Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 145 of 214
Found at i:43511217 original size:7 final size:7
Alignment explanation
Indices: 43511207--43511232 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
43511197 TTATATACAT
43511207 AATACTA
1 AATACTA
43511214 AATACTA
1 AATACTA
43511221 AATACTA
1 AATACTA
43511228 AATAC
1 AATAC
43511233 CAATCGACTA
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:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:43512471 original size:11 final size:11
Alignment explanation
Indices: 43512455--43512485 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
43512445 ATTTGGAAGG
43512455 AAATTGAGAGC
1 AAATTGAGAGC
*
43512466 AAATTGAGAGG
1 AAATTGAGAGC
43512477 AAATTGAGA
1 AAATTGAGA
43512486 AAATAATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.48, C:0.03, G:0.29, T:0.19
Consensus pattern (11 bp):
AAATTGAGAGC
Found at i:43513001 original size:2 final size:2
Alignment explanation
Indices: 43512994--43513022 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
43512984 CCTTCCTCGT
43512994 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43513023 GCTCACAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43513321 original size:30 final size:29
Alignment explanation
Indices: 43513257--43513324 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
43513247 TTTGAAATTT
* *
43513257 GAAATTTAATTTTTATATTTTTATTTTCA
1 GAAATTTAATTTTTATATTTTTAATGTCA
43513286 GAAATTTAATTTCTT-TAATTTTTAAATGTCA
1 GAAATTTAATTT-TTAT-ATTTTT-AATGTCA
43513317 -AAATTTAA
1 GAAATTTAA
43513325 ATTTAACTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 13 0.38
30 16 0.47
31 5 0.15
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (29 bp):
GAAATTTAATTTTTATATTTTTAATGTCA
Found at i:43513921 original size:10 final size:9
Alignment explanation
Indices: 43513892--43513933 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
43513882 ACTACTATTC
43513892 TTTTTACTT
1 TTTTTACTT
*
43513901 TTTTTTC-T
1 TTTTTACTT
43513909 TTTTTACTGT
1 TTTTTACT-T
43513919 TTTTTACTAT
1 TTTTTACT-T
43513929 TTTTT
1 TTTTT
43513934 TGTTGCTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
8 7 0.25
9 6 0.21
10 15 0.54
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.79
Consensus pattern (9 bp):
TTTTTACTT
Found at i:43513944 original size:23 final size:23
Alignment explanation
Indices: 43513918--43513963 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
43513908 TTTTTTACTG
* *
43513918 TTTTTTACTATTTTTTTGTTGCT
1 TTTTTTACTACTATTTTGTTGCT
*
43513941 TTTTTTGCTACTATTTTGTTGCT
1 TTTTTTACTACTATTTTGTTGCT
43513964 ATTATTTGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.09, C:0.11, G:0.11, T:0.70
Consensus pattern (23 bp):
TTTTTTACTACTATTTTGTTGCT
Found at i:43515163 original size:20 final size:20
Alignment explanation
Indices: 43515130--43515179 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
43515120 GGTTTGGAGT
**
43515130 TCAGGGTTTGGGGTTCAAGG
1 TCAGGGTTCAGGGTTCAAGG
***
43515150 TCAGGGTTCAGGGTTTGGGG
1 TCAGGGTTCAGGGTTCAAGG
43515170 TCAGGGTTCA
1 TCAGGGTTCA
43515180 ATGTAAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.14, C:0.12, G:0.44, T:0.30
Consensus pattern (20 bp):
TCAGGGTTCAGGGTTCAAGG
Found at i:43515173 original size:13 final size:13
Alignment explanation
Indices: 43515120--43515177 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
43515110 TTGAGTTTGA
*
43515120 GGTTTGGAGTTCAG
1 GGTTTGG-GGTCAG
*
43515134 GGTTTGGGGTTCAA
1 GGTTTGGGG-TCAG
** *
43515148 GGTCAGGGTTCAG
1 GGTTTGGGGTCAG
43515161 GGTTTGGGGTCAG
1 GGTTTGGGGTCAG
43515174 GGTT
1 GGTT
43515178 CAATGTAAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
13 18 0.53
14 16 0.47
ACGTcount: A:0.12, C:0.09, G:0.47, T:0.33
Consensus pattern (13 bp):
GGTTTGGGGTCAG
Found at i:43517863 original size:40 final size:39
Alignment explanation
Indices: 43517803--43518014 Score: 128
Period size: 35 Copynumber: 5.6 Consensus size: 39
43517793 AATCATCGTT
* *
43517803 GGTTCATCCAACTAGAGCTGGGCTCACTATTTATATCATC
1 GGTTTATCCGACTAGAGCTGGGCTCACTATTTATATC-TC
* * *
43517843 GGTTTATCTGACTAGTGCTGGG-TGCA--A-ATAT-TGCT-
1 GGTTTATCCGACTAGAGCTGGGCT-CACTATTTATAT-CTC
* * *
43517878 AGTTTATCCAACTAGAGTTGGGCTCACTATTTATATCGTC
1 GGTTTATCCGACTAGAGCTGGGCTCACTATTTATATC-TC
*
43517918 GGTTTATCCGACTAGTA-CTGGG-TGCA--A---ATATCGTT
1 GGTTTATCCGACTAG-AGCTGGGCT-CACTATTTATATC-TC
* * *
43517953 GGTTTATCCAACCAGAGCTGGGCTCACTAATTAT-TCGTC
1 GGTTTATCCGACTAGAGCTGGGCTCACTATTTATATC-TC
* *
43517992 GGTATATCCGACTAGCGCTGGGC
1 GGTTTATCCGACTAGAGCTGGGC
43518015 GCAACTTCTG
Statistics
Matches: 132, Mismatches: 22, Indels: 37
0.69 0.12 0.19
Matches are distributed among these distances:
34 1 0.01
35 46 0.35
36 4 0.03
37 6 0.05
38 6 0.05
39 27 0.20
40 41 0.31
41 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (39 bp):
GGTTTATCCGACTAGAGCTGGGCTCACTATTTATATCTC
Found at i:43518047 original size:74 final size:76
Alignment explanation
Indices: 43517754--43518088 Score: 325
Period size: 75 Copynumber: 4.5 Consensus size: 76
43517744 TGCGAATGAG
* * * * *
43517754 TAATTGATATTGTCGGTTCATCCGACTAGCGCTGGGCGC-AATCATC-GTTGGTTCATCCAACTA
1 TAATT-ATATCGTCGGTTTATCCGACTAGCGCTGGGCGCAAAT-ATCTGCTAGTTTATCCAACTA
43517817 GAGCTGGGCTCAC
64 GAGCTGGGCTCAC
* * * * *
43517830 TATTTATATCATCGGTTTATCTGACTAGTGCTGGGTGCAAATAT-TGCTAGTTTATCCAACTAGA
1 TAATTATATCGTCGGTTTATCCGACTAGCGCTGGGCGCAAATATCTGCTAGTTTATCCAACTAGA
*
43517894 GTTGGGCTCAC
66 GCTGGGCTCAC
* ** * * * *
43517905 TATTTATATCGTCGGTTTATCCGACTAGTACTGGGTGCAAATATC-GTTGGTTTATCCAACCAGA
1 TAATTATATCGTCGGTTTATCCGACTAGCGCTGGGCGCAAATATCTGCTAGTTTATCCAACTAGA
43517969 GCTGGGCTCAC
66 GCTGGGCTCAC
* * * ** * *
43517980 TAATTAT-TCGTCGGTATATCCGACTAGCGCTGGGCGCAACT-TCTGCCAGTTTATCTTATTAGT
1 TAATTATATCGTCGGTTTATCCGACTAGCGCTGGGCGCAAATATCTGCTAGTTTATCCAACTAGA
*
43518043 GCTGGGCACAC
66 GCTGGGCTCAC
*
43518054 --A-T-T-T-GTCGGTTTATCCGACTAACGCTGGGCGCAAA
1 TAATTATATCGTCGGTTTATCCGACTAGCGCTGGGCGCAAA
43518089 CTCTTTTGCA
Statistics
Matches: 219, Mismatches: 36, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
69 28 0.13
70 2 0.01
71 1 0.00
72 1 0.00
73 2 0.01
74 50 0.23
75 128 0.58
76 7 0.03
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (76 bp):
TAATTATATCGTCGGTTTATCCGACTAGCGCTGGGCGCAAATATCTGCTAGTTTATCCAACTAGA
GCTGGGCTCAC
Found at i:43518693 original size:31 final size:31
Alignment explanation
Indices: 43518657--43518720 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
43518647 GATGAAAACA
43518657 ACGCAGCAGAGAGCAAACCAATGGGGTTTTT
1 ACGCAGCAGAGAGCAAACCAATGGGGTTTTT
43518688 ACGCAGCAGAGAGCAAACCAATGGGGTTTTT
1 ACGCAGCAGAGAGCAAACCAATGGGGTTTTT
43518719 AC
1 AC
43518721 TTTATTTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (31 bp):
ACGCAGCAGAGAGCAAACCAATGGGGTTTTT
Found at i:43527446 original size:22 final size:22
Alignment explanation
Indices: 43527414--43527461 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
43527404 TAATATTATT
43527414 TTTATTATTTAAAT-ATAAAATA
1 TTTATTATTTAAATCAT-AAATA
* *
43527436 TTTATTTTTTATATCATAAATA
1 TTTATTATTTAAATCATAAATA
43527458 TTTA
1 TTTA
43527462 AAATAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTATTATTTAAATCATAAATA
Found at i:43531663 original size:5 final size:5
Alignment explanation
Indices: 43531655--43531684 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
43531645 TAATATAATC
43531655 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
43531685 TGTAATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:43533601 original size:17 final size:18
Alignment explanation
Indices: 43533575--43533612 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
43533565 TTTTTTATAA
43533575 TTATTAAGGA-TTTTAAG
1 TTATTAAGGAGTTTTAAG
* *
43533592 TTATTTAGGAGTTTTATG
1 TTATTAAGGAGTTTTAAG
43533610 TTA
1 TTA
43533613 ACAAGAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (18 bp):
TTATTAAGGAGTTTTAAG
Found at i:43534041 original size:17 final size:18
Alignment explanation
Indices: 43534021--43534057 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
43534011 ATTATTCTAA
*
43534021 TATTTTATTTA-TTATTT
1 TATTTTAGTTATTTATTT
43534038 TATTTTAGTTATTTATTT
1 TATTTTAGTTATTTATTT
43534056 TA
1 TA
43534058 ATTGTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (18 bp):
TATTTTAGTTATTTATTT
Found at i:43534044 original size:13 final size:14
Alignment explanation
Indices: 43534021--43534057 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
43534011 ATTATTCTAA
43534021 TATTTTA-TTTA-T
1 TATTTTATTTTAGT
43534033 TATTTTATTTTAGT
1 TATTTTATTTTAGT
43534047 TA-TTTATTTTA
1 TATTTTATTTTA
43534058 ATTGTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 13 0.57
14 3 0.13
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TATTTTATTTTAGT
Found at i:43539190 original size:47 final size:46
Alignment explanation
Indices: 43539139--43539229 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
43539129 TTCTGGAAGT
* *
43539139 TTGGCTACAATTATAGTGGCCCGACCGCACATATCTGTTCTAGTAAC
1 TTGGCTACAA-TATAGTGGCCCGACCACACATATCTGATCTAGTAAC
* * ** *
43539186 TTGGCTGCAATATGGTGGCTTGACCACATATATCTGATCTAGTA
1 TTGGCTACAATATAGTGGCCCGACCACACATATCTGATCTAGTA
43539230 GTTTAACTGC
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
46 28 0.76
47 9 0.24
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (46 bp):
TTGGCTACAATATAGTGGCCCGACCACACATATCTGATCTAGTAAC
Found at i:43541863 original size:23 final size:23
Alignment explanation
Indices: 43541835--43541879 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
43541825 TACATATTGT
* *
43541835 ACCAAATAATAATTAAAATTTAC
1 ACCAAAAAATAACTAAAATTTAC
43541858 ACCAAAAAATAACTAAAATTTA
1 ACCAAAAAATAACTAAAATTTA
43541880 TTTATGCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (23 bp):
ACCAAAAAATAACTAAAATTTAC
Found at i:43550825 original size:21 final size:21
Alignment explanation
Indices: 43550799--43550868 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
43550789 TGTAACTCGG
*
43550799 TCACACGGGCGTGTGCCTCTT
1 TCACACGGGTGTGTGCCTCTT
* * *
43550820 TCACACTGGTGTGTGCTTCGT
1 TCACACGGGTGTGTGCCTCTT
* *
43550841 TCATATGGGTGTGTGCCTCTT
1 TCACACGGGTGTGTGCCTCTT
*
43550862 TTACACG
1 TCACACG
43550869 TCCATGTCAA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.11, C:0.26, G:0.27, T:0.36
Consensus pattern (21 bp):
TCACACGGGTGTGTGCCTCTT
Found at i:43561708 original size:30 final size:32
Alignment explanation
Indices: 43561672--43561733 Score: 101
Period size: 30 Copynumber: 2.0 Consensus size: 32
43561662 ATAAATTATA
*
43561672 AAAAATATTAATTAA-ATTAAAAAA-TGAAAT
1 AAAAATATTAAATAATATTAAAAAAGTGAAAT
43561702 AAAAATATTAAATAATATTAAAAAAGTGAAAT
1 AAAAATATTAAATAATATTAAAAAAGTGAAAT
43561734 TAACCCTTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 14 0.48
31 9 0.31
32 6 0.21
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (32 bp):
AAAAATATTAAATAATATTAAAAAAGTGAAAT
Found at i:43563386 original size:31 final size:31
Alignment explanation
