGTATAAATATATGTATTACAC
TATAAATTTTATTTACCACACACTTGTCACAATTTAATTTATTTATAATATAAATATCAATTTAA
TAATAACAATAACATTAA
Found at i:9905373 original size:26 final size:26
Alignment explanation
Indices: 9905342--9905449 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
9905332 TGAAATGCCC
*
9905342 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
9905368 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
9905394 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
9905420 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9905446 ATCA
1 ATCA
9905450 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:9912433 original size:26 final size:26
Alignment explanation
Indices: 9912402--9912509 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
9912392 TGAAATGCCC
9912402 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
9912428 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
9912454 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
9912480 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
9912506 ATCA
1 ATCA
9912510 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 4 0.05
26 69 0.91
27 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:9918127 original size:12 final size:12
Alignment explanation
Indices: 9918108--9918144 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
9918098 TAAAATATAT
9918108 AATGTATAATAA
1 AATGTATAATAA
*
9918120 AATTTATAAATAA
1 AATGTAT-AATAA
9918133 AATGTATAATAA
1 AATGTATAATAA
9918145 TATAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:9918133 original size:13 final size:13
Alignment explanation
Indices: 9918108--9918141 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
9918098 TAAAATATAT
9918108 AATGTAT-AATAA
1 AATGTATAAATAA
*
9918120 AATTTATAAATAA
1 AATGTATAAATAA
9918133 AATGTATAA
1 AATGTATAA
9918142 TAATATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:9918149 original size:33 final size:33
Alignment explanation
Indices: 9918087--9918166 Score: 85
Period size: 32 Copynumber: 2.5 Consensus size: 33
9918077 TGTAGGAAAT
* *
9918087 AATTTATATAGTAAAATATATAATGTATAATAA
1 AATTTATATAATAAAATATATAATATATAATAA
* *
9918120 AATTTATA-AATAAAATGTATAATAATATAA-AT
1 AATTTATATAATAAAATATATAAT-ATATAATAA
*
9918152 AATATA-ATAATAAAA
1 AATTTATATAATAAAA
9918167 ATAATTTGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 1 0.03
32 26 0.65
33 13 0.32
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (33 bp):
AATTTATATAATAAAATATATAATATATAATAA
Found at i:9918153 original size:25 final size:26
Alignment explanation
Indices: 9918101--9918158 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
9918091 TATATAGTAA
* **
9918101 AATATATAATGTATAATAAAATTTAT
1 AATATAAAATGTATAATAAAATAAAT
*
9918127 AA-ATAAAATGTATAATAATATAAAT
1 AATATAAAATGTATAATAAAATAAAT
9918152 AATATAA
1 AATATAA
9918159 TAATAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (26 bp):
AATATAAAATGTATAATAAAATAAAT
Found at i:9918157 original size:17 final size:17
Alignment explanation
Indices: 9918137--9918171 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
9918127 AAATAAAATG
*
9918137 TATAATAATATAAATAA
1 TATAATAATAAAAATAA
9918154 TATAATAATAAAAATAA
1 TATAATAATAAAAATAA
9918171 T
1 T
9918172 TTGATATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TATAATAATAAAAATAA
Found at i:9921353 original size:18 final size:18
Alignment explanation
Indices: 9921330--9921365 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
9921320 TGTGATATTT
9921330 TATTTAATTAG-TAAAATA
1 TATTT-ATTAGATAAAATA
9921348 TATTTATTAGATAAAATA
1 TATTTATTAGATAAAATA
9921366 ATTAAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
TATTTATTAGATAAAATA
Found at i:9923306 original size:48 final size:48
Alignment explanation
Indices: 9923254--9923356 Score: 145
Period size: 48 Copynumber: 2.1 Consensus size: 48
