Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 111 of 318
Found at i:33871164 original size:53 final size:53
Alignment explanation
Indices: 33871069--33871237 Score: 187
Period size: 53 Copynumber: 3.2 Consensus size: 53
33871059 GTAGAAATAC
* * **
33871069 AGAAATACAGAAATACCCCTGTAGGGTAGAATTA-TCGCAATACCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGTAGAATTACT-AAAATACCCTGTAGGGT
* *
33871122 AGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGT
1 AGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATA-CCCTGTAGGGT
** * * * * *
33871176 AGAATTACTAAAATACCCCTGTAGGGTGGAATTACCAAGATACCTTGTGGGGT
1 AGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCTGTAGGGT
*
33871229 AAAATTACC
1 AGAATTACC
33871238 ATTTTGCCCT
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
53 50 0.52
54 47 0.48
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (53 bp):
AGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCTGTAGGGT
Found at i:33871164 original size:88 final size:89
Alignment explanation
Indices: 33870980--33871152 Score: 321
Period size: 88 Copynumber: 2.0 Consensus size: 89
33870970 CTTGTAGGGT
* *
33870980 AGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTACCGA
1 AGAAATACAGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTACCGA
33871045 AATACCCCTGTAGGGTAGAAATAC
66 AATACCCCTGTAGGGTAGAAATAC
33871069 AGAAATACAGAAATACCCCTGTAGGGTAGAATTATCGCAATA-CCCTGTAGGGTAGAATTACCGA
1 AGAAATACAGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTACCGA
33871133 AATACCCCTGTAGGGTAGAA
66 AATACCCCTGTAGGGTAGAA
33871153 TTACTAAAAT
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
88 42 0.51
89 40 0.49
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (89 bp):
AGAAATACAGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTACCGA
AATACCCCTGTAGGGTAGAAATAC
Found at i:33871715 original size:22 final size:22
Alignment explanation
Indices: 33871663--33871727 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
33871653 TTAAAGCCTT
* *
33871663 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
33871685 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
33871707 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
33871728 AAGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:33871943 original size:26 final size:26
Alignment explanation
Indices: 33871885--33871985 Score: 130
Period size: 27 Copynumber: 3.8 Consensus size: 26
33871875 ATTCTGTTAA
* * *
33871885 GTGGCTTTGCCACATTATATGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
*
33871912 GTGGCTATGCCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
33871938 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
33871965 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
33871986 ATAACTGAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 26 0.39
27 41 0.61
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:33871950 original size:53 final size:53
Alignment explanation
Indices: 33871885--33871985 Score: 139
Period size: 53 Copynumber: 1.9 Consensus size: 53
33871875 ATTCTGTTAA
* * * *
33871885 GTGGCTTTGCCACATTATATGTTTCTGGTGGCTATGCCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATATGTATCTGGTGACTATGCCACAATATCTGTTCTG
* * *
33871938 GTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATATGTATCTGGTGACTATGCCACAATATCTG
33871986 ATAACTGAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 41 1.00
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATATGTATCTGGTGACTATGCCACAATATCTGTTCTG
Found at i:33872151 original size:6 final size:6
Alignment explanation
Indices: 33872142--33872301 Score: 163
Period size: 6 Copynumber: 26.8 Consensus size: 6
33872132 CTGTCACGTA
* *
33872142 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * *
33872190 ATTCTG -TTACTG ATTCTG ATTCTG ATTCTTC A-CCTA ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTC-TG ATTCTG ATTCTG ATTCTG
*
33872238 ATT-TG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
33872285 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
33872302 CATTTTGGTT
Statistics
Matches: 130, Mismatches: 11, Indels: 26
0.78 0.07 0.16
Matches are distributed among these distances:
5 16 0.12
6 105 0.81
7 8 0.06
8 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:33872322 original size:30 final size:30
Alignment explanation
Indices: 33872117--33872301 Score: 235
Period size: 30 Copynumber: 6.4 Consensus size: 30
33872107 TTGCATTCAC
* *
33872117 ATTCTGGTTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
*
33872148 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
33872178 ATTCTGATTCTGATTCTG-T--T-A--CTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
33872202 ATTCTGATTCTGATTCT-TCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
33872232 ATTCTGATT-TGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
33872261 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
33872291 ATTCTGATTCT
1 ATTCTGATTCT
33872302 CATTTTGGTT
Statistics
Matches: 137, Mismatches: 6, Indels: 23
0.83 0.04 0.14
Matches are distributed among these distances:
24 20 0.15
26 1 0.01
27 2 0.01
28 1 0.01
29 25 0.18
30 68 0.50
31 20 0.15
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:33875514 original size:20 final size:20
Alignment explanation
Indices: 33875491--33875531 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
33875481 AAACAGTAGC
33875491 TCATCCATATAAATAGTATT
1 TCATCCATATAAATAGTATT
33875511 TCATCCATATAAATAGTATT
1 TCATCCATATAAATAGTATT
33875531 T
1 T
33875532 ATGCTCGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (20 bp):
TCATCCATATAAATAGTATT
Found at i:33875721 original size:47 final size:47
Alignment explanation
Indices: 33875668--33875772 Score: 124
Period size: 47 Copynumber: 2.2 Consensus size: 47
33875658 GCTGATGGGC
** ***
33875668 AGTAAGCTCTATTG-AGCTAAAACTGTAAGCTTTGACGAGCTAAAAAT
1 AGTAAGCTCT-TTGAAGCTAAAACAATAAGCTCCAACGAGCTAAAAAT
*
33875715 AGTAAGCT-TTTGTAAGCTGAAACAATAAGCTCCAACGAGCTAAAAAT
1 AGTAAGCTCTTTG-AAGCTAAAACAATAAGCTCCAACGAGCTAAAAAT
33875762 AGTAAGCTCTT
1 AGTAAGCTCTT
33875773 ACGAGATGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
45 3 0.06
46 1 0.02
47 43 0.88
48 2 0.04
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (47 bp):
AGTAAGCTCTTTGAAGCTAAAACAATAAGCTCCAACGAGCTAAAAAT
Found at i:33875776 original size:24 final size:24
Alignment explanation
Indices: 33875668--33875777 Score: 77
Period size: 23 Copynumber: 4.7 Consensus size: 24
33875658 GCTGATGGGC
* *
33875668 AGTAAGCTC-TATTGAGCTAAAACT
1 AGTAAGCTCTTA-CGAGCTAAAAAT
33875692 -GTAAGCT-TTGACGAGCTAAAAAT
1 AGTAAGCTCTT-ACGAGCTAAAAAT
* *** *
33875715 AGTAAGCTTTTGTAAGCTGAAACA-
1 AGTAAGCTCTTACGAGCT-AAAAAT
**
33875739 A-TAAGCTCCAACGAGCTAAAAAT
1 AGTAAGCTCTTACGAGCTAAAAAT
33875762 AGTAAGCTCTTACGAG
1 AGTAAGCTCTTACGAG
33875778 ATGATATATT
Statistics
Matches: 64, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
22 4 0.06
23 29 0.45
24 25 0.39
25 6 0.09
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.25
Consensus pattern (24 bp):
AGTAAGCTCTTACGAGCTAAAAAT
Found at i:33877845 original size:32 final size:32
Alignment explanation
Indices: 33877793--33877865 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
33877783 TTTGGAGAGT
* *
33877793 CACACGCCCGTGTGGATTAGGCCGTGTGGTTA
1 CACACGCCTGTGTGGATTAGGCCGTGTGGTCA
* *
33877825 CACATGCCTGTGTGGCTTAGGCCGTGTGGTCA
1 CACACGCCTGTGTGGATTAGGCCGTGTGGTCA
33877857 CACACGCCT
1 CACACGCCT
33877866 ATGTCCTTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.15, C:0.29, G:0.32, T:0.25
Consensus pattern (32 bp):
CACACGCCTGTGTGGATTAGGCCGTGTGGTCA
Found at i:33891970 original size:31 final size:32
Alignment explanation
Indices: 33891900--33891970 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
33891890 GTCATAGCCC
* * *
33891900 ATAACAGAATCAATTGGGCCTAGCCCAAAATA
1 ATAACAGAATCAAGTGGGCCTAACCCAAAACA
*
33891932 ATAACAGAA-CAAGTGGGCCTAACCCAATACA
1 ATAACAGAATCAAGTGGGCCTAACCCAAAACA
*
33891963 ATGACAGA
1 ATAACAGA
33891971 TCTCATAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 25 0.74
32 9 0.26
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.15
Consensus pattern (32 bp):
ATAACAGAATCAAGTGGGCCTAACCCAAAACA
Found at i:33892206 original size:32 final size:32
Alignment explanation
Indices: 33892170--33892250 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 32
33892160 TTCAATAATG
* * *
33892170 GTATTATAATTGGCACAAAGCCATCGGTAACT
1 GTATTATAATTGGCACAAAGCCATCAGCAACA
** * * *
33892202 GTATTATGTTTGGAACATAGCCATCAGCGACA
1 GTATTATAATTGGCACAAAGCCATCAGCAACA
*
33892234 GTAATATAATTGGCACA
1 GTATTATAATTGGCACA
33892251 CAGACTTTGG
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (32 bp):
GTATTATAATTGGCACAAAGCCATCAGCAACA
Found at i:33892797 original size:27 final size:27
Alignment explanation
Indices: 33892767--33892852 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
33892757 ACGATCATTT
*
33892767 TACCCTACAAGGGTATTACGGTAATCC
1 TACCCTACAAGGGTATTTCGGTAATCC
* * *
33892794 TACCTTACAGGGGTATTTTGGTAATCC
1 TACCCTACAAGGGTATTTCGGTAATCC
* *
33892821 TACCCTA-TAGGGTTATTTCAGTAATCC
1 TACCCTACAAGGG-TATTTCGGTAATCC
33892848 TACCC
1 TACCC
33892853 CATAGAGGTA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.06
27 46 0.94
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (27 bp):
TACCCTACAAGGGTATTTCGGTAATCC
Found at i:33892857 original size:27 final size:26
Alignment explanation