Indices: 43563343--43563406 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
43563333 CGATCCTTTT
*
43563343 TGATGAGGTGTGATCGGATCACCTCGAAAAG
1 TGATAAGGTGTGATCGGATCACCTCGAAAAG
43563374 TGATAAGGTGTGATCGGATCACCTCGAAAAG
1 TGATAAGGTGTGATCGGATCACCTCGAAAAG
43563405 TG
1 TG
43563407 GTTGTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (31 bp):
TGATAAGGTGTGATCGGATCACCTCGAAAAG
Found at i:43563898 original size:19 final size:19
Alignment explanation
Indices: 43563874--43563939 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
43563864 TAAATATATT
43563874 TATTTTTTTAACTTTAAAA
1 TATTTTTTTAACTTTAAAA
* ***
43563893 TATTTTTTACATACTTTTTTA
1 TATTTTTT-TA-ACTTTAAAA
* *
43563914 TTTTTTTTTAATTTTAAAA
1 TATTTTTTTAACTTTAAAA
43563933 TATTTTT
1 TATTTTT
43563940 AAAATACTTT
Statistics
Matches: 34, Mismatches: 11, Indels: 4
0.69 0.22 0.08
Matches are distributed among these distances:
19 19 0.56
20 2 0.06
21 13 0.38
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTTTTTTAACTTTAAAA
Found at i:43563930 original size:40 final size:40
Alignment explanation
Indices: 43563876--43564029 Score: 165
Period size: 40 Copynumber: 3.9 Consensus size: 40
43563866 AATATATTTA
* * *
43563876 TTTTTTTAACTTTAAAATATTTTTTACATACTTTTTTATT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTATT
*
43563916 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTT-TAA
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAT-T
** * * *
43563956 TTTTTTTAATTTT--TTTAATTTTAAAATATTTTTTTAAAAT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTT--ATT
43563996 TTTTTTTAATTTTAAAATA-TTTTAAAATA-TTTTT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT
43564030 AAAATACTTT
Statistics
Matches: 96, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
38 18 0.19
39 1 0.01
40 65 0.68
41 10 0.10
42 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (40 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTATT
Found at i:43563962 original size:10 final size:9
Alignment explanation
Indices: 43563947--43563977 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
43563937 TTTAAAATAC
43563947 TTTTTTTAA
1 TTTTTTTAA
43563956 TTTTTTTAA
1 TTTTTTTAA
43563965 TTTTTTTAA
1 TTTTTTTAA
43563974 TTTT
1 TTTT
43563978 AAAATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:43563969 original size:49 final size:49
Alignment explanation
Indices: 43563907--43564054 Score: 172
Period size: 49 Copynumber: 3.2 Consensus size: 49
43563897 TTTTACATAC
*
43563907 TTTTTTATTTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
1 TTTTTTA-ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
43563957 TTTTTTAATTTTTTTAATTTTAAAATATTTTTTTAAAAT--TTTTTTTAA-
1 TTTTTTAATTTTTTTAATTTTAAAATA--TTTTTAAAATACTTTTTTTAAT
**
43564005 --TTTTAA----AAT-ATTTTAAAATATTTTTAAAATACTTTTTTTAAT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
43564047 TTTTTTAA
1 TTTTTTAA
43564055 AATTTTAAAA
Statistics
Matches: 88, Mismatches: 3, Indels: 20
0.79 0.03 0.18
Matches are distributed among these distances:
39 10 0.11
41 20 0.23
42 1 0.01
44 6 0.07
46 6 0.07
49 28 0.32
50 7 0.08
51 10 0.11
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (49 bp):
TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
Found at i:43563986 original size:10 final size:10
Alignment explanation
Indices: 43563973--43564040 Score: 50
Period size: 10 Copynumber: 6.5 Consensus size: 10
43563963 AATTTTTTTA
43563973 ATTTTAAAAT
1 ATTTTAAAAT
43563983 ATTTTTTTAAAAT
1 A---TTTTAAAAT
* **
43563996 TTTTTTTAAT
1 ATTTTAAAAT
43564006 -TT-TAAAAT
1 ATTTTAAAAT
43564014 ATTTTAAAAT
1 ATTTTAAAAT
43564024 ATTTTTAAAAT
1 A-TTTTAAAAT
43564035 ACTTTT
1 A-TTTT
43564041 TTTAATTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
8 4 0.09
9 4 0.09
10 15 0.33
11 14 0.30
13 9 0.20
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:43564058 original size:11 final size:11
Alignment explanation
Indices: 43563925--43564060 Score: 73
Period size: 11 Copynumber: 13.1 Consensus size: 11
43563915 TTTTTTTTAA
*
43563925 TTTTAAAATAT
1 TTTTAAAATTT
43563936 TTTTAAAATACTT
1 TTTTAAAAT--TT
*
43563949 TTTT-TAATTT
1 TTTTAAAATTT
43563959 TTTT--AATTT
1 TTTTAAAATTT
43563968 TTTT--AA--T
1 TTTTAAAATTT
*
43563975 TTTAAAATATTT
1 TTTTAAA-ATTT
43563987 TTTTAAAATTT
1 TTTTAAAATTT
*
43563998 TTTT-TAA---
1 TTTTAAAATTT
*
43564005 TTTTAAAA-TA
1 TTTTAAAATTT
*
43564015 TTTTAAAATAT
1 TTTTAAAATTT
43564026 TTTTAAAATACTT
1 TTTTAAAAT--TT
*
43564039 TTTT-TAATTT
1 TTTTAAAATTT
43564049 TTTTAAAATTT
1 TTTTAAAATTT
43564060 T
1 T
43564061 AAAATAAAAA
Statistics
Matches: 100, Mismatches: 11, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
7 8 0.08
8 2 0.02
9 12 0.12
10 23 0.23
11 32 0.32
12 13 0.13
13 10 0.10
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:43565215 original size:3 final size:3
Alignment explanation
Indices: 43565201--43565243 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
43565191 CAAATAAAAC
* *
43565201 TAA TAA TGA TAA TAA TTAA TAA TAA TAA TAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
43565244 ATGCTAATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:43565222 original size:16 final size:16
Alignment explanation
Indices: 43565201--43565243 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
43565191 CAAATAAAAC
*
43565201 TAATAATGATAATAAT
1 TAATAATAATAATAAT
43565217 TAATAATAATAATAA-
1 TAATAATAATAATAAT
*
43565232 TGATAATAATAA
1 TAATAATAATAA
43565244 ATGCTAATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (16 bp):
TAATAATAATAATAAT
Found at i:43565252 original size:25 final size:25
Alignment explanation
Indices: 43565192--43565245 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
43565182 ATAAAAGGGC
43565192 AAATAA-AACTAATAATGATAATAAT
1 AAATAATAA-TAATAATGATAATAAT
*
43565217 TAATAATAATAATAATGATAATAAT
1 AAATAATAATAATAATGATAATAAT
43565242 AAAT
1 AAAT
43565246 GCTAATACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (25 bp):
AAATAATAATAATAATGATAATAAT
Found at i:43568191 original size:22 final size:22
Alignment explanation
Indices: 43568166--43568320 Score: 211
Period size: 22 Copynumber: 7.0 Consensus size: 22
43568156 CCAACATTCA
43568166 GACAACATTTAATCAACAATTG
1 GACAACATTTAATCAACAATTG
* * * *
43568188 GACAGCATTAAATCAATATTTG
1 GACAACATTTAATCAACAATTG
43568210 GACAACATTTAATCAACAATTG
1 GACAACATTTAATCAACAATTG
* * *
43568232 GACATCATTAAATCAACATTTG
1 GACAACATTTAATCAACAATTG
43568254 GACAACATTTAATCAACAATTG
1 GACAACATTTAATCAACAATTG
* * * *
43568276 GACAGCATTCAATCAATATTTG
1 GACAACATTTAATCAACAATTG
43568298 GACAACATTTAATCAACAATTG
1 GACAACATTTAATCAACAATTG
43568320 G
1 G
43568321 CACTAAACCA
Statistics
Matches: 111, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 111 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (22 bp):
GACAACATTTAATCAACAATTG
Found at i:43568216 original size:44 final size:44
Alignment explanation
Indices: 43568166--43568320 Score: 283
Period size: 44 Copynumber: 3.5 Consensus size: 44
43568156 CCAACATTCA
43568166 GACAACATTTAATCAACAATTGGACAGCATTAAATCAATATTTG
1 GACAACATTTAATCAACAATTGGACAGCATTAAATCAATATTTG
* *
43568210 GACAACATTTAATCAACAATTGGACATCATTAAATCAACATTTG
1 GACAACATTTAATCAACAATTGGACAGCATTAAATCAATATTTG
*
43568254 GACAACATTTAATCAACAATTGGACAGCATTCAATCAATATTTG
1 GACAACATTTAATCAACAATTGGACAGCATTAAATCAATATTTG
43568298 GACAACATTTAATCAACAATTGG
1 GACAACATTTAATCAACAATTGG
43568321 CACTAAACCA
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 106 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (44 bp):
GACAACATTTAATCAACAATTGGACAGCATTAAATCAATATTTG
Found at i:43568554 original size:43 final size:43
Alignment explanation
Indices: 43568423--43568728 Score: 325
Period size: 43 Copynumber: 7.2 Consensus size: 43
43568413 CGCTATTGAC
* **** *
43568423 AACGCCGCTAAAGGTCATGTTCTTTAGCGGTGC-TACGAAAAA
1 AACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAACA
* * * * * * *
43568465 AACACCGCTAAAAGTCAGGGTCTTTAGCTGCG-TTTTCCTACA
1 AACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAACA
*
43568507 AACGCCGCTAAAGGTCATGTTCTCTAGCGGCGCTTTTTCAACA
1 AACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAACA
** *
43568550 AACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTTCCACA
1 AACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAACA
** * *
43568593 AACGCCGCTAAAGAACATGTTCCTTAGCGGCGCTTTTTCCACA
1 AACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAACA
* *
43568636 AACGCCGCTAAAGATCATGTTCTTTAGCGGCG-TTTCTTCCACA
1 AACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTT-TTCAACA
* *
43568679 AACGCCACTAAAGGTCATGTTCTTTTAGCGGC-ATTTTT-ACACA
1 AACGCCGCTAAAGGTCATGTTC-TTTAGCGGCGCTTTTTCA-ACA
43568722 AACGCCG
1 AACGCCG
43568729 TTATTTCTTT
Statistics
Matches: 227, Mismatches: 31, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
42 58 0.26
43 157 0.69
44 12 0.05
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (43 bp):
AACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAACA
Found at i:43569190 original size:21 final size:21
Alignment explanation
Indices: 43569166--43569216 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
43569156 TTCTTTTGAA
* *
43569166 CCTCTGCTTCTCTTGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
*
43569187 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
*
43569208 CCTATGCTT
1 CCTCTGCTT
43569217 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.43, G:0.18, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:43569217 original size:87 final size:87
Alignment explanation
Indices: 43569080--43569256 Score: 257
Period size: 87 Copynumber: 2.0 Consensus size: 87
43569070 TTCTACTCTA
* * *
43569080 CTCTGCTTTCTTCGCCGCAGCGTCTACTTCTCTCGATGCCACATCTGCTTTAAGTTGTAGCTGGA
1 CTCTGCTTTCTTCGCCGCAGCCTCTACTTCCCTCGATGCCACATATGCTTTAAGTTGTAGCTGGA
*
43569145 GTTCTTCATATTTCTTTTGAAC
66 GTTCTTCATATTTCCTTTGAAC
* * * * *
43569167 CTCTGCTTCTCTT-GCTGCAGCCTCTGCTTCCCTCGCTGCCGCCTATGCTTTAAGTTGTAGCTGG
1 CTCTGCTT-TCTTCGCCGCAGCCTCTACTTCCCTCGATGCCACATATGCTTTAAGTTGTAGCTGG
43569231 AGTTCTTCATATTTCCTTTGAAC
65 AGTTCTTCATATTTCCTTTGAAC
43569254 CTC
1 CTC
43569257 AACTGTGGTC
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
87 76 0.95
88 4 0.05
ACGTcount: A:0.13, C:0.30, G:0.18, T:0.40
Consensus pattern (87 bp):
CTCTGCTTTCTTCGCCGCAGCCTCTACTTCCCTCGATGCCACATATGCTTTAAGTTGTAGCTGGA
GTTCTTCATATTTCCTTTGAAC
Found at i:43574750 original size:50 final size:50
Alignment explanation
Indices: 43574686--43574958 Score: 321
Period size: 50 Copynumber: 5.8 Consensus size: 50
43574676 ATATATTTAT
* * *
43574686 GTAAGTTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTAA
1 GTAAATTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTATTAA
43574736 GTAAATTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTATTAA
1 GTAAATTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTATTAA
43574786 GTAAATTATGTAAGTTATGTATTATGTAAGTTATGTAAG-T-TG---T--
1 GTAAATTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTATTAA
