Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 224 of 290
Found at i:77362879 original size:27 final size:27
Alignment explanation
Indices: 77362814--77362880 Score: 109
Period size: 26 Copynumber: 2.5 Consensus size: 27
77362804 GTAATAAATG
*
77362814 AAAATTACCAAAATACCCTCGACCTAT
1 AAAATTACCGAAATACCCTCGACCTAT
*
77362841 -AAATTACCGAAATACCCTCGACTTAT
1 AAAATTACCGAAATACCCTCGACCTAT
77362867 AAAATTACCGAAAT
1 AAAATTACCGAAAT
77362881 GCCCCTAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 24 0.65
27 13 0.35
ACGTcount: A:0.45, C:0.25, G:0.06, T:0.24
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGACCTAT
Found at i:77372155 original size:11 final size:11
Alignment explanation
Indices: 77372139--77372180 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
77372129 TTTGAGTCCA
77372139 TTTATTTTTAC
1 TTTATTTTTAC
77372150 TTTATTTTT-C
1 TTTATTTTTAC
*
77372160 TTTTATTTTTAT
1 -TTTATTTTTAC
77372172 TTCTATTTT
1 TT-TATTTT
77372181 CAATTTTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 1 0.04
11 20 0.74
12 6 0.22
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTATTTTTAC
Found at i:77377818 original size:71 final size:71
Alignment explanation
Indices: 77377741--77377955 Score: 175
Period size: 71 Copynumber: 3.1 Consensus size: 71
77377731 TATACAATTA
77377741 ATATTTTGTATGAATCATATTTATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATA
1 ATATTTTGTATGAATCATATTTATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATA
77377806 TCTTTT
66 TCTTTT
* * * *
77377812 ATATTTTG-ACTGAA--ATTAATTA-ATA-TAATTGT-TTATATT---AAAGTTCAATA--AAAT
1 ATATTTTGTA-TGAATCA-TATTTATATATTAATTATATTCT-TTCCAAAAG---AATATTAATT
* ** *
77377866 AT-ATATAATTA
60 TTCATATCTTTT
* * * * *
77377877 ATATTTTGTATGAATCAAATTCATGTATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATG
1 ATATTTTGTATGAATCATATTTATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATA
77377942 TCTTTT
66 TCTTTT
77377948 ATATTTTG
1 ATATTTTG
77377956 ACCGAAATTA
Statistics
Matches: 105, Mismatches: 21, Indels: 36
0.65 0.13 0.22
Matches are distributed among these distances:
65 22 0.21
66 8 0.08
67 6 0.06
68 24 0.23
69 7 0.07
70 9 0.09
71 29 0.28
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (71 bp):
ATATTTTGTATGAATCATATTTATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATA
TCTTTT
Found at i:77377946 original size:136 final size:136
Alignment explanation
Indices: 77377633--77378052 Score: 626
Period size: 136 Copynumber: 3.1 Consensus size: 136
77377623 GAAAAAGGAT
* *
77377633 TTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCAAAACTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATA
* * *
77377698 TAATTGTTTATATTAAAAAAATTGGTAAAAATATATACAATTAATATTTTGTATGAATCATATTT
66 TAATTGTTTATATT--AAAAATTAGT-AAAATATATACAATTAATATTTTGTATGAATCAAATTC
77377763 ATATATTAA
128 ATATATTAA
* *
77377772 TTATATTCTTTCCAAAAGAATATTAATTTTCATATCTTTTATATTTTGACTGAAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATA
* * *
77377837 TAATTGTTTATATT-AAAGTTCAATAAAATATATATAATTAATATTTTGTATGAATCAAATTCAT
66 TAATTGTTTATATTAAAAATT-AGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
*
77377901 GTATTAA
130 ATATTAA
*
77377908 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATA
* * * **
77377973 TAACTATTTATATTAATAAATTTAGTAAATTATATACAATTAATATTTTGTATGGCTCAAATTCA
66 TAATTGTTTATATTAA-AAA-TTAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
77378038 TATATTAA
129 TATATTAA
77378046 TTATATT
1 TTATATT
77378053 TATGTTCTCT
Statistics
Matches: 254, Mismatches: 23, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
136 122 0.48
137 2 0.01
138 53 0.21
139 77 0.30
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.46
Consensus pattern (136 bp):
TTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATA
TAATTGTTTATATTAAAAATTAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCATA
TATTAA
Found at i:77380861 original size:13 final size:13
Alignment explanation
Indices: 77380845--77380870 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77380835 ACCAAGCCCG
77380845 TAAATATTTTTAT
1 TAAATATTTTTAT
77380858 TAAATATTTTTAT
1 TAAATATTTTTAT
77380871 ATTGGTGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TAAATATTTTTAT
Found at i:77398735 original size:12 final size:12
Alignment explanation
Indices: 77398718--77398749 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
77398708 TTAGTGAGTT
77398718 ACACAGCCTAGC
1 ACACAGCCTAGC
*
77398730 ACACAGCCTGGC
1 ACACAGCCTAGC
77398742 ACACAGCC
1 ACACAGCC
77398750 GTCTGTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.44, G:0.19, T:0.06
Consensus pattern (12 bp):
ACACAGCCTAGC
Found at i:77404724 original size:21 final size:21
Alignment explanation
Indices: 77404680--77404722 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
77404670 ATTTTAATGA
77404680 TTGATGATAGATTATGAAAGT
1 TTGATGATAGATTATGAAAGT
77404701 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
77404721 TT
1 TT
77404723 TGTTTAGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.05
20 10 0.48
21 10 0.48
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:77411014 original size:19 final size:19
Alignment explanation
Indices: 77410971--77411028 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
77410961 ACTATTTTTA
77410971 AAAAATTTTGAAAA-TTATT
1 AAAAATTTT-AAAATTTATT
**
77410990 TTAAATTTTAAAATTTATT
1 AAAAATTTTAAAATTTATT
*
77411009 AAAAA-TATAAAATTT-TT
1 AAAAATTTTAAAATTTATT
77411026 AAA
1 AAA
77411029 TTTTCAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 5 0.15
18 13 0.39
19 15 0.45
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
AAAAATTTTAAAATTTATT
Found at i:77411042 original size:26 final size:26
Alignment explanation
Indices: 77410992--77411042 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
77410982 AAATTATTTT
*
77410992 AAATTTTAAAATTTATTAAAAATATA
1 AAATTTTAAAATTTATCAAAAATATA
*
77411018 AAATTTTTAAATTT-TCAAAAGATAT
1 AAATTTTAAAATTTATCAAAA-ATAT
77411043 GATAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (26 bp):
AAATTTTAAAATTTATCAAAAATATA
Found at i:77411310 original size:32 final size:32
Alignment explanation
Indices: 77411236--77411311 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
77411226 TAATATTTTT
* *
77411236 ATTTTGTGAAATGGTCCATTTGGGCGAAACAA
1 ATTTTATGAAATGGTCCATTTGGGAGAAACAA
77411268 ATTTTATGAAATGGTCCATTTGGGAGATAGA-AA
1 ATTTTATGAAATGGTCCATTTGGGAGA-A-ACAA
77411301 ATTTT-TGAAAT
1 ATTTTATGAAAT
77411312 CGTTCCTCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 31 0.77
33 8 0.20
34 1 0.03
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (32 bp):
ATTTTATGAAATGGTCCATTTGGGAGAAACAA
Found at i:77417874 original size:33 final size:33
Alignment explanation
Indices: 77417832--77417943 Score: 147
Period size: 33 Copynumber: 3.4 Consensus size: 33
77417822 CAGTTCTGTG
*
77417832 AAATGATAACAAATATTAGCTTTTCATTTTGTA
1 AAATGATAACAAATATCAGCTTTTCATTTTGTA
* * *
77417865 AAATTATAACAAAT-TACAAC-TTTAATTTTGTA
1 AAATGATAACAAATAT-CAGCTTTTCATTTTGTA
*
77417897 AAATGATAACAAATATCAGCTTTTCATTTTGTG
1 AAATGATAACAAATATCAGCTTTTCATTTTGTA
*
77417930 AAATTATAACAAAT
1 AAATGATAACAAAT
77417944 TAAAACTTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
32 28 0.42
33 39 0.58
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (33 bp):
AAATGATAACAAATATCAGCTTTTCATTTTGTA
Found at i:77417897 original size:32 final size:32
Alignment explanation
Indices: 77417857--77417973 Score: 137
Period size: 32 Copynumber: 3.6 Consensus size: 32
77417847 TTAGCTTTTC
*
77417857 ATTTTGTAAAATTATAACAAATTACAACTTTA
1 ATTTTGTAAAATGATAACAAATTACAACTTTA
* *
77417889 ATTTTGTAAAATGATAACAAA-TATCAGCTTTTC
1 ATTTTGTAAAATGATAACAAATTA-CAAC-TTTA
* * *
77417922 ATTTTGTGAAATTATAACAAATTAAAACTTTA
1 ATTTTGTAAAATGATAACAAATTACAACTTTA
* *
77417954 ATTTAGTTAAATGATAACAA
1 ATTTTGTAAAATGATAACAA
77417974 TATTCCACTA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
31 2 0.03
32 43 0.61
33 24 0.34
34 2 0.03
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (32 bp):
ATTTTGTAAAATGATAACAAATTACAACTTTA
Found at i:77417911 original size:65 final size:65
Alignment explanation
Indices: 77417832--77417977 Score: 240
Period size: 65 Copynumber: 2.3 Consensus size: 65
77417822 CAGTTCTGTG
* *
77417832 AAATGATAACAAATATTAGCTTTTCATTTTGTAAAATTATAACAAATTACAACTTTAATTTTGTA
1 AAATGATAACAAATATTAGCTTTTCATTTTGTAAAATTATAACAAATTAAAACTTTAATTTAGTA
* * *
77417897 AAATGATAACAAATATCAGCTTTTCATTTTGTGAAATTATAACAAATTAAAACTTTAATTTAGTT
1 AAATGATAACAAATATTAGCTTTTCATTTTGTAAAATTATAACAAATTAAAACTTTAATTTAGTA
77417962 AAATGATAAC-AATATT
1 AAATGATAACAAATATT
77417978 CCACTAAAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
64 5 0.07
65 70 0.93
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.40
Consensus pattern (65 bp):
AAATGATAACAAATATTAGCTTTTCATTTTGTAAAATTATAACAAATTAAAACTTTAATTTAGTA
Found at i:77432417 original size:17 final size:18
Alignment explanation
Indices: 77432384--77432417 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
77432374 TCTTTTGAAG
77432384 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
77432402 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
77432418 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:77451769 original size:19 final size:21
Alignment explanation
Indices: 77451745--77451787 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
77451735 TAGCTTCGAT
77451745 TTTTCA-CACATTTTTTAG-A
1 TTTTCATCACATTTTTTAGTA
*
77451764 TTTTCATGACATTTTTTAGTA
1 TTTTCATCACATTTTTTAGTA
77451785 TTT
1 TTT
77451788 ACGAGTTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 11 0.52
21 4 0.19
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.58
Consensus pattern (21 bp):
TTTTCATCACATTTTTTAGTA
Found at i:77453877 original size:6 final size:6
Alignment explanation
Indices: 77453868--77453895 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
77453858 TATCTATTCC