9923244 TCTCTAATGG
*
9923254 TTGACTGTTACTGAATAATAAAGATCAATTGATTGC-TACTGAAAAATA
1 TTGACTGTTACTGAATAATAAAGATAAATTGATT-CATACTGAAAAATA
* ** *
9923302 TTGACTGTTACTGAATGATATTGATAAATTGATTCATATTGAAAAATA
1 TTGACTGTTACTGAATAATAAAGATAAATTGATTCATACTGAAAAATA
9923350 TTGACTG
1 TTGACTG
9923357 ATATTGAGCT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
47 1 0.02
48 48 0.98
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.37
Consensus pattern (48 bp):
TTGACTGTTACTGAATAATAAAGATAAATTGATTCATACTGAAAAATA
Found at i:9924863 original size:139 final size:139
Alignment explanation
Indices: 9924682--9924961 Score: 488
Period size: 139 Copynumber: 2.0 Consensus size: 139
9924672 ATTTACTAAG
*
9924682 TAAAGGATTCCGAAAGGACCTAATGTGATTTCCAAACTCATGAAAGATCGAGTTTCCATGGAATG
1 TAAAGGATTCCGAAAGGACCTAATGTGATTTCCAAACTCATGAAAGATCGAGTTGCCATGGAATG
* *
9924747 TTTTTCCGAATGTTATTAAGCATGTTGATAATAAATTGAGTTTCATTAAAGTAATTGTCCTAGTT
66 TTTTTCCGAATGTTATTAAGCATGTTGATAATAAACTGAGTTTAATTAAAGTAATTGTCCTAGTT
9924812 TATTTACGT
131 TATTTACGT
** * *
9924821 TAAAGGATTTTGAAAGGACCTAATGTGGTTTTCAAACTCATGAAAGATCGAGTTGCCATGGAATG
1 TAAAGGATTCCGAAAGGACCTAATGTGATTTCCAAACTCATGAAAGATCGAGTTGCCATGGAATG
9924886 TTTTTCCGAATGTTATTAAGCATGTTGATAATAAACTGAGTTTAATTAAAGTAATTGTCCTAGTT
66 TTTTTCCGAATGTTATTAAGCATGTTGATAATAAACTGAGTTTAATTAAAGTAATTGTCCTAGTT
*
9924951 TATTTATGT
131 TATTTACGT
9924960 TA
1 TA
9924962 TAATTGTTGC
Statistics
Matches: 133, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
139 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.38
Consensus pattern (139 bp):
TAAAGGATTCCGAAAGGACCTAATGTGATTTCCAAACTCATGAAAGATCGAGTTGCCATGGAATG
TTTTTCCGAATGTTATTAAGCATGTTGATAATAAACTGAGTTTAATTAAAGTAATTGTCCTAGTT
TATTTACGT
Found at i:9928387 original size:14 final size:14
Alignment explanation
Indices: 9928352--9928378 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9928342 TTTCTTGATT
9928352 GAAAATGATTTCTA
1 GAAAATGATTTCTA
9928366 GAAAATGATTTCT
1 GAAAATGATTTCT
9928379 GGAATATGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:9928737 original size:13 final size:13
Alignment explanation
Indices: 9928719--9928750 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9928709 TTCAAACCAC
*
9928719 AATTAATACTACA
1 AATTAACACTACA
9928732 AATTAACACTACA
1 AATTAACACTACA
9928745 AATTAA
1 AATTAA
9928751 ATATATAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAACACTACA
Found at i:9928824 original size:19 final size:19
Alignment explanation
Indices: 9928797--9928833 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9928787 TTCCAAGTGT
*
9928797 ATAACTAGTATTACACCAC
1 ATAACTAGTACTACACCAC
*
9928816 ATAATTAGTACTACACCA
1 ATAACTAGTACTACACCA
9928834 TATTAAAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.24, G:0.05, T:0.27
Consensus pattern (19 bp):
ATAACTAGTACTACACCAC
Found at i:9934181 original size:21 final size:22
Alignment explanation
Indices: 9934137--9934188 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
9934127 TTTCTAATTC
* *
9934137 TGATATGTTTTGCATCTGTATT
1 TGATCTGTTCTGCATCTGTATT
9934159 TGATCTGTTCTGCATCT-TATT
1 TGATCTGTTCTGCATCTGTATT
*
9934180 TGAACTGTT
1 TGATCTGTT
9934189 ATGATAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.52
Consensus pattern (22 bp):
TGATCTGTTCTGCATCTGTATT
Found at i:9941746 original size:16 final size:16
Alignment explanation
Indices: 9941710--9941753 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
9941700 AGTTTATTAT
*
9941710 ATAAAA-ATGATTTTA
1 ATAAAATATTATTTTA
9941725 ATTAAAATATTATTTTA
1 A-TAAAATATTATTTTA
9941742 ATAAAATGATTA
1 ATAAAAT-ATTA
9941754 AATTTCATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 1 0.04
16 11 0.44
17 13 0.52
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (16 bp):
ATAAAATATTATTTTA
Found at i:9941942 original size:32 final size:33
