Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 314 of 318
Found at i:99159968 original size:15 final size:16
Alignment explanation
Indices: 99159948--99159977 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
99159938 AAAATAATAA
99159948 AAAAATATAA-ATTTT
1 AAAAATATAATATTTT
99159963 AAAAATATAATATTT
1 AAAAATATAATATTT
99159978 AATAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAAATATAATATTTT
Found at i:99159984 original size:17 final size:15
Alignment explanation
Indices: 99159947--99159985 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
99159937 AAAAATAATA
99159947 AAAAAATATAAATTT
1 AAAAAATATAAATTT
*
99159962 TAAAAATATAATATTT
1 AAAAAATATAA-ATTT
99159978 AATAAAAT
1 AA-AAAAT
99159986 TATATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 10 0.50
16 5 0.25
17 5 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAAAATATAAATTT
Found at i:99159997 original size:17 final size:17
Alignment explanation
Indices: 99159939--99159997 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
99159929 ATACCATTAA
*
99159939 AAATAATAAAAAAATAT
1 AAATAATAAAAATATAT
**
99159956 AAATTTTAAAAATATAAT
1 AAATAATAAAAATAT-AT
** *
99159974 ATTTAATAAAATTATAT
1 AAATAATAAAAATATAT
99159991 AAATAAT
1 AAATAAT
99159998 TTAATATTTG
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
17 19 0.61
18 12 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATAATAAAAATATAT
Found at i:99161084 original size:45 final size:45
Alignment explanation
Indices: 99161003--99161178 Score: 257
Period size: 45 Copynumber: 4.0 Consensus size: 45
99160993 CAGAATTCAT
* * * *
99161003 TCACCGGCATT-TCGCCTGCTAGGTTC-GAGGCCCGAATAGTGTC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
99161046 TCACCGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
99161091 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
99161136 TAACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
99161179 CTGTACAATA
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
43 10 0.08
44 13 0.11
45 98 0.81
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:99166011 original size:6 final size:6
Alignment explanation
Indices: 99166000--99166037 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
99165990 TAATTGAGTA
*
99166000 TGAAAT TGAAAT TGAAAT TGAAAT TGAAAA TGAAAT TG
1 TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TG
99166038 GTCCTACATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (6 bp):
TGAAAT
Found at i:99166205 original size:21 final size:21
Alignment explanation
Indices: 99166167--99166206 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
99166157 AAATTAAAAT
* * *
99166167 AAATATTTTTTAATAAATTGA
1 AAATATATTTAAAAAAATTGA
99166188 AAATATATTTAAAAAAATT
1 AAATATATTTAAAAAAATT
99166207 TATATTTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
AAATATATTTAAAAAAATTGA
Found at i:99166630 original size:80 final size:80
Alignment explanation
Indices: 99166538--99166696 Score: 309
Period size: 80 Copynumber: 2.0 Consensus size: 80
99166528 CTATATCTAG
99166538 AAAAGAGTAGTAAGAAAAAGGCAAAGTGAATGAACAAAAAGTAAGGTCAGCCGCAATAGAGAGTC
1 AAAAGAGTAGTAAGAAAAAGGCAAAGTGAATGAACAAAAAGTAAGGTCAGCCGCAATAGAGAGTC
99166603 GAAACGTGAATGAGA
66 GAAACGTGAATGAGA
*
99166618 AAAAGAGTAGTAAGAAAAAGGCAAAGTGAATGAACAGAAAGTAAGGTCAGCCGCAATAGAGAGTC
1 AAAAGAGTAGTAAGAAAAAGGCAAAGTGAATGAACAAAAAGTAAGGTCAGCCGCAATAGAGAGTC
99166683 GAAACGTGAATGAG
66 GAAACGTGAATGAG
99166697 TGAGTGGGAT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.49, C:0.10, G:0.28, T:0.13
Consensus pattern (80 bp):
AAAAGAGTAGTAAGAAAAAGGCAAAGTGAATGAACAAAAAGTAAGGTCAGCCGCAATAGAGAGTC
GAAACGTGAATGAGA
Found at i:99166952 original size:30 final size:30
Alignment explanation
Indices: 99166911--99166984 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
99166901 TATTATAGTA
* *
99166911 AAAATATAATTTTATTATTTTAAAAAGATT
1 AAAATAAAATTTTATCATTTTAAAAAGATT
* * **
99166941 AAATTAAAATTTTATCATTTTTAAGGGATT
1 AAAATAAAATTTTATCATTTTAAAAAGATT
*
99166971 AAAATATAATTTTA
1 AAAATAAAATTTTA
99166985 CGTTTATTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.46
Consensus pattern (30 bp):
AAAATAAAATTTTATCATTTTAAAAAGATT
Found at i:99169394 original size:15 final size:15
Alignment explanation
Indices: 99169374--99169403 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
99169364 TGACAGGCCG
99169374 ATCCAATAGATTAAT
1 ATCCAATAGATTAAT
99169389 ATCCAATAGATTAAT
1 ATCCAATAGATTAAT
99169404 CTTTGAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (15 bp):
ATCCAATAGATTAAT
Found at i:99169886 original size:21 final size:21
Alignment explanation
Indices: 99169860--99169899 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
99169850 GAACCATGAT
99169860 CAAAGTTCATGTATATAATTA
1 CAAAGTTCATGTATATAATTA
99169881 CAAAGTTCATGTATATAAT
1 CAAAGTTCATGTATATAAT
99169900 GGCATATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (21 bp):
CAAAGTTCATGTATATAATTA
Found at i:99170277 original size:30 final size:30
Alignment explanation
Indices: 99170201--99170279 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 30
99170191 TAAGGTCTAA
*
99170201 TAAAATTTTTAAAAATCTTAAGGGTTTAAAAT
1 TAAAATTTTTAAAAAT-TTAAGGGATT-AAAT
* *
99170233 GAGAATTTTT-AAAATTTAAGGGATT-AAT
1 TAAAATTTTTAAAAATTTAAGGGATTAAAT
99170261 TAAAATTTTCTAAAAATTT
1 TAAAATTTT-TAAAAATTT
99170280 CAATGGAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 10 0.25
29 1 0.03
30 16 0.40
31 5 0.12
32 8 0.20
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.42
Consensus pattern (30 bp):
TAAAATTTTTAAAAATTTAAGGGATTAAAT
Found at i:99171900 original size:18 final size:17
Alignment explanation
Indices: 99171875--99171971 Score: 70
Period size: 17 Copynumber: 5.5 Consensus size: 17
99171865 TTTTTATCTC
*
99171875 TTTAAAAATTTAAAATAT
1 TTTAAAAATTTAAAA-AA
*
99171893 TTATAAAAATTT-CAAAA
1 TT-TAAAAATTTAAAAAA
* *
99171910 TTTATATATTTTAAAAAA
1 TTTA-AAAATTTAAAAAA
* *
99171928 ATTAAAAATTAAAAAAA
1 TTTAAAAATTTAAAAAA
* *
99171945 GTTAAAATTTTAAAATAA
1 TTTAAAAATTTAAAA-AA
*
99171963 TTTTAAAAT
1 TTTAAAAAT
99171972 AATAATTCTG
Statistics
Matches: 60, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
16 2 0.03
17 30 0.50
18 19 0.32
19 9 0.15
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (17 bp):
TTTAAAAATTTAAAAAA
Found at i:99171909 original size:9 final size:8
Alignment explanation
Indices: 99171875--99171959 Score: 53
Period size: 8 Copynumber: 9.9 Consensus size: 8
99171865 TTTTTATCTC
99171875 TTTAAAAA
1 TTTAAAAA
99171883 TTTAAAATA
1 TTTAAAA-A
99171892 TTTATAAAAA
1 -TT-TAAAAA
*
99171902 TTTCAAAA
1 TTTAAAAA
* *
99171910 TTTATATAT
1 TTTA-AAAA
99171919 TTTAAAAAA
1 TTT-AAAAA
*
99171928 ATTAAAAA
1 TTTAAAAA
*
99171936 TTAAAAAAA
1 TT-TAAAAA
* *
99171945 GTTAAAAT
1 TTTAAAAA
99171953 TTTAAAA
1 TTTAAAA
99171960 TAATTTTAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
8 31 0.53
9 18 0.31
10 4 0.07
11 5 0.09
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (8 bp):
TTTAAAAA
Found at i:99171917 original size:20 final size:19
Alignment explanation
Indices: 99171877--99171915 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
99171867 TTTATCTCTT
99171877 TAAAAATTTAAAATATTTA
1 TAAAAATTTAAAATATTTA
*
99171896 TAAAAATTTCAAA-ATTTA
1 TAAAAATTTAAAATATTTA
99171914 TA
1 TA
99171916 TATTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAAAATTTAAAATATTTA
Found at i:99171926 original size:26 final size:27
Alignment explanation
Indices: 99171876--99171942 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
99171866 TTTTATCTCT
*
99171876 TTAAAAATTTAAAATATTTATAAAAAT
1 TTAAAAATTTAAAATATTTATAAAAAA
* *
99171903 TTCAAAATTT-ATATATTT-TAAAAAAA
1 TTAAAAATTTAAAATATTTAT-AAAAAA
*
99171929 TTAAAAATTAAAAA
1 TTAAAAATTTAAAA
99171943 AAGTTAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
25 1 0.03
26 20 0.62
27 11 0.34
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (27 bp):
TTAAAAATTTAAAATATTTATAAAAAA
Found at i:99171927 original size:27 final size:27
Alignment explanation
Indices: 99171879--99171930 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
99171869 TATCTCTTTA
*
99171879 AAAATTTAAAATATTTATAAAAATTTC
1 AAAATTTAAAATATTTAAAAAAATTTC
*
99171906 AAAATTT-ATATATTTTAAAAAAATT
1 AAAATTTAAAATA-TTTAAAAAAATT
99171931 AAAAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
AAAATTTAAAATATTTAAAAAAATTTC
Found at i:99171959 original size:17 final size:17
Alignment explanation
Indices: 99171917--99171964 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
99171907 AAATTTATAT
99171917 ATTTTAAAAAAATTAAA
1 ATTTTAAAAAAATTAAA
*
99171934 A-ATTAAAAAAAGTTAAA
1 ATTTTAAAAAAA-TTAAA
*
99171951 ATTTTAAAATAATT
1 ATTTTAAAAAAATT
99171965 TTAAAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 9 0.35
17 9 0.35
18 8 0.31
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
ATTTTAAAAAAATTAAA
Found at i:99171966 original size:11 final size:11
Alignment explanation
Indices: 99171950--99171974 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
99171940 AAAAAGTTAA
99171950 AATTTTAAAAT
1 AATTTTAAAAT
99171961 AATTTTAAAAT
1 AATTTTAAAAT
99171972 AAT
1 AAT
99171975 AATTCTGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTTTAAAAT
Found at i:99172703 original size:20 final size:21
Alignment explanation
Indices: 99172664--99172703 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
99172654 ATCATTAATT
**
99172664 AAATTATTTATTTAGGTTTTA
1 AAATTATTTATTTAAATTTTA
99172685 AAATTA-TTATTTAAATTTT
1 AAATTATTTATTTAAATTTT
99172704 TTTAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
AAATTATTTATTTAAATTTTA
Found at i:99181337 original size:101 final size:101
Alignment explanation
Indices: 99181206--99181469 Score: 474