77453868 TATATT TATATT TATATT TATATT TATA
1 TATATT TATATT TATATT TATATT TATA
77453896 AAATTACGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TATATT
Found at i:77459850 original size:17 final size:17
Alignment explanation
Indices: 77459828--77459873 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
77459818 TTATGGAAAC
77459828 AAGAAAAAAGAAAAAAA
1 AAGAAAAAAGAAAAAAA
* *
77459845 AAGAAAAAAGGAAAGAA
1 AAGAAAAAAGAAAAAAA
*
77459862 AA-CAAAAAGAAA
1 AAGAAAAAAGAAA
77459874 CAATGGAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 8 0.32
17 17 0.68
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAGAAAAAAA
Found at i:77459852 original size:11 final size:11
Alignment explanation
Indices: 77459831--77459873 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
77459821 TGGAAACAAG
77459831 AAAAAAG-AAA
1 AAAAAAGAAAA
77459841 AAAAAAGAAAA
1 AAAAAAGAAAA
*
77459852 AAGGAAAGAAAA
1 AA-AAAAGAAAA
*
77459864 CAAAAAGAAA
1 AAAAAAGAAA
77459874 CAATGGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 7 0.25
11 12 0.43
12 9 0.32
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:77459872 original size:23 final size:23
Alignment explanation
Indices: 77459834--77459882 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
77459824 AAACAAGAAA
77459834 AAAGAAAAAAAAAGAAA-AAAGG
1 AAAGAAAAAAAAAGAAACAAAGG
*
77459856 AAAGAAAACAAAAAGAAACAATGG
1 AAAGAAAA-AAAAAGAAACAAAGG
77459880 AAA
1 AAA
77459883 TTAGTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 8 0.33
23 9 0.38
24 7 0.29
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.02
Consensus pattern (23 bp):
AAAGAAAAAAAAAGAAACAAAGG
Found at i:77459876 original size:10 final size:10
Alignment explanation
Indices: 77459831--77459873 Score: 59
Period size: 10 Copynumber: 4.0 Consensus size: 10
77459821 TGGAAACAAG
77459831 AAAAAAGAAA
1 AAAAAAGAAA
77459841 AAAAAAGAAA
1 AAAAAAGAAA
77459851 AAAGGAAAGAAA
1 AAA--AAAGAAA
77459863 ACAAAAAGAAA
1 A-AAAAAGAAA
77459874 CAATGGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 13 0.43
11 7 0.23
12 8 0.27
13 2 0.07
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:77466897 original size:284 final size:284
Alignment explanation
Indices: 77466385--77466959 Score: 1089
Period size: 284 Copynumber: 2.0 Consensus size: 284
77466375 CTAACTTCTC
*
77466385 AGAATTACAATTCAGTTTAACCTCGAATATTATTTATTATTTTTTTTCTAGTCACCTTTGAACTC
1 AGAATTACAATTCAGTTTAACCTCGAATATTATTTATTATTTTTTTTCCAGTCACCTTTGAACTC
77466450 TAGAATAAATGTTGGAACTTATTGTTAAAATTCTAAATTACCCTATTAGGAACACATATACTTAG
66 TAGAATAAATGTTGGAACTTATTGTTAAAATTCTAAATTACCCTATTAGGAACACATATACTTAG
77466515 CTGATCTATCAAATAAAAATTCTGTACCTATTGAAATGATCATACAGATCTTTCTTTGTCAAATG
131 CTGATCTATCAAATAAAAATTCTGTACCTATTGAAATGATCATACAGATCTTTCTTTGTCAAATG
*
77466580 ATTAACCATAAACTAAATAACATTTTTCTTTCTGATGTTAATGACAATCCCAATTCGAAATCTAT
196 ATTAACCATAAACAAAATAACATTTTTCTTTCTGATGTTAATGACAATCCCAATTCGAAATCTAT
77466645 AGCCATTTTATCTCATATCACACT
261 AGCCATTTTATCTCATATCACACT
* *
77466669 AGAATTACAATTCAGTTTAACCTCGGATATTATTTATTATTTTTTTTCCAGTCACCTTTGAACTT
1 AGAATTACAATTCAGTTTAACCTCGAATATTATTTATTATTTTTTTTCCAGTCACCTTTGAACTC
77466734 TAGAATAAATGTTGGAACTTATTGTTAAAATTCTAAATTACCCTATTAGGAACACATATACTTAG
66 TAGAATAAATGTTGGAACTTATTGTTAAAATTCTAAATTACCCTATTAGGAACACATATACTTAG
77466799 CTGATCTATCAAATAAAAATTCTGTACCTATTGAAATGATCATACAGATCTTTCTTTGTCAAATG
131 CTGATCTATCAAATAAAAATTCTGTACCTATTGAAATGATCATACAGATCTTTCTTTGTCAAATG
77466864 ATTAACCATAAACAAAATAAC-TTTTTCCTTTCTGATGTTAATGACAATCCCAATTCGAAATCTA
196 ATTAACCATAAACAAAATAACATTTTT-CTTTCTGATGTTAATGACAATCCCAATTCGAAATCTA
77466928 TAGCCATTTTATCTCATATCACACT
260 TAGCCATTTTATCTCATATCACACT
*
77466953 AGTATTA
1 AGAATTA
77466960 TCACTGACTG
Statistics
Matches: 285, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
283 5 0.02
284 280 0.98
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (284 bp):
AGAATTACAATTCAGTTTAACCTCGAATATTATTTATTATTTTTTTTCCAGTCACCTTTGAACTC
TAGAATAAATGTTGGAACTTATTGTTAAAATTCTAAATTACCCTATTAGGAACACATATACTTAG
CTGATCTATCAAATAAAAATTCTGTACCTATTGAAATGATCATACAGATCTTTCTTTGTCAAATG
ATTAACCATAAACAAAATAACATTTTTCTTTCTGATGTTAATGACAATCCCAATTCGAAATCTAT
AGCCATTTTATCTCATATCACACT
Found at i:77475212 original size:19 final size:19
Alignment explanation
Indices: 77475188--77475234 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
77475178 CGACACCTTT
*
77475188 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
77475207 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
77475226 TATGCATTA
1 TTTGCATTA
77475235 AAGTCCATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:77482458 original size:42 final size:41
Alignment explanation
Indices: 77482390--77482473 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 41
77482380 TCTCCAGAGG
* *
77482390 AGTATTAATTCTGGCTGAAATAGATGGGAAAAAACTTGCACA
1 AGTATTAATTCTGGCTAAAATAGATGGG-AAAAACCTGCACA
*
77482432 AGTATTAATTCTGGCTAAAATGGATGGGAAAAACCTGCACA
1 AGTATTAATTCTGGCTAAAATAGATGGGAAAAACCTGCACA
77482473 A
1 A
77482474 TCCTGTGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 13 0.33
42 26 0.67
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.25
Consensus pattern (41 bp):
AGTATTAATTCTGGCTAAAATAGATGGGAAAAACCTGCACA
Found at i:77483997 original size:44 final size:45
Alignment explanation
Indices: 77483949--77484051 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 45
77483939 TGCCACCATC
* * *
77483949 CTTATCTCTCTAAGGTAGCAA-GAGAGTAGGCTGAAGATTGTAG-T
1 CTTATCTCTCTAAGGTAGCAAGGA-AATAGACTGAAGATTGCAGAT
*
77483993 CTTATCT-TCCTAAGGTATCAAGGAAATAGACTGAAGATTGCAGAT
1 CTTATCTCT-CTAAGGTAGCAAGGAAATAGACTGAAGATTGCAGAT
* *
77484038 TTTATCTCCCTAAG
1 CTTATCTCTCTAAG
77484052 CAGTAGTGGA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.02
44 34 0.69
45 14 0.29
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (45 bp):
CTTATCTCTCTAAGGTAGCAAGGAAATAGACTGAAGATTGCAGAT
Found at i:77484177 original size:177 final size:176
Alignment explanation
Indices: 77483847--77484667 Score: 1105
Period size: 177 Copynumber: 4.6 Consensus size: 176
77483837 GCAACATTGG
* * * **
77483847 TGAAG-TTGCAGATCTTATCT-CC-AAGAAGTAGCAATGGAGCAGATCAAAAATGGTGAATCTTA
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAG---TGGAGCAGATCGAAAATGGCAAATCTTA
* * * *
77483909 TCTTCCCGAGGTAGTAGGGGAGCAGATTTTTGCCACCATCCTTATCTCTCTAAGGTAGCAAGAGA
63 TCTT-CCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGA
* * * *
77483974 GTAGGCTGAAGATTGTAGTCTTATCTTCCTAAGGTATCAAGGAAATAGAC
127 GTAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGAC
* * * * * *
77484024 TGAAGATTGCAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGACGAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAAATCTTATCT
* * *
77484089 TCACAAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTTTCTCTCTGAGGTAGCAA-AGGAAT
66 TC-CGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGA-GAGT
*
77484153 AGGTTGAAGATTGTAGTCTTATCTTCCTGAGGCAGCAAGGAAGTAGAC
129 AGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGAC
* * *
77484201 TGAAGATTGTAGATCTTATCTCCTTAAGCAATAGTGGAGCAGATTGAAAATGGCAAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAAATCTTATCT
* *
77484266 TCCGGAGGGAGCAAGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTA
66 TCC-GAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTA
* *
77484331 GGTTGAAGATTATAGTCTTATCTTTCTGAGGTAGCAAGGAAGTAGAC
130 GGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGAC
* * * *
77484378 TAGAA-ACTGTAGATCTTATCTCCCTAAACACTAGTGGAGTAGATCGAAAATGGCAAATCTTATC
1 T-GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAAATCTTATC
* * * *
77484442 TTCCCGAGGTAGCAAGGGAGCAGATTTTAGCCACCAGCCTTATGTCTCTGAAGTAGCAAGAGAGC
65 TT-CCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGT
*
77484507 AGGTTGGAA-ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAAAC
129 AGGTT-GAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGAC
* *
77484555 TAAAGATTGTAGATCTTATCTCCCTAGGCAGTAGTGGAGCAGATCGAAAATGGCAAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAAATCTTATCT
* * *
77484620 TCCAGAGGTAGCAGGGGAGCAGATTTTAGCTACCGGCCTTATTTCTCT
66 TCC-GAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCT
77484668 AAGTAGTGTA
Statistics
Matches: 575, Mismatches: 57, Indels: 24
0.88 0.09 0.04
Matches are distributed among these distances:
176 7 0.01
177 535 0.93
178 23 0.04
179 2 0.00
180 8 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (176 bp):
TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAAATCTTATCT
TCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAG
GTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGAC
Found at i:77484183 original size:44 final size:45
Alignment explanation
Indices: 77484135--77484221 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 45
77484125 CCTTTTCTCT
* **
77484135 CTGAGGTAGCAAAGGAA-TAGGTTGAAGATTGTAG-TCTTATCTTC
1 CTGAGGCAGC-AAGGAAGTAGACTGAAGATTGTAGATCTTATCTTC
77484179 CTGAGGCAGCAAGGAAGTAGACTGAAGATTGTAGATCTTATCT
1 CTGAGGCAGCAAGGAAGTAGACTGAAGATTGTAGATCTTATCT
77484222 CCTTAAGCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 6 0.16
44 24 0.63
45 8 0.21
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.29
Consensus pattern (45 bp):
CTGAGGCAGCAAGGAAGTAGACTGAAGATTGTAGATCTTATCTTC
Found at i:77484744 original size:85 final size:85
Alignment explanation
Indices: 77484409--77484744 Score: 244
Period size: 85 Copynumber: 3.9 Consensus size: 85
77484399 CCCTAAACAC
* * * **
77484409 TAGTGGAGTAGATCGAAAATGGCAAATCTTATCTTCCCGAGGTAGCAAGGGAGCAGATTTTAGCC
1 TAGTGGAGCAGATCGAAAATGGCAAATCTTATCTTCCAGAGGTAGCAGGGGAGCAGATTGAAGCC
*
77484474 ACCAGCCTTATGTCTCTGAAG
66 ACCAGCCTTATTTCTCT-AAG
* * * * * * * * * * * * * *
77484495 TAGCAAGAGAGCAGGTTGGAAATTG-TAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAAACTAAA
1 TAG--TG-GAGCAGATCGAAAATGGCAAATCTTATCTTCCAGAGGTAGCAGGGGAGCAGATTGAA
***** * * *
77484559 GATTGTAGATCTTATCTCCCTAGGCAG
63 GCCACCAG-CCTTATTTCTCTA---AG
