Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2102
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: 149720
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:9180 original size:23 final size:23
Alignment explanation
Indices: 9150--9282 Score: 150
Period size: 22 Copynumber: 5.9 Consensus size: 23
9140 ATCCTCCACA
9150 AAAAAAAACAAAAACAAAAAAAC
1 AAAAAAAACAAAAACAAAAAAAC
9173 AAAAAAAAC-AAAACAAAAAAAC
1 AAAAAAAACAAAAACAAAAAAAC
9195 AAAAAAAA-AGAAAACAAAAAAAC
1 AAAAAAAACA-AAAACAAAAAAAC
* * * *
9218 AACAAAAA-AAGAAGAAAAAAAG
1 AAAAAAAACAAAAACAAAAAAAC
9240 AAAAAAAAC-AAAACAACAAAAA-
1 AAAAAAAACAAAAACAA-AAAAAC
* *
9262 AAACAACAACAACAACAAAAA
1 AAA-AAAAACAAAAACAAAAA
9283 GGGTCCGGAT
Statistics
Matches: 95, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
22 46 0.48
23 43 0.45
24 6 0.06
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (23 bp):
AAAAAAAACAAAAACAAAAAAAC
Found at i:9197 original size:36 final size:35
Alignment explanation
Indices: 9151--9282 Score: 130
Period size: 36 Copynumber: 3.7 Consensus size: 35
9141 TCCTCCACAA
9151 AAAAAAACAAAAACAAAAAAACAAAAAAAACAAAAC
1 AAAAAAA-AAAAACAAAAAAACAAAAAAAACAAAAC
*
9187 AAAAAAACAAAAAAAAAGAAAAC-AAAAAAAC--AAC
1 AAAAAAA-AAAAACAAA-AAAACAAAAAAAACAAAAC
* * *
9221 --AAAAAAAGAAGAAAAAAAGAAAAAAAACAAAAC
1 AAAAAAAAAAAACAAAAAAACAAAAAAAACAAAAC
*
9254 AACAAAAAAAACAACAACAACAACAAAAA
1 AA-AAAAAAAA-AACAA-AAAAACAAAAA
9283 GGGTCCGGAT
Statistics
Matches: 79, Mismatches: 8, Indels: 16
0.77 0.08 0.16
Matches are distributed among these distances:
30 4 0.05
31 15 0.19
32 5 0.06
33 3 0.04
34 3 0.04
36 31 0.39
37 9 0.11
38 9 0.11
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (35 bp):
AAAAAAAAAAAACAAAAAAACAAAAAAAACAAAAC
Found at i:9209 original size:45 final size:45
Alignment explanation
Indices: 9147--9281 Score: 155
Period size: 45 Copynumber: 2.8 Consensus size: 45
9137 GGCATCCTCC
9147 ACAAAAAAAAACAAAAACAAAAAAACAAAAAAAACAAAACAAAAAA
1 ACAAAAAAAAA-AAAAACAAAAAAACAAAAAAAACAAAACAAAAAA
* * *
9193 ACAAAAAAAAAGAAAACAAAAAAACAACAAAAAA-AGAAGAAAAAA
1 ACAAAAAAAAAAAAAACAAAAAAACAA-AAAAAACAAAACAAAAAA
*
9238 AGAAAAAAAACAAAACAACAAAAAAAACAACAACAACAACAAAA
1 ACAAAAAAAA-AAAA-AAC-AAAAAAACAA-AA-AA-AACAAAA
9282 AGGGTCCGGA
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
45 33 0.43
46 20 0.26
47 3 0.04
48 13 0.17
49 2 0.03
50 2 0.03
51 3 0.04
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (45 bp):
ACAAAAAAAAAAAAAACAAAAAAACAAAAAAAACAAAACAAAAAA
Found at i:9278 original size:12 final size:11
Alignment explanation
Indices: 9154--9279 Score: 61
Period size: 11 Copynumber: 11.9 Consensus size: 11
9144 TCCACAAAAA
*
9154 AAAACAAAAAC
1 AAAACAACAAC
* *
9165 AAAAAAACAAAA
1 AAAACAAC-AAC
9177 AAAACAA-AAC
1 AAAACAACAAC
* *
9187 AAAAAAACAAA
1 AAAACAACAAC
* *
9198 AAAAAAGAAAAC
1 AAAACA-ACAAC
*
9210 AAAAAAACAAC
1 AAAACAACAAC
* *
9221 AAAAAAAGAA-
1 AAAACAACAAC
* *
9231 GAAA-AA-AAG
1 AAAACAACAAC
9240 AAAA-AA-AAC
1 AAAACAACAAC
9249 AAAACAACAA-
1 AAAACAACAAC
9259 AAAA-AACAAC
1 AAAACAACAAC
9269 AACAACAACAA
1 AA-AACAACAA
9280 AAAGGGTCCG
Statistics
Matches: 92, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
8 2 0.02
9 18 0.20
10 19 0.21
11 31 0.34
12 22 0.24
ACGTcount: A:0.83, C:0.13, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAACAACAAC
Found at i:9282 original size:1 final size:1
Alignment explanation
Indices: 9149--9264 Score: 88
Period size: 1 Copynumber: 116.0 Consensus size: 1
9139 CATCCTCCAC
* * * * * * * *
9149 AAAAAAAAACAAAAACAAAAAAACAAAAAAAACAAAACAAAAAAACAAAAAAAAAGAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * *
9214 AAACAACAAAAAAAGAAGAAAAAAAGAAAAAAAACAAAACAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9265 CAACAACAAC
Statistics
Matches: 83, Mismatches: 32, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 83 1.00
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:10778 original size:29 final size:29
Alignment explanation
Indices: 10721--10775 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
10711 TCACCCTTCA
*
10721 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAACTCAGTGGCATCTTTTTC
*
10750 AAAGCCCACAACTCCG-GGCA-CTTTTT
1 AAAGCCCACAACTCAGTGGCATCTTTTT
10776 TTCCTTCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.25
28 4 0.17
29 14 0.58
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.25
Consensus pattern (29 bp):
AAAGCCCACAACTCAGTGGCATCTTTTTC
Found at i:10818 original size:60 final size:59
Alignment explanation
Indices: 10751--10937 Score: 180
Period size: 60 Copynumber: 3.0 Consensus size: 59
10741 ATCTTTTTCA
*
10751 AAGCCCACAACTCCGGGCACTTTTTTTCCTTCTAAGTCCATAACTCTGTGGCACCCGTTT
1 AAGCCCACAACTCCGGGCACTTTTTTTCCTTCTAAGTCCA-AACTCTGTGGCACCCATTT
* * * *
10811 AAGCCCACGACTCTGTGGCAC-TCTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTCCATT
1 AAGCCCACAACTCCG-GGCACTTTTTTTCCTTCTAAGTCCA-AACTCTGTGGCA-C----CCATT
10875 T
59 T
* * * *
10876 AAGCCCACAACTTCGTG-ACATTCTTTCTCCTTCTAAGTCCAACACTCTGTGGCACCCTTTT
1 AAGCCCACAACTCCGGGCAC-TT-TTTTTCCTTCTAAGTCCAA-ACTCTGTGGCACCCATTT
10937 A
1 A
10938 CGTCCATAGC
Statistics
Matches: 103, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
60 42 0.41
61 12 0.12
63 2 0.02
64 1 0.01
65 20 0.19
66 26 0.25
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (59 bp):
AAGCCCACAACTCCGGGCACTTTTTTTCCTTCTAAGTCCAAACTCTGTGGCACCCATTT
Found at i:11092 original size:65 final size:64
Alignment explanation
Indices: 10981--11106 Score: 164
Period size: 65 Copynumber: 2.0 Consensus size: 64
10971 AAAAGCCCAT
* * * ***
10981 AAGTCGGTGGCAACCTTTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACA
1 AAGTCGGTGGCAACCATTCTCTCAAAACCCACACAAGTCAAAGGCAACCCT-TCT-AAGCCCACA
11046 C
64 C
*
11047 AAGTTGGTGGCAACCATTCTCT-AAAACCCACACAAGTCAAAGGCAACCCTTCTAAGCCCA
1 AAGTCGGTGGCAACCATTCTCTCAAAACCCACACAAGTCAAAGGCAACCCTTCTAAGCCCA
11107 ATATAGCTGG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
63 7 0.13
64 3 0.06
65 24 0.45
66 19 0.36
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (64 bp):
AAGTCGGTGGCAACCATTCTCTCAAAACCCACACAAGTCAAAGGCAACCCTTCTAAGCCCACAC
Found at i:11094 original size:33 final size:32
Alignment explanation
Indices: 10981--11084 Score: 145
Period size: 32 Copynumber: 3.2 Consensus size: 32
10971 AAAAGCCCAT
*
10981 AAGTCGGTGGCAACCTTTTTCTCAAAGCCCACAC
1 AAGTCGGTGGCAACC-TTCTCT-AAAGCCCACAC
*
11015 AAGTCGGTGGCAACCCTCTCTAAAGCCCACAC
1 AAGTCGGTGGCAACCTTCTCTAAAGCCCACAC
* *
11047 AAGTTGGTGGCAACCATTCTCTAAAACCCACAC
1 AAGTCGGTGGCAACC-TTCTCTAAAGCCCACAC
11080 AAGTC