* * *
43574829 GT--ATTATGTAAGTTATGTATTAAGTAGGTTATGTAAGTTATGTATTAT
1 GTAAATTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTATTAA
* *
43574877 GTAAGTTATGT-A---A---ATTGTGT-A-TTATGTAAGTTATGTATTAA
1 GTAAATTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTATTAA
** *
43574918 GTAGGTTATGTAAGTTATATATTATGTAAGTTATGTAAGTT
1 GTAAATTATGTAAGTTATGTATTATGTAAGTTATGTAAGTT
43574959 TTTGTTTTTT
Statistics
Matches: 193, Mismatches: 12, Indels: 36
0.80 0.05 0.15
Matches are distributed among these distances:
41 62 0.32
42 2 0.01
43 9 0.05
45 2 0.01
46 2 0.01
48 10 0.05
49 3 0.02
50 103 0.53
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (50 bp):
GTAAATTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTATTAA
Found at i:43574760 original size:41 final size:41
Alignment explanation
Indices: 43574715--43574954 Score: 214
Period size: 41 Copynumber: 5.4 Consensus size: 41
43574705 TATTAAGTAA
*
43574715 ATTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATGT
1 ATTATGTAAGTTATGTATTAAGTAAGTTATGT-A---A-G--TTATGT
*
43574763 AAGTTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGT
1 -A-TTATGTAAGTTATGTATTAAGTAAGTTATGTAAGTTATGT
*
43574806 ATTATGTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGT-A-TTAAGT
1 ATTATGTAAGTTATGT-A----T-TA--A-GTAAGTTATGTAAGTTATGT
* * *
43574854 AGGTTATGTAAGTTATGTATTATGTAAGTTATGTAAATTGTGT
1 A--TTATGTAAGTTATGTATTAAGTAAGTTATGTAAGTTATGT
* *
43574897 ATTATGTAAGTTATGTATTAAGTAGGTTATGTAAGTTATAT
1 ATTATGTAAGTTATGTATTAAGTAAGTTATGTAAGTTATGT
43574938 ATTATGTAAGTTATGTA
1 ATTATGTAAGTTATGTA
43574955 AGTTTTTGTT
Statistics
Matches: 167, Mismatches: 10, Indels: 36
0.78 0.05 0.17
Matches are distributed among these distances:
41 78 0.47
42 3 0.02
43 11 0.07
44 2 0.01
45 2 0.01
46 2 0.01
47 2 0.01
48 6 0.04
49 5 0.03
50 56 0.34
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.47
Consensus pattern (41 bp):
ATTATGTAAGTTATGTATTAAGTAAGTTATGTAAGTTATGT
Found at i:43574769 original size:66 final size:68
Alignment explanation
Indices: 43574682--43574958 Score: 373
Period size: 66 Copynumber: 4.0 Consensus size: 68
43574672 CATCATATAT
* *
43574682 TTATGTAAGTTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTAAGTAAATTATGT
1 TTATGTAAGTTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATGTAAGTTATGT
43574747 AAGTTATG
66 -A---A-G
43574755 TATTATGTAAGTTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATGTAAGTTAT
1 --TTATGTAAGTTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATGTAAGTTAT
43574820 GTAAG
64 GTAAG
* **
43574825 TTGTGT-A-TTATGTAAGTTATGTATTAAGTAGGTTATGTAAGTTATGTATTATGTAAGTTATGT
1 TTATGTAAGTTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATGTAAGTTATGT
*
43574888 AAA
66 AAG
* ** *
43574891 TTGTGT-A-TTATGTAAGTTATGTATTAAGTAGGTTATGTAAGTTATATATTATGTAAGTTATGT
1 TTATGTAAGTTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATGTAAGTTATGT
43574954 AAG
66 AAG
43574957 TT
1 TT
43574959 TTTGTTTTTT
Statistics
Matches: 194, Mismatches: 8, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
66 122 0.63
67 1 0.01
68 5 0.03
70 1 0.01
71 1 0.01
74 1 0.01
75 63 0.32
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (68 bp):
TTATGTAAGTTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATGTAAGTTATGT
AAG
Found at i:43574884 original size:25 final size:26
Alignment explanation
Indices: 43574682--43575044 Score: 280
Period size: 25 Copynumber: 14.4 Consensus size: 26
43574672 CATCATATAT
43574682 TTATGTAAGTTATGTAAGTTATGT-A
1 TTATGTAAGTTATGTAAGTTATGTAA
* *
43574707 TTAAGTAAATTATGTAAGTTATGT-A
1 TTATGTAAGTTATGTAAGTTATGTAA
* *
43574732 TTAAGTAAATTATGTAAGTTATGT-A
1 TTATGTAAGTTATGTAAGTTATGTAA
43574757 TTATGTAAGTTATGTAAGTTATGT-A
1 TTATGTAAGTTATGTAAGTTATGTAA
* *
43574782 TTAAGTAAATTATGTAAGTTATGT-A
1 TTATGTAAGTTATGTAAGTTATGTAA
*
43574807 TTATGTAAGTTATGTAAGTTGTGT-A
1 TTATGTAAGTTATGTAAGTTATGTAA
* *
43574832 TTATGTAAGTTATGT-A-TTAAGTAGG
1 TTATGTAAGTTATGTAAGTTATGTA-A
43574857 TTATGTAAGTTATGT-A-TTATGTAA
1 TTATGTAAGTTATGTAAGTTATGTAA
* *
43574881 GTTATGTAAATTGTGT-A-TTATGTAA
1 -TTATGTAAGTTATGTAAGTTATGTAA
* *
43574906 GTTATGT-A-TTAAGTAGGTTATGTAA
1 -TTATGTAAGTTATGTAAGTTATGTAA
*
43574931 GTTATAT-A-TTATGTAAGTTATGTAA
1 -TTATGTAAGTTATGTAAGTTATGTAA
* *** *
43574956 GTTTTTGTTTTTTGTGT-A-TTATGTAA
1 --TTATGTAAGTTATGTAAGTTATGTAA
* * *
43574982 CTTATTTAATTTATGTAGGTTATGTATTA
1 -TTATGTAAGTTATGTAAGTTATGTA--A
* * *
43575011 TTATGTAAGTTAT-TATG-TAGGTTA
1 TTATGTAAGTTATGTAAGTTATGTAA
43575035 TTATGTAAGT
1 TTATGTAAGT
43575045 CATTATGTTG
Statistics
Matches: 287, Mismatches: 39, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
23 8 0.03
24 13 0.05
25 222 0.77
26 16 0.06
27 11 0.04
28 16 0.06
29 1 0.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (26 bp):
TTATGTAAGTTATGTAAGTTATGTAA
Found at i:43575025 original size:12 final size:12
Alignment explanation
Indices: 43575008--43575052 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
43574998 AGGTTATGTA
43575008 TTATTATGTAAG
1 TTATTATGTAAG
*
43575020 TTATTATGTAGG
1 TTATTATGTAAG
43575032 TTATTATGTAAG
1 TTATTATGTAAG
*
43575044 TCATTATGT
1 TTATTATGT
43575053 TGGTTATGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.51
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:43575038 original size:24 final size:24
Alignment explanation
Indices: 43575001--43575059 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
43574991 TTTATGTAGG
*
43575001 TTATGTA--TTATTATGTAAGTTA
1 TTATGTAGGTTATTATGTAAGTCA
43575023 TTATGTAGGTTATTATGTAAGTCA
1 TTATGTAGGTTATTATGTAAGTCA
*
43575047 TTATGTTGGTTAT
1 TTATGTAGGTTAT
43575060 GTAAGTTGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 7 0.21
24 26 0.79
ACGTcount: A:0.27, C:0.02, G:0.19, T:0.53
Consensus pattern (24 bp):
TTATGTAGGTTATTATGTAAGTCA
Found at i:43575061 original size:21 final size:22
Alignment explanation
Indices: 43575011--43575065 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
43575001 TTATGTATTA
*
43575011 TTATGTAAGTTATTATGTAGGTT
1 TTATGTAAGTCATTATGTAGG-T
*
43575034 ATTATGTAAGTCATTATGTTGG-
1 -TTATGTAAGTCATTATGTAGGT
43575056 TTATGTAAGT
1 TTATGTAAGT
43575066 TGTGATATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.34
24 19 0.66
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (22 bp):
TTATGTAAGTCATTATGTAGGT
Found at i:43575175 original size:19 final size:18
Alignment explanation
Indices: 43575126--43575178 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
43575116 TCAATTTTTA
43575126 AAAATATATATAAAT-TT
1 AAAATATATATAAATATT
*
43575143 TAAA-ATATAT--ATATT
1 AAAATATATATAAATATT
43575158 AAAACTATATATAAATATT
1 AAAA-TATATATAAATATT
43575177 AA
1 AA
43575179 TAAGTTATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 2 0.07
15 5 0.17
16 6 0.21
17 9 0.31
19 7 0.24
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATATATATAAATATT
Found at i:43575193 original size:9 final size:9
Alignment explanation
Indices: 43575179--43575243 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
43575169 TAAATATTAA
43575179 TAAGTTATG
1 TAAGTTATG
43575188 TAAGTTATG
1 TAAGTTATG
* *
43575197 TATTA-TAAATT
1 TA--AGT-TATG
*
43575208 TAAATTATG
1 TAAGTTATG
43575217 TAAGTTATG
1 TAAGTTATG
* *
43575226 TAAATTAAG
1 TAAGTTATG
43575235 TAAGTTATG
1 TAAGTTATG
43575244 GAATTTGAAC
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
9 36 0.84
10 2 0.05
11 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:43575231 original size:18 final size:18
Alignment explanation
Indices: 43575208--43575243 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
43575198 ATTATAAATT
*
43575208 TAAATTATGTAAGTTATG
1 TAAATTAAGTAAGTTATG
43575226 TAAATTAAGTAAGTTATG
1 TAAATTAAGTAAGTTATG
43575244 GAATTTGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (18 bp):
TAAATTAAGTAAGTTATG
Found at i:43575274 original size:17 final size:17
Alignment explanation
Indices: 43575254--43575312 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
43575244 GAATTTGAAC
43575254 TTTAAAAAAATTAAATA
1 TTTAAAAAAATTAAATA
*
43575271 TTTAAAAAAATT-CATGA
1 TTTAAAAAAATTAAAT-A
*
43575288 -TTAAAATTAAATAAAATA
1 TTTAAAA--AAATTAAATA
43575306 TTTAAAA
1 TTTAAAA
43575313 TATAACTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 8 0.24
17 13 0.38
18 5 0.15
19 8 0.24
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
TTTAAAAAAATTAAATA
Found at i:43579009 original size:115 final size:114
Alignment explanation
Indices: 43578798--43579287 Score: 572
Period size: 115 Copynumber: 4.3 Consensus size: 114
43578788 AGACAAATAA
** * * * * *
43578798 TTTTTTTGTAGCGCTTTCCCACAAACGCCGCTAAATCCCAGAGCATTAGCGGCGCTGTATTAAAA
1 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATTAAAA
* * * * *
43578863 ACGCCACTAAAGCCCCCGAAAGGTCAGAAAACGGCGTTGTTGGGCTTATG
66 ACGCCACTAAA-TCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGG
*
43578913 TTTTTTTGCGGCGCTTTATCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATTAAAA
1 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATTAAAA
* * * *
43578978 AAGCCGCTAAATCCCCGAAAAGATCAAAAAACGGCGTCGTTGGACTTAGG
66 ACGCCACTAAATCCCCG-AAAGCTCAAAAAACGGCGTCGTTGGGCTTAGG
* * * ** *
43579028 TTTTTTTGCAGCGCTTTCTCAAAAACGCCGCTAAATCCTTGAGCATTAGCGGCGC-TTCCTGAAA
1 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATTAAAA
* * * * *
43579092 ACGCTACTAAATCCCCGAATGCTCAGAAAATGGTGTCGTTGGGCTTAGG
66 ACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGG
* * * * ** *
43579141 TTTTTTTGAGGCGCTTTCTCAAAAATGCCGCTAACGCCCTCAGCATTAGCGGCGCTTCCTCAAAA
1 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATTAAAA
* * * *
43579206 ACGCCGCTAAATACCCGAATGCT-AAAAAACGGCGTCGTTGGGCTTAAG
66 ACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGG
* *
43579254 -TTTTTTACGGCGCTTCCTCAAAAACGCCGCTAAA
1 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAA
43579288 TCCCCGAATT
Statistics
Matches: 318, Mismatches: 55, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
112 29 0.09
113 95 0.30
114 50 0.16
115 144 0.45
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (114 bp):
TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATTAAAA
ACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGG
Found at i:43579197 original size:228 final size:228
Alignment explanation
Indices: 43578798--43579291 Score: 652
Period size: 228 Copynumber: 2.2 Consensus size: 228
43578788 AGACAAATAA
* * * *
43578798 TTTTTTTGTAGCGCTTTCCCACAAACGCCGCTAAATCCCAGAGCATTAGCGGCGCTGTATTAAAA
1 TTTTTTTGCAGCGCTTTCTCAAAAACGCCGCTAAATCCCAGAGCATTAGCGGCGCTGTACTAAAA
* * * *
43578863 ACGCCACTAAAGCCCCCGAAAGGTCAGAAAACGGCGTTGTTGGGCTTATGTTTTTTTGCGGCGCT
66 ACGCCACTAAAGCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGAGGCGCT
* * * *
43578928 TTATCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATTAAAAAAGCCGCTAAATCCC
131 TTATCAAAAACGCCGCTAAAGCCCTCAGCATTAGCGGCGCTTCATCAAAAAAGCCGCTAAATACC
*
43578993 CGAAAAGATCAAAAAACGGCGTCGTTGGACTTAGG
196 CG-AAAGAT-AAAAAACGGCGTCGTTGGACTTAAG