** *
77484586 TAGTGGAGCAGATCGAAAATGGCAAATCTTATCTTCCAGAGGTAGCAGGGGAGCAGATTTTAGCT
1 TAGTGGAGCAGATCGAAAATGGCAAATCTTATCTTCCAGAGGTAGCAGGGGAGCAGATTGAAGCC
*
77484651 ACCGGCCTTATTTCTCTAAG
66 ACCAGCCTTATTTCTCTAAG
* * * *
77484671 TAGTGTAGCAGATCGAACATGGCGAATCTTATCTTCCCA-AGGTAGTAGGGGAGCAGATTGAAGC
1 TAGTGGAGCAGATCGAAAATGGCAAATCTTATCTT-CCAGAGGTAGCAGGGGAGCAGATTGAAGC
*
77484735 CACTAGCCTT
65 CACCAGCCTT
77484745 GTTGAAATCA
Statistics
Matches: 186, Mismatches: 55, Indels: 19
0.72 0.21 0.07
Matches are distributed among these distances:
85 63 0.34
86 6 0.03
88 58 0.31
89 54 0.29
91 5 0.03
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (85 bp):
TAGTGGAGCAGATCGAAAATGGCAAATCTTATCTTCCAGAGGTAGCAGGGGAGCAGATTGAAGCC
ACCAGCCTTATTTCTCTAAG
Found at i:77485019 original size:14 final size:14
Alignment explanation
Indices: 77484997--77485035 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
77484987 ATTATCCAAA
77484997 AATAAATAAATAAAT
1 AATAAATAAA-AAAT
*
77485012 TA-AAATAAAAAAT
1 AATAAATAAAAAAT
77485025 AATAAATAAAA
1 AATAAATAAAA
77485036 GTACATTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 5 0.24
14 15 0.71
15 1 0.05
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAAATAAAAAAT
Found at i:77489120 original size:21 final size:21
Alignment explanation
Indices: 77489079--77489120 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
77489069 AAGAAAGGAA
**
77489079 ATAATAAAAGAAATACTAAGG
1 ATAATAAAAGAAATAAAAAGG
77489100 ATAATAAAAGGAAA-AAAAAGG
1 ATAATAAAA-GAAATAAAAAGG
77489121 GTTATTACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.67, C:0.02, G:0.17, T:0.14
Consensus pattern (21 bp):
ATAATAAAAGAAATAAAAAGG
Found at i:77490657 original size:56 final size:56
Alignment explanation
Indices: 77490566--77490688 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
77490556 GAGATTGGCG
* * *
77490566 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
77490623 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
77490678 CTGAGTGTGCG
1 CTAAGTGTGCG
77490689 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:77490675 original size:27 final size:28
Alignment explanation
Indices: 77490566--77490688 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
77490556 GAGATTGGCG
* * * *
77490566 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
77490595 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
77490623 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
77490651 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
77490678 CTGAGTGTGCG
1 CTAAGTGTGCG
77490689 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:77490699 original size:27 final size:27
Alignment explanation
Indices: 77490591--77490701 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
77490581 TAAATTGTAC
* * *
77490591 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
77490619 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
77490647 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
77490674 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
77490701 A
1 A
77490702 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:77493063 original size:49 final size:49
Alignment explanation
Indices: 77492991--77493164 Score: 231
Period size: 49 Copynumber: 3.5 Consensus size: 49
77492981 TGAGGTCACG
* * *
77492991 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGATAATTGGCCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCGCA
** ***
77493040 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT-GGTCGCA
* * *
77493090 TGTGTAGTACTAAGTGCAGGTTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCGCA
*
77493139 TGTGTAGTACTCAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
77493165 TGCGTACCAG
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 66 0.62
50 40 0.38
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCGCA
Found at i:77493155 original size:99 final size:99
Alignment explanation
Indices: 77492983--77493164 Score: 292
Period size: 99 Copynumber: 1.8 Consensus size: 99
77492973 ATCTATTGTG
* **
77492983 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGATAATTGGCCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCCGCATGTGTAGT
77493048 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
* * * *
77493082 AGGTCATGTGTGTAGTACTAAGTGCAGGTTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCCGCATGTGTAGT
*
77493147 ACTCAGTGCAGGCTACTA
66 ACTAAGTGCAGGCTACTA
77493165 TGCGTACCAG
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 75 1.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.31
Consensus pattern (99 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCCGCATGTGTAGT
ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
Found at i:77497528 original size:18 final size:17
Alignment explanation
Indices: 77497483--77497531 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
77497473 GCTCAGGCAA
77497483 ATGGGCCGTGTGGGCCAC
1 ATGGG-CGTGTGGGCCAC
* *
77497501 ACGGGTGTGTGGGCCCAC
1 ATGGGCGTGTGGG-CCAC
77497519 ATGGGCGTGTGGG
1 ATGGGCGTGTGGG
77497532 AATTTGGGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.10, C:0.22, G:0.49, T:0.18
Consensus pattern (17 bp):
ATGGGCGTGTGGGCCAC
Found at i:77497985 original size:40 final size:40
Alignment explanation
Indices: 77497930--77498006 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
77497920 ACAGTAGCTT
* *
77497930 TTGGTGTGTCGGGTTGGATGGGTTGATTA-TATCCCCATAC
1 TTGGTGTGTAGGGTTGGATGGGTCGA-TACTATCCCCATAC
*
77497970 TTGGTGTGTAGGGTTGGGTGGGTCGATACTATCCCCA
1 TTGGTGTGTAGGGTTGGATGGGTCGATACTATCCCCA
77498007 CATAGTTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 2 0.06
40 31 0.94
ACGTcount: A:0.14, C:0.16, G:0.35, T:0.35
Consensus pattern (40 bp):
TTGGTGTGTAGGGTTGGATGGGTCGATACTATCCCCATAC
Found at i:77507355 original size:49 final size:49
Alignment explanation
Indices: 77507233--77507365 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 49
77507223 GCACATCAAA
* *
77507233 GTCGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAG
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG
* * * * * * *
77507282 GCCTATGTCGTGTCCCAAACAGGTCTTACACTGGCTCTCATCTATCG-G
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG
* *
77507330 TGTCGATGCCATGCCCCAGATAGGTCTTACACTGAC
1 -GTCGATGCCATGTCCCAGACAGGTCTTACACTGAC
77507366 ACACAACAAG
Statistics
Matches: 66, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
48 1 0.02
49 65 0.98
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG
Found at i:77507467 original size:46 final size:47
Alignment explanation
Indices: 77507393--77507522 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
77507383 TTTATATTTT
* * **
77507393 AAGGCCAATGCATGTCCCAGACATGTCTTACACTAGC-TCTCGTCTC
1 AAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATAATCTC
* * *
77507439 AATGCCGATGCATGTCCCTGACATGTCTTACACTGGCTTATAATCTC
1 AAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATAATCTC
* *
77507486 GAGGCCGATGTATGTCCCAGACATGTCTTACACTAGC
1 AAGGCCGATGCATGTCCCAGACATGTCTTACACTAGC
77507523 ACACATATCA
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
46 33 0.46
47 38 0.54
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
AAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATAATCTC
Found at i:77508862 original size:12 final size:12
Alignment explanation
Indices: 77508845--77508874 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
77508835 CAGGCTGTTA
77508845 CACACGGCCTGT
1 CACACGGCCTGT
77508857 CACACGGCCTGT
1 CACACGGCCTGT
77508869 CACACG
1 CACACG
77508875 CCCGTGTAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.20, C:0.43, G:0.23, T:0.13
Consensus pattern (12 bp):
CACACGGCCTGT
Found at i:77513134 original size:48 final size:50
Alignment explanation
Indices: 77513021--77513151 Score: 142
Period size: 48 Copynumber: 2.7 Consensus size: 50
77513011 GAAATCTCAT
* * * * *
77513021 GTAAGACCATGTTTGGGACATGGCATTGACATTGACATAAGAAATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCATCGACATAAGAAATCCAAA
* * *
77513071 GTAAGACCATGTCTGGGACATGGCATTGGCATCGA-GT-TGTAATCCAAA
1 GTAAGACCATGTCTGGGACATGGCATTGGCATCGACATAAGAAATCCAAA
* *
77513119 GTAAGACCATATCTGGGATATGG-AGTTGGCATC
1 GTAAGACCATGTCTGGGACATGGCA-TTGGCATC
77513152 TTACGAGGTG
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 1 0.01
48 36 0.51
49 1 0.01
50 32 0.46
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCATCGACATAAGAAATCCAAA
Found at i:77517501 original size:44 final size:44
Alignment explanation
Indices: 77517431--77517521 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
77517421 AACTCTGTTT
* * * *
77517431 TTAGTTTTCTACTTAAACTTTGATTAGTGTAGGTTACTTTAATA
1 TTAGTTTCCTACTTAAACTCTAATTAGTGTAAGTTACTTTAATA
* *
77517475 TTAGTTTCCTATTTAAACTCTAATTAGTGTAAGTTATTTTAATA
1 TTAGTTTCCTACTTAAACTCTAATTAGTGTAAGTTACTTTAATA
77517519 TTA
1 TTA
77517522 TTTGACCCAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.51
Consensus pattern (44 bp):
TTAGTTTCCTACTTAAACTCTAATTAGTGTAAGTTACTTTAATA
Found at i:77519618 original size:47 final size:46
Alignment explanation
Indices: 77519559--77519680 Score: 149
Period size: 47 Copynumber: 2.6 Consensus size: 46
77519549 TGTGCTAGTT
*
77519559 TAAGACATGCCTGGGACATGCATCGGCCACAT-CATGAGAGCCAGTG
1 TAAGACATGCCTGGGACATGCATCGGCCA-ATACACGAGAGCCAGTG
* * * *
77519605 TAAGACCATGCCTGGGACATGGTATCGG-CATTGAGACGAGAGCTAGTG
1 TAAGA-CATGCCTGGGACAT-GCATCGGCCAAT-ACACGAGAGCCAGTG
77519653 TAAGACATGCCTGGGACATGCATCGGCC
1 TAAGACATGCCTGGGACATGCATCGGCC
77519681 TCGCGATGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
46 12 0.18
47 31 0.48
48 22 0.34
ACGTcount: A:0.27, C:0.24, G:0.30, T:0.19
Consensus pattern (46 bp):
TAAGACATGCCTGGGACATGCATCGGCCAATACACGAGAGCCAGTG
Found at i:77519697 original size:46 final size:46
Alignment explanation
Indices: 77519552--77519722 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
77519542 TTATTTGTGT
* * *