Period size: 101 Copynumber: 2.6 Consensus size: 101
99181196 ACTTCTGATC
* *
99181206 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGGCAAATGATA
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
99181271 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
66 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
99181307 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
99181372 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
66 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
* * * *
99181408 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATG
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATG
99181470 TGATCAGTGT
Statistics
Matches: 157, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 157 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (101 bp):
AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
Found at i:99181354 original size:51 final size:51
Alignment explanation
Indices: 99181206--99181463 Score: 394
Period size: 51 Copynumber: 5.1 Consensus size: 51
99181196 ACTTCTGATC
* *
99181206 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* * *
99181257 AGTGGCAAATGATAAGTGGTAG-CTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* * *
99181307 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* *
99181358 AGTGACAAATGATAAGTGGTAG-CTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* *
99181408 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
99181459 AGTGA
1 AGTGA
99181464 TAAATGTGAT
Statistics
Matches: 185, Mismatches: 20, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
50 89 0.48
51 96 0.52
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
Found at i:99186061 original size:39 final size:39
Alignment explanation
Indices: 99186007--99186085 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
99185997 GATCCTTCTT
99186007 GTGGTGCCCTTCAATAGATAAGTTGTCAGCAGCTTGCAA
1 GTGGTGCCCTTCAATAGATAAGTTGTCAGCAGCTTGCAA
99186046 GTGGTGCCCTTCAATAGATAAGTTGTCAGCAGCTTGCAA
1 GTGGTGCCCTTCAATAGATAAGTTGTCAGCAGCTTGCAA
99186085 G
1 G
99186086 ACAGAGGTGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (39 bp):
GTGGTGCCCTTCAATAGATAAGTTGTCAGCAGCTTGCAA
Found at i:99189831 original size:217 final size:217
Alignment explanation
Indices: 99189420--99189849 Score: 648
Period size: 217 Copynumber: 2.0 Consensus size: 217
99189410 AGACCTTACG
* * *
99189420 TAATAATTATTAACTTCTTCAATAAGTTAAGTATTTACCTCCCTTTACTCGTTCTTATTTCGGAA
1 TAATAATTATTAACTTCTTCAATAAGTTAAGTATTTACATCCCTTTACTCGTTCTCATTTCAGAA
* ** *
99189485 ACCTCTCGATTAAATTTAGTCTGAGAATCAAATTTTTCAACGCTAACGAAAAATAGATCGCCTTC
66 ACCTCTCGATTAAATTTAGCCCAAGAATCAAATTTTTCAACGCTAAAGAAAAATAGATCGCCTTC
* *
99189550 GTACCTATTTTTCCCAACAAGGTCATGTATGACAAGTGTATTGAGGGCACCTCCCACACTTTTAT
131 GTACCTATTTTTCCCAACAAGGTCATGTATGACAAATGTATTGAGGGCACCTACCACACTTTTAT
*
99189615 AGCTTTAAACCTCTTCAAGAAA
196 AGCTTTAAACATCTTCAAGAAA
* *
99189637 TAATAATTATTAACTTC-TCTAATAAGTTAAGTATTTACATCCCTTTGCTCGTTCTCATTTTAGA
1 TAATAATTATTAACTTCTTC-AATAAGTTAAGTATTTACATCCCTTTACTCGTTCTCATTTCAGA
* ** *
99189701 AACCTCTCGATTAAATTTGGCCCAAGAATCGGATTTTTCAACGCTAAAGAAAAATAGATTGCCTT
65 AACCTCTCGATTAAATTTAGCCCAAGAATCAAATTTTTCAACGCTAAAGAAAAATAGATCGCCTT
* * * *
99189766 CTTACTTA-TTTTCCCAACAAGGTCATGTATGACAAATGTATTGAGGGGTACCTACCACTCTTTT
130 CGTACCTATTTTTCCCAACAAGGTCATGTATGACAAATGTATTGA-GGGCACCTACCACACTTTT
99189830 ATAGCTTTAAACATCTTCAA
194 ATAGCTTTAAACATCTTCAA
99189850 CAAAGCTATC
Statistics
Matches: 191, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
216 37 0.19
217 154 0.81
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (217 bp):
TAATAATTATTAACTTCTTCAATAAGTTAAGTATTTACATCCCTTTACTCGTTCTCATTTCAGAA
ACCTCTCGATTAAATTTAGCCCAAGAATCAAATTTTTCAACGCTAAAGAAAAATAGATCGCCTTC
GTACCTATTTTTCCCAACAAGGTCATGTATGACAAATGTATTGAGGGCACCTACCACACTTTTAT
AGCTTTAAACATCTTCAAGAAA
Found at i:99194285 original size:21 final size:22
Alignment explanation
Indices: 99194256--99194302 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
99194246 CAGAAGGAGT
*
99194256 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
99194278 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
99194299 GAGT
1 GAGT
99194303 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:99195591 original size:28 final size:28
Alignment explanation
Indices: 99195551--99195609 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
99195541 TTGTACCCGC
99195551 TAATGACCATCCCAAAAGACTAATACGT
1 TAATGACCATCCCAAAAGACTAATACGT
99195579 TAATGACCATCCCAAAAGACTAATACGT
1 TAATGACCATCCCAAAAGACTAATACGT
99195607 TAA
1 TAA
99195610 AACCATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.44, C:0.24, G:0.10, T:0.22
Consensus pattern (28 bp):
TAATGACCATCCCAAAAGACTAATACGT
Found at i:99196828 original size:21 final size:21
Alignment explanation
Indices: 99196794--99196840 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
99196784 AATATTTCTA
99196794 AAAAACTTTATTTTAAAT-AT
1 AAAAACTTTATTTTAAATCAT
*
99196814 AAAAACTTTATTTTTATATCAT
1 AAAAACTTTA-TTTTAAATCAT
99196836 AAAAA
1 AAAAA
99196841 TTAAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.42
21 7 0.29
22 7 0.29
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (21 bp):
AAAAACTTTATTTTAAATCAT
Found at i:99199257 original size:5 final size:5
Alignment explanation
Indices: 99199247--99199272 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
99199237 AATATTATAA
99199247 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
99199273 TATATATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:99205946 original size:29 final size:29
Alignment explanation
Indices: 99205912--99205969 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
99205902 TATTTTTCAC
99205912 ATTTAATCATGCACAACCACAAAAATTAT
1 ATTTAATCATGCACAACCACAAAAATTAT
99205941 ATTTAATCATGCACAACCACAAAAATTAT
1 ATTTAATCATGCACAACCACAAAAATTAT
99205970 TGTACTTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (29 bp):
ATTTAATCATGCACAACCACAAAAATTAT
Found at i:99209931 original size:21 final size:22
Alignment explanation
Indices: 99209902--99209948 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
99209892 CAGAAGGAGT
*
99209902 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
99209924 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
99209945 GAGT
1 GAGT
99209949 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:99216048 original size:6 final size:6
Alignment explanation
Indices: 99216010--99216047 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
99216000 TGCCAATTTA
*
99216010 CCTTTG CCTTTG CCTTTG CCTTTG CCTTTG CCATTG CC
1 CCTTTG CCTTTG CCTTTG CCTTTG CCTTTG CCTTTG CC
99216048 AGATTCAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.03, C:0.37, G:0.16, T:0.45
Consensus pattern (6 bp):
CCTTTG
Found at i:99219685 original size:31 final size:31
Alignment explanation
Indices: 99219650--99219710 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
99219640 ACCTAATGAC
*
99219650 TTAAATAAAAACTTTTGAATAGTTCAGTGAT
1 TTAAATAAAAACTTTCGAATAGTTCAGTGAT
* *
99219681 TTAAATGAAAACTTTCGAATAGTTTAGTGA
1 TTAAATAAAAACTTTCGAATAGTTCAGTGA
99219711 CCAAATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.38
Consensus pattern (31 bp):
TTAAATAAAAACTTTCGAATAGTTCAGTGAT
Found at i:99223805 original size:38 final size:38
Alignment explanation
Indices: 99223763--99223837 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
99223753 CTTCGTTTGC
* * *
99223763 CTCTAAGCAATTGATTTATTCATAACATTATTCTTTAA
1 CTCTAAGCAATTGACTTAGTCATAACATTACTCTTTAA
99223801 CTCTAAGCAATTGACTTAGTCATAACATTACTCTTTA
1 CTCTAAGCAATTGACTTAGTCATAACATTACTCTTTA
99223838 TGCTAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (38 bp):
CTCTAAGCAATTGACTTAGTCATAACATTACTCTTTAA
Found at i:99225638 original size:5 final size:5
Alignment explanation
Indices: 99225628--99225654 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
99225618 CCAGAGGAGG
99225628 GGATA GGATA GGATA GGATA GGATA GG
1 GGATA GGATA GGATA GGATA GGATA GG
99225655 GGGGTTACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.44, T:0.19
Consensus pattern (5 bp):
GGATA
Found at i:99226694 original size:2 final size:2
Alignment explanation
Indices: 99226654--99226679 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
99226644 TCATATACCG
99226654 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
99226680 GCATTAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:99232243 original size:14 final size:14
Alignment explanation
Indices: 99232224--99232251 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
99232214 TAAATCCTAA
99232224 GTGGATGACAGACT
1 GTGGATGACAGACT
99232238 GTGGATGACAGACT
1 GTGGATGACAGACT
99232252 ATGTATGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.36, T:0.21
Consensus pattern (14 bp):
GTGGATGACAGACT
Found at i:99235234 original size:5 final size:5
Alignment explanation
Indices: 99235224--99235250 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
99235214 ACTAAAATTG
99235224 CATTA CATTA CATTA CATTA CATTA CA
1 CATTA CATTA CATTA CATTA CATTA CA
99235251 AGCCGTGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (5 bp):
CATTA
Found at i:99237213 original size:29 final size:29
Alignment explanation
Indices: 99237180--99237236 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
99237170 AAGAAGATAG
99237180 AACTAATAAGATATTACCAAAGTTAAAAA
1 AACTAATAAGATATTACCAAAGTTAAAAA
99237209 AACTAATAAGATATTACCAAAGTTAAAA
1 AACTAATAAGATATTACCAAAGTTAAAA
99237237 GAGTATGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.58, C:0.11, G:0.07, T:0.25
Consensus pattern (29 bp):
AACTAATAAGATATTACCAAAGTTAAAAA