Alignment explanation
Indices: 9941881--9941952 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
9941871 TTATAAATTT
* *
9941881 ATAAATTAATTACTTGAATTTAGTGACTCA-TG
1 ATAAATTAATTAATTGAATTTAGTAACTCATTG
*
9941913 ATAAATTAATTAATTTAATTT-GATAACTCATTG
1 ATAAATTAATTAATTGAATTTAG-TAACTCATTG
*
9941946 ATTAATT
1 ATAAATT
9941953 GAACTTGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.03
32 25 0.74
33 8 0.24
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.44
Consensus pattern (33 bp):
ATAAATTAATTAATTGAATTTAGTAACTCATTG
Found at i:9943497 original size:20 final size:21
Alignment explanation
Indices: 9943456--9943497 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9943446 TCTAATTTTG
*
9943456 TTTCATTTAAAATATAAAATT
1 TTTCATATAAAATATAAAATT
*
9943477 TTTCATATAAAA-ATAATATT
1 TTTCATATAAAATATAAAATT
9943497 T
1 T
9943498 ATTTTCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTCATATAAAATATAAAATT
Found at i:9943663 original size:31 final size:31
Alignment explanation
Indices: 9943628--9943687 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
9943618 AAATAATTTT
* * *
9943628 ACTCTTTTTGAAAAGTTGATGGTAAAATTAG
1 ACTCTTTTTAAAAAATTGAGGGTAAAATTAG
*
9943659 ACTCTTTTTAAAAAATTGAGGGTCAAATT
1 ACTCTTTTTAAAAAATTGAGGGTAAAATT
9943688 TAACTAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (31 bp):
ACTCTTTTTAAAAAATTGAGGGTAAAATTAG
Found at i:9946163 original size:75 final size:75
Alignment explanation
Indices: 9946043--9946194 Score: 304
Period size: 75 Copynumber: 2.0 Consensus size: 75
9946033 GTAGCTTCGA
9946043 TCGTCGAAGCTGATCGGTGGTGGGTGGCCCTGCCGAACTGACGTTTCTGCTTCAGTTGCTTTGCT
1 TCGTCGAAGCTGATCGGTGGTGGGTGGCCCTGCCGAACTGACGTTTCTGCTTCAGTTGCTTTGCT
9946108 GGGTTGGGCT
66 GGGTTGGGCT
9946118 TCGTCGAAGCTGATCGGTGGTGGGTGGCCCTGCCGAACTGACGTTTCTGCTTCAGTTGCTTTGCT
1 TCGTCGAAGCTGATCGGTGGTGGGTGGCCCTGCCGAACTGACGTTTCTGCTTCAGTTGCTTTGCT
9946183 GGGTTGGGCT
66 GGGTTGGGCT
9946193 TC
1 TC
9946195 ATTCGATTAC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.09, C:0.23, G:0.36, T:0.32
Consensus pattern (75 bp):
TCGTCGAAGCTGATCGGTGGTGGGTGGCCCTGCCGAACTGACGTTTCTGCTTCAGTTGCTTTGCT
GGGTTGGGCT
Found at i:9947208 original size:2 final size:2
Alignment explanation
Indices: 9947201--9947232 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9947191 GCTAACATGC
9947201 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9947233 GTTTTCTATT
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):
AT
Found at i:9956603 original size:7 final size:7
Alignment explanation
Indices: 9956587--9956740 Score: 55
Period size: 7 Copynumber: 22.9 Consensus size: 7
9956577 AATAAATGAA
*
9956587 ATAATTT
1 ATAATAT
9956594 ATAATAT
1 ATAATAT
9956601 ATAATAT
1 ATAATAT
9956608 A-AA-AT
1 ATAATAT
*
9956613 ATAAAAT
1 ATAATAT
*
9956620 ATAAGTTT
1 ATAA-TAT
*
9956628 TTAA-A-
1 ATAATAT
*
9956633 ATAATGT
1 ATAATAT
9956640 ATAATAT
1 ATAATAT
*
9956647 A-AATAA
1 ATAATAT
9956653 AT-ATAT
1 ATAATAT
9956659 A-AGATAT
1 ATA-ATAT
9956666 ATAAGT-T
1 ATAA-TAT
9956673 A-AA-AT
1 ATAATAT
9956678 ATAATAT
1 ATAATAT
*
9956685 ATAA-AA
1 ATAATAT
*
9956691 ATAATTT
1 ATAATAT
*
9956698 ACAA-ATT
1 ATAATA-T
* *
9956705 TTGAAAAT
1 AT-AATAT
9956713 ATAAATAAT
1 AT-AAT-AT
9956722 ATAATA-
1 ATAATAT
9956728 ATAATAT
1 ATAATAT
9956735 ATAATA
1 ATAATA
9956741 AATTAAAAAT
Statistics
Matches: 108, Mismatches: 20, Indels: 38
0.65 0.12 0.23
Matches are distributed among these distances:
5 8 0.07
6 28 0.26
7 52 0.48
8 15 0.14
9 5 0.05
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:9956635 original size:46 final size:46
Alignment explanation
Indices: 9956585--9956672 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 46
9956575 ATAATAAATG
*
9956585 AAATAATTTATAATATATAATATAAAATATAA-A-ATATAAGTTTTTA
1 AAATAATGTATAATATA-AATA-AAAATATAAGATATATAAGTTTTTA