77519552 GCTAGTTTAAGACATGCCTGGGACATGCATCGGCCACATC-ATGAGA
1 GCTAGTGTAAGACATGCCTGGGACATGCATCGGCCTC-GCGATGAGA
* * * * * *
77519598 GCCAGTGTAAGACCATGCCTGGGACATGGTATCGGCATTGAGACGAGA
1 GCTAGTGTAAGA-CATGCCTGGGACAT-GCATCGGCCTCGCGATGAGA
77519646 GCTAGTGTAAGACATGCCTGGGACATGCATCGGCCTCGCGATGCA-A
1 GCTAGTGTAAGACATGCCTGGGACATGCATCGGCCTCGCGATG-AGA
** *
77519692 GCTAGTGTAAGACATGTTTGAGACATGCATC
1 GCTAGTGTAAGACATGCCTGGGACATGCATC
77519723 AGCTATGAAA
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 51 0.50
47 29 0.28
48 23 0.22
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGCCTGGGACATGCATCGGCCTCGCGATGAGA
Found at i:77519794 original size:48 final size:50
Alignment explanation
Indices: 77519734--77519869 Score: 143
Period size: 48 Copynumber: 2.8 Consensus size: 50
77519724 GCTATGAAAT
* * *
77519734 GTGTCAGAGTAAGACCATGTCTGGGACATGACATCTGCATGTATA-GAG-
1 GTGTCAGTGTAAGACCATGTCTGGGACATGACATCGGCATGAATATGAGA
* * * *
77519782 GTGTCAGTGTAAGACCATATTTGGGACATGGCATCGGCATGAATATGTGA
1 GTGTCAGTGTAAGACCATGTCTGGGACATGACATCGGCATGAATATGAGA
* * * *
77519832 GAG-CTAGTGTAAGACCATGTCTAGGATATGACGTCGGC
1 GTGTC-AGTGTAAGACCATGTCTGGGACATGACATCGGC
77519870 CTCGATTTCG
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
48 39 0.55
49 3 0.04
50 29 0.41
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (50 bp):
GTGTCAGTGTAAGACCATGTCTGGGACATGACATCGGCATGAATATGAGA
Found at i:77523351 original size:26 final size:26
Alignment explanation
Indices: 77523305--77523357 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
77523295 TCAAACATGC
*
77523305 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
77523331 ATTTTGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
77523357 A
1 A
77523358 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:77524892 original size:26 final size:26
Alignment explanation
Indices: 77524843--77524925 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
77524833 CATGAAATTC
77524843 TTATCATGAAACA-TTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
77524868 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
77524894 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
77524920 TTATCA
1 TTATCA
77524926 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
25 13 0.24
26 42 0.76
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:77530539 original size:48 final size:48
Alignment explanation
Indices: 77530442--77530858 Score: 228
Period size: 46 Copynumber: 8.8 Consensus size: 48
77530432 TTTTTTGTGT
* * * *
77530442 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCA--CACTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGA-GACGAGA
*
77530488 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGA
* * * *
77530536 GCTAGTGTAAGA-CATTTCTGGGACAT-GCATCGGCCTCGCGACGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG-AGA
* * * * * *
77530582 GCTAGTATAAGA-CATGTCTGAGATAT-GCATCGGC--T-ACAAGATGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA-GA
* * *
77530626 G-TCAGTGTAAGACCATGTCTAGGACATGGCATCGGTACGTAT-AGA-G-GT
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGG--CAT-TGAGACGAGA
* * ** * *
77530674 G-TCAGTATAAGACCATGTCTGGGACATTGCATCGGCACGGATATGTGAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA--CGAGA
* * * ** ** *
77530724 GCTAGTGTAAGACCATGTCTAGGACATGGCGTCGGCCTCAATTTCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GACGAGA
* * * *
77530773 -TTCAGTGTAAGACCATGTCTGGGACATGGCATTGAC-TTCATG--GATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GACGA-GA
77530820 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
77530859 ATACCCTATG
Statistics
Matches: 290, Mismatches: 55, Indels: 50
0.73 0.14 0.13
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 9 0.03
45 11 0.04
46 68 0.23
47 61 0.21
48 65 0.22
49 34 0.12
50 33 0.11
51 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGA
Found at i:77530743 original size:98 final size:95
Alignment explanation
Indices: 77530442--77530855 Score: 269
Period size: 94 Copynumber: 4.4 Consensus size: 95
77530432 TTTTTTGTGT
* *
77530442 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-CACACTAT-GAGA-GCTAGTGTAAGACC
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTCA-A-TATAGAGATTC-AGTATAAGACC
* *
77530502 ATGTCTGGGACATGGCATCGACAT--TGAGACGAGA
63 ATGTCTGGGACATGGCATGGACATCATG-GA--TGA
* * * ** *
77530536 GCTAGTGTAAGA-CATTTCTGGGACAT-GCATCGGCCTCGCGACGTA-AG-CT-AGTATAAGA-C
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGG-CT--CAATATAGAGATTCAGTATAAGACC
* * * *
77530595 ATGTCTGAGATAT-GCATCGG-C-TACA-AGATGT
63 ATGTCTGGGACATGGCAT-GGACAT-CATGGATGA
* *
77530626 G-TCAGTGTAAGACCATGTCTAGGACATGGCATCGG-T-ACGTATAGAGGTGTCAGTATAAGACC
1 GCT-AGTGTAAGACCATGTCTAGGACATGGCATCGGCTCA-ATATAGAGAT-TCAGTATAAGACC
*
77530688 ATGTCTGGGACATTGCATCGGCACGGAT-ATGTGA-GA
63 ATGTCTGGGACATGGCAT-GG-AC--ATCATG-GATGA
* * * * *
77530724 GCTAGTGTAAGACCATGTCTAGGACATGGCGTCGGCCTCAATTTCGATATTCAGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGG-CTCAATATAGAGATTCAGTATAAGACCAT
* *
77530789 GTCTGGGACATGGCATTGACTTCATGGATGA
65 GTCTGGGACATGGCATGGACATCATGGATGA
*
77530820 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC
77530856 ATTATACCCT
Statistics
Matches: 251, Mismatches: 36, Indels: 65
0.71 0.10 0.18
Matches are distributed among these distances:
88 2 0.01
89 3 0.01
90 12 0.05
91 14 0.06
92 23 0.09
93 25 0.10
94 46 0.18
95 5 0.02
96 42 0.17
97 4 0.02
98 35 0.14
99 33 0.13
100 6 0.02
101 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (95 bp):
GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTCAATATAGAGATTCAGTATAAGACCATG
TCTGGGACATGGCATGGACATCATGGATGA
Found at i:77534283 original size:15 final size:15
Alignment explanation
Indices: 77534247--77534285 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
77534237 CATATTATAC
*
77534247 TTTACTAGTGCATTA
1 TTTACTGGTGCATTA
77534262 TTTACTGGTGCATTA
1 TTTACTGGTGCATTA
77534277 TTTACTGGT
1 TTTACTGGT
77534286 TAATTTACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.49
Consensus pattern (15 bp):
TTTACTGGTGCATTA
Found at i:77534763 original size:22 final size:22
Alignment explanation
Indices: 77534732--77534785 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
77534722 GCCGTGTGGC
*
77534732 TCACACGGCCAAGTGACATAGG
1 TCACACGGCCAAGTGACACAGG
*
77534754 TCACATGGCCAAGTGACACAGG
1 TCACACGGCCAAGTGACACAGG
77534776 TCACACGGCC
1 TCACACGGCC
77534786 GTGTCCTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.30, C:0.31, G:0.26, T:0.13
Consensus pattern (22 bp):
TCACACGGCCAAGTGACACAGG
Found at i:77535445 original size:43 final size:42
Alignment explanation
Indices: 77535397--77535481 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 42
77535387 TTTGGCCGAA
*
77535397 TCTTATTTCTTCTCTTCCCCTTCTCTTTTCGTGTTCTTATCG
1 TCTTATTACTTCTCTTCCCCTTCTCTTTTCGTGTTCTTATCG
*
77535439 NTCTTATTACTTCTCTTTCCCTTCTCTTTTCGTGTTCTTATCG
1 -TCTTATTACTTCTCTTCCCCTTCTCTTTTCGTGTTCTTATCG
77535482 GTTCATCTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.06, C:0.29, G:0.07, T:0.56
Consensus pattern (42 bp):
TCTTATTACTTCTCTTCCCCTTCTCTTTTCGTGTTCTTATCG
Found at i:77536675 original size:20 final size:20
Alignment explanation
Indices: 77536649--77536701 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
77536639 CAGTATTTGA
*
77536649 CACAAAGCCATGAGTAGCAG
1 CACAAAGCCATCAGTAGCAG
* **
77536669 TACAAAGCCATCAGTAGTGG
1 CACAAAGCCATCAGTAGCAG
77536689 CACAAAGCCATCA
1 CACAAAGCCATCA
77536702 ATAATGGTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.26, G:0.21, T:0.13
Consensus pattern (20 bp):
CACAAAGCCATCAGTAGCAG
Found at i:77536715 original size:21 final size:20
Alignment explanation
Indices: 77536670--77536718 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
77536660 GAGTAGCAGT
* *
77536670 ACAAAGCCATCAGTAGTGGC
1 ACAAAGCCATCAATAATGGC
77536690 ACAAAGCCATCAATAATGGTC
1 ACAAAGCCATCAATAATGG-C
77536711 ACAAAGCC
1 ACAAAGCC
77536719 TTCAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.41, C:0.27, G:0.18, T:0.14
Consensus pattern (20 bp):
ACAAAGCCATCAATAATGGC
Found at i:77536959 original size:26 final size:28
Alignment explanation
Indices: 77536915--77536968 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
77536905 ATCGTAGTAC
77536915 AAATCAGTCATTTACCCTT-GAGGGGTA
1 AAATCAGTCATTTACCCTTAGAGGGGTA
*
77536942 AAAT-AGTCATTTTA-CCTTATAGGGGTA
1 AAATCAGTCA-TTTACCCTTAGAGGGGTA
77536969 TTTTGGTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.33
Consensus pattern (28 bp):
AAATCAGTCATTTACCCTTAGAGGGGTA
Found at i:77544952 original size:22 final size:22
Alignment explanation
Indices: 77544924--77545044 Score: 59
Period size: 22 Copynumber: 5.2 Consensus size: 22
77544914 TTCCACATCC
77544924 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
77544946 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
77544970 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
77544993 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
77545017 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
77545040 ATCAC
1 ATCAC
77545045 GCATATATAT
Statistics
Matches: 69, Mismatches: 18, Indels: 24
0.62 0.16 0.22
Matches are distributed among these distances:
22 25 0.36
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:77545069 original size:49 final size:47
Alignment explanation
Indices: 77544896--77545105 Score: 305
Period size: 47 Copynumber: 4.4 Consensus size: 47
77544886 CCCTTCGGGA
* * *
77544896 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
77544943 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
77544990 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
77545037 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
77545086 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
77545106 GTACATCAAT
Statistics
Matches: 149, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
46 1 0.01
47 106 0.71
49 41 0.28