Found at i:99237942 original size:66 final size:66
Alignment explanation
Indices: 99237861--99238067 Score: 371
Period size: 66 Copynumber: 3.1 Consensus size: 66
99237851 AGCATAATGA
*
99237861 GAACCCATTCCGCTCATGTAGTCCATGGTCGGAGTACCATTCAACCCTGTCATGACTTGAGAAGG
1 GAACCCATTCCGCTCATGTAGTCCATGGTCTGAGTACCATTCAACCCTGTCATGACTTGAGAAGG
99237926 T
66 T
*
99237927 GAACCCATTCCGCTCATGTAGTCCATGGTCTGAGTACCATTGAACCCTGTCATGACTTGAGAAGG
1 GAACCCATTCCGCTCATGTAGTCCATGGTCTGAGTACCATTCAACCCTGTCATGACTTGAGAAGG
99237992 T
66 T
99237993 GAACCCATTCCGCTCATGTAGTCCATGGTCTGAGTACCA-TCGAACCCTGTCATGACTTGAGAAG
1 GAACCCATTCCGCTCATGTAGTCCATGGTCTGAGTACCATTC-AACCCTGTCATGACTTGAGAAG
99238057 GT
65 GT
99238059 GAACGCCAT
1 GAAC-CCAT
99238068 GAAGATGAGG
Statistics
Matches: 136, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
65 1 0.01
66 131 0.96
67 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (66 bp):
GAACCCATTCCGCTCATGTAGTCCATGGTCTGAGTACCATTCAACCCTGTCATGACTTGAGAAGG
T
Found at i:99240107 original size:24 final size:24
Alignment explanation
Indices: 99240080--99240131 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
99240070 TTAGTAAGTC
*
99240080 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
99240104 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
99240128 AAAT
1 AAAT
99240132 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:99242077 original size:24 final size:24
Alignment explanation
Indices: 99242050--99242101 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
99242040 TTAGTAAGTC
*
99242050 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
99242074 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
99242098 AAAT
1 AAAT
99242102 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:99244165 original size:25 final size:25
Alignment explanation
Indices: 99244131--99244183 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
99244121 AGGCAAGAAT
*
99244131 ATTAATAGAACAAGCTATATCAATG
1 ATTAATAGAACAAGCTATATAAATG
99244156 ATTAATAGAACAAGCTATATAAATG
1 ATTAATAGAACAAGCTATATAAATG
99244181 ATT
1 ATT
99244184 TTTTTTGTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.30
Consensus pattern (25 bp):
ATTAATAGAACAAGCTATATAAATG
Found at i:99257125 original size:44 final size:43
Alignment explanation
Indices: 99257021--99257226 Score: 146
Period size: 46 Copynumber: 4.6 Consensus size: 43
99257011 GTGCCGATGC
* * *
99257021 CATGTCCCAGACAGGTCTTACACTGACACATGTAACCGT-GCTGACG
1 CATGTCCCAGACATGTCTTACACTG-CACA--T-CCCGTAGCCGACG
*
99257067 CATGTCCCAGACATGTCTTACACTAGCACATCCCGTAGCCAACG
1 CATGTCCCAGACATGTCTTACACT-GCACATCCCGTAGCCGACG
* * * *
99257111 CATGTCCCAGACATGTCTGACATTGGCTAACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACT-GC--ACATCCCGTA-GCCGACG
* * * * * * *
99257157 CATGTTCCAGACATGTCTTACACTGGATCTCATACTGTGGCTGATG
1 CATGTCCCAGACATGTCTTACACT-G--CACATCCCGTAGCCGACG
*
99257203 CATGTCCCAAACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
99257227 AGCCCTTGCC
Statistics
Matches: 131, Mismatches: 21, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.03
44 30 0.23
45 1 0.01
46 94 0.72
47 1 0.01
48 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (43 bp):
CATGTCCCAGACATGTCTTACACTGCACATCCCGTAGCCGACG
Found at i:99275199 original size:33 final size:32
Alignment explanation
Indices: 99275160--99275246 Score: 99
Period size: 33 Copynumber: 2.8 Consensus size: 32
99275150 AAGAGTATCA
99275160 AATTTAGATACTAAATTAGAAAAAAAAAAGTC
1 AATTTAGATACTAAATTAGAAAAAAAAAAGTC
* * *
99275192 AAGTTTAGATACTAAACTGGACAAAAAAAAGT-
1 AA-TTTAGATACTAAATTAGAAAAAAAAAAGTC
* *
99275224 --TTTAAATACCAAATTAGAAAAAA
1 AATTTAGATACTAAATTAGAAAAAA
99275247 GTGTTAAGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
29 18 0.39
32 2 0.04
33 26 0.57
ACGTcount: A:0.57, C:0.08, G:0.10, T:0.24
Consensus pattern (32 bp):
AATTTAGATACTAAATTAGAAAAAAAAAAGTC
Found at i:99283647 original size:35 final size:31
Alignment explanation
Indices: 99283574--99283649 Score: 152
Period size: 31 Copynumber: 2.5 Consensus size: 31
99283564 TTGAAAAATA
99283574 ACAAATCAATCACTAACGTTATTAAAAAGTG
1 ACAAATCAATCACTAACGTTATTAAAAAGTG
99283605 ACAAATCAATCACTAACGTTATTAAAAAGTG
1 ACAAATCAATCACTAACGTTATTAAAAAGTG
99283636 ACAAATCAATCACT
1 ACAAATCAATCACT
99283650 CATTAACATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.25
Consensus pattern (31 bp):
ACAAATCAATCACTAACGTTATTAAAAAGTG
Found at i:99284114 original size:5 final size:5
Alignment explanation
Indices: 99284104--99284143 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
99284094 TCAAGTCTTG
*
99284104 GATAT GATAT GATAT GATAT GATAT GACAT GATAT GATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT
99284144 AAACAGAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.38
Consensus pattern (5 bp):
GATAT
Found at i:99285684 original size:29 final size:29
Alignment explanation
Indices: 99285642--99285702 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
99285632 TTTTAATAGT
99285642 TTAATATTAAATTTAACTTAATACCTATC
1 TTAATATTAAATTTAACTTAATACCTATC
** * **
99285671 TTAATATTTTATTTAATTTAATGTCTATC
1 TTAATATTAAATTTAACTTAATACCTATC
99285700 TTA
1 TTA
99285703 TAGATAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (29 bp):
TTAATATTAAATTTAACTTAATACCTATC
Found at i:99285762 original size:18 final size:17
Alignment explanation
Indices: 99285734--99285767 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
99285724 TAATAATATT
99285734 TAATATTAAATTTAATC
1 TAATATTAAATTTAATC
99285751 TAATATTTAAATTTAAT
1 TAATA-TTAAATTTAAT
99285768 GTTAAAGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATATTAAATTTAATC
Found at i:99289917 original size:22 final size:21
Alignment explanation
Indices: 99289882--99289957 Score: 59
Period size: 22 Copynumber: 3.7 Consensus size: 21
99289872 AAAAGGTATC
* * *
99289882 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
99289903 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
99289926 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
99289945 TGC-AATCATATCT
1 TACAAATCATATCT
99289958 AAGATTGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 9 0.20
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:99289933 original size:17 final size:19
Alignment explanation
Indices: 99289918--99289986 Score: 117
Period size: 17 Copynumber: 3.8 Consensus size: 19
99289908 AATCATATCT
99289918 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
99289937 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
99289955 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
99289972 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
99289987 AATTGAAGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.34
18 16 0.34
19 15 0.32
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:99290402 original size:45 final size:45
Alignment explanation
Indices: 99290351--99290618 Score: 285
Period size: 45 Copynumber: 5.9 Consensus size: 45
99290341 CAATATCGGC
* *
99290351 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * * * *
99290396 TATCTTTGATTTGCTCCCCGTCTAATATAGAGACGCCAAATCTGC
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
*
99290441 T-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * * *
99290485 TAGCTCCGATTTGCTCCTCGTCTAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * * * * *
99290530 CATCTTGGATCTGCT--TCGATGTAAACACATGAAGAT--CAGATCTGT
1 TATCTTCGATCTGCTCCCCG-TCT-AATACA-G-AGATGCCAAATCTGT
99290575 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 TA--TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
99290619 ATCTTGGATC
Statistics
Matches: 184, Mismatches: 28, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
43 3 0.02
44 40 0.22
45 109 0.59
46 2 0.01
47 26 0.14
48 2 0.01
49 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
Found at i:99290510 original size:89 final size:89
Alignment explanation
Indices: 99290359--99290528 Score: 277
Period size: 89 Copynumber: 1.9 Consensus size: 89
99290349 GCTATCTTTG
* ** *
99290359 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTTGATTTGCTCCCCGTCTAATAT
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTAGCTCCGATTTGCTCCCCGTCTAATAC
99290424 AGAGACGCCAAATCTGCTTCTTCA
66 AGAGACGCCAAATCTGCTTCTTCA
* *
99290448 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTAGCTCCGATTTGCTCCTCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTAGCTCCGATTTGCTCCCCGTCTAATAC
*
99290513 AGAGATGCCAAATCTG
66 AGAGACGCCAAATCTG
99290529 TCATCTTGGA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (89 bp):
ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTAGCTCCGATTTGCTCCCCGTCTAATAC
AGAGACGCCAAATCTGCTTCTTCA
Found at i:99290687 original size:78 final size:78
Alignment explanation
Indices: 99290558--99290852 Score: 439
Period size: 78 Copynumber: 3.8 Consensus size: 78
99290548 ATGTAAACAC
* *
99290558 ATGAAGATCAGATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
99290623 TGGATCTGCTTCA
66 TGGATCTGCTTCA
** * *
99290636 ATGAAGGTCCA-ATCTATTATGTCTTTGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
*
99290700 TTGGATCTGCTTTA
65 TTGGATCTGCTTCA
*
99290714 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
99290779 TGGATCTACTTCA
66 TGGATCTGCTTCA
* * * * **
99290792 ATGAAGGTCAGATCCGCTATGTCTTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
99290853 TGTTTCTTCG
Statistics
Matches: 196, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
77 2 0.01
78 192 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:99291105 original size:44 final size:44
Alignment explanation
Indices: 99291033--99291466 Score: 280
Period size: 44 Copynumber: 9.9 Consensus size: 44
99291023 ATCTGCTATG
* * * * * *