Indices: 33892767--33892866 Score: 92
Period size: 27 Copynumber: 3.7 Consensus size: 26
33892757 ACGATCATTT
* * *
33892767 TACCCTACAAGGGTATTACGGTAATCC
1 TACCCTA-TAGGGTATTTCAGTAATCC
* * **
33892794 TACCTTACAGGGGTATTTTGGTAATCC
1 TACCCTATA-GGGTATTTCAGTAATCC
33892821 TACCCTATAGGGTTATTTCAGTAATCC
1 TACCCTATAGGG-TATTTCAGTAATCC
*
33892848 TACCCCATAGAGGTATTTC
1 TACCCTATAG-GGTATTTC
33892867 GAAAATTTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
26 4 0.07
27 55 0.90
28 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (26 bp):
TACCCTATAGGGTATTTCAGTAATCC
Found at i:33892917 original size:54 final size:53
Alignment explanation
Indices: 33892859--33893040 Score: 204
Period size: 54 Copynumber: 3.4 Consensus size: 53
33892849 ACCCCATAGA
* * * * * *
33892859 GGTATTTCGAAAATTTTATAAATCAAGTGTATTTTAGTAATTTTACAAGTCGGG
1 GGTATTTCGATAATTTCACAAATCAAGGGTATTTTAGTAATTTCACAAATC-GG
* *
33892913 GGTATTTC-AGTAATTTCACAAATCAAGGGTATTTTAATAATTTCACAAATCAG
1 GGTATTTCGA-TAATTTCACAAATCAAGGGTATTTTAGTAATTTCACAAATCGG
** * *
33892966 GGTATTTCGATAATTTCACAAATTGAGGGTATTTTGGTAATTTCACAAATTAGG
1 GGTATTTCGATAATTTCACAAATCAAGGGTATTTTAGTAATTTCACAAA-TCGG
* *
33893020 GGTATTTTGATAATTTTACAA
1 GGTATTTCGATAATTTCACAA
33893041 CCTGGGGGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
53 45 0.41
54 64 0.59
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (53 bp):
GGTATTTCGATAATTTCACAAATCAAGGGTATTTTAGTAATTTCACAAATCGG
Found at i:33893050 original size:54 final size:54
Alignment explanation
Indices: 33892887--33893076 Score: 206
Period size: 54 Copynumber: 3.5 Consensus size: 54
33892877 TAAATCAAGT
* * * * *
33892887 GTATTTTAGTAATTTTACAAGTCGGGGGTATTTC-AGTAATTTCACAAA-TCAAGG
1 GTATTTTGGTAATTTCACAAATCAGGGGTATTTCGA-TAATTTCACAAACT-GAGG
** *
33892941 GTATTTTAATAATTTCACAAATCA-GGGTATTTCGATAATTTCACAAATTGAGG
1 GTATTTTGGTAATTTCACAAATCAGGGGTATTTCGATAATTTCACAAACTGAGG
* * * * *
33892994 GTATTTTGGTAATTTCACAAATTAGGGGTATTTTGATAATTTTACAACCTGGGG
1 GTATTTTGGTAATTTCACAAATCAGGGGTATTTCGATAATTTCACAAACTGAGG
* *
33893048 GTATTTCGGTAATTTTACAAATCAGGGGT
1 GTATTTTGGTAATTTCACAAATCAGGGGT
33893077 CTTAACGACC
Statistics
Matches: 117, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
53 45 0.38
54 72 0.62
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (54 bp):
GTATTTTGGTAATTTCACAAATCAGGGGTATTTCGATAATTTCACAAACTGAGG
Found at i:33893075 original size:27 final size:27
Alignment explanation
Indices: 33892859--33893076 Score: 167
Period size: 27 Copynumber: 8.1 Consensus size: 27
33892849 ACCCCATAGA
* * * *
33892859 GGTATTTCGAAAATTTTATAAATCAAG
1 GGTATTTCGATAATTTCACAAATCAGG
* * * * *
33892886 TGTATTT-TAGTAATTTTACAAGTCGGG
1 GGTATTTCGA-TAATTTCACAAATCAGG
*
33892913 GGTATTTC-AGTAATTTCACAAATCAAG
1 GGTATTTCGA-TAATTTCACAAATCAGG
**
33892940 GGTATTTTAATAATTTCACAAATCA-G
1 GGTATTTCGATAATTTCACAAATCAGG
*
33892966 GGTATTTCGATAATTTCACAAAT-TGAG
1 GGTATTTCGATAATTTCACAAATCAG-G
* * *
33892993 GGTATTTTGGTAATTTCACAAATTAGG
1 GGTATTTCGATAATTTCACAAATCAGG
* * * *
33893020 GGTATTTTGATAATTTTAC-AACCTGGG
1 GGTATTTCGATAATTTCACAAATC-AGG
* *
33893047 GGTATTTCGGTAATTTTACAAATCAGG
1 GGTATTTCGATAATTTCACAAATCAGG
33893074 GGT
1 GGT
33893077 CTTAACGACC
Statistics
Matches: 155, Mismatches: 28, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
26 25 0.16
27 125 0.81
28 5 0.03
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTATTTCGATAATTTCACAAATCAGG
Found at i:33893408 original size:18 final size:17
Alignment explanation
Indices: 33893378--33893412 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
33893368 TTACCCACGC
33893378 GGGCCCACAGGCCCATT
1 GGGCCCACAGGCCCATT
*
33893395 GGGCCCATATGGCCCATT
1 GGGCCCACA-GGCCCATT
33893413 TAACCTAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.17, C:0.37, G:0.29, T:0.17
Consensus pattern (17 bp):
GGGCCCACAGGCCCATT
Found at i:33894418 original size:42 final size:42
Alignment explanation
Indices: 33894372--33894459 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
33894362 AGAAGTGCAT
33894372 GAAATGAAAGACAATTCGGCTAGGCAAGAATAAAATAACAAG
1 GAAATGAAAGACAATTCGGCTAGGCAAGAATAAAATAACAAG
33894414 GAAATGAAAGACAATTCGGCTAGGCAAGAATAAAATAACAAG
1 GAAATGAAAGACAATTCGGCTAGGCAAGAATAAAATAACAAG
33894456 GAAA
1 GAAA
33894460 GCAATATTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.53, C:0.11, G:0.22, T:0.14
Consensus pattern (42 bp):
GAAATGAAAGACAATTCGGCTAGGCAAGAATAAAATAACAAG
Found at i:33906520 original size:27 final size:26
Alignment explanation
Indices: 33906478--33906647 Score: 180
Period size: 27 Copynumber: 6.3 Consensus size: 26
33906468 GACCCCAGTT
** *
33906478 TGTAAAATTATTGAAATACCATGGTAG
1 TGTAAAATTATCAAAATACCCT-GTAG
*
33906505 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCAAAATACCC-TGTAG
* *
33906532 TGTTAAATTACCAAAATACCCCTGTAG
1 TGTAAAATTATCAAAATA-CCCTGTAG
* *
33906559 TGTAAAATCACCAAAATACCCCTGTAG
1 TGTAAAATTATCAAAATA-CCCTGTAG
33906586 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATTATCAAAATACCC-TGTAG
*
33906613 TGTAAAATTA-CTGAAATACCCCTGTAG
1 TGTAAAATTATC-AAAATA-CCCTGTAG
*
33906640 GGTAAAAT
1 TGTAAAAT
33906648 GGCTATTTTT
Statistics
Matches: 127, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.03
27 116 0.91
28 7 0.06
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.30
Consensus pattern (26 bp):
TGTAAAATTATCAAAATACCCTGTAG
Found at i:33906559 original size:54 final size:53
Alignment explanation
Indices: 33906501--33906647 Score: 204
Period size: 54 Copynumber: 2.7 Consensus size: 53
33906491 AAATACCATG
* *
33906501 GTAGTGTAAAATTATCGAAATACCCTTGTAGTGTTAAATTACCAAAATACCCCT
1 GTAGTGTAAAATTA-CGAAATACCCCTGTAGTGTAAAATTACCAAAATACCCCT
* * * *
33906555 GTAGTGTAAAATCACCAAAATACCCCTGTAGTGTAAAATTATCAAAATACCCTT
1 GTAGTGTAAAATTA-CGAAATACCCCTGTAGTGTAAAATTACCAAAATACCCCT
*
33906609 GTAGTGTAAAATTACTGAAATACCCCTGTAGGGTAAAAT
1 GTAGTGTAAAATTAC-GAAATACCCCTGTAGTGTAAAAT
33906648 GGCTATTTTT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 81 0.99
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (53 bp):
GTAGTGTAAAATTACGAAATACCCCTGTAGTGTAAAATTACCAAAATACCCCT
Found at i:33908864 original size:8 final size:8
Alignment explanation
Indices: 33908851--33908904 Score: 74
Period size: 8 Copynumber: 6.5 Consensus size: 8
33908841 ATCTCTAATT
33908851 TCTTCAAC
1 TCTTCAAC
33908859 TCTTCAAGGAC
1 TCTTC-A--AC
33908870 -CTTCAAC
1 TCTTCAAC
33908877 TCTTCAAC
1 TCTTCAAC
33908885 TCTTCAAC
1 TCTTCAAC
33908893 TCTTCAAC
1 TCTTCAAC
33908901 TCTT
1 TCTT
33908905 GGTCCCCAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
7 2 0.05
8 32 0.76
9 2 0.05
10 4 0.10
11 2 0.05
ACGTcount: A:0.24, C:0.35, G:0.04, T:0.37
Consensus pattern (8 bp):
TCTTCAAC
Found at i:33911328 original size:28 final size:28
Alignment explanation
Indices: 33911288--33911344 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
33911278 TGTCCATGAG
33911288 CCCCGCCATCTTTGACCTGTGAGCTTTA
1 CCCCGCCATCTTTGACCTGTGAGCTTTA
33911316 CCCCGCCATCTTTGACCTGTGAGCTTTA
1 CCCCGCCATCTTTGACCTGTGAGCTTTA
33911344 C
1 C
33911345 TCTTTCTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.14, C:0.37, G:0.18, T:0.32
Consensus pattern (28 bp):
CCCCGCCATCTTTGACCTGTGAGCTTTA
Found at i:33919332 original size:43 final size:43
Alignment explanation
Indices: 33919161--33919333 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 43
33919151 ACATAGGATT
* * * *
33919161 TCGATATGTGATTTCATGTAAGACCACGTCTCAGACGTTGGCA
1 TCGATATTTGATTACATGTAAGACCATGTCTGAGACGTTGGCA
* * * * * *
33919204 TCGAT-TTGAGATTTACGTGTAAGACCATGTCTGGGACATCGACA
1 TCGATATT-TGA-TTACATGTAAGACCATGTCTGAGACGTTGGCA
* * * * *
33919248 TCG-TATTTGATTTCGTGTAAGACCTTGTTTGAGATAG-TGGCA
1 TCGATATTTGATTACATGTAAGACCATGTCTGAGA-CGTTGGCA
* *
33919290 TCGATATTTGATTACATATAAGACCATGTCTGGGACGTTGGCA
1 TCGATATTTGATTACATGTAAGACCATGTCTGAGACGTTGGCA
33919333 T
1 T
33919334 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 26, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
42 28 0.29
43 41 0.42
44 29 0.30
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
TCGATATTTGATTACATGTAAGACCATGTCTGAGACGTTGGCA
Found at i:33924733 original size:40 final size:39
Alignment explanation
Indices: 33924657--33924737 Score: 108
Period size: 40 Copynumber: 2.1 Consensus size: 39
33924647 AACGACTTAC
**
33924657 CGGCTAAAATGGCACTTAGTGTGCGGTTCGAAATAGCTT
1 CGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCTT
* * *
33924696 CGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCTT
1 CGGCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAGCTT
33924736 CG
1 CG
33924738 ACTATATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 9 0.25
40 27 0.75
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (39 bp):
CGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCTT
Found at i:33927645 original size:49 final size:50
Alignment explanation
Indices: 33927529--33927708 Score: 178
Period size: 50 Copynumber: 3.7 Consensus size: 50
33927519 CAATACATGT
* * * **
33927529 GAGCTAGTGTAAGAACATGTCTGGGACATGGCATTGG-CTTGATAT----
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATAAAA
* *
33927574 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGA-A-AAAGGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATAAA--A
* *
33927623 GAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCCTCGATATAAAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATAAAA
* * *
33927673 GAGTCAATGTAAGACCATGTCTAGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