50 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:77545097 original size:96 final size:94
Alignment explanation
Indices: 77544917--77545099 Score: 303
Period size: 96 Copynumber: 1.9 Consensus size: 94
77544907 TATACACTTC
77544917 CACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGC
1 CACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGC
* * *
77544982 CATTCGGCCTTATCTCATATATGCATGTT
66 CACTCGGCCCTATCACATATATGCATGTT
* *
77545011 CACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATACTTTCACATTCATCACATTG
1 CACATCCATCACATTGGCCATTCGGCCTTATCA--CATATATACACTTTCACATTCATCACATTG
77545076 GCCACTCGGCCCTATCACATATAT
64 GCCACTCGGCCCTATCACATATAT
77545100 ATACTTGTAC
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 32 0.39
96 50 0.61
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (94 bp):
CACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGC
CACTCGGCCCTATCACATATATGCATGTT
Found at i:77548335 original size:48 final size:48
Alignment explanation
Indices: 77548260--77548597 Score: 525
Period size: 48 Copynumber: 7.0 Consensus size: 48
77548250 CAAGACAAAT
* *
77548260 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
77548308 ATATATATATGTGGTAAAGCCGTATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
77548356 ATATATATATGTGGTAAAGCC-ATATGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGA-ATGGCTAGTGTGAAATATGTATGAG
* * *
77548404 ATATGTATATGTGGTAAAGTCGATTGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
77548452 ATATGTATATGTGGTAAAGTCGTATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
77548500 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
77548548 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
77548596 AT
1 AT
77548598 GTGTGTATAT
Statistics
Matches: 271, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
48 270 1.00
49 1 0.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:77548788 original size:37 final size:37
Alignment explanation
Indices: 77548738--77548840 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
77548728 GGAAATATAT
77548738 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
77548775 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
77548812 TCCGGGTAAGACCCGATAACTACGAGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
77548841 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:77553709 original size:14 final size:14
Alignment explanation
Indices: 77553690--77553738 Score: 89
Period size: 14 Copynumber: 3.5 Consensus size: 14
77553680 TGAAATTATC
*
77553690 TTTACCCATGATGT
1 TTTACCCATGGTGT
77553704 TTTACCCATGGTGT
1 TTTACCCATGGTGT
77553718 TTTACCCATGGTGT
1 TTTACCCATGGTGT
77553732 TTTACCC
1 TTTACCC
77553739 TTTTCTGAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.43
Consensus pattern (14 bp):
TTTACCCATGGTGT
Found at i:77554082 original size:27 final size:27
Alignment explanation
Indices: 77554035--77554088 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
77554025 TAAAAGAGAA
* * *
77554035 TTGTAATTCCAATAGAGTGTAATTACT
1 TTGTAATTACAAGAGAATGTAATTACT
77554062 TTGTAATTACAAGAGAATGTAATTACT
1 TTGTAATTACAAGAGAATGTAATTACT
77554089 ATCCCAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (27 bp):
TTGTAATTACAAGAGAATGTAATTACT
Found at i:77554902 original size:58 final size:58
Alignment explanation
Indices: 77554837--77554954 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
77554827 AAAAATAATA
77554837 AAATAATTTGAATTTAGATAGTAAAGTTTATATATTTGTGTCCCACAGCACAACAATG
1 AAATAATTTGAATTTAGATAGTAAAGTTTATATATTTGTGTCCCACAGCACAACAATG
77554895 AAATAATTTGAATTTAGATAGTAAAGTTTATATATTTGTGTCCCACAGCACAACAATG
1 AAATAATTTGAATTTAGATAGTAAAGTTTATATATTTGTGTCCCACAGCACAACAATG
77554953 AA
1 AA
77554955 TTGCATCACT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (58 bp):
AAATAATTTGAATTTAGATAGTAAAGTTTATATATTTGTGTCCCACAGCACAACAATG
Found at i:77562130 original size:29 final size:28
Alignment explanation
Indices: 77562065--77562165 Score: 139
Period size: 29 Copynumber: 3.5 Consensus size: 28
77562055 TATAGTAAGT
* * * *
77562065 CCGCAGACTTAGTGTTATATAATCGAAC
1 CCGCACACTTAGTGCTATACAATTGAAC
*
77562093 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAA-TTGAAC
77562122 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAA-TTGAAC
77562151 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
77562166 CAATTTCATG
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 18 0.28
29 47 0.72
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATTGAAC
Found at i:77567381 original size:28 final size:28
Alignment explanation
Indices: 77567341--77567396 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
77567331 ATGACACTCG
77567341 TGTGTGTCTTAACCGTGTGGCACAATGC
1 TGTGTGTCTTAACCGTGTGGCACAATGC
77567369 TGTGTGTCTTAACCGTGTGGCACAATGC
1 TGTGTGTCTTAACCGTGTGGCACAATGC
77567397 AGGCTTGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (28 bp):
TGTGTGTCTTAACCGTGTGGCACAATGC
Found at i:77569683 original size:25 final size:25
Alignment explanation
Indices: 77569636--77569683 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
77569626 TTATAACATG
* * *
77569636 AAAATGACCGTTTTGCCCATAGGTA
1 AAAATGACCATTATACCCATAGGTA
*
77569661 AAAATGACCATTATACCCTTAGG
1 AAAATGACCATTATACCCATAGG
77569684 GTTTATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCATAGGTA
Found at i:77569767 original size:11 final size:11
Alignment explanation
Indices: 77569731--77569786 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
77569721 CATAGTATGT
77569731 ATGATATGCAC
1 ATGATATGCAC
* *
77569742 ATGACATG--T
1 ATGATATGCAC
77569751 ATGATATGCAC
1 ATGATATGCAC
*
77569762 ATGATATG--T
1 ATGATATGCAC
77569771 ATGATATGCAC
1 ATGATATGCAC
77569782 ATGAT
1 ATGAT
77569787 GTAATCATAA
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:77569786 original size:20 final size:20
Alignment explanation
Indices: 77569726--77569786 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
77569716 ATAAACATAG
77569726 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
*
77569746 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
77569766 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
77569786 T
1 T
77569787 GTAATCATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:77569892 original size:24 final size:24
Alignment explanation
Indices: 77569836--77569954 Score: 161
Period size: 24 Copynumber: 5.0 Consensus size: 24
77569826 GAGGAAGCGA
77569836 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
77569860 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
77569883 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
77569907 AAAAGGGTTTTTTCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
77569931 CAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
77569955 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
23 23 0.27
24 51 0.61
25 10 0.12
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:77570183 original size:31 final size:31
Alignment explanation
Indices: 77570148--77570211 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
77570138 CGTTTACAGT
77570148 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
77570179 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
77570210 AA
1 AA
77570212 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:77571150 original size:44 final size:43
Alignment explanation
Indices: 77571012--77571162 Score: 121
Period size: 44 Copynumber: 3.5 Consensus size: 43
77571002 CAATGTCGAC
* * * ** *
77571012 GTCCTAGACGTGGTCTTACATGTAATTCAGTATCGATGCCTCT
1 GTCCTAGACATGGTCTTACACGTAAATCAAAATCGATGCCTGT
* * *
77571055 GTCCCT-GACAAGGTCTTACAC-AAAATC-AGATACGATGCC-GAT
1 GT-CCTAGACATGGTCTTACACGTAAATCAAAAT-CGATGCCTG-T
* *
77571097 GTCCCAGACATGGTCTTACACGTAAATCTAAAATCGACGCCTGT
1 GTCCTAGACATGGTCTTACACGTAAATC-AAAATCGATGCCTGT
**
77571141 GTCCTAGACACAGTCTTACACG
1 GTCCTAGACATGGTCTTACACG
77571163 ATATCTCCGA
Statistics
Matches: 84, Mismatches: 16, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
41 4 0.05
42 28 0.33
43 19 0.23
44 29 0.35
45 4 0.05
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
GTCCTAGACATGGTCTTACACGTAAATCAAAATCGATGCCTGT
Found at i:77574104 original size:24 final size:25
Alignment explanation
Indices: 77574049--77574117 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 25
77574039 GAGTCATGAT
* * *
77574049 CGGTAAGCTCCTCCTGAGCTGATAAA
1 CGGTAAGCT-CTACTGAGCTCAAAAA
*
77574075 CAGTAAGCTCTACTGAGC-CAAAAA
1 CGGTAAGCTCTACTGAGCTCAAAAA
* *
77574099 CGGTAAACTCTATTGAGCT
1 CGGTAAGCTCTACTGAGCT
77574118 AAACAGTAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
24 19 0.54
25 8 0.23
26 8 0.23
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (25 bp):
CGGTAAGCTCTACTGAGCTCAAAAA
Found at i:77574126 original size:22 final size:22
Alignment explanation
Indices: 77574071--77574139 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
77574061 CCTGAGCTGA
* *
77574071 TAAACAGTAAGCTCTACTGAGCC
1 TAAACAGTAAACTCTATTGAG-C
* *
77574094 AAAAACGGTAAACTCTATTGAGC
1 -TAAACAGTAAACTCTATTGAGC
*
77574117 TAAACAGTAATCTCT-TTAGAGC
1 TAAACAGTAAACTCTATT-GAGC
77574139 T
1 T
77574140 GAATCGATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 2 0.05
22 17 0.46
23 1 0.03
24 17 0.46
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (22 bp):
TAAACAGTAAACTCTATTGAGC
Found at i:77576488 original size:27 final size:27
Alignment explanation
Indices: 77576457--77576509 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
77576447 ATTTAAAATA
77576457 ATTAATAAACATAATAACCCTAATATC
1 ATTAATAAACATAATAACCCTAATATC
* * *
77576484 ATTAATAAAGATAGTAATCCTAATAT
1 ATTAATAAACATAATAACCCTAATAT
77576510 GAACTTACCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (27 bp):
ATTAATAAACATAATAACCCTAATATC
Found at i:77581747 original size:16 final size:17
Alignment explanation
Indices: 77581726--77581759 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
77581716 ATCAAGGTAT