99291033 TCTTCAATCTGCTCTCCGTCGAATATAGAGATGCTAAATCTGTTA
1 TCTTCGATCTGCTCTCTG-CCAATACAGAGACGCCAAATCTGTTA
* * *
99291078 TCTTTGATCTGCTCCCTGCCAATATAGAGACGCCAAATC----A
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTA
* * ** * * * * *
99291118 TCTTAGATTTGCT-TCAACGTAA-ACACGTGAAAGCCAAATCAGCTATG
1 TCTTCGATCTGCTCTCTGC-CAATACA-GAG-ACGCCAAATCTG-T-TA
* * * *
99291165 TCCTCGATCTGCTCCCTACCAATACAGAGACGCCAAATCTGTTG
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTA
* *
99291209 TTTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTA
* *
99291253 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTA
* *
99291297 TCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATC----A
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTA
* * ** * * * *
99291337 TCTTGGATTTGCT-TCAACGTAA-ACATGTGAAAGCCAAATCAGTTA
1 TCTTCGATCTGCTCTCTGC-CAATACA-GAG-ACGCCAAATCTGTTA
* * * * * *
99291382 TGTCTTCGATCTGCTCTTTGCCAATATAGAGATGTCAAATCTATCA
1 --TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTA
* **
99291428 TCTTCGATCTGCTCCCTAACAATACAGAGACGCCAAATC
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATC
99291467 ATCTTGGATC
Statistics
Matches: 301, Mismatches: 66, Indels: 45
0.73 0.16 0.11
Matches are distributed among these distances:
39 9 0.03
40 31 0.10
41 18 0.06
44 168 0.56
45 16 0.05
46 20 0.07
47 29 0.10
48 10 0.03
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTA
Found at i:99291351 original size:219 final size:221
Alignment explanation
Indices: 99290807--99291466 Score: 713
Period size: 219 Copynumber: 3.0 Consensus size: 221
99290797 GGTCAGATCC
* * * * *
99290807 GCTATGTCTTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCT
1 GCTATATCTTCGATCTGCTCTCTGTCGAATATAGAGATGCCAAATCTGTATCTTCGATCTGCTCT
* * * * *
99290872 CTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCTAAATC
66 CTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATC
* ** ** ** * *
99290937 TGTTATGTCTTCGATCTGCTCCTTGTAAACGCA-AGGATGCCAAATCATATTG-GATCTA-CTTC
131 AGTTATGTCTTCGATCTGCTCCTTGCCAATACAGA-GATGCCAAATC-TATTGTCTTCGATCTGC
** * * * * ** *
99290999 GATGTGAAAATATCCGA-AGGTTAGATCT
194 TCTCTGACAATA-CAGAGACGCCAAATCT
* * * * *
99291027 GCTATGTCTTCAATCTGCTCTCCGTCGAATATAGAGATGCTAAATCTGTTATCTTTGATCTGCTC
1 GCTATATCTTCGATCTGCTCTCTGTCGAATATAGAGATGCCAAATCTG-TATCTTCGATCTGCTC
* * *
99291092 CCTGCCAATATAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAAT
65 TCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAAT
* * * * * * *
99291157 CAGCTATGTCCTCGATCTGCTCCCTACCAATACAGAGACGCCAAATCTGTTGTTTTCGATCTGCT
130 CAGTTATGTCTTCGATCTGCTCCTTGCCAATACAGAGATGCCAAATCTATTGTCTTCGATCTGCT
* *
99291222 CTCTGCCAATACAGAGATGCCAAATCT
195 CTCTGACAATACAGAGACGCCAAATCT
* * *
99291249 G-T-TATCTTCGATCTGCTCTCTG-CCAATACAGAGATGCCAAATCTGCTATCTTCGATCTACTC
1 GCTATATCTTCGATCTGCTCTCTGTCGAATATAGAGATGCCAAATCTG-TATCTTCGATCTGCTC
* *
99291311 TCTGACAATACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAACATGTGAAAGCCAAAT
65 TCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAAT
* * * **
99291376 CAGTTATGTCTTCGATCTGCTCTTTGCCAATATAGAGATGTCAAATCTATCATCTTCGATCTGCT
130 CAGTTATGTCTTCGATCTGCTCCTTGCCAATACAGAGATGCCAAATCTATTGTCTTCGATCTGCT
* *
99291441 CCCTAACAATACAGAGACGCCAAATC
195 CTCTGACAATACAGAGACGCCAAATC
99291467 ATCTTGGATC
Statistics
Matches: 364, Mismatches: 71, Indels: 11
0.82 0.16 0.02
Matches are distributed among these distances:
219 169 0.46
220 65 0.18
221 111 0.30
222 19 0.05
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (221 bp):
GCTATATCTTCGATCTGCTCTCTGTCGAATATAGAGATGCCAAATCTGTATCTTCGATCTGCTCT
CTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATC
AGTTATGTCTTCGATCTGCTCCTTGCCAATACAGAGATGCCAAATCTATTGTCTTCGATCTGCTC
TCTGACAATACAGAGACGCCAAATCT
Found at i:99291490 original size:131 final size:129
Alignment explanation
Indices: 99291240--99291483 Score: 373
Period size: 131 Copynumber: 1.9 Consensus size: 129
99291230 ATACAGAGAT
*
99291240 GCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCTTCGAT
1 GCCAAATCAGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCTTCGAT
* * *
99291305 CTACTCTCTGACAATACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAACATGTGAAA
66 CTACTCCCTAACAATACAGAGACGCCAAATCATCTTGGATCTGCTTCAACGTAAACATGTGAAA
* * * *
99291369 GCCAAATCAGTTATGTCTTCGATCTGCTCTTTGCCAATATAGAGATGTCAAATCT-ATCATCTTC
1 GCCAAATCAGTTA--TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCT-ATCTTC
*
99291433 GATCTGCTCCCTAACAATACAGAGACGCCAAATCATCTTGGATCTGCTTCA
63 GATCTACTCCCTAACAATACAGAGACGCCAAATCATCTTGGATCTGCTTCA
99291484 GTGTAAATAC
Statistics
Matches: 103, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
129 12 0.12
130 1 0.01
131 90 0.87
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (129 bp):
GCCAAATCAGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCTTCGAT
CTACTCCCTAACAATACAGAGACGCCAAATCATCTTGGATCTGCTTCAACGTAAACATGTGAAA
Found at i:99298245 original size:19 final size:19
Alignment explanation
Indices: 99298221--99298311 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
99298211 AATCATATCT
*
99298221 TCTAAGATTGCATATTATA
1 TCTAAGATTGCATATCATA
99298240 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
99298258 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
99298275 TCTAATATTGCATATCATA
1 TCTAAGATTGCATATCATA
99298294 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
99298312 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.23
18 15 0.23
19 36 0.55
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:99303767 original size:6 final size:6
Alignment explanation
Indices: 99303758--99303791 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
99303748 GAGACTGCGG
*
99303758 CGGCGA CGGCGA TGGCGA CGGCGA CGGCGA CGGC
1 CGGCGA CGGCGA CGGCGA CGGCGA CGGCGA CGGC
99303792 CTTGGTTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.32, G:0.50, T:0.03
Consensus pattern (6 bp):
CGGCGA
Found at i:99304370 original size:127 final size:124
Alignment explanation
Indices: 99304223--99304479 Score: 293
Period size: 126 Copynumber: 2.0 Consensus size: 124
99304213 AATATGTAAG
* *
99304223 ATTAAAATTAAAATACATTTGAATCACACTTAAAATTCTACGTATACAATTGTAACGAATCAAAA
1 ATTAAAATTAAAATACATTTGAATCACACTCAAAATTCTACATATACAATTGTAAC-AATCAAAA
** * * *
99304288 TTT-ATGTATCAAACTGTATATTAAATCAAAATTTAT-ATATACTTTTAAAATTTATACCTA
65 TTTAATACAT-AAACTGTACATTAAATCAAAATTTATGA-ATAATTTTAAAATTAATACCTA
* * ** * * *
99304348 ATTAAAATGTTAAAATATATTTGAATCACAGTCAATGTTTTATATATACAATTGTAACAATTAAA
1 ATTAAAA--TTAAAATACATTTGAATCACACTCAAAATTCTACATATACAATTGTAACAATCAAA
* * * *
99304413 GTTTAATACATAAACTGTACGTTAAATCAAAATTTATGAATAATTTTGAAATTAATACTTA
64 ATTTAATACATAAACTGTACATTAAATCAAAATTTATGAATAATTTTAAAATTAATACCTA
99304474 ATTAAA
1 ATTAAA
99304480 TTAGACTTCA
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
125 7 0.06
126 57 0.52
127 46 0.42
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (124 bp):
ATTAAAATTAAAATACATTTGAATCACACTCAAAATTCTACATATACAATTGTAACAATCAAAAT
TTAATACATAAACTGTACATTAAATCAAAATTTATGAATAATTTTAAAATTAATACCTA
Found at i:99304965 original size:9 final size:9
Alignment explanation
Indices: 99304930--99304996 Score: 53
Period size: 9 Copynumber: 7.0 Consensus size: 9
99304920 CAATTTATGG
99304930 TTTTTATAA
1 TTTTTATAA
*
99304939 TGTTTATATA
1 TTTTTATA-A
99304949 TTCCTTTATAA
1 TT--TTTATAA
*
99304960 TTTTTATGA
1 TTTTTATAA
*
99304969 TTTTAATTAA
1 TTTTTA-TAA
*
99304979 ATTTTATAA
1 TTTTTATAA
*
99304988 TTTTAATAA
1 TTTTTATAA
99304997 CTTTAGAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
9 28 0.62
10 8 0.18
11 3 0.07
12 6 0.13
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:99315754 original size:35 final size:35
Alignment explanation
Indices: 99315686--99315945 Score: 304
Period size: 35 Copynumber: 7.4 Consensus size: 35
99315676 TTTCAGTAGG
* * *** *
99315686 CATGCTAATCAAAATCAGTATAGCAACACGCTTAA
1 CATGCGAATCAGAATCAGTATAATGACATGCTTAA
* *
99315721 CATGCAAATCAGAATCAGTATAATGGCATGCTTAA
1 CATGCGAATCAGAATCAGTATAATGACATGCTTAA
* * *
99315756 CATGTGAATCAGAATCAGAATAATGACATGTTTAA
1 CATGCGAATCAGAATCAGTATAATGACATGCTTAA
*
99315791 CATGCGAATCAGAATCAATATAATGACATGCTTAA
1 CATGCGAATCAGAATCAGTATAATGACATGCTTAA
* * *
99315826 CATGCGAATCATAATCGGTATAATGACATGCTTTA
1 CATGCGAATCAGAATCAGTATAATGACATGCTTAA
* * * *
99315861 CATGTGAAACAAAATCAGAATAATGACATGCTTAA
1 CATGCGAATCAGAATCAGTATAATGACATGCTTAA
* * *
99315896 CATGTGAATTAGAATCAGTATAATGGCATGCTTAA
1 CATGCGAATCAGAATCAGTATAATGACATGCTTAA
* *
99315931 CCTGCGAATAAGAAT
1 CATGCGAATCAGAAT
99315946 ATCAAAAAAT
Statistics
Matches: 191, Mismatches: 34, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 191 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (35 bp):
CATGCGAATCAGAATCAGTATAATGACATGCTTAA
Found at i:99315868 original size:105 final size:105
Alignment explanation
Indices: 99315715--99315945 Score: 336
Period size: 105 Copynumber: 2.2 Consensus size: 105
99315705 ATAGCAACAC
* * * *
99315715 GCTTAACATGCAAATCAGAATCAGTATAATGGCATGCTTAACATGTGAATCAGAATCAGAATAAT
1 GCTTAACATGCGAATCAGAATCAGTATAATGACATGCTTAACATGTGAAACAAAATCAGAATAAT
*
99315780 GACATGTTTAACATGCGAATCAGAATCAATATAATGACAT
66 GACATGCTTAACATGCGAATCAGAATCAATATAATGACAT
* * *
99315820 GCTTAACATGCGAATCATAATCGGTATAATGACATGCTTTACATGTGAAACAAAATCAGAATAAT
1 GCTTAACATGCGAATCAGAATCAGTATAATGACATGCTTAACATGTGAAACAAAATCAGAATAAT
* * * *
99315885 GACATGCTTAACATGTGAATTAGAATCAGTATAATGGCAT
66 GACATGCTTAACATGCGAATCAGAATCAATATAATGACAT
* *
99315925 GCTTAACCTGCGAATAAGAAT
1 GCTTAACATGCGAATCAGAAT
99315946 ATCAAAAAAT
Statistics
Matches: 111, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
105 111 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (105 bp):
GCTTAACATGCGAATCAGAATCAGTATAATGACATGCTTAACATGTGAAACAAAATCAGAATAAT