33927709 ACTCGATATG
Statistics
Matches: 111, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
44 1 0.01
45 35 0.32
49 34 0.31
50 37 0.33
51 1 0.01
52 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (50 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATAAAA
Found at i:33927707 original size:99 final size:94
Alignment explanation
Indices: 33927529--33927708 Score: 243
Period size: 94 Copynumber: 1.9 Consensus size: 94
33927519 CAATACATGT
* * * * *
33927529 GAGCTAGTGTAAGAACATGTCTGGGACATGGCATTGGCTTGATATGTGTCAGTGTAAGACCATGT
1 GAGCCAGTGTAAGAACATGTCTGGGACATGGCATCGGCTCGATATGAGTCAATGTAAGACCATGT
*
33927594 CTGGGACATGGCATCGGCACGAAAAAGGA
66 CTAGGACATGGCATCGGCACGAAAAAGGA
* *
33927623 GAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCCTCGATATAAAAGAGTCAATGTAAGAC
1 GAGCCAGTGTAAGAACATGTCTGGGACATGGCATCGG-CTCGATAT----GAGTCAATGTAAGAC
33927688 CATGTCTAGGACATGGCATCG
61 CATGTCTAGGACATGGCATCG
33927709 ACTCGATATG
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
94 33 0.45
95 7 0.10
99 33 0.45
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (94 bp):
GAGCCAGTGTAAGAACATGTCTGGGACATGGCATCGGCTCGATATGAGTCAATGTAAGACCATGT
CTAGGACATGGCATCGGCACGAAAAAGGA
Found at i:33927778 original size:43 final size:45
Alignment explanation
Indices: 33927679--33927801 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 45
33927669 AAAAGAGTCA
*
33927679 ATGTAAGACCATGTCTAGGACATGGCATCGACTCGATATGTGATTAC
1 ATGTAAGACCATGTCTGGGACATGGCATCGA-TC-ATATGTGATTAC
* *
33927726 ATGTAAGACCATGTCTGGGACATTGGCATTG-T-AT-TGTGATTTC
1 ATGTAAGACCATGTCTGGGACA-TGGCATCGATCATATGTGATTAC
* * *
33927769 GTGTAAGACCTTGTGTGGGACAGTGGCATCGAT
1 ATGTAAGACCATGTCTGGGACA-TGGCATCGAT
33927802 ATAACATGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
43 34 0.52
44 3 0.05
46 1 0.02
47 21 0.32
48 7 0.11
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (45 bp):
ATGTAAGACCATGTCTGGGACATGGCATCGATCATATGTGATTAC
Found at i:33931134 original size:41 final size:41
Alignment explanation
Indices: 33931089--33931213 Score: 223
Period size: 41 Copynumber: 3.0 Consensus size: 41
33931079 GGTAAAAGTG
33931089 TGAATAAATTAAAAATATGGACTGATATGAGCATGTATAAA
1 TGAATAAATTAAAAATATGGACTGATATGAGCATGTATAAA
*
33931130 TGAATAAATTAAAAATATGGACTGATATGAGCATGTATGAA
1 TGAATAAATTAAAAATATGGACTGATATGAGCATGTATAAA
*
33931171 TGAATAAATTAAAAATATGGACTGATATGAGCATATATCAAA
1 TGAATAAATTAAAAATATGGACTGATATGAGCATGTAT-AAA
33931213 T
1 T
33931214 TCGGATAGCT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
41 77 0.96
42 3 0.04
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.30
Consensus pattern (41 bp):
TGAATAAATTAAAAATATGGACTGATATGAGCATGTATAAA
Found at i:33931643 original size:40 final size:39
Alignment explanation
Indices: 33931569--33931645 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 39
33931559 CGACTTATCG
**
33931569 GCTAAAATGGCACTTAGTGTGCGGTTCGAAATAGCTTCA
1 GCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCTTCA
* * *
33931608 GCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCTT
1 GCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAGCTT
33931646 TGGCTATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
39 7 0.22
40 25 0.78
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (39 bp):
GCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCTTCA
Found at i:33936938 original size:12 final size:12
Alignment explanation
Indices: 33936921--33936964 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
33936911 ATGGATTGAA
33936921 TTGAATGATTTG
1 TTGAATGATTTG
* *
33936933 TTGAATAAATTG
1 TTGAATGATTTG
33936945 AATTGAATGATTTG
1 --TTGAATGATTTG
33936959 TTGAAT
1 TTGAAT
33936965 AAAAGAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 16 0.62
14 10 0.38
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.45
Consensus pattern (12 bp):
TTGAATGATTTG
Found at i:33936946 original size:26 final size:26
Alignment explanation
Indices: 33936915--33936967 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
33936905 GTGTCTATGG
33936915 ATTGAATTGAATGATTTGTTGAATAA
1 ATTGAATTGAATGATTTGTTGAATAA
33936941 ATTGAATTGAATGATTTGTTGAATAA
1 ATTGAATTGAATGATTTGTTGAATAA
33936967 A
1 A
33936968 AGAATTAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.42
Consensus pattern (26 bp):
ATTGAATTGAATGATTTGTTGAATAA
Found at i:33937436 original size:43 final size:42
Alignment explanation
Indices: 33937281--33937437 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 42
33937271 TGCATTTTCG
*
33937281 TGTAAGACCACGTCTGAGACGTTGGCATCA-ACTTATGATTTACA
1 TGTAAGACCATGTCTGAGACGTTGGCATCATA-TT-TGA-TTACA
* * * * * * * *
33937325 TGCAAGACGATGTGTGGGACATCGGCATCATATTTGATTTCG
1 TGTAAGACCATGTCTGAGACGTTGGCATCATATTTGATTACA
* *
33937367 TGTAAGACCCTATCTGGGAGA-G-TGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCT--GAGACGTTGGCATC-ATATTTGATTACA
33937410 TGTAAGACCATGTCTGAGACGTTGGCAT
1 TGTAAGACCATGTCTGAGACGTTGGCAT
33937438 TGACAAGCTT
Statistics
Matches: 86, Mismatches: 21, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
41 4 0.05
42 20 0.23
43 33 0.38
44 28 0.33
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGAGACGTTGGCATCATATTTGATTACA
Found at i:33941183 original size:40 final size:40
Alignment explanation
Indices: 33941124--33941292 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
33941114 CGGGACTTTA
* * *
33941124 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
33941164 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
33941204 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
33941244 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
33941284 CCCGGATAT
1 CCCGGATAT
33941293 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:33949286 original size:40 final size:40
Alignment explanation
Indices: 33949227--33949395 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
33949217 CGGGACTTTA
* * *
33949227 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
33949267 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
33949307 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
33949347 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
33949387 CCCGGATAT
1 CCCGGATAT
33949396 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:33954606 original size:29 final size:29
Alignment explanation
Indices: 33954574--33954646 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
33954564 CTTCGAGCTC
*
33954574 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
33954603 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
33954632 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
33954647 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:33955969 original size:24 final size:22
Alignment explanation
Indices: 33955933--33955981 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
33955923 CATCCACACT
33955933 CTTTTTTTTTTTCATCATTTTC
1 CTTTTTTTTTTTCATCATTTTC
* *
33955955 CTTTTTTTTCATTTCTTTATTTTC
1 CTTTTTTTT--TTTCATCATTTTC
33955979 CTT
1 CTT
33955982 CCATAATGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 9 0.39
24 14 0.61
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.73
Consensus pattern (22 bp):
CTTTTTTTTTTTCATCATTTTC
Found at i:33959710 original size:46 final size:46
Alignment explanation
Indices: 33959660--33959832 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
33959650 TGGTTGGGCA
*
33959660 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
33959706 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
33959753 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
33959799 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
33959833 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 62 0.58
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:33959815 original size:93 final size:93
Alignment explanation
Indices: 33959656--33959827 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
33959646 AGGATGGTTG
* *
33959656 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
33959721 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
*
33959749 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
33959814 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
33959828 ACTTAGGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:33962409 original size:19 final size:18
Alignment explanation
Indices: 33962381--33962420 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
33962371 ATGAAATTTT
33962381 AATTAGTATTATGAGATAA
1 AATTAGTATTATGAGA-AA
* *
33962400 AATTATTATTATTAGAAA
1 AATTAGTATTATGAGAAA
33962418 AAT
1 AAT
33962421 AATACTGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (18 bp):
AATTAGTATTATGAGAAA
Found at i:33962548 original size:2 final size:2
Alignment explanation
Indices: 33962541--33962571 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
33962531 TAGATAGGAA
*
33962541 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33962572 AAAGTATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 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):
AT
Found at i:33968323 original size:42 final size:41
Alignment explanation
Indices: 33968208--33968325 Score: 103
Period size: 44 Copynumber: 2.8 Consensus size: 41
33968198 TAGGATTCCG
* * ***
33968208 ATATGTGATTTCGTGTAAGACCACTTCTGGGACGTTGGCATC
1 ATATTTGATTTCGTGTAAGACC-CTTCTGGGACATCAACATC
* * *
33968250 GT-TTTGAGATTTACATGTAAGACCATGTCTGGGACATCAACATC