77581726 AGGATGG-TGAAATGAA
1 AGGATGGATGAAATGAA
*
77581742 AGGATGGATGGAATGAA
1 AGGATGGATGAAATGAA
77581759 A
1 A
77581760 TGAGATGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.38, T:0.18
Consensus pattern (17 bp):
AGGATGGATGAAATGAA
Found at i:77581919 original size:45 final size:45
Alignment explanation
Indices: 77581826--77581929 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
77581816 AAGCCTAAAC
* *
77581826 ATGAGTAAGACCATGGCTGAAAGACACCATGGCATCCCACTATCG
1 ATGAGTAAGACCATAGCTGAAAGACACCATGGCATCCCACTATAG
** * **
77581871 ATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCGTGA-TATAG
1 ATGAGTAAGACCATAGCTGAAAGACACCATGGCATC-CCACTATAG
*
77581916 ATGAGTAAGGCCAT
1 ATGAGTAAGACCAT
77581930 GATTGAAAGA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
45 49 0.98
46 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (45 bp):
ATGAGTAAGACCATAGCTGAAAGACACCATGGCATCCCACTATAG
Found at i:77586466 original size:129 final size:129
Alignment explanation
Indices: 77586275--77586561 Score: 547
Period size: 129 Copynumber: 2.2 Consensus size: 129
77586265 GGCATTGTAT
*
77586275 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGTGTAAGACCATG
1 TGTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGTGTAAGACCATG
77586340 TCTGAGACATTGGCATCATTAATCAATTACGTGTAAGACCCTATCTGGGACAGTGGCATCGATA
66 TCTGAGACATTGGCATCATTAATCAATTACGTGTAAGACCCTATCTGGGACAGTGGCATCGATA
77586404 TGTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGTGTAAGACCATG
1 TGTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGTGTAAGACCATG
*
77586469 TCTGAGACATTGGCATCGTTAATCAATTACGTGTAAGACCCTATCTGGGACAGTGGCATCGATA
66 TCTGAGACATTGGCATCATTAATCAATTACGTGTAAGACCCTATCTGGGACAGTGGCATCGATA
*
77586533 TGTGATAACATGTAAGACCATATCTGGGA
1 TGTGATAACATGTAAGACCATGTCTGGGA
77586562 TATGGCACTG
Statistics
Matches: 155, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 155 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (129 bp):
TGTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGTGTAAGACCATG
TCTGAGACATTGGCATCATTAATCAATTACGTGTAAGACCCTATCTGGGACAGTGGCATCGATA
Found at i:77586559 original size:43 final size:42
Alignment explanation
Indices: 77586231--77586561 Score: 324
Period size: 43 Copynumber: 7.7 Consensus size: 42
77586221 GGTTACTGAG
* *** *
77586231 ATGTGATTACATGTAAGAGCATGTCTCATACATTGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
*
77586273 ATTGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
* * *
77586316 ATTGTGATTACGTGTAAGACCATGTCTGAGACATTGGCATCATT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATC-GT
** * * * *
77586360 AAT-CAATTACGTGTAAGACCCTATCTGGGACAGTGGCATCGAT
1 -ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* *
77586403 ATGTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
* *
77586445 ATTGTGATTACGTGTAAGACCATGTCTGAGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
** * * * *
77586489 AAT-CAATTACGTGTAAGACCCTATCTGGGACAGTGGCATCGAT
1 -ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* *
77586532 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATGTCTGGGA
77586562 TATGGCACTG
Statistics
Matches: 241, Mismatches: 39, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
42 7 0.03
43 228 0.95
44 4 0.02
45 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:77590388 original size:26 final size:29
Alignment explanation
Indices: 77590335--77590390 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
77590325 ATGTTTCCAT
*
77590335 TGATGAATCTTGTGAATTTTGATGTTATA
1 TGATGAATCTTGTGAATGTTGATGTTATA
77590364 TGATGAAT-TTG-GAATGTTGAT-TTATA
1 TGATGAATCTTGTGAATGTTGATGTTATA
77590390 T
1 T
77590391 TTAAAAGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 6 0.23
27 9 0.35
28 3 0.12
29 8 0.31
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (29 bp):
TGATGAATCTTGTGAATGTTGATGTTATA
Found at i:77591055 original size:117 final size:117
Alignment explanation
Indices: 77590849--77591081 Score: 466
Period size: 117 Copynumber: 2.0 Consensus size: 117
77590839 GTTGATGAAT
77590849 ACAATTGTACGAAAGTATTCGATGAAAATTCGGCTATGTATGGATTTAGTGTGCAAGAATCGAGA
1 ACAATTGTACGAAAGTATTCGATGAAAATTCGGCTATGTATGGATTTAGTGTGCAAGAATCGAGA
77590914 TAGCTTCGGCTATGTATGGAACTTAGTGTGTGAGATCGAGATAGCTTCGGCC
66 TAGCTTCGGCTATGTATGGAACTTAGTGTGTGAGATCGAGATAGCTTCGGCC
77590966 ACAATTGTACGAAAGTATTCGATGAAAATTCGGCTATGTATGGATTTAGTGTGCAAGAATCGAGA
1 ACAATTGTACGAAAGTATTCGATGAAAATTCGGCTATGTATGGATTTAGTGTGCAAGAATCGAGA
77591031 TAGCTTCGGCTATGTATGGAACTTAGTGTGTGAGATCGAGATAGCTTCGGC
66 TAGCTTCGGCTATGTATGGAACTTAGTGTGTGAGATCGAGATAGCTTCGGC
77591082 TATGTATTGG
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 116 1.00
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.30
Consensus pattern (117 bp):
ACAATTGTACGAAAGTATTCGATGAAAATTCGGCTATGTATGGATTTAGTGTGCAAGAATCGAGA
TAGCTTCGGCTATGTATGGAACTTAGTGTGTGAGATCGAGATAGCTTCGGCC
Found at i:77591097 original size:42 final size:40
Alignment explanation
Indices: 77590877--77591108 Score: 208
Period size: 41 Copynumber: 5.8 Consensus size: 40
77590867 TCGATGAAAA
* *
77590877 TTCGGCTATGTATGGATTTAGTGTGCAAGAATCGAGATAGC
1 TTCGGCTATGTATGGACTTAGTGTGCGAG-ATCGAGATAGC
*
77590918 TTCGGCTATGTATGGAACTTAGTGTGTGAGATCGAGATAGC
1 TTCGGCTATGTATGG-ACTTAGTGTGCGAGATCGAGATAGC
* ** * ** * * *
77590959 TTCGGCCA-CAATTGTACGAAAGTATTC--GAT-GA-A-A-A
1 TTCGGCTATGTA-TGGAC-TTAGTGTGCGAGATCGAGATAGC
* *
77590994 TTCGGCTATGTATGGATTTAGTGTGCAAGAATCGAGATAGC
1 TTCGGCTATGTATGGACTTAGTGTGCGAG-ATCGAGATAGC
*
77591035 TTCGGCTATGTATGGAACTTAGTGTGTGAGATCGAGATAGC
1 TTCGGCTATGTATGG-ACTTAGTGTGCGAGATCGAGATAGC
77591076 TTCGGCTATGTATTGGCACTTAGTGTGCGAGAT
1 TTCGGCTATGTA-TGG-ACTTAGTGTGCGAGAT
77591109 TCCTAGTATC
Statistics
Matches: 150, Mismatches: 28, Indels: 25
0.74 0.14 0.12
Matches are distributed among these distances:
34 5 0.03
35 10 0.07
36 3 0.02
37 3 0.02
38 4 0.03
39 4 0.03
40 4 0.03
41 77 0.51
42 40 0.27
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.31
Consensus pattern (40 bp):
TTCGGCTATGTATGGACTTAGTGTGCGAGATCGAGATAGC
Found at i:77597436 original size:24 final size:24
Alignment explanation
Indices: 77597404--77597453 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
77597394 ATAAGCAAAG
77597404 TAAGCTTCACAAACTTTTCTCACA
1 TAAGCTTCACAAACTTTTCTCACA
*
77597428 TAAGCTTCACAACCTTTTCTCACA
1 TAAGCTTCACAAACTTTTCTCACA
77597452 TA
1 TA
77597454 CTTCTAAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (24 bp):
TAAGCTTCACAAACTTTTCTCACA
Found at i:77598707 original size:30 final size:29
Alignment explanation
Indices: 77598671--77598729 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
77598661 CAGGACACTC
*
77598671 GCTCTTCCGGAACCACCGATACTAGTGTA
1 GCTCTTCCGGAACCACCAATACTAGTGTA
* *
77598700 NGCTCTTCCGGAACTATCAATACTAGTGTA
1 -GCTCTTCCGGAACCACCAATACTAGTGTA
77598730 TTCTACCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.27
Consensus pattern (29 bp):
GCTCTTCCGGAACCACCAATACTAGTGTA
Found at i:77613196 original size:16 final size:16
Alignment explanation
Indices: 77613175--77613209 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
77613165 TAGTAATTTT
77613175 AATGTTAAAG-GACTAA
1 AATGTTAAAGTGA-TAA
77613191 AATGTTAAAGTGATAA
1 AATGTTAAAGTGATAA
77613207 AAT
1 AAT
77613210 TACAAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (16 bp):
AATGTTAAAGTGATAA
Found at i:77621877 original size:51 final size:49
Alignment explanation
Indices: 77621760--77621954 Score: 219
Period size: 49 Copynumber: 3.9 Consensus size: 49
77621750 TAGCCAAAGC
* * * **
77621760 TATCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTACACTTAGTACTACACACATGACCAAT
* * *
77621809 TATCCGGTACACGTAGTAGCCTACACTTAGTACTACACACATGATCGAATT
1 TATCTGGTACACATAGTAGCCTACACTTAGTACTACACACATGA-CCAA-T
* * ***
77621860 TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTACACTTAGTACTACACACATGACCAAT
* * * *
77621909 TATCTAGTACACGTAGTAGCCTGCATTTAGTACTACACACATGACC
1 TATCTGGTACACATAGTAGCCTACACTTAGTACTACACACATGACC
77621955 TCACAATAGA
Statistics
Matches: 120, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 75 0.62
50 6 0.05
51 39 0.32
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTACACTTAGTACTACACACATGACCAAT
Found at i:77621939 original size:100 final size:100
Alignment explanation
Indices: 77621760--77621952 Score: 314
Period size: 100 Copynumber: 1.9 Consensus size: 100
77621750 TAGCCAAAGC
* * * * *
77621760 TATCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
77621825 TAGCCTACACTTAGTACTACACACATGATCGAATT
66 TAGCCTACACTTAGTACTACACACATGATCGAATT
*
77621860 TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCTAGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
* *
77621925 TAGCCTGCATTTAGTACTACACACATGA
66 TAGCCTACACTTAGTACTACACACATGA
77621953 CCTCACAATA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
TAGCCTACACTTAGTACTACACACATGATCGAATT
Found at i:77640900 original size:23 final size:23
Alignment explanation
Indices: 77640874--77640918 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
77640864 ATAAAATATG
77640874 TTAATCTAAATCATATCTTTCAT
1 TTAATCTAAATCATATCTTTCAT
77640897 TTAATCTAAATCATATCTTTCA
1 TTAATCTAAATCATATCTTTCA
77640919 GTTTTCATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAATCTAAATCATATCTTTCAT
Found at i:77642700 original size:28 final size:28
Alignment explanation
Indices: 77642668--77642782 Score: 133
Period size: 29 Copynumber: 4.0 Consensus size: 28
77642658 TACTTGTATC
* *
77642668 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* *
77642696 TGGCCCATTAGGCCCACACCACCTGT-ATA
1 TGGCCCATTAGGCCCA-ATCACAT-TCATA
*
77642725 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
77642754 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
77642782 T
1 T
77642783 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
28 28 0.38
29 44 0.59
30 2 0.03
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:77646784 original size:27 final size:26
Alignment explanation