GACATGCTTAACATGCGAATCAGAATCAATATAATGACAT
Found at i:99318025 original size:14 final size:16
Alignment explanation
Indices: 99317995--99318031 Score: 60
Period size: 14 Copynumber: 2.4 Consensus size: 16
99317985 GTTCTTCTCT
99317995 TTTTTTTCCACGAAAA
1 TTTTTTTCCACGAAAA
99318011 TTTTTTT-CACG-AAA
1 TTTTTTTCCACGAAAA
99318025 TTTTTTT
1 TTTTTTT
99318032 AATACCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.48
15 4 0.19
16 7 0.33
ACGTcount: A:0.24, C:0.14, G:0.05, T:0.57
Consensus pattern (16 bp):
TTTTTTTCCACGAAAA
Found at i:99318031 original size:15 final size:16
Alignment explanation
Indices: 99317994--99318031 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
99317984 TGTTCTTCTC
99317994 TTTTTTTTCCACGAAA
1 TTTTTTTTCCACGAAA
*
99318010 ATTTTTTT-CACGAAA
1 TTTTTTTTCCACGAAA
99318025 TTTTTTT
1 TTTTTTT
99318032 AATACCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.24, C:0.13, G:0.05, T:0.58
Consensus pattern (16 bp):
TTTTTTTTCCACGAAA
Found at i:99318393 original size:23 final size:23
Alignment explanation
Indices: 99318363--99318409 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
99318353 CTTACGGTAT
*
99318363 GATTGACCGCGACACTCCAAAAA
1 GATTGACCGCCACACTCCAAAAA
*
99318386 GATTGACCGCCACACTTCAAAAA
1 GATTGACCGCCACACTCCAAAAA
99318409 G
1 G
99318410 GGATGGGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.30, G:0.17, T:0.15
Consensus pattern (23 bp):
GATTGACCGCCACACTCCAAAAA
Found at i:99319767 original size:14 final size:14
Alignment explanation
Indices: 99319734--99319767 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
99319724 CTATGAAGTT
*
99319734 TCTAAATTTAGGTA
1 TCTAAATTTAGATA
*
99319748 TTTAAATTTAGATA
1 TCTAAATTTAGATA
99319762 TCTAAA
1 TCTAAA
99319768 CATTATTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (14 bp):
TCTAAATTTAGATA
Found at i:99319953 original size:6 final size:6
Alignment explanation
Indices: 99319944--99319977 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
99319934 TAAAAAATTT
99319944 TCCCTC TCCCTC TCCCTC TCCCTC TCCCTC TCCC
1 TCCCTC TCCCTC TCCCTC TCCCTC TCCCTC TCCC
99319978 CCCATCTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
TCCCTC
Found at i:99328123 original size:7 final size:7
Alignment explanation
Indices: 99328111--99328140 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
99328101 AATAAGAACT
99328111 GATTTGG
1 GATTTGG
99328118 GATTTGG
1 GATTTGG
*
99328125 AATTTGG
1 GATTTGG
99328132 GATTTGG
1 GATTTGG
99328139 GA
1 GA
99328141 AAAGGGTCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (7 bp):
GATTTGG
Found at i:99332421 original size:32 final size:32
Alignment explanation
Indices: 99332359--99332421 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
99332349 CACACAGTTC
* * *
99332359 GATAAATATCAGAGCTGGAACAATCTGGTATG
1 GATAAATATCAGACCAGGAACAATCAGGTATG
* *
99332391 GATAAATATCAGACCAGTAATAATCAGGTAT
1 GATAAATATCAGACCAGGAACAATCAGGTAT
99332422 ACTTAACAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (32 bp):
GATAAATATCAGACCAGGAACAATCAGGTATG
Found at i:99347149 original size:340 final size:340
Alignment explanation
Indices: 99346529--99347210 Score: 1364
Period size: 340 Copynumber: 2.0 Consensus size: 340
99346519 TGGGTTTTCT
99346529 TTATTTCTCTTTTTCGTTTTTTGGGATCAGAGTTTTCCAAGTGAAGGCTTTCCTTTATTCTTCCT
1 TTATTTCTCTTTTTCGTTTTTTGGGATCAGAGTTTTCCAAGTGAAGGCTTTCCTTTATTCTTCCT
99346594 TTGCTTCACTAACCTTTGAAAGAAATAAAAACCCGACTGTTCTTTCTCTCTTATGGTTATTTTAA
66 TTGCTTCACTAACCTTTGAAAGAAATAAAAACCCGACTGTTCTTTCTCTCTTATGGTTATTTTAA
99346659 CTTCTTGGATAGCAATACTAGATTCTGAAAAATAAGATTTTCTTTCAAAGATGAAAAATATTGGT
131 CTTCTTGGATAGCAATACTAGATTCTGAAAAATAAGATTTTCTTTCAAAGATGAAAAATATTGGT
99346724 GTATGTTTTAAGAATGAAGATTGATTCTCAACAGCTATGCTTCTTCAGTTTCTAGCTTTTCCATT
196 GTATGTTTTAAGAATGAAGATTGATTCTCAACAGCTATGCTTCTTCAGTTTCTAGCTTTTCCATT
99346789 ACAGGAGGGTGTTGAAAATATGACAAAATTTCGATTCAAAGCCAGGTTCTTTTTCACATTTTTCA
261 ACAGGAGGGTGTTGAAAATATGACAAAATTTCGATTCAAAGCCAGGTTCTTTTTCACATTTTTCA
99346854 TGACTTTGGGCATGA
326 TGACTTTGGGCATGA
99346869 TTATTTCTCTTTTTCGTTTTTTGGGATCAGAGTTTTCCAAGTGAAGGCTTTCCTTTATTCTTCCT
1 TTATTTCTCTTTTTCGTTTTTTGGGATCAGAGTTTTCCAAGTGAAGGCTTTCCTTTATTCTTCCT
99346934 TTGCTTCACTAACCTTTGAAAGAAATAAAAACCCGACTGTTCTTTCTCTCTTATGGTTATTTTAA
66 TTGCTTCACTAACCTTTGAAAGAAATAAAAACCCGACTGTTCTTTCTCTCTTATGGTTATTTTAA
99346999 CTTCTTGGATAGCAATACTAGATTCTGAAAAATAAGATTTTCTTTCAAAGATGAAAAATATTGGT
131 CTTCTTGGATAGCAATACTAGATTCTGAAAAATAAGATTTTCTTTCAAAGATGAAAAATATTGGT
99347064 GTATGTTTTAAGAATGAAGATTGATTCTCAACAGCTATGCTTCTTCAGTTTCTAGCTTTTCCATT
196 GTATGTTTTAAGAATGAAGATTGATTCTCAACAGCTATGCTTCTTCAGTTTCTAGCTTTTCCATT
99347129 ACAGGAGGGTGTTGAAAATATGACAAAATTTCGATTCAAAGCCAGGTTCTTTTTCACATTTTTCA
261 ACAGGAGGGTGTTGAAAATATGACAAAATTTCGATTCAAAGCCAGGTTCTTTTTCACATTTTTCA
99347194 TGACTTTGGGCATGA
326 TGACTTTGGGCATGA
99347209 TT
1 TT
99347211 GTTGTAGTTA
Statistics
Matches: 342, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
340 342 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (340 bp):
TTATTTCTCTTTTTCGTTTTTTGGGATCAGAGTTTTCCAAGTGAAGGCTTTCCTTTATTCTTCCT
TTGCTTCACTAACCTTTGAAAGAAATAAAAACCCGACTGTTCTTTCTCTCTTATGGTTATTTTAA
CTTCTTGGATAGCAATACTAGATTCTGAAAAATAAGATTTTCTTTCAAAGATGAAAAATATTGGT
GTATGTTTTAAGAATGAAGATTGATTCTCAACAGCTATGCTTCTTCAGTTTCTAGCTTTTCCATT
ACAGGAGGGTGTTGAAAATATGACAAAATTTCGATTCAAAGCCAGGTTCTTTTTCACATTTTTCA
TGACTTTGGGCATGA
Found at i:99353837 original size:13 final size:13
Alignment explanation
Indices: 99353821--99353846 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99353811 AAACTCTTAA
99353821 AAGAAACATCATC
1 AAGAAACATCATC
99353834 AAGAAACATCATC
1 AAGAAACATCATC
99353847 GTTTCAAATT
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:0.54, C:0.23, G:0.08, T:0.15
Consensus pattern (13 bp):
AAGAAACATCATC
Found at i:99371814 original size:2 final size:2
Alignment explanation
Indices: 99371807--99371831 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
99371797 TAAATATGAA
99371807 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
99371832 AGGAAATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:99373098 original size:13 final size:13
Alignment explanation
Indices: 99373080--99373106 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
99373070 ATATATATAT
99373080 AAGAAACAAAAGA
1 AAGAAACAAAAGA
99373093 AAGAAACAAAAGA
1 AAGAAACAAAAGA
99373106 A
1 A
99373107 TAAAAAGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.07, G:0.15, T:0.00
Consensus pattern (13 bp):
AAGAAACAAAAGA
Found at i:99374539 original size:21 final size:21
Alignment explanation
Indices: 99374504--99374599 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
99374494 AGGCACTTTA
99374504 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
99374527 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
99374548 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * * **
99374569 TATGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
99374590 TGTGTCGTAT
1 TGTGTCGTAT
99374600 ACTGATCAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
21 56 0.86
23 9 0.14
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:99374575 original size:42 final size:42
Alignment explanation
Indices: 99374491--99374599 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 42
99374481 GGCTTTATCG
* * *
99374491 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTA--TCAGGCACCTCGTATGTCGT
*
99374535 ATCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTATGTCGT
1 ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTATGTCGT
* * * *
99374577 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
99374600 ACTGATCAGG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 37 0.66
44 19 0.34
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.36
Consensus pattern (42 bp):
ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTATGTCGT
Found at i:99374782 original size:18 final size:19
Alignment explanation
Indices: 99374761--99374801 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
99374751 AATGAAATGA
99374761 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
99374779 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
99374798 GAAA
1 GAAA
99374802 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:99380649 original size:16 final size:15
Alignment explanation
Indices: 99380619--99380660 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
99380609 TTATTTACCA
99380619 AATTAATTT-TAATT
1 AATTAATTTCTAATT
99380633 AATTAATTTTCTAATT
1 AATTAA-TTTCTAATT
*
99380649 AAATAAGTTTCT
1 AATTAA-TTTCT
99380661 CAACTCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 6 0.25
15 3 0.12
16 15 0.62
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (15 bp):
AATTAATTTCTAATT
Found at i:99382285 original size:17 final size:17
Alignment explanation
Indices: 99382263--99382296 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
99382253 ATTTTGAATT
99382263 TTTTTCCAATTTTTTTA
1 TTTTTCCAATTTTTTTA
**
99382280 TTTTTCTTATTTTTTTA
1 TTTTTCCAATTTTTTTA
99382297 GATTATATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCCAATTTTTTTA
Found at i:99383312 original size:21 final size:22
Alignment explanation
Indices: 99383283--99383328 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
99383273 CGATTAATTT
99383283 CAAGATTTGTCAAAAGTTTTGG
1 CAAGATTTGTCAAAAGTTTTGG
99383305 CAAG-TTTGTCAAAAGTTTTGG
1 CAAGATTTGTCAAAAGTTTTGG
99383326 CAA
1 CAA
99383329 ACCCCGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.35
Consensus pattern (22 bp):
CAAGATTTGTCAAAAGTTTTGG
Found at i:99389277 original size:21 final size:21
Alignment explanation