** * *
43579028 TTTTTTTGCAGCGCTTTCTCAAAAACGCCGCTAAATCCTTGAGCATTAGCGGCGCT-TCCTGAAA
1 TTTTTTTGCAGCGCTTTCTCAAAAACGCCGCTAAATCCCAGAGCATTAGCGGCGCTGTACTAAAA
* * * * *
43579092 ACGCTACTAAA-TCCCCGAATGCTCAGAAAATGGTGTCGTTGGGCTTAGGTTTTTTTGAGGCGCT
66 ACGCCACTAAAGCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGAGGCGCT
* * * * *
43579156 TTCTCAAAAATGCCGCTAACGCCCTCAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAATACC
131 TTATCAAAAACGCCGCTAAAGCCCTCAGCATTAGCGGCGCTTCATCAAAAAAGCCGCTAAATACC
* * *
43579221 CGAATGCTAAAAAACGGCGTCGTTGGGCTTAAG
196 CGAAAGATAAAAAACGGCGTCGTTGGACTTAAG
* * *
43579254 -TTTTTTACGGCGCTTCCTCAAAAACGCCGCTAAATCCC
1 TTTTTTTGCAGCGCTTTCTCAAAAACGCCGCTAAATCCC
43579292 CGAATTCTCA
Statistics
Matches: 230, Mismatches: 34, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
225 34 0.15
226 23 0.10
227 4 0.02
228 103 0.45
229 15 0.07
230 51 0.22
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (228 bp):
TTTTTTTGCAGCGCTTTCTCAAAAACGCCGCTAAATCCCAGAGCATTAGCGGCGCTGTACTAAAA
ACGCCACTAAAGCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGAGGCGCT
TTATCAAAAACGCCGCTAAAGCCCTCAGCATTAGCGGCGCTTCATCAAAAAAGCCGCTAAATACC
CGAAAGATAAAAAACGGCGTCGTTGGACTTAAG
Found at i:43579359 original size:74 final size:74
Alignment explanation
Indices: 43579189--43579435 Score: 365
Period size: 74 Copynumber: 3.4 Consensus size: 74
43579179 CTCAGCATTA
* * * *
43579189 GCGGCGCTTCCTCAAAAACGCCGCTAAATACCCGAATGCT-AAAAAACGGCGTCGTTGGGCTTAA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCGAATACTCAGAAAACGGCGTCGTTGGGCTTAG
43579253 G--TTTTTT
66 GTTTTTTTT
* * *
43579260 ACGGCGCTTCCTCAAAAACGCCGCTAAATCCCCGAATTCTCAGAAAACGGCATCGTTGGGCTTAG
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCGAATACTCAGAAAACGGCGTCGTTGGGCTTAG
43579325 GTTTTTTTT
66 GTTTTTTTT
* * *
43579334 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAATACTCAGAGAACGGCGTTGTTGGGCTTAG
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCGAATACTCAGAAAACGGCGTCGTTGGGCTTAG
43579399 GTTTTTTTT
66 GTTTTTTTT
* *
43579408 GCAGCGCTTTCTCAAAAACGCCGCTAAA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAA
43579436 GCCCTGAGCA
Statistics
Matches: 160, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
71 37 0.23
72 22 0.14
74 101 0.63
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (74 bp):
GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCGAATACTCAGAAAACGGCGTCGTTGGGCTTAG
GTTTTTTTT
Found at i:43579450 original size:260 final size:259
Alignment explanation
Indices: 43579076--43579547 Score: 707
Period size: 260 Copynumber: 1.8 Consensus size: 259
43579066 TTGAGCATTA
* * * * *
43579076 GCGGCGCTTCCTGAAAACGCTACTAAATCCCCGAATGCTCAGAAAATGGTGTCGTTGGGCTTAGG
1 GCGGCGCTTCCTAAAAACGCCACTAAATCCCCGAATACTCAGAAAACGGCGTCGTTGGGCTTAGG
* *
43579141 TTTTTTTGAGGCGCTTTCTCAAAAATGCCGCTAACGCCCTCAGCATTAGCGGCGCTTCCTCAAAA
66 TTTTTTTGAGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTCAGCATTAGCGGCGCTTCCTCAAAA
* *
43579206 ACGCCGCTAAATACCCGAATGCT-AAAAAACGGCGTCGTTGGGCTTAAGTTTTTTACGGCGCTTC
131 ACGCCGCTAAATACCCAAATGCTCAAAAAACGACGTCGTTGGGCTTAAGTTTTTTACGGCGCTTC
*
43579270 CTCA-AAAACGCCGCTAAATCCCCGAATTCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTT
196 CT-AGAAAACACCGCTAAATCCCCGAATTCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTT
* * * *
43579334 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAATACTCAGAGAACGGCGTTGTTGGGCTTAG
1 GCGGCGCTTCCT-AAAAACGCCACTAAATCCCCGAATACTCAGAAAACGGCGTCGTTGGGCTTAG
*
43579399 GTTTTTTTTGCA-GCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTCA
65 G-TTTTTTTG-AGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTCAGCATTAGCGGCGCTTCCTCA
* * * *
43579463 AAAACGCCGCTAAATCCCCAAATGCTCAAAAACCGACGTCGTTGGGCTTAGGTTTTTTGCGGCGC
128 AAAACGCCGCTAAATACCCAAATGCTCAAAAAACGACGTCGTTGGGCTTAAGTTTTTTACGGCGC
*
43579528 TTTCTAGAAAACACCGCTAA
193 TTCCTAGAAAACACCGCTAA
43579548 TGCCTATTTT
Statistics
Matches: 189, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
258 11 0.06
259 45 0.24
260 82 0.43
261 51 0.27
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (259 bp):
GCGGCGCTTCCTAAAAACGCCACTAAATCCCCGAATACTCAGAAAACGGCGTCGTTGGGCTTAGG
TTTTTTTGAGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTCAGCATTAGCGGCGCTTCCTCAAAA
ACGCCGCTAAATACCCAAATGCTCAAAAAACGACGTCGTTGGGCTTAAGTTTTTTACGGCGCTTC
CTAGAAAACACCGCTAAATCCCCGAATTCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTT
Found at i:43579465 original size:115 final size:113
Alignment explanation
Indices: 43579334--43579547 Score: 306
Period size: 115 Copynumber: 1.9 Consensus size: 113
43579324 GGTTTTTTTT
* * * * *
43579334 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAATACTCAGAGAA-CGGCGTTGTTGGGCTTA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCAAATACTCA-AAAACCGACGTCGTTGGGCTTA
*
43579398 GGTTTTTTTTGCAGCGCTTTCTCA-AAAACGCCGCTAAAGCCCTGAGCATTA
65 GG--TTTTTTGCAGCGCTTTCT-AGAAAACACCGCTAAAGCCCTGAGCATTA
*
43579449 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCAAATGCTCAAAAACCGACGTCGTTGGGCTTAG
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCAAATACTCAAAAACCGACGTCGTTGGGCTTAG
*
43579514 GTTTTTTGCGGCGCTTTCTAGAAAACACCGCTAA
66 GTTTTTTGCAGCGCTTTCTAGAAAACACCGCTAA
43579548 TGCCTATTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
112 1 0.01
113 29 0.33
114 3 0.03
115 56 0.63
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (113 bp):
GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCAAATACTCAAAAACCGACGTCGTTGGGCTTAG
GTTTTTTGCAGCGCTTTCTAGAAAACACCGCTAAAGCCCTGAGCATTA
Found at i:43579685 original size:12 final size:11
Alignment explanation
Indices: 43579667--43579721 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
43579657 GTGTGAACAG
43579667 CATTTAATCAA
1 CATTTAATCAA
43579678 CAATTTAA-CAA
1 C-ATTTAATCAA
*
43579689 CATTCAATCAA
1 CATTTAATCAA
* *
43579700 TATTT-ATACAG
1 CATTTAAT-CAA
43579711 CATTTAATCAA
1 CATTTAATCAA
43579722 TAATTTTTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
10 7 0.21
11 19 0.56
12 8 0.24
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (11 bp):
CATTTAATCAA
Found at i:43579692 original size:22 final size:21
Alignment explanation
Indices: 43579662--43579727 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
43579652 GTGTAGTGTG
43579662 AACAGCATTTAATCAACAATTT
1 AACAGCATTTAATCAA-AATTT
* * *
43579684 AACAACATTCAATCAATATTT
1 AACAGCATTTAATCAAAATTT
43579705 ATACAGCATTTAATCAATAATTT
1 A-ACAGCATTTAATCAA-AATTT
43579728 TTACTTCAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 5 0.14
22 27 0.75
23 4 0.11
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.35
Consensus pattern (21 bp):
AACAGCATTTAATCAAAATTT
Found at i:43580601 original size:42 final size:43
Alignment explanation
Indices: 43580502--43580619 Score: 141
Period size: 42 Copynumber: 2.8 Consensus size: 43
43580492 AGCTCGTACA
* * *
43580502 ATGCCAACGTCCCAGACGTGGTCTTTCATGTAATCAAACAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAACAACG
* * * *
43580545 ATGCCACTGTCCCAGATA-GAGTCTTACATGTAATCATA-TACG
1 ATGCCAATGTCCCAGACATG-GTCTTACATGTAATCAAACAACG
*
43580587 ATGCCAATGTCCCAGACATGGTCTTACACGTAA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAA
43580620 ATCTCAAATC
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 32 0.51
43 31 0.49
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAACAACG
Found at i:43582292 original size:5 final size:5
Alignment explanation
Indices: 43582282--43582351 Score: 90
Period size: 5 Copynumber: 13.8 Consensus size: 5
43582272 TCTCCTTGTA
*
43582282 TTTAT TTTA- TTTAT TATT-T ATTTAG TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT T-TTAT -TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
43582332 TTTAT TTTATT TTTAT TTTA
1 TTTAT TTTA-T TTTAT TTTA
43582352 GTTCTAGACA
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
4 4 0.07
5 46 0.79
6 8 0.14
ACGTcount: A:0.21, C:0.00, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:43582436 original size:24 final size:25
Alignment explanation
Indices: 43582409--43582456 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
43582399 ACCTTTAGTG
*
43582409 TTATTCTTACTATC-TTTTTTATTT
1 TTATTCTTACTACCATTTTTTATTT
* *
43582433 TTATTTTTATTACCATTTTTTATT
1 TTATTCTTACTACCATTTTTTATT
43582457 ATCAATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (25 bp):
TTATTCTTACTACCATTTTTTATTT
Found at i:43582553 original size:23 final size:24
Alignment explanation
Indices: 43582511--43582557 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
43582501 ATTCGTAGGT
*
43582511 TCTATTTTTATTATCTTTTCATCA
1 TCTATTTTCATTATCTTTTCATCA
43582535 TCTATTTTCATTATC-TTTCATCA
1 TCTATTTTCATTATCTTTTCATCA
43582558 AAAAACATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (24 bp):
TCTATTTTCATTATCTTTTCATCA
Found at i:43583388 original size:25 final size:26
Alignment explanation
Indices: 43583360--43583470 Score: 86
Period size: 25 Copynumber: 4.4 Consensus size: 26
43583350 ACAGCTCTCT
**
43583360 TGAGCTTCCCGATACTTGA-CTCTTA
1 TGAGCTTCCCGATACTTGAGCTCACA
* ** *
43583385 TGAGTTTTTCGATATTTG-GCTCACA
1 TGAGCTTCCCGATACTTGAGCTCACA
* ** **
43583410 AGAGCTTCCCGATA-TACAGCTCGTA
1 TGAGCTTCCCGATACTTGAGCTCACA
*
43583435 TGAGCTTCCCGTTACTT-AGCTCACA
1 TGAGCTTCCCGATACTTGAGCTCACA
43583460 TGAGCTTCCCG
1 TGAGCTTCCCG
43583471 TTATATGGCT
Statistics
Matches: 64, Mismatches: 19, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
24 1 0.02
25 62 0.97
26 1 0.02
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (26 bp):
TGAGCTTCCCGATACTTGAGCTCACA
Found at i:43583437 original size:50 final size:49
Alignment explanation
Indices: 43583361--43583475 Score: 113
Period size: 50 Copynumber: 2.3 Consensus size: 49
43583351 CAGCTCTCTT
** * * ** * *
43583361 GAGCTTCCCGATACTTGACTCTTATGAGTTTTTCGATATTTGGCTCACAA
1 GAGCTTCCCGATA-TACACTCGTATGAGCTTCCCGATACTTAGCTCACAA
* *
43583411 GAGCTTCCCGATATACAGCTCGTATGAGCTTCCCGTTACTTAGCTCACAT
1 GAGCTTCCCGATATACA-CTCGTATGAGCTTCCCGATACTTAGCTCACAA
*
43583461 GAGCTTCCCGTTATA
1 GAGCTTCCCGATATA
43583476 TGGCTCAGAA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
49 2 0.04
50 51 0.96
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (49 bp):
GAGCTTCCCGATATACACTCGTATGAGCTTCCCGATACTTAGCTCACAA
Found at i:43583481 original size:25 final size:25
Alignment explanation
Indices: 43583403--43583497 Score: 93
Period size: 25 Copynumber: 3.8 Consensus size: 25
43583393 TCGATATTTG
* *
43583403 GCTCACAAGAGCTTCCCGATATACA
1 GCTCACAAGAGCTTCCCGTTATATA
** *
43583428 GCTCGTATGAGCTTCCCGTTACT-TA
1 GCTCACAAGAGCTTCCCGTTA-TATA
* *
43583453 GCTCACATGAGCTTCCCGTTATATG
1 GCTCACAAGAGCTTCCCGTTATATA
* *
43583478 GCTCAGAAGAGTTTCCCGTT
1 GCTCACAAGAGCTTCCCGTT
43583498 TACATGCTTG
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.02
25 55 0.96
26 1 0.02
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (25 bp):
GCTCACAAGAGCTTCCCGTTATATA
Found at i:43583494 original size:50 final size:50
Alignment explanation
Indices: 43583403--43583497 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 50