1 AAGTC
11085 AAAGGCAACC
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
32 25 0.40
33 23 0.37
34 15 0.24
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (32 bp):
AAGTCGGTGGCAACCTTCTCTAAAGCCCACAC
Found at i:11183 original size:49 final size:49
Alignment explanation
Indices: 11099--11388 Score: 288
Period size: 49 Copynumber: 5.9 Consensus size: 49
11089 GCAACCCTTC
* * * *
11099 TAAGCCCAATATAGCTGG-CTTGACTCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
11147 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
11190 TAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* * * * * *
11242 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCATTTTTCTCACCTC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C----CT-TCATCTT
* * *
11297 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
11346 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
11389 TAAGTCCAAT
Statistics
Matches: 198, Mismatches: 28, Indels: 31
0.77 0.11 0.12
Matches are distributed among these distances:
43 38 0.19
45 1 0.01
48 16 0.08
49 62 0.31
50 2 0.01
52 36 0.18
53 1 0.01
54 1 0.01
55 40 0.20
56 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:11207 original size:43 final size:45
Alignment explanation
Indices: 11099--11410 Score: 229
Period size: 43 Copynumber: 6.5 Consensus size: 45
11089 GCAACCCTTC
* * *
11099 TAAGCCCAATATAGCTGG-CTTGACTCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TC-TCTT
*
11147 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTCTT
* * *
11190 TAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-----T-C-TCTT
* * *
11242 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCATTTTTCTCACCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATC-----TCT----T
* * *
11296 CTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTCATCTT
1 -TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TC-TCTT
*
11346 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTCTT
*
11389 TAAGTCCAATATCGCTGGCCTT
1 TAAGTCCAATATAGCTGGCCTT
11411 TGGAAAGAGA
Statistics
Matches: 216, Mismatches: 26, Indels: 49
0.74 0.09 0.17
Matches are distributed among these distances:
43 61 0.28
45 2 0.01
46 1 0.00
47 1 0.00
48 16 0.07
49 53 0.25
50 5 0.02
52 36 0.17
54 4 0.02
55 35 0.16
58 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (45 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTCTT
Found at i:11317 original size:55 final size:52
Alignment explanation
Indices: 11184--11381 Score: 215
Period size: 52 Copynumber: 3.8 Consensus size: 52
11174 AGCACATTGG
* * * *
11184 CACCTTTAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGGCACCTTTTC-
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA-CTTTTCT
* * *
11236 CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCATTTTTCT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA-C--TTTTCT
* * * *
11291 CACCTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGACAC--CT-T
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACTTTTCT
* *
11340 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
11382 GCACCTTTAA
Statistics
Matches: 123, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
49 38 0.31
50 1 0.01
52 39 0.32
54 6 0.05
55 39 0.32