1 ATATTT--GATTT-CGTGTAAGACCCT-TCTGGGACATCAACATC
33968294 ATATTTGATTTCGTGTAAGACCCTATCTGGGA
1 ATATTTGATTTCGTGTAAGACCCT-TCTGGGA
33968326 AAGTGGCTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
41 2 0.03
42 19 0.32
43 11 0.19
44 24 0.41
45 3 0.05
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (41 bp):
ATATTTGATTTCGTGTAAGACCCTTCTGGGACATCAACATC
Found at i:33972229 original size:40 final size:40
Alignment explanation
Indices: 33972146--33972362 Score: 284
Period size: 40 Copynumber: 5.5 Consensus size: 40
33972136 TGGATGATAA
*
33972146 CCGGGCTAAGT-CCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
33972186 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
33972226 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
33972266 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
33972306 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
33972345 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
33972363 TACTTGGCTT
Statistics
Matches: 161, Mismatches: 12, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 115 0.71
41 12 0.07
42 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:33984726 original size:28 final size:28
Alignment explanation
Indices: 33984675--33984743 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
33984665 TTTAAAACCC
* *
33984675 TAGGGGT-ATATCAGTAATTATGCTATT
1 TAGGGGTAATTTCGGTAATTATGCTATT
* *
33984702 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTATGCTATT
33984730 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
33984744 TGATCTACGC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 7 0.19
28 30 0.81
ACGTcount: A:0.23, C:0.09, G:0.26, T:0.42
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTATGCTATT
Found at i:33989522 original size:24 final size:25
Alignment explanation
Indices: 33989495--33989546 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
33989485 GCCTAGCCTC
* *
33989495 TTTTGAT-AACTGGGGTATAGCCCT
1 TTTTGATAAACTGGGGCAAAGCCCT
*
33989519 TTTTGGTAAACTGGGGCAAAGCCCT
1 TTTTGATAAACTGGGGCAAAGCCCT
33989544 TTT
1 TTT
33989547 CACACTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (25 bp):
TTTTGATAAACTGGGGCAAAGCCCT
Found at i:33989621 original size:21 final size:21
Alignment explanation
Indices: 33989594--33989654 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
33989584 TATAATGAGT
*
33989594 ATATCATAGCATATCATGTGC
1 ATATCATAACATATCATGTGC
* *
33989615 ATCTCATAAAATATCATGTGC
1 ATATCATAACATATCATGTGC
*
33989636 ATATCATATCATATCATGT
1 ATATCATAACATATCATGT
33989655 ATAACAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (21 bp):
ATATCATAACATATCATGTGC
Found at i:33993425 original size:33 final size:33
Alignment explanation
Indices: 33993380--33993473 Score: 99
Period size: 33 Copynumber: 2.9 Consensus size: 33
33993370 AACACAGTGT
* *
33993380 CAGTACAATCTGGGCCAAAGCCCTATTCAGTAA
1 CAGTACAGTCTGGGCCTAAGCCCTATTCAGTAA
*
33993413 CAGTACAGTCTGGGCCTTAGCCC--TT-A--AA
1 CAGTACAGTCTGGGCCTAAGCCCTATTCAGTAA
*
33993441 CAGTAGCAGTATGGGCCTAAGCCCTAATTCAGT
1 CAGTA-CAGTCTGGGCCTAAGCCCT-ATTCAGT
33993474 CTCGACATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
28 7 0.14
29 16 0.33
30 1 0.02
31 2 0.04
32 2 0.04
33 21 0.43
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (33 bp):
CAGTACAGTCTGGGCCTAAGCCCTATTCAGTAA
Found at i:33993473 original size:29 final size:28
Alignment explanation
Indices: 33993411--33993465 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
33993401 CCTATTCAGT
* *
33993411 AACAGTACAGTCTGGGCCTTAGCCCTTA
1 AACAGTACAGTATGGGCCTAAGCCCTTA
33993439 AACAGTAGCAGTATGGGCCTAAGCCCT
1 AACAGTA-CAGTATGGGCCTAAGCCCT
33993466 AATTCAGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (28 bp):
AACAGTACAGTATGGGCCTAAGCCCTTA
Found at i:33993777 original size:25 final size:25
Alignment explanation
Indices: 33993749--33993818 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
33993739 CTCTTTTAAT
33993749 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* * *
33993774 AACTGGGGCAAAACCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
33993799 AACTGGGGCATAG-CCTTTTT
1 AACTGGGGCAAAGCCCTTTTT
33993819 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 6 0.15
25 33 0.85
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:33994776 original size:27 final size:27
Alignment explanation
Indices: 33994746--33994843 Score: 74
Period size: 27 Copynumber: 3.6 Consensus size: 27
33994736 GTAAATCTAC
33994746 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* **
33994773 AAACTAATAGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* **
33994799 AGAAAGTCAAGGGTATTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* *
33994829 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
33994844 TGATAATTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
26 1 0.02
27 31 0.56
28 7 0.13
29 15 0.27
30 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:33994850 original size:27 final size:27
Alignment explanation
Indices: 33994795--33994974 Score: 143
Period size: 27 Copynumber: 6.7 Consensus size: 27
33994785 TTTCTATAAT
* * *
33994795 TTTTAGAAAGTCAAGGGTATTTTTGTAA
1 TTTTACAAA-TCAGGGGTATTTTGGTAA
** *
33994823 TTTTGTAAATCAGGGGTATTTTGATAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* *
33994850 TTTTACAAAT-TGAGGATATTTTGGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* * *
33994877 TTTCACAAACCAGTGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
33994904 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
* ** **
33994931 TTCTACCCTAT-AGGGGTATTTCAGTAA
1 TTTTA-CAAATCAGGGGTATTTTGGTAA
*
33994958 TTTTAC-AATCAAGGGTA
1 TTTTACAAATCAGGGGTA
33994975 AAACTGCAAT
Statistics
Matches: 121, Mismatches: 25, Indels: 14
0.76 0.16 0.09
Matches are distributed among these distances:
25 2 0.02
26 9 0.07
27 100 0.83
28 10 0.08
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:33996848 original size:27 final size:27
Alignment explanation
Indices: 33996776--33996954 Score: 139
Period size: 27 Copynumber: 6.6 Consensus size: 27
33996766 TACAAAGGTG
* * * *
33996776 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAATCAGGGGTA
** **
33996803 TTTCAGTAATTTTGTAAATCAGGGGTA
1 TTTTGGTAATTTTACAAATCAGGGGTA
* *
33996830 TTTTGGTAATTTTACAAAT-TGAGGATA
1 TTTTGGTAATTTTACAAATCAG-GGGTA
* * * *
33996857 TTTCGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAATCAGGGGTA
33996884 TTTTGGTAATTTTACAAA-CTAGGGGTA
1 TTTTGGTAATTTTACAAATC-AGGGGTA
* **
33996911 TTTTGGTAATTCTACCCTAT-AGGGGTA
1 TTTTGGTAATTTTA-CAAATCAGGGGTA
**
33996938 TTTCAGTAATTTTACAA
1 TTTTGGTAATTTTACAA
33996955 TCGAGGGTAA
Statistics
Matches: 116, Mismatches: 31, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
26 3 0.03
27 110 0.95
28 3 0.03
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAATCAGGGGTA
Found at i:33996919 original size:54 final size:54
Alignment explanation
Indices: 33996776--33996921 Score: 159
Period size: 54 Copynumber: 2.7 Consensus size: 54
33996766 TACAAAGGTG
* * * * * *** *
33996776 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAATCAGGGGTA
1 TTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAGGGGTA
* * *
33996830 TTTTGGTAATTTTACAAA-TTGAGGATATTTCGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTCACAAACCAGGGGTA
*
33996884 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATT
1 TTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATT
33996922 CTACCCTATA
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
54 73 0.97
55 2 0.03
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAGGGGTA
Found at i:33996940 original size:81 final size:81
Alignment explanation
Indices: 33996789--33996954 Score: 185
Period size: 81 Copynumber: 2.0 Consensus size: 81
33996779 TGGTAAATCT
** * *
33996789 ACAAACCAAGGGTATTTCAGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGG
1 ACAAACCAAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTACAAATAGAGG
*
33996854 ATATTTCGGTAATTTC
66 ATATTTCAGTAATTTC
** **
33996870 ACAAACC-AGTGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTCTACCCTATAG
1 ACAAACCAAG-GGTATTTCAGTAATTTTACAAATC-AGGGGTATTTTGGTAATTCTA-CAAATAG
* *
33996933 -GGGTATTTCAGTAATTTT
63 AGGATATTTCAGTAATTTC
33996951 ACAA
1 ACAA
33996955 TCGAGGGTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
80 3 0.04
81 64 0.90
82 4 0.06
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.38
Consensus pattern (81 bp):
ACAAACCAAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTACAAATAGAGG
ATATTTCAGTAATTTC
Found at i:33996982 original size:26 final size:27
Alignment explanation
Indices: 33996953--33997016 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
33996943 GTAATTTTAC
* *
33996953 AATCGAGGGTAAAAC-G-GAGTTTTGTA
1 AATCGAGGGTAAAACAGTGA-TTCTATA
33996979 AATCGAGGGTAAAACAGTGATTCTATA
1 AATCGAGGGTAAAACAGTGATTCTATA
33997006 AATCGAGGGTA
1 AATCGAGGGTA
33997017 CTTTGGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 15 0.44
27 17 0.50
28 2 0.06
ACGTcount: A:0.38, C:0.09, G:0.28, T:0.25
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTGATTCTATA
Found at i:33998808 original size:53 final size:54
Alignment explanation
Indices: 33998748--33998884 Score: 159
Period size: 53 Copynumber: 2.6 Consensus size: 54
33998738 TACAAAGGTG
* * * *** *
33998748 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAATCAG-GGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACCAGTGGTA
* * * *