43583393 TCGATATTTG
*
43583403 GCTCACAAGAGCTTCCCGATATACAGCTCGTATGAGCTTCCCGTTACTTA
1 GCTCACAAGAGCTTCCCGATATACAGCTCGTAAGAGCTTCCCGTTACTTA
* * ** *
43583453 GCTCACATGAGCTTCCCGTTATATGGCTCAG-AAGAGTTTCCCGTT
1 GCTCACAAGAGCTTCCCGATATACAGCTC-GTAAGAGCTTCCCGTT
43583498 TACATGCTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 37 0.97
51 1 0.03
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
GCTCACAAGAGCTTCCCGATATACAGCTCGTAAGAGCTTCCCGTTACTTA
Found at i:43584252 original size:28 final size:28
Alignment explanation
Indices: 43584216--43584320 Score: 131
Period size: 28 Copynumber: 3.8 Consensus size: 28
43584206 CAGTAATAGT
**
43584216 ACAGTGTGGGCCTTAGCTTAGA-ACAGTA
1 ACAGTGTGGGCCTTAGCCCA-ATACAGTA
* *
43584244 ACAGTGTGGGCTTTAGCCCAATATAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
*
43584272 ATAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
* *
43584300 ACAGTTTAGGCCTTAGCCCAA
1 ACAGTGTGGGCCTTAGCCCAA
43584321 AACAATAATA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
27 1 0.02
28 65 0.98
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:43584262 original size:61 final size:61
Alignment explanation
Indices: 43584197--43584338 Score: 152
Period size: 56 Copynumber: 2.4 Consensus size: 61
43584187 TCTGGGCCGG
* ** * *
43584197 AGCCCTATACAGTAATAGTACAGTGTGGGCCTTAGCTTAGA-ACAGTAACAGTGTGGGCTTT
1 AGCCCAATACAGTAATAGTACAGTGTGGGCCTTAGCCCA-ATACAGTAACAGTGTAGGCCTT
* *
43584258 AGCCCAATATAGT-A-A-T--AGTGTGGGCCTTAGCCCAATACAGTAACAGTTTAGGCCTT
1 AGCCCAATACAGTAATAGTACAGTGTGGGCCTTAGCCCAATACAGTAACAGTGTAGGCCTT
* *
43584314 AGCCCAAAACAATAATAGTACAGTG
1 AGCCCAATACAGTAATAGTACAGTG
43584339 CAATAATGCA
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
55 1 0.02
56 43 0.66
57 1 0.02
58 2 0.03
59 2 0.03
60 1 0.02
61 15 0.23
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (61 bp):
AGCCCAATACAGTAATAGTACAGTGTGGGCCTTAGCCCAATACAGTAACAGTGTAGGCCTT
Found at i:43584708 original size:27 final size:27
Alignment explanation
Indices: 43584657--43584922 Score: 228
Period size: 27 Copynumber: 9.9 Consensus size: 27
43584647 GCTATAACAG
*
43584657 TCATTTTACCCTATAAGGGTGT-TTT-GA
1 TCATTTTACCCT-TCAGGG-GTATTTCGA
* *
43584684 TCATTTTACCCTTTC-GCGGTATTT-TA
1 TCATTTTACCC-TTCAGGGGTATTTCGA
*
43584710 GTCATTTTACCCTTC-GGAGGTATTTCGG
1 -TCATTTTACCCTTCAGG-GGTATTTCGA
* *
43584738 TCATTTTACTCTTC-GAGGGTATTTCGG
1 TCATTTTACCCTTCAG-GGGTATTTCGA
*
43584765 TCATTTTACCCTTCAGGGGTATTCCGA
1 TCATTTTACCCTTCAGGGGTATTTCGA
*
43584792 TCATTTTACCC-TC-GTGGATATTTC-A
1 TCATTTTACCCTTCAG-GGGTATTTCGA
* *
43584817 GTCATTTTACCCTCCGGGGGTATTTCGA
1 -TCATTTTACCCTTCAGGGGTATTTCGA
* **
43584845 TCATTTTACCATTC-GAGGGTATTTAAA
1 TCATTTTACCCTTCAG-GGGTATTTCGA
* * *
43584872 TTATTTTACCCTTCAAGGGTATTTCGG
1 TCATTTTACCCTTCAGGGGTATTTCGA
*
43584899 TCATTTTACCCTTCAAGGGTATTT
1 TCATTTTACCCTTCAGGGGTATTT
43584923 TAGTTATTTG
Statistics
Matches: 200, Mismatches: 25, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
25 4 0.02
26 31 0.16
27 160 0.80
28 5 0.03
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTTCAGGGGTATTTCGA
Found at i:43584742 original size:54 final size:54
Alignment explanation
Indices: 43584654--43584931 Score: 278
Period size: 54 Copynumber: 5.2 Consensus size: 54
43584644 AAGGCTATAA
** * * *
43584654 CAGTCATTTTACCCTATAAG-GGTGTTTTGATCATTTTACCCTTTCG-CGGTATTT
1 CAGTCATTTTACCCT-TCGGAGGTATTTCGATCATTTTACCC-TTCGAGGGTATTT
* * *
43584708 TAGTCATTTTACCCTTCGGAGGTATTTCGGTCATTTTACTCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGGAGGTATTTCGATCATTTTACCCTTCGAGGGTATTT
* * * *
43584762 CGGTCATTTTACCCTTCAGG-GGTATTCCGATCATTTTACCC-TCGTGGATATTT
1 CAGTCATTTTACCCTTC-GGAGGTATTTCGATCATTTTACCCTTCGAGGGTATTT
* * *
43584815 CAGTCATTTTACCCTCCGGGGGTATTTCGATCATTTTACCATTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGGAGGTATTTCGATCATTTTACCCTTCGAGGGTATTT
* * * * * *
43584869 AAATTATTTTACCCTTC-AAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTT
1 CAGTCATTTTACCCTTCGGA-GGTATTTCGATCATTTTACCCTTCGAGGGTATTT
* *
43584923 TAGTTATTT
1 CAGTCATTT
43584932 GCCCATGAAT
Statistics
Matches: 186, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.01
53 50 0.27
54 132 0.71
55 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.43
Consensus pattern (54 bp):
CAGTCATTTTACCCTTCGGAGGTATTTCGATCATTTTACCCTTCGAGGGTATTT
Found at i:43584843 original size:107 final size:105
Alignment explanation
Indices: 43584655--43584910 Score: 309
Period size: 107 Copynumber: 2.4 Consensus size: 105
43584645 AGGCTATAAC
* * *
43584655 AGTCATTTTACCCTATAAGGGTGT-TTTGATCATTTTACCCTTTCGCGGTATTTTAGTCATTTTA
1 AGTCATTTTACCCT-TCAGGG-GTATTCGATCATTTTACCC--TCGCGGTATTTCAGTCATTTTA
* * *
43584719 CCCTTCGGAGGTATTTCGGTCATTTTACTC-TTCGAGGGTATTTC
62 CCCTCCGGAGGTATTTCGATCATTTTAC-CATTCGAGGGTATTTA
* *
43584763 GGTCATTTTACCCTTCAGGGGTATTCCGATCATTTTACCCTCGTGGATATTTCAGTCATTTTACC
1 AGTCATTTTACCCTTCAGGGGTATT-CGATCATTTTACCCTCGCGG-TATTTCAGTCATTTTACC
*
43584828 CTCCGGGGGTATTTCGATCATTTTACCATTCGAGGGTATTTA
64 CTCCGGAGGTATTTCGATCATTTTACCATTCGAGGGTATTTA
* * * *
43584870 AATTATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCT
1 AGTCATTTTACCCTTCAGGGGTA-TTCGATCATTTTACCCT
43584911 TCAAGGGTAT
Statistics
Matches: 129, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
106 8 0.06
107 93 0.72
108 28 0.22
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (105 bp):
AGTCATTTTACCCTTCAGGGGTATTCGATCATTTTACCCTCGCGGTATTTCAGTCATTTTACCCT
CCGGAGGTATTTCGATCATTTTACCATTCGAGGGTATTTA
Found at i:43590782 original size:21 final size:22
Alignment explanation
Indices: 43590756--43590796 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
43590746 AGATCATTAA
43590756 TTTTATCTCTTTT-ATTTTTAG
1 TTTTATCTCTTTTCATTTTTAG
* *
43590777 TTTTATTTTTTTTCATTTTT
1 TTTTATCTCTTTTCATTTTT
43590797 TTGTTTCTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTATCTCTTTTCATTTTTAG
Found at i:43606551 original size:21 final size:22
Alignment explanation
Indices: 43606512--43606552 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
43606502 TCAAAAATAA
*
43606512 TAATACAAATGGATGAATTTTT
1 TAATACAAATGGATCAATTTTT
*
43606534 TAATAGAAA-GGATCAATTT
1 TAATACAAATGGATCAATTT
43606553 ACTATTTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.37
Consensus pattern (22 bp):
TAATACAAATGGATCAATTTTT
Found at i:43609641 original size:20 final size:20
Alignment explanation
Indices: 43609616--43609653 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43609606 GTAGTGGAAA
43609616 TTTATTTTCTTA-GAATAAAT
1 TTTATTTT-TTAGGAATAAAT
43609636 TTTATTTTTTAGGAATAA
1 TTTATTTTTTAGGAATAA
43609654 TAATTTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (20 bp):
TTTATTTTTTAGGAATAAAT
Found at i:43613527 original size:29 final size:28
Alignment explanation
Indices: 43613481--43613603 Score: 92
Period size: 29 Copynumber: 4.4 Consensus size: 28
43613471 GGAAACAAAT
* *
43613481 ACAGAGTTGCACCAAAGTGCATTAACAGA
1 ACAGAGGTGCACCGAAGTGCA-TAACAGA
**
43613510 ACAGAGGTGCACCGAAGTGCAATGCCAGA
1 ACAGAGGTGCACCGAAGTGC-ATAACAGA
* * * *
43613539 ACGGAGG-GCACCGTAGTGCA-ATCGGA
1 ACAGAGGTGCACCGAAGTGCATAACAGA
* *
43613565 ATAGAGG-ACACCGAAGTGC-TAACAGA
1 ACAGAGGTGCACCGAAGTGCATAACAGA
*
43613591 ATAGAGGGTGCAC
1 ACAGA-GGTGCAC
43613604 TAAATATCCT
Statistics
Matches: 74, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
26 27 0.36
27 3 0.04
28 14 0.19
29 29 0.39
30 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.30, T:0.13
Consensus pattern (28 bp):
ACAGAGGTGCACCGAAGTGCATAACAGA
Found at i:43613582 original size:26 final size:26
Alignment explanation
Indices: 43613519--43613597 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
43613509 AACAGAGGTG
** *
43613519 CACCGAAGTGCAATGCCAGAACGGAGGG
1 CACCGAAGTGCAAT--CAGAATAGAGGA
* *
43613547 CACCGTAGTGCAATCGGAATAGAGGA
1 CACCGAAGTGCAATCAGAATAGAGGA
43613573 CACCGAAGTGCTAA-CAGAATAGAGG
1 CACCGAAGTGC-AATCAGAATAGAGG
43613598 GTGCACTAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 28 0.65
27 2 0.05
28 13 0.30
ACGTcount: A:0.35, C:0.22, G:0.32, T:0.11
Consensus pattern (26 bp):
CACCGAAGTGCAATCAGAATAGAGGA
Found at i:43616653 original size:6 final size:6
Alignment explanation
Indices: 43616644--43616693 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
43616634 TTTATTTTAT
* *
43616644 TTAATA TTAATA TAATTATA TTTAT- TTAATA TTAATA TTAATA TTAATA
1 TTAATA TTAATA T--TAATA TTAATA TTAATA TTAATA TTAATA TTAATA
43616693 T
1 T
43616694 ATTTTTTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 4 0.10
6 30 0.77
8 5 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTAATA
Found at i:43616668 original size:25 final size:24
Alignment explanation
Indices: 43616635--43616681 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
43616625 AGAAGAATTT
43616635 TTATTTTATTTAATATTAATATAA
1 TTATTTTATTTAATATTAATATAA
43616659 TTATATTTATTTAATATTAATAT
1 TTAT-TTTATTTAATATTAATAT
43616682 TAATATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TTATTTTATTTAATATTAATATAA
Found at i:43616681 original size:31 final size:30
Alignment explanation
Indices: 43616634--43616712 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 30
43616624 TAGAAGAATT
*
43616634 TTTATTTTATTTAATATTAATA-TAATTATA
1 TTTATTTAATTTAATATTAATATTAA-TATA
43616664 TTTATTTAATATTAATATTAATATTAATATA
1 TTTATTTAAT-TTAATATTAATATTAATATA
*
43616695 TTT-TTTAATTTATTATTA
1 TTTATTTAATTTAATATTA
43616713 TACTTTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
29 8 0.18
30 15 0.33
31 19 0.42
32 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTATTTAATTTAATATTAATATTAATATA
Found at i:43616741 original size:21 final size:19
Alignment explanation
Indices: 43616717--43616769 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
43616707 TTATTATACT
*
43616717 TTTTTTGAAATTATTTATGTA
1 TTTTTT-AAATT-TTTATGAA
*
43616738 TTTTTATAAATTTTTTTGAA
1 TTTTT-TAAATTTTTATGAA
43616758 TTTTTTAGAATT
1 TTTTTTA-AATT
43616770 AGGATCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 2 0.07
20 15 0.54
21 10 0.36
22 1 0.04
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (19 bp):
TTTTTTAAATTTTTATGAA
Found at i:43617491 original size:8 final size:7
Alignment explanation
Indices: 43617466--43617496 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
43617456 ATCCTTATAT
43617466 ATTTTAA
1 ATTTTAA
43617473 ATTTTAA
1 ATTTTAA
43617480 ATTTTAAA
1 ATTTT-AA
43617488 ATTTTAA
1 ATTTTAA
43617495 AT
1 AT
43617497 CTGACCGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATTTTAA
Found at i:43617491 original size:15 final size:14
Alignment explanation
Indices: 43617466--43617496 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
43617456 ATCCTTATAT
43617466 ATTTTAAATTTTAA
1 ATTTTAAATTTTAA
43617480 ATTTTAAAATTTTAA
1 ATTTT-AAATTTTAA
43617495 AT
1 AT
43617497 CTGACCGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTTAAATTTTAA
Found at i:43625993 original size:63 final size:63
Alignment explanation