Indices: 77646726--77646838 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 26
77646716 AGGAAGCGTC
* *
77646726 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
77646754 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
77646781 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
77646809 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
77646835 CTGG
1 CTGG
77646839 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
26 7 0.09
27 39 0.50
28 32 0.41
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:77646811 original size:55 final size:54
Alignment explanation
Indices: 77646726--77646838 Score: 165
Period size: 55 Copynumber: 2.1 Consensus size: 54
77646716 AGGAAGCGTC
*
77646726 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * *
77646781 CTGGTGGCTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTCTGCCACATTATCTGTT
77646835 CTGG
1 CTGG
77646839 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 20 0.38
55 33 0.62
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:77654638 original size:27 final size:26
Alignment explanation
Indices: 77654581--77654692 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 26
77654571 GGAAGCGTCT
*
77654581 TGGTGGCTATGCCACAAATTATCTGATC
1 TGGTGGCTATGCCAC--ATTATCTGTTC
77654609 TGGTGGCTATGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAT-TATCTGTTC
*
77654636 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTATGCCAC-ATTATCTGT-TC
* * *
77654664 TGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTATGCCACATTATCTGTTC
77654690 TGG
1 TGG
77654693 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
26 7 0.09
27 38 0.49
28 32 0.42
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (26 bp):
TGGTGGCTATGCCACATTATCTGTTC
Found at i:77654665 original size:55 final size:54
Alignment explanation
Indices: 77654581--77654692 Score: 154
Period size: 55 Copynumber: 2.1 Consensus size: 54
77654571 GGAAGCGTCT
*
77654581 TGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTATGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAAATTATCTGATCTGGTGACTATGCCACAT-TATCTGTTC
* * * *
77654636 TGGTGGCTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTATGCCACATTATCTGTTC
77654690 TGG
1 TGG
77654693 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
54 20 0.39
55 31 0.61
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (54 bp):
TGGTGGCTATGCCACAAATTATCTGATCTGGTGACTATGCCACATTATCTGTTC
Found at i:77656831 original size:19 final size:18
Alignment explanation
Indices: 77656813--77656853 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
77656803 GAAAACGAAG
77656813 GAGAAGAAAAAAAAAGAA
1 GAGAAGAAAAAAAAAGAA
* *
77656831 GA-AGGAAAAAAGAAGAA
1 GAGAAGAAAAAAAAAGAA
77656848 GAGAAG
1 GAGAAG
77656854 TTCGACAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
GAGAAGAAAAAAAAAGAA
Found at i:77656841 original size:14 final size:14
Alignment explanation
Indices: 77656822--77656848 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77656812 GGAGAAGAAA
77656822 AAAAAAGAAGAAGG
1 AAAAAAGAAGAAGG
77656836 AAAAAAGAAGAAG
1 AAAAAAGAAGAAG
77656849 AGAAGTTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAGAAGG
Found at i:77661546 original size:40 final size:40
Alignment explanation
Indices: 77661463--77661538 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
77661453 TGTTCCCCCC
77661463 CCATTTCGCCGAAACTAGAAAGAAAAAACAAAAAAAAAGT
1 CCATTTCGCCGAAACTAGAAAGAAAAAACAAAAAAAAAGT
* *
77661503 CCATTTTGTCGAAACTAGAAAGAAAAAACAAAAAAA
1 CCATTTCGCCGAAACTAGAAAGAAAAAACAAAAAAA
77661539 GTGTCCATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.58, C:0.16, G:0.12, T:0.14
Consensus pattern (40 bp):
CCATTTCGCCGAAACTAGAAAGAAAAAACAAAAAAAAAGT
Found at i:77663075 original size:79 final size:81
Alignment explanation
Indices: 77662939--77663121 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
77662929 TTGAATGATG
* *
77662939 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
77663003 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
77663018 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
77663080 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
77663098 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
77663122 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:77663137 original size:40 final size:40
Alignment explanation
Indices: 77662940--77663123 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
77662930 TGAATGATGT
* * * *
77662940 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
77662980 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
77663020 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
77663058 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
77663099 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
77663124 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:77663145 original size:79 final size:79
Alignment explanation
Indices: 77662992--77663156 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
77662982 GGACTAAGAT
* **
77662992 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
77663057 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
77663071 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
77663134 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
77663150 CCGAAGG
1 CCGAAGG
77663157 TATGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:77664913 original size:22 final size:22
Alignment explanation
Indices: 77664879--77664920 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
77664869 TTACTCAATT
**
77664879 ATAAGTTTCATTAATATATTCA
1 ATAAGTTAAATTAATATATTCA
*
77664901 ATAAGTTAAATTAGTATATT
1 ATAAGTTAAATTAATATATT
77664921 TTATATTTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (22 bp):
ATAAGTTAAATTAATATATTCA
Found at i:77668105 original size:42 final size:42
Alignment explanation
Indices: 77668046--77668153 Score: 117
Period size: 42 Copynumber: 2.6 Consensus size: 42
77668036 AGTGCAGATA
* * ** * *
77668046 CCATGTCCCAAACATGGTCTTACACGGGACCTCACATCGATG
1 CCATGTCCTAGACATGGTCTTACACGAAACCTCACATCAACG
* * *
77668088 CCATGTCCTAGACATGGTCTTACATGAAATCTCATATCAACG
1 CCATGTCCTAGACATGGTCTTACACGAAACCTCACATCAACG
* *
77668130 CCATATCCTAGATATGGTCTTACA
1 CCATGTCCTAGACATGGTCTTACA
77668154 TTAATTCACA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (42 bp):
CCATGTCCTAGACATGGTCTTACACGAAACCTCACATCAACG
Found at i:77668108 original size:90 final size:90
Alignment explanation
Indices: 77667955--77668121 Score: 228
Period size: 90 Copynumber: 1.9 Consensus size: 90
77667945 GAATGCCAAA
* * * * * *
77667955 ACCATGTCCCAGACATGGTCTTACATGAGTCTACATATGGATGCCATATCCTAGATATGGTCTTA
1 ACCATGTCCCAAACATGGTCTTACACGAGCCTACACATCGATGCCATATCCTAGACATGGTCTTA
*
77668020 TACGAAATCTCACGTCAGTGCAGAT
66 CACGAAATCTCACGTCAGTGCAGAT
* *
77668045 ACCATGTCCCAAACATGGTCTTACACGGGACCT-CACATCGATGCCATGTCCTAGACATGGTCTT
1 ACCATGTCCCAAACATGGTCTTACACGAG-CCTACACATCGATGCCATATCCTAGACATGGTCTT
*
77668109 ACATGAAATCTCA
65 ACACGAAATCTCA
77668122 TATCAACGCC
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
90 64 0.97
91 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (90 bp):
ACCATGTCCCAAACATGGTCTTACACGAGCCTACACATCGATGCCATATCCTAGACATGGTCTTA
CACGAAATCTCACGTCAGTGCAGAT
Found at i:77668263 original size:48 final size:49
Alignment explanation
Indices: 77668174--77668303 Score: 147
Period size: 48 Copynumber: 2.7 Consensus size: 49
77668164 TACCGAGGCT
* * * * ***
77668174 GATGCCATATCCCAGATATGGTCTTATAGTGGC-ACACATATCAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTACACATATCAACACC
**
77668222 GATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TTATATCAACACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTACACATATCAACACC
* *
77668270 GATGCCATGTCCCAAACATGGTCTTACATTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
77668304 CTAATTAATC
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
48 69 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTACACATATCAACACC
Found at i:77675555 original size:9 final size:9
Alignment explanation
Indices: 77675541--77675569 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
77675531 AAAGCCAAGC
77675541 AAATCGACT
1 AAATCGACT
77675550 AAATCGACT
1 AAATCGACT
77675559 AAATCGACT
1 AAATCGACT
77675568 AA
1 AA
77675570 TCGCCATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.48, C:0.21, G:0.10, T:0.21
Consensus pattern (9 bp):
AAATCGACT
Found at i:77682071 original size:13 final size:13
Alignment explanation
Indices: 77682053--77682080 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
77682043 TATATATATA
77682053 AAAGAAACAAAAG
1 AAAGAAACAAAAG
77682066 AAAGAAACAAAAG
1 AAAGAAACAAAAG
77682079 AA
1 AA
77682081 TAAAAAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAACAAAAG
Found at i:77682887 original size:2 final size:2
Alignment explanation
Indices: 77682882--77682917 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
77682872 TATAAATATA
77682882 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
77682918 AATGAGATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:77683091 original size:15 final size:14
Alignment explanation
Indices: 77683073--77683114 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
77683063 TATCTGTTTT
77683073 ATTGAATTTATATTG
1 ATTGAA-TTATATTG
*
77683088 ATTGAAATTATTTTG
1 ATTG-AATTATATTG
77683103 ATTGAATTATAT
1 ATTGAATTATAT
77683115 AATATATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.29
15 15 0.62
16 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (14 bp):
ATTGAATTATATTG
Found at i:77683533 original size:21 final size:21
Alignment explanation
Indices: 77683498--77683593 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
77683488 AGGTACTTTA
77683498 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
77683521 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
77683542 TGTGTCGTATCAGGCATCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
77683563 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
77683584 TGTGTCGTAT
1 TGTGTCGTAT
77683594 ACTGATCAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
21 56 0.86
23 9 0.14
ACGTcount: A:0.14, C:0.22, G:0.27, T:0.38
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:77686888 original size:46 final size:46
Alignment explanation
Indices: 77686786--77686954 Score: 145
Period size: 41 Copynumber: 3.7 Consensus size: 46
77686776 TATTATGAGG
* *
77686786 GCCAGTGTAAGCCTATGTCTGGGACATGGCATCGGCATCAAGACGAGT
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCATCAAGACGAGA
* *
77686834 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCAAGACG-AGA
* * * *
77686880 GCCGGTGT---A-A-GTCTGGGACATGCATCGGC-TACGAGATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT-CAAGACGAGA
* *
77686921 GTCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
77686955 ACATGAGATA
Statistics
Matches: 100, Mismatches: 11, Indels: 20
0.76 0.08 0.15
Matches are distributed among these distances:
40 2 0.02
41 31 0.31
42 1 0.01
43 1 0.01
44 1 0.01
46 23 0.23
47 24 0.24
48 17 0.17
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCAAGACGAGA
Found at i:77686963 original size:47 final size:48
Alignment explanation
Indices: 77686890--77686999 Score: 129
Period size: 47 Copynumber: 2.3 Consensus size: 48
77686880 GCCGGTGTAA
*
77686890 GTCTGGGACAT-GCATCGGCTACGAGATGAT-AG-TCAGTGTAAGACCAT
1 GTCTGGGACATGGCATCGACTACGAGAT-ATGAGCT-AGTGTAAGACCAT
* * *
77686937 GTCTAGGACATGGCATCGAC-ATGAGATATGAGCTAGTGTAAGACCGT
1 GTCTGGGACATGGCATCGACTACGAGATATGAGCTAGTGTAAGACCAT
*
77686984 TTCTGGGACATGGCAT
1 GTCTGGGACATGGCAT
77687000 TGGCACCTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
46 2 0.04
47 44 0.81
48 8 0.15
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
GTCTGGGACATGGCATCGACTACGAGATATGAGCTAGTGTAAGACCAT
Found at i:77689944 original size:45 final size:45
Alignment explanation
Indices: 77689854--77689978 Score: 146
Period size: 45 Copynumber: 2.8 Consensus size: 45
77689844 TACGATGTTG
* *
77689854 ATGTCCCAGACATGGTCTTACAC-ATAACCACATATAGCGATGCCA
1 ATGTCCCAGACGTGGTCTTACACGA-AAACACATATAGCGATGCCA
*
77689899 ATGTCCCAGACGTGGTCTTACACGAAAACACATATATCAGA-GCCA
1 ATGTCCCAGACGTGGTCTTACACGAAAACACATATAGC-GATGCCA
** * * *
77689944 ACATCCCAGATGTGGTCTTACTCGAAAATACATAT
1 ATGTCCCAGACGTGGTCTTACACGAAAACACATAT
77689979 CAAAATCCTA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
45 67 0.96
46 3 0.04
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (45 bp):
ATGTCCCAGACGTGGTCTTACACGAAAACACATATAGCGATGCCA
Found at i:77692217 original size:27 final size:27
Alignment explanation
Indices: 77692180--77692276 Score: 126
Period size: 27 Copynumber: 3.6 Consensus size: 27
77692170 TAAACTTCGA
* *
77692180 CAAA-CACATCTGCAAACATAATTCAC
1 CAAATCACATCTGCGAACATAGTTCAC
*
77692206 CAAATCACATCTGCGAACATAGTTCGC
1 CAAATCACATCTGCGAACATAGTTCAC
*
77692233 CAAATCGCATCTGCGAACATAGTT-AGC
1 CAAATCACATCTGCGAACATAGTTCA-C
*
77692260 CAAATCGCATCTGCGAA
1 CAAATCACATCTGCGAA
77692277 TACAGCTCAC
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.06
27 60 0.94
ACGTcount: A:0.37, C:0.29, G:0.13, T:0.21
Consensus pattern (27 bp):
CAAATCACATCTGCGAACATAGTTCAC
Found at i:77694473 original size:27 final size:26
Alignment explanation
Indices: 77694429--77694483 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
77694419 ACCACAATTT
* *
77694429 ACCAGGCCCACTGATGATCCTTGCTTC
1 ACCAAGCCCACTGATGATCATTG-TTC
* *
77694456 ACCAAGCCCATTGGTGATCATTGTTC
1 ACCAAGCCCACTGATGATCATTGTTC
77694482 AC
1 AC
77694484 TAAATCCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (26 bp):
ACCAAGCCCACTGATGATCATTGTTC
Found at i:77701158 original size:27 final size:27
Alignment explanation
Indices: 77701121--77701217 Score: 126
Period size: 27 Copynumber: 3.6 Consensus size: 27
77701111 TAAACTTCGA
* *
77701121 CAAA-CACATCTGCAAACATAATTCAC
1 CAAATCACATCTGCGAACATAGTTCAC
*
77701147 CAAATCACATCTGCGAACATAGTTCGC
1 CAAATCACATCTGCGAACATAGTTCAC
*
77701174 CAAATCGCATCTGCGAACATAGTT-AGC
1 CAAATCACATCTGCGAACATAGTTCA-C
*
77701201 CAAATCGCATCTGCGAA
1 CAAATCACATCTGCGAA
77701218 TACAGCTCAC
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.06
27 60 0.94
ACGTcount: A:0.37, C:0.29, G:0.13, T:0.21
Consensus pattern (27 bp):
CAAATCACATCTGCGAACATAGTTCAC
Found at i:77703414 original size:27 final size:26
Alignment explanation
Indices: 77703370--77703424 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
77703360 ACCACAATTT
* *
77703370 ACCAGGCCCACTGATGATCCTTGCTTC
1 ACCAAGCCCACTGATGATCATTG-TTC
* *
77703397 ACCAAGCCCATTGGTGATCATTGTTC
1 ACCAAGCCCACTGATGATCATTGTTC
77703423 AC
1 AC
77703425 TAAATCCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (26 bp):
ACCAAGCCCACTGATGATCATTGTTC
Found at i:77703686 original size:53 final size:53
Alignment explanation
Indices: 77703614--77703723 Score: 202
Period size: 53 Copynumber: 2.1 Consensus size: 53
77703604 ACAACAAGGA
* *
77703614 GTTCTCCTTCTGTGATATTTCTACTTCACTTTAATCATCTAATGGTGACATAG
1 GTTCTCCTTCTGTGATATTTCTACTTCACTTTAATAATCTAATGGTAACATAG
77703667 GTTCTCCTTCTGTGATATTTCTACTTCACTTTAATAATCTAATGGTAACATAG
1 GTTCTCCTTCTGTGATATTTCTACTTCACTTTAATAATCTAATGGTAACATAG
77703720 GTTC
1 GTTC
77703724 ATACTAATTC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.44
Consensus pattern (53 bp):
GTTCTCCTTCTGTGATATTTCTACTTCACTTTAATAATCTAATGGTAACATAG
Found at i:77709565 original size:37 final size:37
Alignment explanation
Indices: 77709515--77709594 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
77709505 CTTATTACGA
* *
77709515 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
77709552 AGTCTTACCCGGACAAAATTCCCACACGTAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
77709589 GGTCTT
1 AGTCTT
77709595 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:77709899 original size:147 final size:147
Alignment explanation
Indices: 77709632--77709924 Score: 586
Period size: 147 Copynumber: 2.0 Consensus size: 147
77709622 AGCTTACGGA
77709632 CATTAATCAGTGATAATATTCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGACA
1 CATTAATCAGTGATAATATTCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGACA
77709697 CAAATGCCCTTCGGGACTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
66 CAAATGCCCTTCGGGACTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
77709762 TGTCACATATATACACC
131 TGTCACATATATACACC
77709779 CATTAATCAGTGATAATATTCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGACA
1 CATTAATCAGTGATAATATTCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGACA
77709844 CAAATGCCCTTCGGGACTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
66 CAAATGCCCTTCGGGACTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
77709909 TGTCACATATATACAC
131 TGTCACATATATACAC
77709925 TTTCACATTC
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
147 146 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (147 bp):
CATTAATCAGTGATAATATTCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGACA
CAAATGCCCTTCGGGACTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
TGTCACATATATACACC
Found at i:77709938 original size:47 final size:47
Alignment explanation
Indices: 77709862--77709980 Score: 157
Period size: 47 Copynumber: 2.5 Consensus size: 47
77709852 CTTCGGGACT
* * * * * *
77709862 TATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
77709909 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
77709956 TATCACATATATACACTTTCACATT
1 TATCACATATATACACTTTCACATT
77709981 ACCAACCCTT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 62 1.00
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:77710325 original size:39 final size:40
Alignment explanation
Indices: 77710205--77710386 Score: 201
Period size: 40 Copynumber: 4.6 Consensus size: 40
77710195 GCTACTAGTT
*
77710205 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
77710245 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
77710285 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
77710324 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
* *
77710365 CAAA-ACCTTCAGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
77710387 AGACATCATT
Statistics
Matches: 122, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 75 0.61
41 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:77710374 original size:79 final size:79
Alignment explanation
Indices: 77710182--77710386 Score: 186
Period size: 79 Copynumber: 2.6 Consensus size: 79
77710172 CCTTCAGAAT
** * * *
77710182 TTAA-CCGGATATAGCT-ACTAGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 TTAACCCGGATATAG-TAACTAGCACAAATACCTTCGGG-CTTAGCCCGGATATAGTAACTCGCA
77710245 CAAATGCCTTCGGGAC
64 CAAATGCCTTCGGGAC
* * * * *
77710261 TTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTTGCAC
1 TTAACCCGGATATAGTAACTAGCACAAATACCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCAC
77710325 AAATGCCTTC-GGATC
65 AAATGCCTTCGGGA-C
** * * *
77710340 TTAGTCCGGATATGGTCACTTAGCACAAA-ACCTTCAGGACTTAGCCC
1 TTAACCCGGATATAGTAAC-TAGCACAAATACCTTC-GGGCTTAGCCC
77710387 AGACATCATT
Statistics
Matches: 104, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
78 4 0.04
79 55 0.53
80 45 0.43
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (79 bp):
TTAACCCGGATATAGTAACTAGCACAAATACCTTCGGGCTTAGCCCGGATATAGTAACTCGCACA
AATGCCTTCGGGAC
Found at i:77714038 original size:38 final size:38
Alignment explanation
Indices: 77713987--77714059 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
77713977 ATCATTTACT
*
77713987 ACACCGGCATTGAGCCTACTAGGCACTAAGCTTGATTA
1 ACACCAGCATTGAGCCTACTAGGCACTAAGCTTGATTA
* *
77714025 ACACCAGCATTGAGCCTGCTAGGCACTGAGCTTGA
1 ACACCAGCATTGAGCCTACTAGGCACTAAGCTTGA
77714060 ATAATACCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.22
Consensus pattern (38 bp):
ACACCAGCATTGAGCCTACTAGGCACTAAGCTTGATTA
Done.