33998801 TTTTGGTAATTTTACAAATTGAGGATATTTCGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACCAGTGGTA
*
33998855 TTTTGGTAATTTTACAAACTAGGGGTATTT
1 TTTTGGTAATTTTACAAACTAAGGGTATTT
33998885 TGGTAATTCT
Statistics
Matches: 68, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
53 38 0.56
54 30 0.44
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACCAGTGGTA
Found at i:33998837 original size:27 final size:26
Alignment explanation
Indices: 33998760--33998934 Score: 122
Period size: 27 Copynumber: 6.5 Consensus size: 26
33998750 TTGGTAAATC
* *
33998760 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAATC-AGGGTATTTCGGTAATTT
** *
33998787 TGTAAATCAGGGTATTTTGGTAATTT
1 TACAAATCAGGGTATTTCGGTAATTT
* *
33998813 TACAAATTGAGGATATTTCGGTAATTT
1 TACAAA-TCAGGGTATTTCGGTAATTT
* * *
33998840 CACAAACCAGTGGTATTTTGGTAATTT
1 TACAAATCAG-GGTATTTCGGTAATTT
* *
33998867 TACAAA-CTAGGGGTATTTTGGTAATTC
1 TACAAATC-A-GGGTATTTCGGTAATTT
** *
33998894 TACCCTAT-AGGGGTATTTCAGTAATTT
1 TA-CAAATCA-GGGTATTTCGGTAATTT
33998921 TAC-AATCGAGGGTA
1 TACAAATC-AGGGTA
33998935 AAACGGAGTT
Statistics
Matches: 117, Mismatches: 23, Indels: 17
0.75 0.15 0.11
Matches are distributed among these distances:
25 2 0.02
26 29 0.25
27 83 0.71
28 3 0.03
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (26 bp):
TACAAATCAGGGTATTTCGGTAATTT
Found at i:33998953 original size:26 final size:27
Alignment explanation
Indices: 33998924--33998987 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
33998914 GTAATTTTAC
* *
33998924 AATCGAGGGTAAAAC-G-GAGTTTTGTA
1 AATCGAGGGTAAAACAGTGA-TTCTATA
33998950 AATCGAGGGTAAAACAGTGATTCTATA
1 AATCGAGGGTAAAACAGTGATTCTATA
33998977 AATCGAGGGTA
1 AATCGAGGGTA
33998988 CTTTGGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 15 0.44
27 17 0.50
28 2 0.06
ACGTcount: A:0.38, C:0.09, G:0.28, T:0.25
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTGATTCTATA
Found at i:34001195 original size:30 final size:30
Alignment explanation
Indices: 34001152--34001226 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
34001142 CTCGACATAT
34001152 ACTGGGCCGAAGCCTTTTCATAAATCACATC
1 ACTGGG-CGAAGCCTTTTCATAAATCACATC
*
34001183 ACTGGGCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCGAAGCCTTTTCATAAATCACATC
**
34001213 ACTGGATGAAGCCT
1 ACTGGGCGAAGCCT
34001227 ATACTGTAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 35 0.85
31 6 0.15
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (30 bp):
ACTGGGCGAAGCCTTTTCATAAATCACATC
Found at i:34001475 original size:25 final size:25
Alignment explanation
Indices: 34001447--34001516 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
34001437 CTCTTTTAAT
*
34001447 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
34001472 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
34001497 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
34001517 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:34001999 original size:20 final size:20
Alignment explanation
Indices: 34001971--34002024 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
34001961 TGGGCCCGAA
*
34001971 AGCCCATTGGGCCAGATTCT
1 AGCCCATTGGGCCAGATTCC
* *
34001991 AGCCTATTGGGCCCGATTCC
1 AGCCCATTGGGCCAGATTCC
34002011 AGCCCATTGAGGCC
1 AGCCCATTG-GGCC
34002025 CAACTTACCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.19, C:0.33, G:0.26, T:0.22
Consensus pattern (20 bp):
AGCCCATTGGGCCAGATTCC
Found at i:34002375 original size:27 final size:27
Alignment explanation
Indices: 34002345--34002422 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
34002335 GGGCATATTC
34002345 GTCATTTTACCATA-TAGGGGTATTACG
1 GTCATTTTACC-TACTAGGGGTATTACG
* * *
34002372 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTA-CCTACTAGGGGTATTACG
* *
34002399 GTCTTTTTACCTATTAGGGGTATT
1 GTCATTTTACCTACTAGGGGTATT
34002423 TTAGTCATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
26 9 0.22
27 24 0.60
28 7 0.17
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCTACTAGGGGTATTACG
Found at i:34002583 original size:27 final size:26
Alignment explanation
Indices: 34002553--34002649 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 26
34002543 TGTAGATCAG
34002553 GGATATTTTGGTAACTTTACAAATTGA
1 GGATATTTTGGTAA-TTTACAAATTGA
* **
34002580 GGATATTTCGGTAATTTCACAAA-CCA
1 GGATATTTTGGTAATTT-ACAAATTGA
*
34002606 GTGGTATTTTGGTAATTTTACAAACTTG-
1 G-GATATTTTGGTAA-TTTACAAA-TTGA
*
34002634 GGGTATTTTGGTAATT
1 GGATATTTTGGTAATT
34002650 CCACCCAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
26 7 0.12
27 47 0.81
28 4 0.07
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (26 bp):
GGATATTTTGGTAATTTACAAATTGA
Found at i:34002666 original size:54 final size:54
Alignment explanation
Indices: 34002550--34002677 Score: 143
Period size: 54 Copynumber: 2.4 Consensus size: 54
34002540 TTTTGTAGAT
* * *
34002550 CAGGGATATTTTGGTAACTTTACAAATTGAGGATATTTCGGTAATTTCACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAATTGAGGATATTTCGGTAATTCCACAAAC
* * * *
34002604 CAGTGGTATTTTGGTAATTTTACAAACTTG-GGGTATTTTGGTAATTCCACCCAA-
1 CAGGGGTATTTTGGTAATTTTACAAA-TTGAGGATATTTCGGTAATTCCA-CAAAC
* *
34002658 TAGGGGTATTTTAGTAATTT
1 CAGGGGTATTTTGGTAATTT
34002678 CGCAATCGAA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
54 56 0.90
55 6 0.10
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTACAAATTGAGGATATTTCGGTAATTCCACAAAC
Found at i:34002700 original size:26 final size:26
Alignment explanation
Indices: 34002662--34002717 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
34002652 ACCCAATAGG
* *
34002662 GGTATTTTAGTAATTTCGCAATCGAA
1 GGTACTTTAGTAATTTCACAATCGAA
* *
34002688 GGTACTTTGGTAATTTCACAATCGAG
1 GGTACTTTAGTAATTTCACAATCGAA
34002714 GGTA
1 GGTA
34002718 AAACGGTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (26 bp):
GGTACTTTAGTAATTTCACAATCGAA
Found at i:34002743 original size:27 final size:27
Alignment explanation
Indices: 34002707--34002771 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
34002697 GTAATTTCAC
* * *
34002707 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
34002734 AATCGAGGGTAAAACAGTGATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
34002761 AATCGAGGGTA
1 AATCGAGGGTA
34002772 CTTTGGTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:34004913 original size:29 final size:28
Alignment explanation
Indices: 34004867--34004921 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
34004857 CCTATTCAGT
* *
34004867 AACAGTACAGTCTAGGCCTTAGCCCTTA
1 AACAGTACAGTATAGGCCTAAGCCCTTA
*
34004895 AACAGTAGCAGTATGGGCCTAAGCCCT
1 AACAGTA-CAGTATAGGCCTAAGCCCT
34004922 AATTCAATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (28 bp):
AACAGTACAGTATAGGCCTAAGCCCTTA
Found at i:34004978 original size:31 final size:31
Alignment explanation
Indices: 34004935--34005019 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
34004925 TCAATCTCGA
34004935 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
34004965 CATGTCACTGGGCCGAAGCCTTTTAATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
34004996 CATATCACT-GGCCGAAGCCTTTTC
1 CATATCACTGGGCCGAAGCCTTTTC
34005020 TGTAAGCGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 18 0.36
31 32 0.64
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:34005265 original size:25 final size:25
Alignment explanation
Indices: 34005237--34005306 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
34005227 CTCTTTTAAT
* *
34005237 AACTGGGGAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
34005262 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
34005287 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
34005307 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:34006255 original size:27 final size:28
Alignment explanation
Indices: 34006212--34006278 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 28
34006202 TTTCATCCTA
*
34006212 CAAGGGTGTTT-TGGTAAATCTACAAAC
1 CAAGGGTATTTCTGGTAAATCTACAAAC
* * **
34006239 CAAGGGTATTTCT-GTAATTTTGTAAAC
1 CAAGGGTATTTCTGGTAAATCTACAAAC
*
34006266 CAATGGTATTTCT
1 CAAGGGTATTTCT
34006279 ATAATTTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.37
Consensus pattern (28 bp):
CAAGGGTATTTCTGGTAAATCTACAAAC
Found at i:34006283 original size:27 final size:27
Alignment explanation
Indices: 34006235--34006320 Score: 102
Period size: 27 Copynumber: 3.1 Consensus size: 27
34006225 GTAAATCTAC
*
34006235 AAACCAAGGGTATTTCTGTAATTTTGT
1 AAACCAATGGTATTTCTGTAATTTTGT
*
34006262 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAATGGTATTTCTGTAATTTTGT
* *
34006288 AGAAAGTCAATGGTATTTTTGTAATTTTGT
1 --AAA-CCAATGGTATTTCTGTAATTTTGT
34006318 AAA
1 AAA
34006321 TTTGGGGTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
26 1 0.02
27 23 0.46
28 6 0.12
29 19 0.38
30 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.43
Consensus pattern (27 bp):
AAACCAATGGTATTTCTGTAATTTTGT
Found at i:34006338 original size:27 final size:27
Alignment explanation
Indices: 34006299--34006454 Score: 152
Period size: 27 Copynumber: 5.8 Consensus size: 27
34006289 GAAAGTCAAT
* ** *
34006299 GGTATTTTTGTAATTTTGTAAATTTGG
1 GGTATTTTGGTAATTTTACAAACTTGG
34006326 GGTATTTTGGTAATTTTACAAA-TTGAG
1 GGTATTTTGGTAATTTTACAAACTTG-G
* * ** *
34006353 GGTATTTCGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAACTTGG
34006380 GGTATTTTGGTAATTTTACAAACTTGG
1 GGTATTTTGGTAATTTTACAAACTTGG
* * ** *
34006407 GGTATTTTGGTAATTCTACCATGTAGG