*
9956631 AAATAATGTATAATATAAATAAATATATAAGATATATAAGTT
1 AAATAATGTATAATATAAATAAAAATATAAGATATATAAGTT
9956673 AAAATATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
44 8 0.21
45 5 0.13
46 25 0.66
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (46 bp):
AAATAATGTATAATATAAATAAAAATATAAGATATATAAGTTTTTA
Found at i:9957086 original size:18 final size:18
Alignment explanation
Indices: 9957046--9957118 Score: 103
Period size: 18 Copynumber: 4.1 Consensus size: 18
9957036 AATCATATCT
*
9957046 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
*
9957065 TCTAAGATTGCAATCATT
1 TCTAAGATTGCAATCATA
*
9957083 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
9957100 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
9957118 T
1 T
9957119 TTTGTAACGC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.31
18 22 0.46
19 11 0.23
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:9957104 original size:35 final size:36
Alignment explanation
Indices: 9957045--9957116 Score: 128
Period size: 35 Copynumber: 2.0 Consensus size: 36
9957035 AAATCATATC
9957045 TTCTAAGATTGTATATCATATCTAAGATTGCAATCAT
1 TTCTAAGATTG-ATATCATATCTAAGATTGCAATCAT
9957082 TTCTAAGATTG-TATCATATCTAAGATTGCAATCAT
1 TTCTAAGATTGATATCATATCTAAGATTGCAATCAT
9957117 ATTTTGTAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 24 0.69
37 11 0.31
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (36 bp):
TTCTAAGATTGATATCATATCTAAGATTGCAATCAT
Found at i:9957492 original size:26 final size:26
Alignment explanation
Indices: 9957454--9957537 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
9957444 TGATACAAAT
** *
9957454 TGATAATAAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9957480 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9957506 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9957532 TGATAA
1 TGATAA
9957538 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:9960225 original size:14 final size:16
Alignment explanation
Indices: 9960185--9960218 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
9960175 GGGTTTGGGG
*
9960185 TGTACATATTTAAGAT
1 TGTACATATCTAAGAT
9960201 TGTATCATATCTAAGAT
1 TGTA-CATATCTAAGAT
9960218 T
1 T
9960219 ACATATCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (16 bp):
TGTACATATCTAAGAT
Found at i:9960922 original size:164 final size:166
Alignment explanation
Indices: 9960611--9960961 Score: 589
Period size: 164 Copynumber: 2.1 Consensus size: 166
9960601 TTCGATTAGT
* * *
9960611 AAGGATGTCAAATCATCTTGAGTCTATTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTATTTAAGAACATTTGAG-ATCATATCTGCAAGGTCCTCGA
* *
9960676 CTTGTTCCTGGTAAGCACAAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTC
65 CTTGTTCCTGGTAAGCACAAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATATAAGAGTC
*
9960741 ATGTCTGCAAGGTCCTCGATTTGTTCCTTGTAAGCAC
130 ATATCTGCAAGGTCCTCGATTTGTTCCTTGTAAGCAC
* *
9960778 AAGGATGCCAAACCATCTTGAGTCTATTTAAGAACATTTGAG-TCATATCTGCAATGTCCTCGAT
1 AAGGATGCCAAACCATCTTGAGTCTATTTAAGAACATTTGAGATCATATCTGCAAGGTCCTCGAC
*
9960842 TTGTTCCTTGTAAGCACAAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATATAAGAGTCA
66 TTGTTCCTGGTAAGCACAAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATATAAGAGTCA
*
9960906 TATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCAC
131 TATCTGCAAGGTCCTCGATTTGTTCCTTGTAAGCAC
9960942 AAGGATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
9960962 GATCTGCTTC
Statistics
Matches: 174, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
164 90 0.52
165 45 0.26
167 39 0.22
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (166 bp):
AAGGATGCCAAACCATCTTGAGTCTATTTAAGAACATTTGAGATCATATCTGCAAGGTCCTCGAC
TTGTTCCTGGTAAGCACAAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATATAAGAGTCA
TATCTGCAAGGTCCTCGATTTGTTCCTTGTAAGCAC