Indices: 99389251--99389291 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
99389241 AGACGAGCAA
* *
99389251 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
99389272 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
99389292 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:99400050 original size:23 final size:23
Alignment explanation
Indices: 99400020--99400069 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
99400010 AGGTGGGAGT
* * *
99400020 TTCAGCGCTTTCTGCGTGTTATA
1 TTCAGCGCCTTATGCGTGTTACA
*
99400043 TTCAGCGCCTTATGTGTGTTACA
1 TTCAGCGCCTTATGCGTGTTACA
99400066 TTCA
1 TTCA
99400070 ACGTTATATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (23 bp):
TTCAGCGCCTTATGCGTGTTACA
Found at i:99400320 original size:28 final size:28
Alignment explanation
Indices: 99400263--99400323 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
99400253 CAAAACTTAT
* **
99400263 TTTTATTTAATTATAATATATTTTTTAA
1 TTTTATTTAATTATAAAATATTTTAAAA
*
99400291 TTTTATTTTATTA-AAAATATTTATAAAA
1 TTTTATTTAATTATAAAATATTT-TAAAA
99400319 TTTTA
1 TTTTA
99400324 CAAATATAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTATTTAATTATAAAATATTTTAAAA
Found at i:99401003 original size:12 final size:13
Alignment explanation
Indices: 99400981--99401030 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
99400971 ACATTAAGAG
99400981 GTTTTTGAAAAAA
1 GTTTTTGAAAAAA
99400994 GTTTTT--AAAAA
1 GTTTTTGAAAAAA
* *
99401005 GTTCTATAGAAAAAT
1 GTT-T-TTGAAAAAA
99401020 GTTTTTGAAAA
1 GTTTTTGAAAA
99401031 TTTTAGTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
11 8 0.27
12 1 0.03
13 13 0.43
14 1 0.03
15 7 0.23
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (13 bp):
GTTTTTGAAAAAA
Found at i:99402675 original size:39 final size:39
Alignment explanation
Indices: 99402620--99402698 Score: 133
Period size: 39 Copynumber: 2.0 Consensus size: 39
99402610 CAAGACATGG
*
99402620 TTTATTCCTTTCATCTAAGGA-ACAAAATTTAACTATCAA
1 TTTATTCCTTTAATCTAA-GATACAAAATTTAACTATCAA
99402659 TTTATTCCTTTAATCTAAGATACAAAATTTAACTATCAA
1 TTTATTCCTTTAATCTAAGATACAAAATTTAACTATCAA
99402698 T
1 T
99402699 CATTGGAACA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 2 0.05
39 36 0.95
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (39 bp):
TTTATTCCTTTAATCTAAGATACAAAATTTAACTATCAA
Found at i:99406483 original size:680 final size:680
Alignment explanation
Indices: 99405183--99406546 Score: 2728
Period size: 680 Copynumber: 2.0 Consensus size: 680
99405173 GACAGAAAGC
99405183 ATGTCTAAGAATGTATGAATTAAGATGCTTACTCTAAGCTATGTTTCTAGCTTATGGTAATTGAC
1 ATGTCTAAGAATGTATGAATTAAGATGCTTACTCTAAGCTATGTTTCTAGCTTATGGTAATTGAC
99405248 ATTACCAAAACTTTATGTAAAGTAAATTGTGTCTCTAGGTAACTAAACCAAGCGTTTCACATTTC
66 ATTACCAAAACTTTATGTAAAGTAAATTGTGTCTCTAGGTAACTAAACCAAGCGTTTCACATTTC
99405313 AAAGAGAATGCCTAAATTGCGAGAAAAAAAATTCTCATCACTAGCGCAAAATATCATATGTTTAA
131 AAAGAGAATGCCTAAATTGCGAGAAAAAAAATTCTCATCACTAGCGCAAAATATCATATGTTTAA
99405378 GAACTAATTAGACTATCATTCAAAGCAAAATATAATCCTCATCAAGGGTCCACTTTTAAGACCGA
196 GAACTAATTAGACTATCATTCAAAGCAAAATATAATCCTCATCAAGGGTCCACTTTTAAGACCGA
99405443 AACCCTAATGGTAATCTAGAATTATCCTATTAGTTATCAAAATTGCAATTTTGATCATAAAATTT
261 AACCCTAATGGTAATCTAGAATTATCCTATTAGTTATCAAAATTGCAATTTTGATCATAAAATTT
99405508 ATTCTAGAATCTAGATTGACGTCCGAGGGTATTAATTAATGCAAACAGAAAACAAAGAAATACCT
326 ATTCTAGAATCTAGATTGACGTCCGAGGGTATTAATTAATGCAAACAGAAAACAAAGAAATACCT
99405573 TGAATTTGGCTTGTTTTAGTATGGGGGCATCCCCAGTTGCTCTCAAATGGACAACAACTGCATCA
391 TGAATTTGGCTTGTTTTAGTATGGGGGCATCCCCAGTTGCTCTCAAATGGACAACAACTGCATCA
99405638 AATCGAAAATCAAAATAAAATGAAATAGTTAGGGGAAAATCACTTTACAAAAGAAAACCCCAAGA
456 AATCGAAAATCAAAATAAAATGAAATAGTTAGGGGAAAATCACTTTACAAAAGAAAACCCCAAGA
99405703 TTTTACGCCCAATTACAGAGTTTGATCATCGAAACGAGACATCGAGAAACTAAGGTTTAACGGTT
521 TTTTACGCCCAATTACAGAGTTTGATCATCGAAACGAGACATCGAGAAACTAAGGTTTAACGGTT
99405768 GGCTTCGATAATGGACCTTTTCGTGCTGAATTGGGAGACTTAGCTGCCATGATTACCTGAGCTAA
586 GGCTTCGATAATGGACCTTTTCGTGCTGAATTGGGAGACTTAGCTGCCATGATTACCTGAGCTAA
99405833 AACACGAATCCCTTTTTAAAAAAATAAGGG
651 AACACGAATCCCTTTTTAAAAAAATAAGGG
99405863 ATGTCTAAGAATGTATGAATTAAGATGCTTACTCTAAGCTATGTTTCTAGCTTATGGTAATTGAC
1 ATGTCTAAGAATGTATGAATTAAGATGCTTACTCTAAGCTATGTTTCTAGCTTATGGTAATTGAC
99405928 ATTACCAAAACTTTATGTAAAGTAAATTGTGTCTCTAGGTAACTAAACCAAGCGTTTCACATTTC
66 ATTACCAAAACTTTATGTAAAGTAAATTGTGTCTCTAGGTAACTAAACCAAGCGTTTCACATTTC
99405993 AAAGAGAATGCCTAAATTGCGAGAAAAAAAATTCTCATCACTAGCGCAAAATATCATATGTTTAA
131 AAAGAGAATGCCTAAATTGCGAGAAAAAAAATTCTCATCACTAGCGCAAAATATCATATGTTTAA
99406058 GAACTAATTAGACTATCATTCAAAGCAAAATATAATCCTCATCAAGGGTCCACTTTTAAGACCGA
196 GAACTAATTAGACTATCATTCAAAGCAAAATATAATCCTCATCAAGGGTCCACTTTTAAGACCGA
99406123 AACCCTAATGGTAATCTAGAATTATCCTATTAGTTATCAAAATTGCAATTTTGATCATAAAATTT
261 AACCCTAATGGTAATCTAGAATTATCCTATTAGTTATCAAAATTGCAATTTTGATCATAAAATTT
99406188 ATTCTAGAATCTAGATTGACGTCCGAGGGTATTAATTAATGCAAACAGAAAACAAAGAAATACCT
326 ATTCTAGAATCTAGATTGACGTCCGAGGGTATTAATTAATGCAAACAGAAAACAAAGAAATACCT
99406253 TGAATTTGGCTTGTTTTAGTATGGGGGCATCCCCAGTTGCTCTCAAATGGACAACAACTGCATCA
391 TGAATTTGGCTTGTTTTAGTATGGGGGCATCCCCAGTTGCTCTCAAATGGACAACAACTGCATCA
99406318 AATCGAAAATCAAAATAAAATGAAATAGTTAGGGGAAAATCACTTTACAAAAGAAAACCCCAAGA
456 AATCGAAAATCAAAATAAAATGAAATAGTTAGGGGAAAATCACTTTACAAAAGAAAACCCCAAGA
99406383 TTTTACGCCCAATTACAGAGTTTGATCATCGAAACGAGACATCGAGAAACTAAGGTTTAACGGTT
521 TTTTACGCCCAATTACAGAGTTTGATCATCGAAACGAGACATCGAGAAACTAAGGTTTAACGGTT
99406448 GGCTTCGATAATGGACCTTTTCGTGCTGAATTGGGAGACTTAGCTGCCATGATTACCTGAGCTAA
586 GGCTTCGATAATGGACCTTTTCGTGCTGAATTGGGAGACTTAGCTGCCATGATTACCTGAGCTAA
99406513 AACACGAATCCCTTTTTAAAAAAATAAGGG
651 AACACGAATCCCTTTTTAAAAAAATAAGGG
99406543 ATGT
1 ATGT
99406547 ATTGGATTAG
Statistics
Matches: 684, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
680 684 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.29
Consensus pattern (680 bp):
ATGTCTAAGAATGTATGAATTAAGATGCTTACTCTAAGCTATGTTTCTAGCTTATGGTAATTGAC
ATTACCAAAACTTTATGTAAAGTAAATTGTGTCTCTAGGTAACTAAACCAAGCGTTTCACATTTC
AAAGAGAATGCCTAAATTGCGAGAAAAAAAATTCTCATCACTAGCGCAAAATATCATATGTTTAA
GAACTAATTAGACTATCATTCAAAGCAAAATATAATCCTCATCAAGGGTCCACTTTTAAGACCGA
AACCCTAATGGTAATCTAGAATTATCCTATTAGTTATCAAAATTGCAATTTTGATCATAAAATTT
ATTCTAGAATCTAGATTGACGTCCGAGGGTATTAATTAATGCAAACAGAAAACAAAGAAATACCT
TGAATTTGGCTTGTTTTAGTATGGGGGCATCCCCAGTTGCTCTCAAATGGACAACAACTGCATCA
AATCGAAAATCAAAATAAAATGAAATAGTTAGGGGAAAATCACTTTACAAAAGAAAACCCCAAGA
TTTTACGCCCAATTACAGAGTTTGATCATCGAAACGAGACATCGAGAAACTAAGGTTTAACGGTT
GGCTTCGATAATGGACCTTTTCGTGCTGAATTGGGAGACTTAGCTGCCATGATTACCTGAGCTAA
AACACGAATCCCTTTTTAAAAAAATAAGGG
Found at i:99406624 original size:45 final size:44
Alignment explanation
Indices: 99406560--99406654 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 44
99406550 GGATTAGAGG
* *
99406560 TGTAATGGAATAGATGTGTAATAG-CAAATTAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGTAAAATT--CTGTTTGGTTGAA
*
99406605 TGTAATGGAATAGAGGTGTAATAGTAAAATTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGTAAAATTCTGTTTGGTTGAA
99406649 TGTAAT
1 TGTAAT
99406655 AGAGGTGTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 18 0.39
45 23 0.50
46 5 0.11
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (44 bp):
TGTAATGGAATAGAGGTGTAATAGTAAAATTCTGTTTGGTTGAA
Found at i:99406837 original size:18 final size:17
Alignment explanation
Indices: 99406816--99406850 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
99406806 TTATTATTTA
*
99406816 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
99406834 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
99406851 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:99406844 original size:28 final size:27
Alignment explanation
Indices: 99406774--99406846 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
99406764 TTTATTATCA
*
99406774 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
99406802 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
99406829 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
99406847 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:99406984 original size:18 final size:17
Alignment explanation
Indices: 99406963--99406997 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
99406953 TTATTATTAA
*
99406963 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
99406981 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
99406998 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:99407009 original size:147 final size:149
Alignment explanation
Indices: 99406735--99407009 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
99406725 ATGATTATTG
*
99406735 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
99406800 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
99406865 AGAAATTTCTTTTGGTAAA
131 AGAAATTTCTTTTGGTAAA
*
99406884 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
99406947 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
99407010 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTCTTTTGGTAAA
Found at i:99407043 original size:61 final size:60
Alignment explanation
Indices: 99406978--99407165 Score: 174
Period size: 61 Copynumber: 3.1 Consensus size: 60
99406968 TTTTAATTAA
99406978 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATGTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAAT-TACTCAAATCAT
* * ** * * *
99407039 AATATATGATACTGTAA-AATATAAATTAA-AA-TAATAATTATTAAAT-ATATTA-T--AATTA
1 AATATAT-A-A-TTTAATAAAAT-TCTTAATAATTAAT-ATTCTTATATGA-ATTACTCAAATCA
*
99407097 A
60 T
*
99407098 AATATATAATTTAATAAAATTCTTAATAATTAATAGTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAA-TTACTCAAATCAT
99407159 AATATAT
1 AATATAT
99407166 GATACTATAA
Statistics
Matches: 96, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 8 0.08