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (52 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACTTTTCT
Found at i:11380 original size:104 final size:106
Alignment explanation
Indices: 11184--11381 Score: 319
Period size: 107 Copynumber: 1.9 Consensus size: 106
11174 AGCACATTGG
* * * * *
11184 CACCTTTAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTC
1 CACCTCTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGACACC-TTTCCATCTTTAAGTCC
11249 AATGTAGCTGGCCTTGAATCAGCACATTGACATCATTTTTCT
65 AATGTAGCTGGCCTTGAATCAGCACATTGACATCATTTTTCT
*
11291 CACCTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGACACC-TT-CATCTTTAAGTCCA
1 CACCTCTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGACACCTTTCCATCTTTAAGTCCA
11354 ATGTAGCTGGCCTTGAATCAGCACATTG
66 ATGTAGCTGGCCTTGAATCAGCACATTG
11382 GCACCTTTAA
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
104 41 0.48
105 2 0.02
107 42 0.49
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (106 bp):
CACCTCTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGACACCTTTCCATCTTTAAGTCCA
ATGTAGCTGGCCTTGAATCAGCACATTGACATCATTTTTCT
Found at i:11453 original size:31 final size:31
Alignment explanation
Indices: 11408--11930 Score: 716
Period size: 31 Copynumber: 16.9 Consensus size: 31
11398 TATCGCTGGC
* *
11408 CTTTG-GAAAGAGATGCCATTGAGTCGTGGA
1 CTTTGAGAAAAAGATGCCACTGAGTCGTGGA
* *
11438 CTTTGA-AGAAAAGATGCCACTAAGTCATGGA
1 CTTTGAGA-AAAAGATGCCACTGAGTCGTGGA
*
11469 CTTTGAGAAAAAGATGCCACTGAATCGTGGA
1 CTTTGAGAAAAAGATGCCACTGAGTCGTGGA
* *
11500 CTTTGAG-AAGAGATGCCATTGAGTCGTGGA
1 CTTTGAGAAAAAGATGCCACTGAGTCGTGGA
*
11530 CTTTGAGAAAAAGATGCCACTGAGTTGTGGA
1 CTTTGAGAAAAAGATGCCACTGAGTCGTGGA
* * *
11561 CTTTGAAGAAAAATATGCCACTGAATCATGGA
1 CTTTG-AGAAAAAGATGCCACTGAGTCGTGGA
* *
11593 CTTTGAGAAAAAGATGCCACTGAATCATGGA
1 CTTTGAGAAAAAGATGCCACTGAGTCGTGGA
* * *
11624 ATTTGAGAAAAAGATGCCACTAAATCGTGGA
1 CTTTGAGAAAAAGATGCCACTGAGTCGTGGA
*
11655 CTTTGAG-AAGAGATGCCACTGAGTCGTGGA
1 CTTTGAGAAAAAGATGCCACTGAGTCGTGGA
* *
11685 CTTTGAGAAAAAGATGGCACTGAGTTGTGGA
1 CTTTGAGAAAAAGATGCCACTGAGTCGTGGA
*
11716 CTTTGAAGAAAAAGATGCCACTGAATCGTGGA
1 CTTTG-AGAAAAAGATGCCACTGAGTCGTGGA
*
11748 CTTTGAGAAAAAGATGCCACTGAATCGTGGA
1 CTTTGAGAAAAAGATGCCACTGAGTCGTGGA
* *
11779 CTTTGAG-AAGAGATGCCACTGAATCGTGGA
1 CTTTGAGAAAAAGATGCCACTGAGTCGTGGA
*
11809 CTTTGAG-AAGAGATGCCACTGAGTCGTGGA
1 CTTTGAGAAAAAGATGCCACTGAGTCGTGGA
*
11839 CTTTGAGAAAAAGATGCCACTGAGTTGTGGA
1 CTTTGAGAAAAAGATGCCACTGAGTCGTGGA
*
11870 CTTTGAGAAAAAGATGCCACTGAGTTGTGGA
1 CTTTGAGAAAAAGATGCCACTGAGTCGTGGA
* *
11901 CTTTAAAGAAAAAGATGCCACTGAATCGTG
1 CTTT-GAGAAAAAGATGCCACTGAGTCGTG
11931 AACCTTGGGA
Statistics
Matches: 446, Mismatches: 38, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
30 118 0.26
31 250 0.56
32 78 0.17
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (31 bp):
CTTTGAGAAAAAGATGCCACTGAGTCGTGGA
Found at i:11706 original size:155 final size:155
Alignment explanation
Indices: 11413--11927 Score: 849
Period size: 155 Copynumber: 3.3 Consensus size: 155
11403 CTGGCCTTTG
* * *
11413 GAAAGAGATGCCATTGAGTCGTGGACTTTGA-AGAAAAGATGCCACT-AAGTCATGGACTTTGAG
1 GAAAAAGATGCCACTGAATCGTGGACTTTGAGA-AAAAGATGCCACTGAA-TCATGGACTTTGAG
*
11476 AAAAAGATGCCACTGAATCGTGGACTTTGAGAAGAGATGCCATTGAGTCGTGGACTTTGAGAAAA
64 AAAAAGATGCCACTGAATCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAGAAAA
11541 AGATGCCACTGAGTTGTGGACTTTGAA
129 AGATGCCACTGAGTTGTGGACTTTGAA
* * *
11568 GAAAAATATGCCACTGAATCATGGACTTTGAGAAAAAGATGCCACTGAATCATGGAATTTGAGAA
1 GAAAAAGATGCCACTGAATCGTGGACTTTGAGAAAAAGATGCCACTGAATCATGGACTTTGAGAA
*
11633 AAAGATGCCACTAAATCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAGAAAAAG
66 AAAGATGCCACTGAATCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAGAAAAAG
*
11698 ATGGCACTGAGTTGTGGACTTTGAA
131 ATGCCACTGAGTTGTGGACTTTGAA
*
11723 GAAAAAGATGCCACTGAATCGTGGACTTTGAGAAAAAGATGCCACTGAATCGTGGACTTTGAG-A
1 GAAAAAGATGCCACTGAATCGTGGACTTTGAGAAAAAGATGCCACTGAATCATGGACTTTGAGAA
*
11787 AGAGATGCCACTGAATCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAGAAAAAG
66 AAAGATGCCACTGAATCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAGAAAAAG
11852 ATGCCACTGAGTTGTGGACTTTG-A
131 ATGCCACTGAGTTGTGGACTTTGAA
* * *
11876 GAAAAAGATGCCACTGAGTTGTGGACTTTAAAGAAAAAGATGCCACTGAATC
1 GAAAAAGATGCCACTGAATCGTGGACTTT-GAGAAAAAGATGCCACTGAATC
11928 GTGAACCTTG
Statistics
Matches: 338, Mismatches: 19, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
153 28 0.08
154 107 0.32
155 200 0.59
156 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (155 bp):
GAAAAAGATGCCACTGAATCGTGGACTTTGAGAAAAAGATGCCACTGAATCATGGACTTTGAGAA
AAAGATGCCACTGAATCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAGAAAAAG
ATGCCACTGAGTTGTGGACTTTGAA
Found at i:18298 original size:32 final size:33
Alignment explanation
Indices: 18257--18328 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
18247 AGCTTCGTAG
*
18257 CGATACATTGTATC-GATACAAAACTTATGTAT
1 CGATACATTGTATCAAATACAAAACTTATGTAT
*
18289 CGATACATTGTATCAAATACAACACTTATGTAT
1 CGATACATTGTATCAAATACAAAACTTATGTAT
18322 CGATACA
1 CGATACA
18329 GTTACTGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
32 14 0.38
33 23 0.62
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (33 bp):
CGATACATTGTATCAAATACAAAACTTATGTAT
Found at i:18840 original size:13 final size:13
Alignment explanation
Indices: 18821--18851 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
18811 ACAATTCTTC
18821 ATGTATCGATACA
1 ATGTATCGATACA
*
18834 TTGTATCGATACA
1 ATGTATCGATACA
18847 ATGTA
1 ATGTA
18852 CCATATATGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:18934 original size:13 final size:13
Alignment explanation
Indices: 18916--18947 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
18906 TACAATGAAC
18916 ATGTATCAATACA
1 ATGTATCAATACA
*
18929 ATGTATCGATACA
1 ATGTATCAATACA
18942 ATGTAT
1 ATGTAT
18948 AATGTATCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:18938 original size:32 final size:33
Alignment explanation
Indices: 18897--18961 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
18887 TGCCAGTTTC
18897 ATGTATCGATACAATG-A-ACATGTATCAATACA
1 ATGTATCGATACAATGTATA-ATGTATCAATACA
*
18929 ATGTATCGATACAATGTATAATGTATCGATACA
1 ATGTATCGATACAATGTATAATGTATCAATACA
18962 TCTAGATGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 16 0.53
33 13 0.43
34 1 0.03
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (33 bp):
ATGTATCGATACAATGTATAATGTATCAATACA
Found at i:21374 original size:13 final size:13
Alignment explanation