Indices: 43625911--43626055 Score: 191
Period size: 63 Copynumber: 2.3 Consensus size: 63
43625901 CCTATAGAAA
* * * * * * *
43625911 GTGTTGATGTAGAGAATGATTGTGTGTGTTGTGATGCTTGTATAAAATAAACGGGTGTTGAAT
1 GTGTTGATGCAGGGAATGATTGTGCGTGTTGTGATGCTTATATAAAATAAACCGGAGCTGAAT
* *
43625974 GTGTTGATGCAGGGAATGATTGTGCGTGTTGTGGTGCTTATGTAAAATAAACCGGAGCTGAAT
1 GTGTTGATGCAGGGAATGATTGTGCGTGTTGTGATGCTTATATAAAATAAACCGGAGCTGAAT
* *
43626037 GTGTAGATGCGGGGAATGA
1 GTGTTGATGCAGGGAATGA
43626056 GTGTATGGGG
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 71 1.00
ACGTcount: A:0.26, C:0.06, G:0.34, T:0.33
Consensus pattern (63 bp):
GTGTTGATGCAGGGAATGATTGTGCGTGTTGTGATGCTTATATAAAATAAACCGGAGCTGAAT
Found at i:43633870 original size:21 final size:21
Alignment explanation
Indices: 43633844--43633884 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
43633834 CCACCGCCAG
43633844 CCTTTTTCTGCTCCCCTCCAC
1 CCTTTTTCTGCTCCCCTCCAC
43633865 CCTTTTTCTGCTCCCCTCCA
1 CCTTTTTCTGCTCCCCTCCA
43633885 GCCATATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.05, C:0.51, G:0.05, T:0.39
Consensus pattern (21 bp):
CCTTTTTCTGCTCCCCTCCAC
Found at i:43643592 original size:9 final size:9
Alignment explanation
Indices: 43643578--43643611 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
43643568 TTTGGTTAAA
43643578 AATTACCCG
1 AATTACCCG
43643587 AATTACCCG
1 AATTACCCG
*
43643596 AATTAACCG
1 AATTACCCG
43643605 AATTACC
1 AATTACC
43643612 GAAAAATACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.38, C:0.29, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:43651084 original size:27 final size:28
Alignment explanation
Indices: 43651048--43651100 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
43651038 TCATTTGCTA
* *
43651048 TTATATTTAAATTTTTAAAT-ATTTAAT
1 TTATAATTAAATTTATAAATAATTTAAT
43651075 TTATAATTAAATTTATAAATAATTTA
1 TTATAATTAAATTTATAAATAATTTA
43651101 TTAATTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TTATAATTAAATTTATAAATAATTTAAT
Found at i:43651110 original size:27 final size:27
Alignment explanation
Indices: 43651054--43651112 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
43651044 GCTATTATAT
* *
43651054 TTAAATTTTTAAATATTTAATTTATAA
1 TTAAATTTATAAATATTTAATTAATAA
*
43651081 TTAAATTTATAAATAATTT-ATTAATTA
1 TTAAATTTATAAAT-ATTTAATTAATAA
43651108 TTAAA
1 TTAAA
43651113 AGGTTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TTAAATTTATAAATATTTAATTAATAA
Found at i:43651212 original size:33 final size:33
Alignment explanation
Indices: 43651175--43651294 Score: 89
Period size: 33 Copynumber: 3.4 Consensus size: 33
43651165 TTAATTTATT
43651175 TTTTAATTTTCAATATCATGTATAAAATAAACA
1 TTTTAATTTTCAATATCATGTATAAAATAAACA
* * ** *
43651208 TTTTAATTTCTCACGACAAAT-ATTTAATTTTCATTAGAACA
1 TTTTAATTT-T--C-A-ATATCATGT-A--TAAAATA-AACA
* *
43651249 TTTTAATTTTTAATATCATGTATAAAATGAACA
1 TTTTAATTTTCAATATCATGTATAAAATAAACA
43651282 TTTTAATTTTCAA
1 TTTTAATTTTCAA
43651295 AAACATTTCT
Statistics
Matches: 64, Mismatches: 13, Indels: 20
0.66 0.13 0.21
Matches are distributed among these distances:
33 25 0.39
34 4 0.06
36 5 0.08
37 8 0.12
38 4 0.06
40 5 0.08
41 13 0.20
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (33 bp):
TTTTAATTTTCAATATCATGTATAAAATAAACA
Found at i:43651982 original size:44 final size:45
Alignment explanation
Indices: 43651893--43651987 Score: 133
Period size: 44 Copynumber: 2.1 Consensus size: 45
43651883 ATAGAGGTGT
*
43651893 AATGGAATAGAAACGTAATAGTAATTCAATTGTTTGGTTGAATGG
1 AATGAAATAGAAACGTAATAGTAATTCAATTGTTTGGTTGAATGG
*
43651938 AATGAAATAG-AACTGTAATAGT-ATTC-TTGTGTTTGGTTGAATGG
1 AATGAAATAGAAAC-GTAATAGTAATTCAAT-TGTTTGGTTGAATGG
43651982 AATGAA
1 AATGAA
43651988 GTTGTAATAG
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
43 1 0.02
44 28 0.61
45 17 0.37
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (45 bp):
AATGAAATAGAAACGTAATAGTAATTCAATTGTTTGGTTGAATGG
Found at i:43652204 original size:59 final size:58
Alignment explanation
Indices: 43652140--43652323 Score: 198
Period size: 64 Copynumber: 3.1 Consensus size: 58
43652130 ATTATTATTA
*
43652140 AATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATAATTTAATAAAATTCTTAATA-TAATTATTCTTATATGAATTTACTAAAATCAT
* * * * *
43652199 AATAT-ATAATAGTATAAAATATAATTTAAAATAATTATTATTAAATAT-AATTTAATAAAA--A
1 AATATAAT-TTA--ATAAAAT-T--CTTAATATAATTATTCTT--ATATGAATTTACTAAAATCA
43652260 T
58 T
43652261 -ATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAAATCAT
1 AATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAAATCAT
43652318 AATATA
1 AATATA
43652324 TAATACTATA
Statistics
Matches: 101, Mismatches: 11, Indels: 27
0.73 0.08 0.19
Matches are distributed among these distances:
54 4 0.04
55 11 0.11
56 15 0.15
57 2 0.02
58 8 0.08
59 14 0.14
61 13 0.13
62 5 0.05
63 9 0.09
64 16 0.16
65 4 0.04
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (58 bp):
AATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAAATCAT
Found at i:43652315 original size:119 final size:120
Alignment explanation
Indices: 43652141--43652397 Score: 453
Period size: 119 Copynumber: 2.1 Consensus size: 120
43652131 TTATTATTAA
43652141 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* * *
43652206 AATAGTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
66 AATACTATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAAAC
*
43652261 ATATAATTTAATAAAATTCTTAATA-TAATTATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
*
43652325 AATACTATAAAATATAATCTAAAATAATTATTATTAACTATAATTTAATAAAAAC
66 AATACTATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAAAC
*
43652380 ATATAATTTAATATAATT
1 ATATAATTTAATAAAATT
43652398 ATTCTTATAT
Statistics
Matches: 131, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
119 106 0.81
120 25 0.19
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (120 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAAAC
Found at i:43652384 original size:44 final size:43
Alignment explanation
Indices: 43652336--43652425 Score: 110
Period size: 44 Copynumber: 2.1 Consensus size: 43
43652326 ATACTATAAA
43652336 ATATAATCTAAAATAATTATTATTAACTAT-AATTTAATAAAAAC
1 ATATAATCTAAAATAATTATTATT-A-TATGAATTTAATAAAAAC
* * * * *
43652380 ATATAATTTAATATAATTATTCTTATATGAATTTACTAAAATC
1 ATATAATCTAAAATAATTATTATTATATGAATTTAATAAAAAC
43652423 ATA
1 ATA
43652426 ATATATAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
42 3 0.08
43 16 0.40
44 21 0.52
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.42
Consensus pattern (43 bp):
ATATAATCTAAAATAATTATTATTATATGAATTTAATAAAAAC
Found at i:43652435 original size:43 final size:44
Alignment explanation
Indices: 43652331--43652435 Score: 105
Period size: 43 Copynumber: 2.5 Consensus size: 44
43652321 ATATAATACT
*
43652331 ATAAAAT-ATAATCTA-AA-ATAATTATTATTAACTATAATTTA
1 ATAAAATCATAATATATAATATAATTATTATTAACTATAATTTA
* * *
43652372 ATAAAAACAT-ATAATTTAATATAATTATTCTT-A-TATGAATTTA
1 ATAAAATCATAAT-ATATAATATAATTATTATTAACTAT-AATTTA
*
43652415 CTAAAATCATAATATATAATA
1 ATAAAATCATAATATATAATA
43652436 CTATAAAAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
41 8 0.16
42 6 0.12
43 24 0.47
44 13 0.25
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (44 bp):
ATAAAATCATAATATATAATATAATTATTATTAACTATAATTTA
Found at i:43653802 original size:33 final size:33
Alignment explanation
Indices: 43653760--43653826 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
43653750 ATCGAATCCA
43653760 AATCTCTAATTCACTTTCAAGAAAGGAAATAAT
1 AATCTCTAATTCACTTTCAAGAAAGGAAATAAT
43653793 AATCTCTAATTCACTTTCAAGAAAGGAAATAAT
1 AATCTCTAATTCACTTTCAAGAAAGGAAATAAT
43653826 A
1 A
43653827 GTAATAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (33 bp):
AATCTCTAATTCACTTTCAAGAAAGGAAATAAT
Found at i:43655515 original size:17 final size:17
Alignment explanation
Indices: 43655493--43655526 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
43655483 AACGATAGAG
43655493 ATAAAAAATCTTAACTC
1 ATAAAAAATCTTAACTC
*
43655510 ATAAAAAATCTTGACTC
1 ATAAAAAATCTTAACTC
43655527 CGAGTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.29
Consensus pattern (17 bp):
ATAAAAAATCTTAACTC
Found at i:43658308 original size:27 final size:27
Alignment explanation
Indices: 43658278--43658338 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
43658268 TATCTCGGTT
*
43658278 GACTATCCCATATTTAATG-TCTCGTCA
1 GACTATCCCATATTTAACGTTC-CGTCA
* * *
43658305 GACTATCTCGTGTTTAACGTTCCGTCA
1 GACTATCCCATATTTAACGTTCCGTCA
43658332 GACTATC
1 GACTATC
43658339 TATGATACCG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (27 bp):
GACTATCCCATATTTAACGTTCCGTCA
Found at i:43662049 original size:29 final size:29
Alignment explanation
Indices: 43662007--43662062 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
43661997 ATAAGAACTT
*
43662007 GATCAATTTAGTCCATGCACTATTAAATG
1 GATCAAATTAGTCCATGCACTATTAAATG
* *
43662036 GATCAAATTAGTCCTTGTACTATTAAA
1 GATCAAATTAGTCCATGCACTATTAAA
43662063 AAGGATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (29 bp):
GATCAAATTAGTCCATGCACTATTAAATG
Found at i:43663285 original size:37 final size:38
Alignment explanation
Indices: 43663220--43663297 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 38
43663210 AAAATCAAAG
*
43663220 TTGATTAATTGAAAAAATCAATCAAATT-AAAATTGAT
1 TTGATTAATTGAAAAAATCAATCAAATTAAAAATTAAT
* **
43663257 TTGATTAATTGAAAAAATCGATTGAATTAAAAATTAAT
1 TTGATTAATTGAAAAAATCAATCAAATTAAAAATTAAT
43663295 TTG
1 TTG
43663298 GTATATATGG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 25 0.69
38 11 0.31
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (38 bp):
TTGATTAATTGAAAAAATCAATCAAATTAAAAATTAAT
Found at i:43680272 original size:11 final size:10
Alignment explanation
Indices: 43680255--43680292 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
43680245 TTTTAAAATA
43680255 TTTTTTTAAG
1 TTTTTTTAAG
43680265 TTTCTTTTAA-
1 TTT-TTTTAAG
43680275 TTTTTTTAAG
1 TTTTTTTAAG
43680285 TTTATTTT
1 TTT-TTTT
43680293 CGTTCTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 6 0.24
10 9 0.36
11 10 0.40
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (10 bp):
TTTTTTTAAG
Found at i:43680277 original size:20 final size:20
Alignment explanation
Indices: 43680227--43680292 Score: 71
Period size: 20 Copynumber: 3.1 Consensus size: 20
43680217 AGTTTAATTA
*
43680227 TTTACTTTTTTT-AGTTTAT
1 TTTAATTTTTTTAAGTTTAT
*
43680246 TTTAAAATATTTTTTTAAGTTTCT
1 TTT---A-ATTTTTTTAAGTTTAT
43680270 TTTAATTTTTTTAAGTTTAT
1 TTTAATTTTTTTAAGTTTAT
43680290 TTT
1 TTT
43680293 CGTTCTATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 3 0.08
20 18 0.46
21 1 0.03
22 1 0.03
23 7 0.18
24 9 0.23
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTAATTTTTTTAAGTTTAT
Found at i:43683620 original size:21 final size:21
Alignment explanation
Indices: 43683587--43683666 Score: 114
Period size: 21 Copynumber: 4.0 Consensus size: 21
43683577 ATTACAAAAT
43683587 CATATC-T-TCTAAGATTGTA
1 CATATCATATCTAAGATTGTA
* *
43683606 TATATCATATCTAAGATTGCA