57 15 0.16
58 9 0.09
59 12 0.12
61 19 0.20
62 8 0.08
63 17 0.18
64 8 0.08
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.41
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTACTCAAATCAT
Found at i:99407084 original size:120 final size:120
Alignment explanation
Indices: 99406941--99407238 Score: 483
Period size: 120 Copynumber: 2.5 Consensus size: 120
99406931 ATTTAATCAT
*
99406941 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
99407006 ATTAATATTCTTATATGAATGTACTCAAATCATAATATATGATACTGTAAAATATAA
65 ATTAATAGTCTTATATGAATGTACTCAAATCATAATATATGATACTATAAAAGA-AA
*
99407063 A-TTAAAATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
99407127 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 TTAATAGTCTTATATGAATGTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
99407182 ATTTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
99407239 TAAAATAATT
Statistics
Matches: 165, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
119 3 0.02
120 153 0.93
121 8 0.05
122 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.42
Consensus pattern (120 bp):
ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATAGTCTTATATGAATGTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:99407102 original size:16 final size:16
Alignment explanation
Indices: 99407062--99407107 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
99407052 GTAAAATATA
99407062 AATTAAAATA-ATAAT
1 AATTAAAATATATAAT
* *
99407077 TATT-AAATATATTAT
1 AATTAAAATATATAAT
99407092 AATTAAAATATATAAT
1 AATTAAAATATATAAT
99407108 TTAATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 5 0.20
15 10 0.40
16 10 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTAAAATATATAAT
Found at i:99407249 original size:54 final size:54
Alignment explanation
Indices: 99407056--99407249 Score: 144
Period size: 54 Copynumber: 3.4 Consensus size: 54
99407046 GATACTGTAA
* *
99407056 AATATAAA-TTAAAATAA-TAATTATTAAATATATTATAATTAAAATATATAATTT
1 AATA-AAATTTAAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTT
* * * *
99407110 AATAAAATTCT-TAATAATTAATAGTCT-TATATGAATTTACTCAAATCATAATATATGATACTA
1 AATAAAATT-TAAAATAATTAATA-T-TAAATAT--ATTT--T--AATTAAAATATATGAT--T-
99407173 T
54 T
* *
99407174 AAAAGAAAATTTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
1 --AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
99407230 AATAAAATTTAAAATAATTA
1 AATAAAATTTAAAATAATTA
99407250 TAACTAATAA
Statistics
Matches: 109, Mismatches: 13, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
53 3 0.03
54 30 0.28
55 9 0.08
56 2 0.02
57 4 0.04
59 15 0.14
61 14 0.13
63 5 0.05
64 2 0.02
65 6 0.06
66 19 0.17
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (54 bp):
AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
Found at i:99407976 original size:16 final size:16
Alignment explanation
Indices: 99407955--99407990 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
99407945 TAAGAAATCA
99407955 CAGCCATGTACTCCTG
1 CAGCCATGTACTCCTG
99407971 CAGCCATGTACTCCTG
1 CAGCCATGTACTCCTG
99407987 CAGC
1 CAGC
99407991 TCCTGAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.39, G:0.19, T:0.22
Consensus pattern (16 bp):
CAGCCATGTACTCCTG
Found at i:99411340 original size:27 final size:28
Alignment explanation
Indices: 99411300--99411397 Score: 94
Period size: 27 Copynumber: 3.5 Consensus size: 28
99411290 AAAAAGTAAA
*
99411300 AAAAATTACAAAAAATCATAAATAT-AT
1 AAAAATTATAAAAAATCATAAATATCAT
* *
99411327 AAAAATTATTAAAACTCA-AAAT-TCAT
1 AAAAATTATAAAAAATCATAAATATCAT
* * *
99411353 ATAAACTTATTAAAAATTATAAATAATCAT
1 A-AAAATTATAAAAAATCATAAAT-ATCAT
*
99411383 AAAAATCATAAAAAA
1 AAAAATTATAAAAAA
99411398 AAACTTATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
25 1 0.02
26 7 0.12
27 29 0.51
28 4 0.07
29 11 0.19
30 5 0.09
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (28 bp):
AAAAATTATAAAAAATCATAAATATCAT
Found at i:99411384 original size:10 final size:9
Alignment explanation
Indices: 99411363--99411396 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
99411353 ATAAACTTAT
*
99411363 TAAAAATTA
1 TAAAAATCA
99411372 TAAATAATCA
1 TAAA-AATCA
99411382 TAAAAATCA
1 TAAAAATCA
99411391 TAAAAA
1 TAAAAA
99411397 AAAACTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (9 bp):
TAAAAATCA
Found at i:99411411 original size:33 final size:34
Alignment explanation
Indices: 99411364--99411435 Score: 96
Period size: 33 Copynumber: 2.1 Consensus size: 34
99411354 TAAACTTATT
99411364 AAAAATTATAAAT-AATCATAAAAA-TCATAA-AA
1 AAAAATTATAAATAAAT-ATAAAAATTCATAATAA
*
99411396 AAAAACTTATAAATAAATATAAAAATTTATAATAA
1 AAAAA-TTATAAATAAATATAAAAATTCATAATAA
99411431 AAAAA
1 AAAAA
99411436 ACTAAAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
32 5 0.14
33 15 0.43
34 8 0.23
35 7 0.20
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.26
Consensus pattern (34 bp):
AAAAATTATAAATAAATATAAAAATTCATAATAA
Found at i:99433417 original size:46 final size:46
Alignment explanation
Indices: 99433341--99433571 Score: 320
Period size: 46 Copynumber: 5.0 Consensus size: 46
99433331 TGATGTCATA
* * *
99433341 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATGTCATGTTGCCATG
* *
99433387 GTATCTTTCAACCATGGTCTTATTCATTTTCCTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATG
*
99433434 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* * * *
99433480 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTCCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* * *
99433526 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
99433572 CTAGCTGGAT
Statistics
Matches: 169, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
46 129 0.76
47 40 0.24
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
Found at i:99436171 original size:23 final size:23
Alignment explanation
Indices: 99436117--99436174 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
99436107 CTAAATAACT
* *
99436117 CAAACATTCAATCTAACCTTTAA
1 CAAACATTCAATCCAACCTTGAA
* * *
99436140 AAAAAATTCAATCCAATCTTGAA
1 CAAACATTCAATCCAACCTTGAA
99436163 CAAACATTCAAT
1 CAAACATTCAAT
99436175 ACATAATCGC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.48, C:0.22, G:0.02, T:0.28
Consensus pattern (23 bp):
CAAACATTCAATCCAACCTTGAA
Found at i:99440585 original size:6 final size:6
Alignment explanation
Indices: 99440576--99440658 Score: 166
Period size: 6 Copynumber: 13.8 Consensus size: 6
99440566 AGGCTTAGGC
99440576 CTATGG CTATGG CTATGG CTATGG CTATGG CTATGG CTATGG CTATGG
1 CTATGG CTATGG CTATGG CTATGG CTATGG CTATGG CTATGG CTATGG
99440624 CTATGG CTATGG CTATGG CTATGG CTATGG CTATG
1 CTATGG CTATGG CTATGG CTATGG CTATGG CTATG
99440659 AGTAGTGTAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 77 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.34
Consensus pattern (6 bp):
CTATGG
Found at i:99442923 original size:20 final size:21
Alignment explanation
Indices: 99442865--99442931 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
99442855 ATTGTGAAAT
* *
99442865 AATAATAAAATAGTAGAAAAAA
1 AATAATAAAA-AATAGTAAAAA
* * *
99442887 AACAACAAAAAATAGTAAGAA
1 AATAATAAAAAATAGTAAAAA
99442908 AATAATAAAAAA-AGTAAAAA
1 AATAATAAAAAATAGTAAAAA
99442928 AATA
1 AATA
99442932 GCAATTTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 11 0.30
21 18 0.49
22 8 0.22
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (21 bp):
AATAATAAAAAATAGTAAAAA
Found at i:99443576 original size:58 final size:58
Alignment explanation
Indices: 99443509--99443620 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
99443499 TTATTAGTTT
* * * ** *
99443509 AAATTAGGCCTTAAACTTGATAACTGTTCTTACATTGGGACCTAAACTTTTTTTGTCC
1 AAATTAGGCCATAAACTTGACAAATGTTCCCACATTGGAACCTAAACTTTTTTTGTCC
* *
99443567 AAATTAGGCCATAAACTTGACAAATGTTCCCACATTGGAACTTGAACTTTTTTT
1 AAATTAGGCCATAAACTTGACAAATGTTCCCACATTGGAACCTAAACTTTTTTT
99443621 TTTATCTAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (58 bp):
AAATTAGGCCATAAACTTGACAAATGTTCCCACATTGGAACCTAAACTTTTTTTGTCC
Found at i:99448288 original size:21 final size:21
Alignment explanation
Indices: 99448263--99448305 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
99448253 ACATCACTAA
99448263 TTTTAATTTCACCGTCAATAT
1 TTTTAATTTCACCGTCAATAT
99448284 TTTTAATTTCACCGTCAATAT
1 TTTTAATTTCACCGTCAATAT
99448305 T
1 T
99448306 ATTTTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.19, G:0.05, T:0.49
Consensus pattern (21 bp):
TTTTAATTTCACCGTCAATAT
Found at i:99453327 original size:22 final size:21
Alignment explanation
Indices: 99453299--99453341 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
99453289 AAAATGATAG
99453299 TTTAAATATTA-AAATTGAATTT
1 TTTAAATA-TACAAATT-AATTT
99453321 TTTAAATATACAAATTAATTT
1 TTTAAATATACAAATTAATTT
99453342 AGATTATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTAAATATACAAATTAATTT
Found at i:99454077 original size:14 final size:13
Alignment explanation
Indices: 99454059--99454084 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99454049 TGAACAATCA
99454059 AAAAAATTTAATT
1 AAAAAATTTAATT
99454072 AAAAAATTTAATT
1 AAAAAATTTAATT
99454085 TATGTCAAAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAAAATTTAATT
Found at i:99454165 original size:3 final size:3
Alignment explanation
Indices: 99454157--99454182 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
99454147 ATTCCCACTT
99454157 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
99454183 TGGCCTTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:99458458 original size:27 final size:28
Alignment explanation
Indices: 99458410--99458489 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 28