Indices: 21356--21381 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21346 CAATTTGGGA
21356 TGTATCGATACAT
1 TGTATCGATACAT
21369 TGTATCGATACAT
1 TGTATCGATACAT
21382 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:21488 original size:20 final size:21
Alignment explanation
Indices: 21441--21493 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
21431 GCCAATCACC
*
21441 TGTATCGATACATTCTTTGTA
1 TGTATCGATACATTCTTGGTA
*
21462 AGTATCGATACA-T-TTGGTCA
1 TGTATCGATACATTCTTGGT-A
21482 TGTATCGATACA
1 TGTATCGATACA
21494 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 13 0.46
21 11 0.39
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTTGGTA
Found at i:21499 original size:13 final size:13
Alignment explanation
Indices: 21481--21505 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21471 ACATTTGGTC
21481 ATGTATCGATACA
1 ATGTATCGATACA
21494 ATGTATCGATAC
1 ATGTATCGATAC
21506 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:21538 original size:20 final size:19
Alignment explanation
Indices: 21515--21553 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
21505 CTGTGCATTA
21515 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
21535 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
21554 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:30153 original size:13 final size:13
Alignment explanation
Indices: 30135--30160 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30125 ACAATTTGGG
30135 ATGTATCGATACA
1 ATGTATCGATACA
30148 ATGTATCGATACA
1 ATGTATCGATACA
30161 TCTTGTGTGT
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:30155 original size:33 final size:32
Alignment explanation
Indices: 30113--30180 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
30103 CGTTACAAGC
30113 CAATGTATCGATACAAT-TTGGGATGTATCGATA
1 CAATGTATCGATAC-ATCTTGGG-TGTATCGATA
*
30146 CAATGTATCGATACATCTTGTGTGTATCGATA
1 CAATGTATCGATACATCTTGGGTGTATCGATA
30178 CAA
1 CAA
30181 ACAGTTAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 15 0.45
33 18 0.55
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGGGTGTATCGATA
Found at i:30305 original size:20 final size:19
Alignment explanation
Indices: 30282--30320 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
30272 CTGTGCATTA
*
30282 TGTATCGATGCATTTGAAGG
1 TGTATCGATACATTT-AAGG
30302 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
30321 GTTTTGACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:40412 original size:16 final size:16
Alignment explanation
Indices: 40391--40422 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
40381 GAAATTTTTT
40391 GAGAATAAATTTTGGC
1 GAGAATAAATTTTGGC
40407 GAGAATAAATTTTGGC
1 GAGAATAAATTTTGGC
40423 ATTTGACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (16 bp):
GAGAATAAATTTTGGC
Found at i:41153 original size:19 final size:21
Alignment explanation
Indices: 41129--41182 Score: 87
Period size: 19 Copynumber: 2.7 Consensus size: 21
41119 ATCGATACAA
41129 TGTATCGATACATG-CTC-AT
1 TGTATCGATACATGACTCAAT
41148 TGTATCGATACA-GACTCAAT
1 TGTATCGATACATGACTCAAT
41168 TGTATCGATACATGA
1 TGTATCGATACATGA
41183 AACCGGCAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.03
19 15 0.47
20 14 0.44
21 2 0.06
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATGACTCAAT
Found at i:50716 original size:29 final size:28
Alignment explanation
Indices: 50659--50858 Score: 170
Period size: 29 Copynumber: 6.9 Consensus size: 28
50649 ATACAATGCA
*
50659 ACAACTCCGTGGCACCCTCTTTTTTAAGTCC
1 ACAACTCCGTGGCA--C-CTTTTTAAAGTCC
* *
50690 ATAACTTCGTGGCACCTTTTTTAAAGTCC
1 ACAACTCCGTGGCACC-TTTTTAAAGTCC
* ** * *
50719 ATAACTCTATGACACCTTTTTCAAAAGTTC
1 ACAACTCCGTGGCACCTTTTT--AAAGTCC
* * *
50749 ACAACTCTGTGGCACACCTTTTAAAGTCA
1 ACAACTCCGTGGCAC-CTTTTTAAAGTCC
* *
50778 ACAACTCCATAGCACC-TTTTAAAG-CC
1 ACAACTCCGTGGCACCTTTTTAAAGTCC
* *
50804 TACAACTCCGTGGCACCCTTTTAAAGCCC
1 -ACAACTCCGTGGCACCTTTTTAAAGTCC
50833 ACAACTCCGTGGCATCCTTTTTAAAG
1 ACAACTCCGTGGCA-CCTTTTTAAAG
50859 CCTAGACAAG
Statistics
Matches: 140, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
26 1 0.01
27 22 0.16
28 29 0.21
29 53 0.38
30 18 0.13
31 17 0.12
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (28 bp):
ACAACTCCGTGGCACCTTTTTAAAGTCC
Found at i:50801 original size:27 final size:28
Alignment explanation
Indices: 50749--50860 Score: 136
Period size: 28 Copynumber: 4.0 Consensus size: 28
50739 TCAAAAGTTC
* *
50749 ACAACTCTGTGGCACACCTTTTAAAGTCA
1 ACAACTCCGTGGCAC-CCTTTTAAAGCCA
* * *
50778 ACAACTCCATAGCA-CCTTTTAAAGCCT
1 ACAACTCCGTGGCACCCTTTTAAAGCCA
*
50805 ACAACTCCGTGGCACCCTTTTAAAGCCC
1 ACAACTCCGTGGCACCCTTTTAAAGCCA
*
50833 ACAACTCCGTGGCATCCTTTTTAAAGCC
1 ACAACTCCGTGGCA-CCCTTTTAAAGCC
50861 TAGACAAGTT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
27 23 0.32
28 26 0.36
29 23 0.32
ACGTcount: A:0.29, C:0.33, G:0.12, T:0.26
Consensus pattern (28 bp):
ACAACTCCGTGGCACCCTTTTAAAGCCA
Found at i:50966 original size:30 final size:29
Alignment explanation
Indices: 50929--51087 Score: 142
Period size: 29 Copynumber: 5.3 Consensus size: 29
50919 AAAAAAAAAA
*
50929 CCCACAAGTTAGTGGCACGCTTTTAAAGC
1 CCCACAAGTTAGTGGCACCCTTTTAAAGC
* * *
50958 CCACACAAGTTAGTGGCAACCCTCTCAACGC
1 CC-CACAAGTTAGTGGC-ACCCTTTTAAAGC
* * *
50989 CCCAAAAGTCAGTGGCAACCTTTTCAAAG-
1 CCCACAAGTTAGTGGCACCCTTTT-AAAGC
* * *
51018 CTCGCAAGTTAATGGCATCCCTTTTAAAG-
1 CCCACAAGTTAGTGGCA-CCCTTTTAAAGC
* *
51047 CCCATAAGTTAGTGGCATCCCTTTCAAAGC
1 CCCACAAGTTAGTGGCA-CCCTTTTAAAGC
51077 CCACACAAGTT
1 CC-CACAAGTT
51088 GTTGGCATCT
Statistics
Matches: 102, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
29 47 0.46
30 37 0.36
31 18 0.18
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (29 bp):
CCCACAAGTTAGTGGCACCCTTTTAAAGC
Found at i:51108 original size:60 final size:58
Alignment explanation
Indices: 50929--51105 Score: 153
Period size: 60 Copynumber: 3.0 Consensus size: 58
50919 AAAAAAAAAA
* * * * *
50929 CCCACAAGTTAGTGGCACGCTTTTAAAGCCCACACAAGTTAGTGGCAACCC-TCTCAACG
1 CCCAAAAGTTAGTGGCACCCTTTCAAAGCCCACACAAGTT-GTGGCATCCCTTCT-AAAG
* * * * * *
50988 CCCCAAAAGTCAGTGGCAACCTTTTCAAAG--CTCGCAAGTTAATGGCATCCCTTTTAAAG
1 -CCCAAAAGTTAGTGGC-ACCCTTTCAAAGCCCACACAAGTT-GTGGCATCCCTTCTAAAG
*
51047 CCCATAAGTTAGTGGCATCCCTTTCAAAGCCCACACAAGTTGTTGGCATCTCCTTCTAA
1 CCCAAAAGTTAGTGGCA-CCCTTTCAAAGCCCACACAAGTTG-TGGCATC-CCTTCTAA
51106 GCCTAATGTC
Statistics
Matches: 92, Mismatches: 18, Indels: 13
0.75 0.15 0.11
Matches are distributed among these distances:
57 1 0.01
58 24 0.26
59 20 0.22
60 31 0.34