1 CATATCATATCTAAGATTGTA
43683627 CATATCATATCTAAGATTG--
1 CATATCATATCTAAGATTGTA
43683646 CATATCATATCTAAGATTGTA
1 CATATCATATCTAAGATTGTA
43683667 TATCCTCGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
19 24 0.44
20 1 0.02
21 29 0.54
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (21 bp):
CATATCATATCTAAGATTGTA
Found at i:43683651 original size:19 final size:19
Alignment explanation
Indices: 43683607--43683670 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
43683597 AAGATTGTAT
43683607 ATATCATATCTAAGATTGCAC
1 ATATCATATCTAAGATTG--C
43683628 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
*
43683647 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
43683666 ATATC
1 ATATC
43683671 CTCGAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 24 0.57
21 18 0.43
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:43684398 original size:19 final size:19
Alignment explanation
Indices: 43684374--43684482 Score: 164
Period size: 19 Copynumber: 5.7 Consensus size: 19
43684364 AATCTTTAGG
43684374 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
43684393 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* ** *
43684412 AATATATAATCTTAGATAC
1 GATATGCAATCTTAGATAT
43684431 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
43684450 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
43684469 GATATGCAATCTTA
1 GATATGCAATCTTA
43684483 AAAGATATGA
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 78 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:43684424 original size:38 final size:38
Alignment explanation
Indices: 43684381--43684482 Score: 186
Period size: 38 Copynumber: 2.7 Consensus size: 38
43684371 AGGGATATGC
43684381 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
* *
43684419 AATCTTAGATACGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
43684457 AATCTTAGATATGATATGCAATCTTA
1 AATCTTAGATATGATATGCAATCTTA
43684483 AAAGATATGA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:43684510 original size:22 final size:20
Alignment explanation
Indices: 43684374--43684510 Score: 122
Period size: 19 Copynumber: 6.9 Consensus size: 20
43684364 AATCTTTAGG
*
43684374 GATATGCAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
*
43684393 GATATGCAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
* * *
43684412 AATATATAATCTT-AGATAC
1 GATATGTAATCTTAAGATAT
*
43684431 GATATGCAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
*
43684450 GATATATAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
*
43684469 GATATGCAATCTTAAAAGATAT
1 GATATGTAATCTT--AAGATAT
*
43684491 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTA-AGAT
43684511 TTAATTTGTA
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
19 77 0.78
21 1 0.01
22 12 0.12
23 9 0.09
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (20 bp):
GATATGTAATCTTAAGATAT
Found at i:43689853 original size:12 final size:12
Alignment explanation
Indices: 43689837--43689885 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
43689827 AAAATATTTC
*
43689837 AAAAAAAAAGAGG
1 AAAAAGAAA-AGG
43689850 AAAAAGAAAAGG
1 AAAAAGAAAAGG
*
43689862 AAAAAGGAAAAAAG
1 AAAAA-G-AAAAGG
43689876 AAAAAGAAAA
1 AAAAAGAAAA
43689886 AGTAAAATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 12 0.38
13 10 0.31
14 10 0.31
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAGG
Found at i:43689868 original size:7 final size:7
Alignment explanation
Indices: 43689842--43689892 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
43689832 ATTTCAAAAA
43689842 AAAAGAGG
1 AAAA-AGG
43689850 AAAAA-G
1 AAAAAGG
43689856 -AAAAGG
1 AAAAAGG
43689862 AAAAAGG
1 AAAAAGG
*
43689869 AAAAAAG
1 AAAAAGG
43689876 AAAAA-G
1 AAAAAGG
*
43689882 AAAAAGT
1 AAAAAGG
43689889 AAAA
1 AAAA
43689893 TGAGAGGCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
5 4 0.11
6 8 0.21
7 22 0.58
8 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (7 bp):
AAAAAGG
Found at i:43689873 original size:20 final size:20
Alignment explanation
Indices: 43689837--43689892 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
43689827 AAAATATTTC
43689837 AAAAA-AAAAGAGG-AAAAAG
1 AAAAAGAAAA-AGGAAAAAAG
*
43689856 AAAAGGAAAAAGGAAAAAAG
1 AAAAAGAAAAAGGAAAAAAG
*
43689876 AAAAAGAAAAAGTAAAA
1 AAAAAGAAAAAGGAAAA
43689893 TGAGAGGCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.22
20 25 0.78
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
AAAAAGAAAAAGGAAAAAAG
Found at i:43689879 original size:6 final size:6
Alignment explanation
Indices: 43689849--43689892 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
43689839 AAAAAAAGAG
* *
43689849 GAAAAA GAAAAG GAAAAA GGAAAAAA GAAAAA GAAAAA GTAAAA
1 GAAAAA GAAAAA GAAAAA -G-AAAAA GAAAAA GAAAAA GAAAAA
43689893 TGAGAGGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 26 0.79
7 2 0.06
8 5 0.15
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.02
Consensus pattern (6 bp):
GAAAAA
Found at i:43691176 original size:44 final size:44
Alignment explanation
Indices: 43691127--43691356 Score: 268
Period size: 44 Copynumber: 5.2 Consensus size: 44
43691117 TTAGTGAAAA
* * * *
43691127 AGCAGATATTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * *
43691171 AGCAGATCATGTCTTCCTATATTGGTAGGAAGTGGATCGAATAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
* * *
43691215 -GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * *
43691259 AGCAGATCTTGTGTTCTTATATTGG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
*
43691303 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
**
43691347 TTCAGATCTT
1 AGCAGATCTT
43691357 ATATCCCTAA
Statistics
Matches: 157, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
43 24 0.15
44 110 0.70
45 23 0.15
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
Found at i:43691384 original size:132 final size:132
Alignment explanation
Indices: 43691125--43691389 Score: 347
Period size: 132 Copynumber: 2.0 Consensus size: 132
43691115 GATTAGTGAA
*
43691125 AAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCATGTCTTCCTA
1 AAAGCAGATATTGTCTTCATATATTGGCGTGAAGTAGATCGAAGATAGCAGATCATGTCTTCCTA
* * * * * * *
43691190 TATTGGTAGGAAGTGGATCGAATATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCATCCCATATAGGTAGCGAAGCAGATCAA
43691255 AG
131 AG
* * * *
43691257 AAAGCAGATCTTGTGTTCTTATATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTA
1 AAAGCAGATATTGTCTTCATATATTGGCGTGAAGTAGATCGAAGATAGCAGATCATGTCTTCCTA
* * *
43691322 TATTGGTAGGAAGTGGATCGAAGATTTCAGATCTTAT-ATCCC-TA-AGCAGTAGTGGAGCAGAT
66 TATTGGTAGGAAGTGGATCGAAGA-TGCAGATCTTATCATCCCATATAG--GTAGCGAAGCAGAT
43691384 CAAAG
128 CAAAG
43691389 A
1 A
43691390 TGGCGGATTT
Statistics
Matches: 115, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
130 1 0.01
131 2 0.02
132 102 0.89
133 10 0.09
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (132 bp):
AAAGCAGATATTGTCTTCATATATTGGCGTGAAGTAGATCGAAGATAGCAGATCATGTCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCATCCCATATAGGTAGCGAAGCAGATCAA
AG
Found at i:43691503 original size:132 final size:132
Alignment explanation
Indices: 43691341--43692261 Score: 1407
Period size: 132 Copynumber: 7.1 Consensus size: 132
43691331 GAAGTGGATC
* *
43691341 GAAGATTTCAGATCTTATATCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTC
1 GAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
* * * *
43691406 CTTATGGTTATAGTGGAGTACATTAAAGCCAGTAATTCTACTTCCCTGAACAACAGTGGAATAGA
66 CCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGA
43691471 TT
131 TT
* *
43691473 GAAGATTTGAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGCGGATTTTACCTC
1 GAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
*
43691538 CCTGTGGTTATAGTGGAGTACATTGAAACCAGTAATTCTACTT--C----C--C--TGGAATAGA
66 CCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGA
43691593 TT
131 TT
* *
43691595 GAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTC
1 GAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
* *
43691660 CCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATATA
66 CCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGA
43691725 TT
131 TT
*
43691727 GAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
1 GAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
* *
43691792 CCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAATGGAATAGA
66 CCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGA
43691857 TT
131 TT
* * * *
43691859 GAAAATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGCAGATGACGGATTTTACCTC
1 GAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
* * * *
43691924 CCTGTGGTTATAGTAGAGTACATTGAAGCCAGTAATTCTATTTTCCTGGACAACAGTGGAACAGA
66 CCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGA
43691989 TT
131 TT
* *
43691991 GAAGATTTCAGATCTTATCTCCCTAAGCAATAGTGGAGCAAATCGAAGATGGCGGATTTTACCTC
1 GAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
*
43692056 CCTGTGGTTATAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGACAACAGTGGAATAGA
66 CCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGA
43692121 TT
131 TT
* * * * *
43692123 AAAGATTTCAGATCTTATCTCCCTAAGAAGTAGTGAAGCAGATCGAAGATGCCAGATTTTACCTC
1 GAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
* * * *
43692188 CTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-TCATA-TATCCCTGGTCAGCAGTGGAATA
66 CCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTC-TACT-TCCCTGGACAACAGTGGAATA
*
43692251 GGTT
129 GATT
43692255 GAAGATT
1 GAAGATT
43692262 GTAAGTCCTA
Statistics
Matches: 723, Mismatches: 54, Indels: 24
0.90 0.07 0.03
Matches are distributed among these distances:
122 113 0.16
124 2 0.00
126 1 0.00
128 1 0.00
130 2 0.00
131 3 0.00
132 601 0.83
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (132 bp):
GAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
CCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGA
TT
Found at i:43692617 original size:19 final size:19
Alignment explanation
Indices: 43692588--43692679 Score: 130
Period size: 19 Copynumber: 4.8 Consensus size: 19
43692578 AATTTTTAGG
*
43692588 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
* * *
43692607 AATATATAATCTTAGATAC
1 GATATACAATCTTAGATAT
*
43692626 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
43692645 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
43692664 GATATACAATCTTAGA
1 GATATACAATCTTAGA
43692680 AGATATGATT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 62 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:43692630 original size:38 final size:38
Alignment explanation
Indices: 43692588--43692679 Score: 157
Period size: 38 Copynumber: 2.4 Consensus size: 38
43692578 AATTTTTAGG
43692588 GATATGCAATCTTAGATATAATATATAATCTTAGATAC
1 GATATGCAATCTTAGATATAATATATAATCTTAGATAC
* *
43692626 GATATGCAATCTTAGATATGATATATAATCTTAGATAT
1 GATATGCAATCTTAGATATAATATATAATCTTAGATAC
*
43692664 GATATACAATCTTAGA
1 GATATGCAATCTTAGA