99458400 TTTTAATTTT
* *
99458410 TATTAAAAATATTTATATTATATTTTTTA-A
1 TATTGAAAAT-TTT-TA-TATATTTTTCATA
* *
99458440 TATTTAATAA-TTTTATATATTTTTCATT
1 TATTGAA-AATTTTTATATATTTTTCATA
99458468 TATTGAAAATTTTTATATATTT
1 TATTGAAAATTTTTATATATTT
99458490 AGTATAGGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
27 12 0.28
28 20 0.47
29 3 0.07
30 6 0.14
31 2 0.05
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (28 bp):
TATTGAAAATTTTTATATATTTTTCATA
Found at i:99463360 original size:19 final size:19
Alignment explanation
Indices: 99463305--99463360 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
99463295 CTTTAGACAT
* *
99463305 TCCAAACCCATAGATCATA
1 TCCAGACCCACAGATCATA
* * *
99463324 GCCGGACCCTCA-AGTCATA
1 TCCAGACCCACAGA-TCATA
99463343 TCCAGACCCACAGATCAT
1 TCCAGACCCACAGATCAT
99463361 CTTTAGTCCC
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
18 1 0.04
19 25 0.93
20 1 0.04
ACGTcount: A:0.34, C:0.36, G:0.12, T:0.18
Consensus pattern (19 bp):
TCCAGACCCACAGATCATA
Found at i:99478875 original size:11 final size:11
Alignment explanation
Indices: 99478842--99478878 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
99478832 AAAAAAAAAC
99478842 TTGCTACTGTT
1 TTGCTACTGTT
99478853 TT--TACTGTT
1 TTGCTACTGTT
*
99478862 TTGCTACCGTT
1 TTGCTACTGTT
99478873 TTGCTA
1 TTGCTA
99478879 TTACATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 9 0.39
11 14 0.61
ACGTcount: A:0.11, C:0.19, G:0.16, T:0.54
Consensus pattern (11 bp):
TTGCTACTGTT
Found at i:99479654 original size:32 final size:33
Alignment explanation
Indices: 99479617--99479689 Score: 96
Period size: 32 Copynumber: 2.2 Consensus size: 33
99479607 CATATTTTAC
*
99479617 AAAATATTTTCAAA-AAATTTATCAAACAAC-AA
1 AAAATATTTT-AAACAAATTCATCAAACAACTAA
**
99479649 AAAATATTTTAAACAAATTCATCAAAGTACTAA
1 AAAATATTTTAAACAAATTCATCAAACAACTAA
99479682 AAAATATT
1 AAAATATT
99479690 AATTTTTCCG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 3 0.08
32 23 0.64
33 10 0.28
ACGTcount: A:0.58, C:0.11, G:0.01, T:0.30
Consensus pattern (33 bp):
AAAATATTTTAAACAAATTCATCAAACAACTAA
Found at i:99483195 original size:14 final size:15
Alignment explanation
Indices: 99483170--99483199 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
99483160 CTTTGTTTCT
99483170 TTTTCATTTATTTTA
1 TTTTCATTTATTTTA
99483185 TTTTC-TTTATTTTA
1 TTTTCATTTATTTTA
99483199 T
1 T
99483200 ATACATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTCATTTATTTTA
Found at i:99484118 original size:19 final size:19
Alignment explanation
Indices: 99484094--99484131 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
99484084 TTGAGATTGC
99484094 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
99484113 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
99484132 TATTCATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:99484225 original size:6 final size:7
Alignment explanation
Indices: 99484207--99484232 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
99484197 CACTCCCTTT
99484207 TAAAAAA
1 TAAAAAA
99484214 TAAAAAA
1 TAAAAAA
99484221 TAAAAAA
1 TAAAAAA
99484228 TAAAA
1 TAAAA
99484233 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:99486022 original size:42 final size:42
Alignment explanation
Indices: 99485971--99486302 Score: 355
Period size: 42 Copynumber: 7.9 Consensus size: 42
99485961 GTTTACAAAC
* *
99485971 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
99486013 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
99486055 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AA
* * * *
99486097 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* *
99486139 AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-A
* * * ****
99486181 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-CTTAGAA
** * * * ****
99486224 CTAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
99486265 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
99486303 TTATACAAAA
Statistics
Matches: 251, Mismatches: 33, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
41 39 0.16
42 178 0.71
43 34 0.14
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:99486123 original size:126 final size:126
Alignment explanation
Indices: 99485982--99486218 Score: 404
Period size: 126 Copynumber: 1.9 Consensus size: 126
99485972 AAAACGCCGT
* *
99485982 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGC
1 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGAGGC
99486047 GCTT-AGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
66 GCTTAAG-AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
*
99486108 TAAAGACCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAACATGTTCTTTAGAGGC
1 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGAGGC
** *
99486173 GCTTAAGGGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
66 GCTTAAGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTT
99486219 TTTTTCTAAT
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
126 102 0.98
127 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (126 bp):
TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGAGGC
GCTTAAGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
Found at i:99486393 original size:14 final size:14
Alignment explanation
Indices: 99486370--99486403 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
99486360 GCCCTCCTGT
*
99486370 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
99486384 AGCAACATTTCAAA
1 AGCAACATTTCAAA
99486398 AGCAAC
1 AGCAAC
99486404 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:99486695 original size:21 final size:21
Alignment explanation
Indices: 99486627--99486697 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
99486617 TTTTGCTCTG
* *
99486627 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
99486648 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
99486669 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
99486690 CTCTGCTT
1 CTCTGCTT
99486698 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:99488505 original size:18 final size:18
Alignment explanation
Indices: 99488482--99488646 Score: 69
Period size: 18 Copynumber: 9.5 Consensus size: 18
99488472 AATTGCAATG
99488482 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
99488500 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
99488518 GTAAGTTAAATGTAAG-T-T
1 GTAAGTT--ATGTAAGTTAT
*
99488536 GTAAGTTAT-TATGTATTAT
1 GTAAGTTATGTAAG--TTAT
99488555 GTAAG-T-TGTAAGTTAAAT
1 GTAAGTTATGTAAGTT--AT
*
99488573 GT-A-TTGTGTAAG-T-T
1 GTAAGTTATGTAAGTTAT
99488587 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
99488605 GTAAG-T-TGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
*
99488621 -TATGTATTATGTAAG-T-T
1 GTAAG--TTATGTAAGTTAT
99488638 GTAAGTTAT
1 GTAAGTTAT
99488647 TATGTATTGT
Statistics
Matches: 116, Mismatches: 5, Indels: 54
0.66 0.03 0.31
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 14 0.12
17 8 0.07
18 61 0.53
19 15 0.13
20 4 0.03
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (18 bp):
GTAAGTTATGTAAGTTAT
Found at i:99488530 original size:11 final size:9
Alignment explanation
Indices: 99488482--99488646 Score: 69
Period size: 7 Copynumber: 19.0 Consensus size: 9
99488472 AATTGCAATG
99488482 GTAAGTTAT
1 GTAAGTTAT
99488491 GTAAGTTAT
1 GTAAGTTAT
99488500 GTAAGTTAAAT
1 GTAAGTT--AT
99488511 GT-A-TTAT
1 GTAAGTTAT
99488518 GTAAGTTAAAT
1 GTAAGTT--AT
99488529 GTAAG-T-T
1 GTAAGTTAT
99488536 GTAAGTTAT
1 GTAAGTTAT
*
99488545 -TATGTATTAT
1 GTAAG--TTAT
99488555 GTAAG-T-T
1 GTAAGTTAT
99488562 GTAAGTTAAAT
1 GTAAGTT--AT
*
99488573 GT-A-TTGT
1 GTAAGTTAT
99488580 GTAAG-T-T
1 GTAAGTTAT
99488587 GTAAGTTAAAT
1 GTAAGTT--AT
99488598 GT-A-TTAT
1 GTAAGTTAT
99488605 GTAAG-T-T
1 GTAAGTTAT
99488612 GTAAGTTAT
1 GTAAGTTAT
*
99488621 -TATGTATTAT
1 GTAAG--TTAT
99488631 GTAAG-T-T
1 GTAAGTTAT
99488638 GTAAGTTAT
1 GTAAGTTAT
99488647 TATGTATTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 60
0.65 0.03 0.32
Matches are distributed among these distances:
7 41 0.34
8 18 0.15
9 27 0.22
10 12 0.10
11 23 0.19
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:99488557 original size:19 final size:19
Alignment explanation
Indices: 99488496--99488792 Score: 78
Period size: 19 Copynumber: 15.6 Consensus size: 19
99488486 GTTATGTAAG
*
99488496 TTATGTAAGTTA-AATGTA
1 TTATGTAAGTTATTATGTA
*
99488514 TTATGTAAGTTA-AATGTAA
1 TTATGTAAGTTATTATGT-A
*
99488533 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
99488551 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
*
99488576 TTGTGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
* *
99488601 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
99488617 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
99488635 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
*
99488653 TTGTGTAAGTTGCAAGTTAAATGTA
1 TTATGTAAGTT---A-TT--ATGTA
* *
99488678 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
99488694 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
99488712 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
* * *
99488730 TTGTGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
99488746 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
99488764 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
*
99488782 TTGTGTAAGTT
1 TTATGTAAGTT
99488793 GTAAGTTAAA
Statistics
Matches: 212, Mismatches: 31, Indels: 71
0.68 0.10 0.23
Matches are distributed among these distances:
14 3 0.01
15 18 0.08
16 11 0.05
17 3 0.01
18 53 0.25
19 60 0.28
20 3 0.01
21 1 0.00
22 2 0.01
23 5 0.02
24 1 0.00
25 52 0.25
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (19 bp):
TTATGTAAGTTATTATGTA
Done.