1 GGTATTTTGGTAATTTTACAAACTTGG
* *
34006434 GGTATTTTAGTAATTTCACAA
1 GGTATTTTGGTAATTTTACAA
34006455 TTGAGGGTAA
Statistics
Matches: 105, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 3 0.03
27 101 0.96
28 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACTTGG
Found at i:34006437 original size:81 final size:81
Alignment explanation
Indices: 34006298--34006454 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 81
34006288 AGAAAGTCAA
* ** * * *
34006298 TGGTATTTTTGTAATTTTGTAAATTTGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGG
1 TGGTATTTTGGTAATTTTACAAACTTGGGGTATTTTGGTAATTCTACAAATTGAGGGTATTTCAG
34006363 TAATTTCACAAACCAG
66 TAATTTCACAAACCAG
* *
34006379 TGGTATTTTGGTAATTTTACAAACTTGGGGTATTTTGGTAATTCTAC-CA-TGTAGGGGTATTTT
1 TGGTATTTTGGTAATTTTACAAACTTGGGGTATTTTGGTAATTCTACAAATTG-A-GGGTATTTC
34006442 AGTAATTTCACAA
64 AGTAATTTCACAA
34006455 TTGAGGGTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
79 2 0.03
80 2 0.03
81 62 0.94
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (81 bp):
TGGTATTTTGGTAATTTTACAAACTTGGGGTATTTTGGTAATTCTACAAATTGAGGGTATTTCAG
TAATTTCACAAACCAG
Found at i:34006438 original size:54 final size:54
Alignment explanation
Indices: 34006324--34006463 Score: 169
Period size: 54 Copynumber: 2.6 Consensus size: 54
34006314 TTGTAAATTT
34006324 GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCA
1 GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCA
* * * ***
34006378 GTGGTATTTTGGTAATTTTACAAACTTG-GGGTATTTTGGTAA-TTCTACCATGTA
1 GGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTC-ACAAACCA
* *
34006432 GGGGTATTTTAGTAATTTCAC-AATTGAGGGTA
1 GGGGTATTTTGGTAATTTTACAAATTGAGGGTA
34006464 AAATGGTAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
52 3 0.04
53 10 0.14
54 58 0.78
55 3 0.04
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.40
Consensus pattern (54 bp):
GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCA
Found at i:34008946 original size:29 final size:29
Alignment explanation
Indices: 34008913--34008995 Score: 166
Period size: 29 Copynumber: 2.9 Consensus size: 29
34008903 GTGACGAGAT
34008913 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
34008942 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
34008971 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
34008996 AAATACGGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:34009035 original size:59 final size:58
Alignment explanation
Indices: 34008909--34009044 Score: 159
Period size: 59 Copynumber: 2.3 Consensus size: 58
34008899 TACGGTGACG
* * *
34008909 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
* **
34008966 ATATATGGCACTAAGTGTGCATGCTGGAAAAAATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGG-AAAAATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
34009025 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
34009045 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
57 3 0.05
58 22 0.33
59 40 0.61
60 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
Found at i:34012118 original size:25 final size:25
Alignment explanation
Indices: 34012084--34012153 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
34012074 CACTTTTAAT
*
34012084 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
34012109 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
34012134 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
34012154 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:34013194 original size:27 final size:27
Alignment explanation
Indices: 34013130--34013267 Score: 138
Period size: 27 Copynumber: 5.1 Consensus size: 27
34013120 TTAATATAAT
* * *
34013130 TTTTAGAAAGTCAAGGGTATTTTTGTAA
1 TTTTACAAA-TCAGGGGTATTTTGGTAA
** *
34013158 TTTTGTAAATCATGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* *
34013185 TTTTACAAAT-TGAGGGTATTTCGGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
*
34013212 TTTCACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
34013239 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
34013266 TT
1 TT
34013268 CTACCCTGTA
Statistics
Matches: 94, Mismatches: 13, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
27 86 0.91
28 8 0.09
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.43
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:34013307 original size:27 final size:27
Alignment explanation
Indices: 34013171--34013307 Score: 95
Period size: 27 Copynumber: 5.1 Consensus size: 27
34013161 TGTAAATCAT
*
34013171 GGGTATTTTGGTAATTTT-ACAAATTGA-
1 GGGTATTTTGGT-ATTTTCAC-AATCGAG
* * * *
34013198 GGGTATTTCGGTAATTTCACAAACTAG
1 GGGTATTTTGGTATTTTCACAATCGAG
* *
34013225 GGGTATTTTGGTAATTTT-ACAAACTAG
1 GGGTATTTTGGT-ATTTTCACAATCGAG
* **
34013252 GGGTATTTTGGTA-ATTCTACCCT-GTAG
1 GGGTATTTTGGTATTTTC-ACAATCG-AG
*
34013279 GGGTATTTTAGTATTTTCACAATCGAG
1 GGGTATTTTGGTATTTTCACAATCGAG
34013306 GG
1 GG
34013308 TAAATCAGTA
Statistics
Matches: 86, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
25 2 0.02
26 8 0.09
27 68 0.79
28 8 0.09
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTATTTTCACAATCGAG
Found at i:34013321 original size:27 final size:27
Alignment explanation
Indices: 34013291--34013343 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
34013281 GTATTTTAGT
*
34013291 ATTTTCACAATCGAGGGTAAATCAGTA
1 ATTTTCACAATCGAGGGTAAAACAGTA
***
34013318 ATTTTGTGAATCGAGGGTAAAACAGT
1 ATTTTCACAATCGAGGGTAAAACAGT
34013344 GATTCTATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (27 bp):
ATTTTCACAATCGAGGGTAAAACAGTA
Found at i:34013356 original size:27 final size:27
Alignment explanation
Indices: 34013299--34013363 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
34013289 GTATTTTCAC
* * * *
34013299 AATCGAGGGTAAATCAGTAATTTTGTG
1 AATCGAGGGTAAAACAGTAATTCTATA
*
34013326 AATCGAGGGTAAAACAGTGATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
34013353 AATCGAGGGTA
1 AATCGAGGGTA
34013364 CTTTGGTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:34014592 original size:16 final size:16
Alignment explanation
Indices: 34014573--34014603 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34014563 CTTCTTCACT
34014573 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
34014589 TACTTACTTACTTAA
1 TACTCACTTACTTAA
34014604 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:34014609 original size:20 final size:20
Alignment explanation
Indices: 34014570--34014609 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
34014560 AAACTTCTTC
* *
34014570 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
34014590 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
34014610 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:34014983 original size:108 final size:110
Alignment explanation
Indices: 34014847--34015045 Score: 323
Period size: 108 Copynumber: 1.8 Consensus size: 110
34014837 ATCCTTTTGA
*
34014847 AACTTACCATTGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTTACCAA
1 AACTTACCAATGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTTACCAA
34014910 -TGTCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGTCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* **
34014955 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
*
34015020 TGTCATGCCTTGGCATGGTTTTACAT
66 TGTCATGCCTTGGCATGGTCTTACAT
34015046 TGTAACACTT
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.59
109 8 0.10
110 25 0.30
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
TGTCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:34014984 original size:55 final size:53
Alignment explanation
Indices: 34014847--34015045 Score: 222
Period size: 55 Copynumber: 3.7 Consensus size: 53
34014837 ATCCTTTTGA
* **
34014847 AACTTACCATTGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * *
34014900 AACTTACCAATGTCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-G
*
34014954 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * *
34015007 AAACCTTACCAATTGTCATGCCTTGGCATGGTTTTACAT
1 -AA-CTTACCAA-TGCCATGTCTTGACATGGTCTTACAT
34015046 TGTAACACTT
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
52 2 0.02
53 45 0.37
54 8 0.07
55 65 0.53
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:34016908 original size:43 final size:43
Alignment explanation
Indices: 34016831--34016957 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 43
34016821 AAGTCTAAAC
* * * ** *
34016831 TCAT-TCACCGGC-ATTTCGCCTACTAGGCTTGAAGCCTGATA
1 TCATCTCACCGGCAATATAGCCTGCTAGGCCCGAAGCCCGATA
* *
34016872 TCATTTCACCGGCAATATAGTCTGCTAGGCCCGAAGCCCGATA
1 TCATCTCACCGGCAATATAGCCTGCTAGGCCCGAAGCCCGATA
* * *
34016915 TTATCTCACTGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TCATCTCACCGGCAATATAGCCTGCTAGGCCCGAAGCCCGATA
34016958 ATATTATTCA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 4 0.06
42 8 0.11
43 60 0.83
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (43 bp):
TCATCTCACCGGCAATATAGCCTGCTAGGCCCGAAGCCCGATA
Found at i:34022233 original size:22 final size:22
Alignment explanation
Indices: 34022205--34022247 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
34022195 TAGATGATTT
34022205 GCATGATTCACTCATATCCATC
1 GCATGATTCACTCATATCCATC
34022227 GCATGATTCACTCATATCCAT
1 GCATGATTCACTCATATCCAT
34022248 TGTTGCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (22 bp):
GCATGATTCACTCATATCCATC
Found at i:34028525 original size:30 final size:30
Alignment explanation