43692680 AGATATGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATAATATATAATCTTAGATAC
Found at i:43694611 original size:42 final size:42
Alignment explanation
Indices: 43694528--43694655 Score: 116
Period size: 42 Copynumber: 3.0 Consensus size: 42
43694518 CAAAGGTTGC
* * * * ** **
43694528 ACAGAAGCACACAAGTGCTAAACGGAAACCCACAAAAGTTAA
1 ACAGAAGCTCAAAAGAGCTAAACTGAAACCCAGTAGGGTTAA
* *
43694570 ACAGAAGCTCATAAGAGCTGAAC-GAAAACCC-GTAGGGGTTAA
1 ACAGAAGCTCAAAAGAGCTAAACTG-AAACCCAGTA-GGGTTAA
* *
43694612 ACTGAAGCTCAAAAGAGCTAAACTGAAACCCATTAGGGTTAA
1 ACAGAAGCTCAAAAGAGCTAAACTGAAACCCAGTAGGGTTAA
43694654 AC
1 AC
43694656 GAAAACTCAT
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.03
42 65 0.93
43 3 0.04
ACGTcount: A:0.45, C:0.21, G:0.20, T:0.14
Consensus pattern (42 bp):
ACAGAAGCTCAAAAGAGCTAAACTGAAACCCAGTAGGGTTAA
Found at i:43701128 original size:14 final size:15
Alignment explanation
Indices: 43701109--43701142 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
43701099 ACAAATAAAT
*
43701109 TTAATATAT-TGTAA
1 TTAATATATATATAA
43701123 TTAATATATATATAA
1 TTAATATATATATAA
43701138 TTAAT
1 TTAAT
43701143 CCACGCATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TTAATATATATATAA
Found at i:43701222 original size:19 final size:18
Alignment explanation
Indices: 43701200--43701241 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
43701190 ACATCATCAA
43701200 TAAATTAATAAATAATTTT
1 TAAATTAAT-AATAATTTT
* *
43701219 TAAAATAATTATAATTTT
1 TAAATTAATAATAATTTT
43701237 TAAAT
1 TAAAT
43701242 AACAAGTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATAATAATTTT
Found at i:43703208 original size:109 final size:107
Alignment explanation
Indices: 43702854--43703598 Score: 909
Period size: 107 Copynumber: 7.1 Consensus size: 107
43702844 GAAAAAGGAA
* * * *
43702854 AAAAAAACAAAAAAAAATCTTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAATATAATTTAAA
1 AAAAAAA-TAAAAAAAA--TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAA
** * *
43702919 AAAAA-------AATTTT-GTGTCAGATTCAAATATCAGTATACG
63 AAAAATTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACG
* *
43702956 ----AAA-AAAAAAAA-TTT-GGTGTTGGCCTGTCAATGGTCGGCACCCAGTACAATTTAAAAAA
1 AAAAAAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAA
*
43703014 ATTTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACG
66 AATTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACG
* * * *
43703056 AAAAAAATAAAAAAAATTTTGGATGTTGACCTGTCAATGGCCGGCACCCAGTATAATTTAAAAAA
1 AAAAAAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAA
43703121 AATTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACG
66 AATTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACG
*
43703163 AAAAAAATAAGAAAAAATTTTGGGGTGCTGACCTGTCAATGGCCGGCACCCAGTACAATTTAAAA
1 AAAAAAATAA-AAAAAATTTT-GGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAA
*
43703228 AAAATT-TCTTTTTTTCTCGTGTCAGAATCAGATATCAGTATACG
64 AAAATTCT-TTTTTTTTTCGTGTCAGAATCAGATATCAGTATACG
* *
43703272 AAAAAAATAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACACAGTACAATTTAAAAAA
1 AAAAAAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAA
** *
43703337 TTTTCTTTTTTTTTTCGTGTCAGAATCAGATATCAATATACG
66 AATTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACG
* * *
43703379 AAAAAAATAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACCCAGTAC-A---AAAT
1 AAAAAAAT--AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAA
*
43703440 AAAA-----TTTTTTTTCGTGTCAGAATCAGATATCAATATACG
64 AAAATTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACG
* *
43703479 AAAAAAATAAAAATAAAAATTTTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAATAC-ATTTA
1 AAAAAAAT--AAA-AAAAA--TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTA
43703543 AAAAAAATATC--TTTTTTTTCGTGTCAGAATCAGATATCAGTATAC-
61 AAAAAAAT-TCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACG
43703588 AAAAAAATAAA
1 AAAAAAATAAA
43703599 CATAATTATA
Statistics
Matches: 573, Mismatches: 39, Indels: 57
0.86 0.06 0.09
Matches are distributed among these distances:
92 40 0.07
93 3 0.01
96 8 0.01
98 3 0.01
99 4 0.01
100 72 0.13
101 5 0.01
103 35 0.06
104 3 0.01
105 13 0.02
106 10 0.02
107 181 0.32
108 22 0.04
109 141 0.25
110 33 0.06
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (107 bp):
AAAAAAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAA
AATTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACG
Found at i:43703242 original size:216 final size:215
Alignment explanation
Indices: 43702854--43703598 Score: 922
Period size: 216 Copynumber: 3.5 Consensus size: 215
43702844 GAAAAAGGAA
* * * *
43702854 AAAAAAACAAAAAAAAATCTTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAATATAATTTAAA
1 AAAAAAA-TAAAAAAAA--TTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTATAATTTAAA
** * *
43702919 AAAAA-------AATTTT-GTGTCAGATTCAAATATCAGTATACG------A-AAAAAAAAAATT
63 AAAAATTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAAATT
* *
43702969 T-GGTGTTGGCCTGTCAATGGTCGGCACCCAGTACAATTT-AAAAAAATTTCTTTTTTTTTTCGT
128 TGGGTGCTGACCTGTCAATGGTCGGCACCCAGTACAATTTAAAAAAAATTTC-TTTTTTTTTCGT
43703032 GTCAGAATCAGATATCAGTATACG
192 GTCAGAATCAGATATCAGTATACG
* *
43703056 AAAAAAATAAAAAAAATTTTGGATGTTGACCTGTCAATGGCCGGCACCCAGTATAATTTAAAAAA
1 AAAAAAATAAAAAAAATTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTATAATTTAAAAAA
* *
43703121 AATTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAGAAAAAATTTTGG
66 AATTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAAATTT-G
* *
43703186 GGTGCTGACCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTCTTTTTTTCTCGTGTC
130 GGTGCTGACCTGTCAATGGTCGGCACCCAGTACAATTTAAAAAAAATTTCTTTTTTTTTCGTGTC
43703251 AGAATCAGATATCAGTATACG
195 AGAATCAGATATCAGTATACG
* * * *
43703272 AAAAAAATAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACACAGTACAATTTAAAAAA
1 AAAAAAATAAAAAAAATTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTATAATTTAAAAAA
** *
43703337 TTTTCTTTTTTTTTTCGTGTCAGAATCAGATATCAATATACGAAAAAAATAAAAAAAAAAATTTG
66 AATTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAAT-AAAAAAAAAATTTG
* *
43703402 GGTGCTGGCCTGTCAATGGTCGGCACCCAGTAC-A---AAATAAAA-----TTTTTTTTCGTGTC
130 GGTGCTGACCTGTCAATGGTCGGCACCCAGTACAATTTAAAAAAAATTTCTTTTTTTTTCGTGTC
*
43703458 AGAATCAGATATCAATATACG
195 AGAATCAGATATCAGTATACG
43703479 AAAAAAATAAAAATAAAAATTTTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCA--ATACATTT
1 AAAAAAAT--AAA-AAAAA--TTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTATA-ATTT
43703542 AAAAAAAATATC--TTTTTTTTCGTGTCAGAATCAGATATCAGTATAC-AAAAAAATAAA
60 AAAAAAAAT-TCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAA
43703599 CATAATTATA
Statistics
Matches: 478, Mismatches: 39, Indels: 46
0.85 0.07 0.08
Matches are distributed among these distances:
199 46 0.10
201 8 0.02
202 7 0.01
206 4 0.01
207 65 0.14
208 3 0.01
209 11 0.02
210 39 0.08
211 11 0.02
212 41 0.09
213 1 0.00
214 11 0.02
215 1 0.00
216 208 0.44
217 22 0.05
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (215 bp):
AAAAAAATAAAAAAAATTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTATAATTTAAAAAA
AATTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAAATTTGG
GTGCTGACCTGTCAATGGTCGGCACCCAGTACAATTTAAAAAAAATTTCTTTTTTTTTCGTGTCA
GAATCAGATATCAGTATACG
Found at i:43704683 original size:46 final size:46
Alignment explanation
Indices: 43704619--43704706 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
43704609 ACCCAAAATT
* * *
43704619 TTTTTTTTATTTTTTTCGTATGCTTATATTTGATTCTAACACGAAA
1 TTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTAACACGAAA
43704665 TTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTAACAC
1 TTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTAACAC
43704707 ACAAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.57
Consensus pattern (46 bp):
TTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTAACACGAAA
Found at i:43704901 original size:8 final size:7
Alignment explanation
Indices: 43704874--43704899 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
43704864 CCCAATTTTT
43704874 TTTTTCA
1 TTTTTCA
43704881 TTTTTCA
1 TTTTTCA
43704888 TTTTTCA
1 TTTTTCA
43704895 TTTTT
1 TTTTT
43704900 TCCCTTTTTC
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:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCA
Found at i:43706205 original size:89 final size:89
Alignment explanation
Indices: 43706095--43706269 Score: 248
Period size: 89 Copynumber: 2.0 Consensus size: 89
43706085 ATTTCAAAAA
* * *
43706095 TAATATTATTTTAATAAATTTAATA-TAATA-TTAAATTTAATACTTATCTTGAT-AGTATTTTA
1 TAATATTAATTTAATAAATTTAATATTAA-ACTT-AATCTAATACTTATCTTGATAAGTATTATA
*
43706157 TTAATTTAATATTAAAGTTATTATTT
64 TTAATTTAATATTAAAGTGATTATTT
* *
43706183 TAATATTAAATTTAATAGATTTAATATTAAACTTAATCTAATATTTATCTTGATAAGTATTATAT
1 TAATATT-AATTTAATAAATTTAATATTAAACTTAATCTAATACTTATCTTGATAAGTATTATAT
43706248 TAATTTAATATTAAAGTGATTA
65 TAATTTAATATTAAAGTGATTA
43706270 AATTTAATCA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
88 7 0.09
89 35 0.45
90 35 0.45
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (89 bp):
TAATATTAATTTAATAAATTTAATATTAAACTTAATCTAATACTTATCTTGATAAGTATTATATT
AATTTAATATTAAAGTGATTATTT
Found at i:43706207 original size:21 final size:20
Alignment explanation
Indices: 43706158--43706219 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
43706148 AGTATTTTAT
* *
43706158 TAATTTAATATTAAAGTTAT
1 TAATTTAATATTAAACTTAA
* *
43706178 TATTTTAATATTAAATTTAA
1 TAATTTAATATTAAACTTAA
43706198 TAGATTTAATATTAAACTTAA
1 TA-ATTTAATATTAAACTTAA
43706219 T
1 T
43706220 CTAATATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 19 0.53
21 17 0.47
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (20 bp):
TAATTTAATATTAAACTTAA
Found at i:43706871 original size:27 final size:27
Alignment explanation
Indices: 43706835--43706888 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
43706825 ACTCAGACCT
43706835 GAGTTAGAGAGTATTTTAGACCTTGAG
1 GAGTTAGAGAGTATTTTAGACCTTGAG
*
43706862 GAGTTGGAGAGTATTTTAGACCTTGAG
1 GAGTTAGAGAGTATTTTAGACCTTGAG
43706889 CCTAAACAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.07, G:0.31, T:0.33
Consensus pattern (27 bp):
GAGTTAGAGAGTATTTTAGACCTTGAG
Found at i:43714548 original size:54 final size:53
Alignment explanation
Indices: 43714481--43714594 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 53
43714471 TTGTATTACA
* * * *
43714481 ATATTATAATTATTTAAGTTTATTTTTATCTAATTAACATTTAGATACTATTT
1 ATATTATAATTATTAAACTTTATTTTTACCAAATTAACATTTAGATACTATTT
*
43714534 ATATCTATAATTATTAAACTTTATTTTTACCAAATTAATATTTAGATACTACTTT
1 ATAT-TATAATTATTAAACTTTATTTTTACCAAATTAACATTTAGATACTA-TTT
*
43714589 GTATTA
1 ATATTA
43714595 GTTTATCAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 4 0.08
54 43 0.81
55 6 0.11
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.52
Consensus pattern (53 bp):
ATATTATAATTATTAAACTTTATTTTTACCAAATTAACATTTAGATACTATTT
Done.