Found at i:9960956 original size:83 final size:83
Alignment explanation
Indices: 9960611--9960961 Score: 562
Period size: 83 Copynumber: 4.2 Consensus size: 83
9960601 TTCGATTAGT
* * *
9960611 AAGGATGTCAAATCATCTTGAGTCTATTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTATTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
* *
9960676 CTTGTTCCTGGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* *
9960694 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATGTCTGCAAGGTCCTCG
1 AAGGATGCC-AAACCATCTTGAGTCTATTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCG
9960759 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
* *
9960778 AAGGATGCCAAACCATCTTGAGTCTATTTAAGAACATTT--GAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTATTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
9960841 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* * * *
9960859 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATATAAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTATTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
9960924 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
9960942 AAGGATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
9960962 GATCTGCTTC
Statistics
Matches: 251, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
81 76 0.30
83 98 0.39
84 77 0.31
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTATTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:9961362 original size:119 final size:119
Alignment explanation
Indices: 9960885--9961359 Score: 824
Period size: 119 Copynumber: 4.0 Consensus size: 119
9960875 CTTGAGTCTG
* * * * * * *
9960885 TTTGAGAACATATAAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
* *
9960950 CAAACCATCTTGGATCTGCTTCAGTATAAACATATGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * *
9961004 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTTCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
9961069 CAAATCATCTTAGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
9961123 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
9961188 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
9961242 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
9961307 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
9961360 CTTCGATCTG
Statistics
Matches: 338, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 338 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:9961399 original size:44 final size:44
Alignment explanation
Indices: 9961351--9961530 Score: 159
Period size: 44 Copynumber: 4.1 Consensus size: 44
9961341 TGAAGGTTAG
9961351 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
* * *
9961395 ATCTGCTGTCTTC-AACTTGTTCCCTATAAATACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAA
** * * * * * * * *
9961437 ATGCTGAAATCTTCAATCTGCTTCGCTGTAAGCATAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAA
* ** *
9961483 ATCTACTATAGTCGATCTGTTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
9961527 ATCT
1 ATCT
9961531 TGTTTCTTTG
Statistics
Matches: 104, Mismatches: 26, Indels: 12
0.73 0.18 0.08
Matches are distributed among these distances:
42 2 0.02
43 12 0.12
44 77 0.74
45 11 0.11
46 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:9962420 original size:8 final size:8
Alignment explanation
Indices: 9962407--9962463 Score: 55
Period size: 8 Copynumber: 6.9 Consensus size: 8
9962397 GGCCTCTCCA
9962407 TTTTTTTC
1 TTTTTTTC
9962415 TTTTTTCTC
1 TTTTTT-TC
9962424 TTTATTTT-
1 TTT-TTTTC
9962432 TTTCTCTTT-
1 TTT-T-TTTC
*
9962441 TTCTTTTC
1 TTTTTTTC
9962449 TTTTTTTC
1 TTTTTTTC
9962457 TTTTTTT
1 TTTTTTT
9962464 TGAAATAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
7 3 0.07
8 25 0.60
9 11 0.26
10 3 0.07
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTTC
Done.