Indices: 34028489--34028549 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
34028479 TTTAACATAC
34028489 ATTTATAATGAAATCGTCACATACGAACTT
1 ATTTATAATGAAATCGTCACATACGAACTT
34028519 ATTTATAATGAAATCGTCACATACGAACTT
1 ATTTATAATGAAATCGTCACATACGAACTT
34028549 A
1 A
34028550 CCTTGGGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (30 bp):
ATTTATAATGAAATCGTCACATACGAACTT
Found at i:34030654 original size:25 final size:25
Alignment explanation
Indices: 34030625--34030672 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
34030615 TTATAACATG
* *
34030625 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
34030650 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
34030673 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:34030756 original size:11 final size:11
Alignment explanation
Indices: 34030720--34030775 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
34030710 CATGGTATGT
34030720 ATGATATGCAC
1 ATGATATGCAC
* *
34030731 ATGACATG--T
1 ATGATATGCAC
34030740 ATGATATGCAC
1 ATGATATGCAC
*
34030751 ATGATATG--T
1 ATGATATGCAC
34030760 ATGATATGCAC
1 ATGATATGCAC
34030771 ATGAT
1 ATGAT
34030776 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34030775 original size:20 final size:20
Alignment explanation
Indices: 34030709--34030775 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
34030699 ATTTTGATAA
*
34030709 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
34030729 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
34030749 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
34030769 ACATGAT
1 ACATGAT
34030776 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:34030856 original size:23 final size:23
Alignment explanation
Indices: 34030826--34030965 Score: 201
Period size: 23 Copynumber: 6.0 Consensus size: 23
34030816 AGGAAGTGAA
34030826 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
34030849 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
34030872 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
34030895 AAAAGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
34030918 AAAAGGGCTTTTTCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
*
34030942 AACAGAGGC-TAGGCCTCCAGTTAT
1 AA-AG-GGCTTATGCC-CCAGTTAT
34030966 ATGATAAAGC
Statistics
Matches: 106, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
23 70 0.66
24 25 0.24
25 11 0.10
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:34031198 original size:32 final size:32
Alignment explanation
Indices: 34031161--34031222 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
34031151 TTACAGTAAA
*
34031161 GGCTTCGGCCCAGTAATATGAAATTTGAAAAG
1 GGCTTCGGCCCAGTAATATGAAATATGAAAAG
**
34031193 GGCTTCGGCCCAGTGTTATGAAATATGAAA
1 GGCTTCGGCCCAGTAATATGAAATATGAAA
34031223 TATGAAAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (32 bp):
GGCTTCGGCCCAGTAATATGAAATATGAAAAG
Found at i:34034355 original size:40 final size:40
Alignment explanation
Indices: 34034295--34034481 Score: 284
Period size: 40 Copynumber: 4.7 Consensus size: 40
34034285 CAATTGAGGA
* *
34034295 TTATATCCGGGTTAAGTCCCGAAGGCATTCCTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
34034335 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
34034375 TTATTTCCGGGTTAAGTCCTGAAGGCATTCGTGCTAGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
34034415 CTATTTCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** * *
34034455 TTACATCCGGGCTAAATCCCGAAGGCA
1 TTATTTCCGGGTTAAGTCCCGAAGGCA
34034482 ATTGGGTTGG
Statistics
Matches: 134, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.18, C:0.21, G:0.28, T:0.33
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:34037849 original size:40 final size:40
Alignment explanation
Indices: 34037646--34037833 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
34037636 TGAATGATAC
* * * * *
34037646 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGGTTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGTTAAAT
* *
34037686 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTGTTAAAT
***
34037726 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGTTAAAT
* ***
34037766 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGTTAAAT
*
34037806 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCAATTGTGC
34037834 TTGTGGTTAT
Statistics
Matches: 134, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 2 0.01
40 129 0.96
41 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGTTAAAT
Found at i:34045701 original size:40 final size:40
Alignment explanation
Indices: 34045641--34045827 Score: 293
Period size: 40 Copynumber: 4.7 Consensus size: 40
34045631 CAATTGAGGA
* *
34045641 TTATATCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
34045681 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
34045721 TTATTTCCGGGTTAAGTCCTGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
34045761 CTATTTCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** * *
34045801 TTACATCCGGGCTAAATCCCGAAGGCA
1 TTATTTCCGGGTTAAGTCCCGAAGGCA
34045828 ATTGGGTTGG
Statistics
Matches: 136, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.18, C:0.21, G:0.28, T:0.33
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:34048008 original size:18 final size:18
Alignment explanation
Indices: 34047962--34048008 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
34047952 TTGTTGAGAA
* *
34047962 ATATTTATTTTGATGTTT
1 ATATATATTTTGATGGTT
*
34047980 TTAGTAT-TTTTGATGGTT
1 ATA-TATATTTTGATGGTT
34047998 ATATATATTTT
1 ATATATATTTT
34048009 AAAATTATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
17 3 0.13
18 18 0.78
19 2 0.09
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (18 bp):
ATATATATTTTGATGGTT
Found at i:34048039 original size:12 final size:12
Alignment explanation
Indices: 34048009--34048041 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
34047999 TATATATTTT
34048009 AAAATT-ATATA
1 AAAATTAATATA
34048020 AAAA-TAATATA
1 AAAATTAATATA
34048031 AAAATTAATAT
1 AAAATTAATAT
34048042 GGGCGGGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:34051464 original size:10 final size:10
Alignment explanation
Indices: 34051451--34051475 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34051441 AATTTTGTAC
34051451 AGTTAGTTAG
1 AGTTAGTTAG
34051461 AGTTAGTTAG
1 AGTTAGTTAG
34051471 AGTTA
1 AGTTA
34051476 CAAAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (10 bp):
AGTTAGTTAG
Found at i:34052160 original size:10 final size:11
Alignment explanation
Indices: 34052129--34052153 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34052119 AACTTGCAGG
34052129 TTTATCCTTGT
1 TTTATCCTTGT
34052140 TTTATCCTTGT
1 TTTATCCTTGT
34052151 TTT
1 TTT
34052154 TCTTTGTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.16, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTATCCTTGT
Found at i:34053352 original size:2 final size:2
Alignment explanation
Indices: 34053345--34053377 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
34053335 ATTTGCTTTG
34053345 TA TA 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 TA TA T
34053378 TACCATTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34058759 original size:40 final size:40
Alignment explanation
Indices: 34058704--34058908 Score: 342
Period size: 40 Copynumber: 5.2 Consensus size: 40
34058694 CGGATGATAA
34058704 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
34058744 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
34058784 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* *
34058824 CGAAGGCATTTGTACGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
34058864 CGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
34058903 CGAAGG
1 CGAAGG
34058909 TACTTGGTTT
Statistics
Matches: 158, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
39 16 0.10
40 142 0.90
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:34067051 original size:40 final size:39
Alignment explanation
Indices: 34066974--34067176 Score: 320
Period size: 40 Copynumber: 5.2 Consensus size: 39
34066964 CGGATGATAA
*
34066974 CGAAGGCATTTGTGCTAGTACTA-ATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCC
34067012 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCC
34067052 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCC
34067092 CGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCC
* * *
34067132 CGAAGGCATTTGAGCGAGTAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTA-CTATATCCGGGCTAAGTCC
34067171 CGAAGG
1 CGAAGG
34067177 TACTTGGTTT
Statistics
Matches: 157, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
38 17 0.11
39 21 0.13
40 119 0.76
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCC
Found at i:34069790 original size:11 final size:11
Alignment explanation
Indices: 34069774--34069802 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
34069764 TAATTAAAAG
34069774 AATAGTTATTA
1 AATAGTTATTA
34069785 AATAGTTATTA
1 AATAGTTATTA
34069796 AATAGTT
1 AATAGTT
34069803 TGATCAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (11 bp):
AATAGTTATTA
Found at i:34070882 original size:33 final size:32
Alignment explanation
Indices: 34070810--34070886 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
34070800 ATGTTTGGAT
* * * *
34070810 GTAAGACCATAACTGGGCTATGGTATTTTAAT
1 GTAAGACCATAACTGGGCTATGGCACTTGAAC
*
34070842 GTAAAGACCATAACTGGGTTATGGCACCTTGAAC
1 GT-AAGACCATAACTGGGCTATGGCA-CTTGAAC
34070876 GTAAGACCATA
1 GTAAGACCATA
34070887 GTTGGACCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 2 0.05
33 30 0.79
34 6 0.16
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (32 bp):
GTAAGACCATAACTGGGCTATGGCACTTGAAC
Found at i:34073785 original size:27 final size:27
Alignment explanation
Indices: 34073733--34073822 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 27
34073723 GTGACAGAGT
34073733 CACCAGATACAGATATTTTGTGGCAGTAC
1 CACCAGA-ACAGATA-TTTGTGGCAGTAC
* **
34073762 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTAC
34073789 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGTA-C
34073817 CACCAG
1 CACCAG
34073823 GACACTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTAC
Found at i:34073818 original size:28 final size:28
Alignment explanation
Indices: 34073733--34073822 Score: 112
Period size: 28 Copynumber: 3.2 Consensus size: 28
34073723 GTGACAGAGT
*
34073733 CACCAGATACAGATATTTTGTGGCAGTA-C
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
* **
34073762 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCATAGC
34073789 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
34073817 CACCAG
1 CACCAG
34073823 GACACTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 22 0.42
28 23 0.44
29 7 0.13
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:34079369 original size:33 final size:32
Alignment explanation
Indices: 34079298--34079472 Score: 125
Period size: 33 Copynumber: 5.2 Consensus size: 32
34079288 TGGTTGAACC
* *
34079298 ATGGCAGTGTTTATATGTGAGACCATAGCTGAGCT
1 ATGGCA-T-TTTA-ATGTAAGACCATAGCTGGGCT
* * *
34079333 ATGGCATTCTAATGATAAGACCATAACTGGGTT
1 ATGGCATTTTAATG-TAAGACCATAGCTGGGCT
* * * * * * *
34079366 ATGGCACTATGAACGTAAGACCATGGTTGGACC
1 ATGGCA-TTTTAATGTAAGACCATAGCTGGGCT
*
34079399 ATGACAATGTTTATATGTAAGACCATAGCTGGGCT
1 ATGGC-AT-TTTA-ATGTAAGACCATAGCTGGGCT
* * *
34079434 ATGGCATTTTGATGATAAGACCATAACTGGGTT
1 ATGGCATTTTAATG-TAAGACCATAGCTGGGCT
34079467 ATGGCA
1 ATGGCA
34079473 ATACGAATTT
Statistics
Matches: 107, Mismatches: 27, Indels: 14
0.72 0.18 0.09
Matches are distributed among these distances:
32 6 0.06
33 65 0.61
34 10 0.09
35 26 0.24
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (32 bp):
ATGGCATTTTAATGTAAGACCATAGCTGGGCT
Found at i:34079422 original size:101 final size:101
Alignment explanation
Indices: 34079245--34079472 Score: 357
Period size: 101 Copynumber: 2.3 Consensus size: 101
34079235 TTAATTGACA
* * * * * *
34079245 GATAAGACGACAACTGGGTTATGGCACTATGAATGTAATACCATGGTTGAACCATGGCAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGAACCATGACAATGTTT
*
34079310 ATATGTGAGACCATAGCTGAGCTATGGCATTCTAAT
66 ATATGTAAGACCATAGCTGAGCTATGGCATTCTAAT
*
34079346 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGACAATGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGAACCATGACAATGTTT
* * *
34079411 ATATGTAAGACCATAGCTGGGCTATGGCATTTTGAT
66 ATATGTAAGACCATAGCTGAGCTATGGCATTCTAAT
34079447 GATAAGACCATAACTGGGTTATGGCA
1 GATAAGACCATAACTGGGTTATGGCA
34079473 ATACGAATTT
Statistics
Matches: 116, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 116 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGAACCATGACAATGTTT
ATATGTAAGACCATAGCTGAGCTATGGCATTCTAAT
Found at i:34083903 original size:42 final size:41
Alignment explanation
Indices: 34083800--34083947 Score: 145
Period size: 43 Copynumber: 3.5 Consensus size: 41
34083790 TGTGATTTTG
* *
34083800 TGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGAAATTTACA
1 TGTAAGACCATGTCTGGGAC-ATGGCATCGTATTTG--ATTT-CA
* *
34083844 TGTAAGACTATGTCTGGGACATCGGCATCGTATTTGATTTCG
1 TGTAAGACCATGTCTGGGACAT-GGCATCGTATTTGATTTCA
* * * * *
34083886 TGTAAGTCCCTGTCTGGGACAGTGGCATCGATATATAATTACA
1 TGTAAGACCATGTCTGGGACA-TGGCATCG-TATTTGATTTCA
34083929 TGTAAGACCATGTCTGGGA
1 TGTAAGACCATGTCTGGGA
34083948 TGTTGGCTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
42 26 0.30
43 31 0.36
44 25 0.29
45 5 0.06
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATGGCATCGTATTTGATTTCA
Found at i:34088449 original size:28 final size:29
Alignment explanation
Indices: 34088384--34088455 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
34088374 TTGGTTCGAG
* *
34088384 CTAGATGGGTCATATGAATGTGATTTGGGC
1 CTAG-TGGGCCATATGAATGAGATTTGGGC
*
34088414 CTAATGGGCCATATGAATGAGA-TTGGGC
1 CTAGTGGGCCATATGAATGAGATTTGGGC
34088442 CTAGTGGGCCATAT
1 CTAGTGGGCCATAT
34088456 ACATGTATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 19 0.50
29 16 0.42
30 3 0.08
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (29 bp):
CTAGTGGGCCATATGAATGAGATTTGGGC
Found at i:34097811 original size:24 final size:24
Alignment explanation
Indices: 34097782--34097832 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
34097772 TTGGCTAAAT
34097782 TAAAAATTATGAAAATTTTATGGA
1 TAAAAATTATGAAAATTTTATGGA
34097806 TAAAAATTATGAAAATTTTATGGA
1 TAAAAATTATGAAAATTTTATGGA
34097830 TAA
1 TAA
34097833 GCTCTAGCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (24 bp):
TAAAAATTATGAAAATTTTATGGA
Found at i:34109041 original size:39 final size:39
Alignment explanation
Indices: 34108980--34109076 Score: 149
Period size: 39 Copynumber: 2.5 Consensus size: 39
34108970 GGGTGTTACA
* * *
34108980 CGCAGGCTATATGCTGGGAATATATCCGGACTTGAAGTC
1 CGCAGGCTATGTGCTGGAAATATATCCAGACTTGAAGTC
*
34109019 CGCAGGCTATGTACTGGAAATATATCCAGACTTGAAGTC
1 CGCAGGCTATGTGCTGGAAATATATCCAGACTTGAAGTC
*
34109058 CGCAGACTATGTGCTGGAA
1 CGCAGGCTATGTGCTGGAA
34109077 TGGAATCCGG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
CGCAGGCTATGTGCTGGAAATATATCCAGACTTGAAGTC
Found at i:34111524 original size:44 final size:41
Alignment explanation
Indices: 34111447--34111611 Score: 150
Period size: 43 Copynumber: 3.9 Consensus size: 41
34111437 TTCCGATATG
* * *
34111447 TGATTTCATGTAAGACCACGTCTGGGACGTTGGCATCGATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATT
* *
34111488 TGAAATTTACGTGTAAGACCATGTCTAGGACATTGGCATCATATT
1 TG--ATTT-CGTGTAAGACCATGTCTGGGACATTGGCATC-GATT
* * * *
34111533 TGATTTCGTGTAAGACCCTGTTTGGGATAGTGGCATCGATATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCG--ATT
* * * * *
34111576 TGATTACATGTAAGACCACGTCTGGTACGTTGGCAT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCAT
34111612 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
41 2 0.02
42 26 0.27
43 38 0.39
44 27 0.28
45 5 0.05
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATT
Found at i:34111589 original size:43 final size:42
Alignment explanation
Indices: 34111455--34111598 Score: 130
Period size: 42 Copynumber: 3.4 Consensus size: 42
34111445 TGTGATTTCA
* * *
34111455 TGTAAGACCACGTCTGGGAC-GTTGGCATC-GATTTGAAATTTACG
1 TGTAAGACCATGTCTAGGACAG-TGGCATCATATTTG--A-TTACG
* *
34111499 TGTAAGACCATGTCTAGGACATTGGCATCATATTTGATTTCG
1 TGTAAGACCATGTCTAGGACAGTGGCATCATATTTGATTACG
* * * * *
34111541 TGTAAGACCCTGTTTGGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTAGGACAGTGGCATC-ATATTTGATTACG
*
34111584 TGTAAGACCACGTCT
1 TGTAAGACCATGTCT
34111599 GGTACGTTGG
Statistics
Matches: 82, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 28 0.34
43 24 0.29
44 25 0.30
45 5 0.06
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACAGTGGCATCATATTTGATTACG
Found at i:34121838 original size:30 final size:29
Alignment explanation
Indices: 34121799--34121855 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
34121789 GTAGCCGAAG
*
34121799 CTAGTTAAATCGCACACTTAGTGCCAAGT
1 CTAGTTAAATCACACACTTAGTGCCAAGT
34121828 CTAGTTTAAATCACACACTTAGTGCCAA
1 CTAG-TTAAATCACACACTTAGTGCCAA
34121856 AGCTTCCGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (29 bp):
CTAGTTAAATCACACACTTAGTGCCAAGT
Found at i:34125814 original size:38 final size:40
Alignment explanation
Indices: 34125744--34125886 Score: 175
Period size: 38 Copynumber: 3.6 Consensus size: 40
34125734 CTCGCCCAAG
* * *
34125744 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
34125784 GCCTT-GGGACTTAG-CCGGATATAGTTACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
34125822 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
34125863 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
34125887 CATTCGAGTA
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
38 29 0.33
39 13 0.15
40 16 0.18
41 27 0.31
42 3 0.03
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:34133898 original size:41 final size:40
Alignment explanation
Indices: 34133771--34133915 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
34133761 ACTCGCCCAG
* * *
34133771 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
34133811 GCCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
34133851 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
34133892 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
34133916 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:34138178 original size:27 final size:28
Alignment explanation
Indices: 34138148--34138215 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
34138138 AGTGAGTCCA
*
34138148 CACACTCAGTGCTATATAAT-CAACTCG
1 CACACTTAGTGCTATATAATCCAACTCG
*
34138175 CACACTTAGTGCTATATGATCCAACTCG
1 CACACTTAGTGCTATATAATCCAACTCG
34138203 CACACTTAGTGCT
1 CACACTTAGTGCT
34138216 GTACAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 18 0.47
28 20 0.53
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.28
Consensus pattern (28 bp):
CACACTTAGTGCTATATAATCCAACTCG
Done.