61 16 0.17
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (58 bp):
CCCAAAAGTTAGTGGCACCCTTTCAAAGCCCACACAAGTTGTGGCATCCCTTCTAAAG
Found at i:51209 original size:52 final size:52
Alignment explanation
Indices: 51103--51284 Score: 161
Period size: 52 Copynumber: 3.5 Consensus size: 52
51093 CATCTCCTTC
* * * * *
51103 TAAGCCTAATGTCGTTGGCCTAGAATCAATACATTGGCACTCTTTTCATTTT
1 TAAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCACTCTTATCATCTT
** *
51155 TAAGCCCAATGTCGTTGGCCTTGAATCAACATGTTTGCAGC-CTTATCATCTT
1 TAAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCA-CTCTTATCATCTT
** * * * *
51207 TAAATCCAATGTCATTGGCCCTGAATCAGCACATTGGCA-TCTTTATCATCAT
1 TAAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCACTC-TTATCATCTT
** * * *
51259 TAAATCTAGTGTCGTAGGCCTTGAAT
1 TAAGCCCAATGTCGTTGGCCTTGAAT
51285 TTGCACCTTG
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
51 1 0.01
52 103 0.98
53 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (52 bp):
TAAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCACTCTTATCATCTT
Found at i:54770 original size:13 final size:13
Alignment explanation
Indices: 54752--54780 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
54742 ACAACATTCC
54752 TTGTATCGATACA
1 TTGTATCGATACA
54765 TTGTATCGATACA
1 TTGTATCGATACA
54778 TTG
1 TTG
54781 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:55148 original size:2 final size:2
Alignment explanation
Indices: 55141--55178 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
55131 TTCAAATTTA
55141 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55179 TCTTCTTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55515 original size:19 final size:20
Alignment explanation
Indices: 55493--55547 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
55483 TAAAAGTATT
55493 TATTATAAAATATT-TAAAA
1 TATTATAAAATATTCTAAAA
**
55512 TATTATTTAATAATTCTAAAA
1 TATTATAAAAT-ATTCTAAAA
*
55533 TAATATTAAAATATT
1 TATTA-TAAAATATT
55548 ATTTAATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 9 0.32
20 3 0.11
21 12 0.43
22 4 0.14
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTATAAAATATTCTAAAA
Found at i:55547 original size:32 final size:30
Alignment explanation
Indices: 55498--55556 Score: 100
Period size: 32 Copynumber: 1.9 Consensus size: 30
55488 GTATTTATTA
55498 TAAAATATTTAAAATATTATTTAATAATTC
1 TAAAATATTTAAAATATTATTTAATAATTC
55528 TAAAATAATATTAAAATATTATTTAATAA
1 TAAAAT-AT-TTAAAATATTATTTAATAA
55557 AATTTTAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 6 0.22
31 2 0.07
32 19 0.70
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
TAAAATATTTAAAATATTATTTAATAATTC
Found at i:56539 original size:33 final size:33
Alignment explanation
Indices: 56497--56565 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
56487 CCGTTACAAG
* *
56497 CAATGTATCGATACAATT-CATCATGTATCGATA
1 CAATCTATCGATAC-ATTGCACCATGTATCGATA
*
56530 CAATCTATCGATACATTGTACCATGTATCGATA
1 CAATCTATCGATACATTGCACCATGTATCGATA
56563 CAA
1 CAA
56566 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (33 bp):
CAATCTATCGATACATTGCACCATGTATCGATA
Found at i:56621 original size:20 final size:19
Alignment explanation
Indices: 56596--56648 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
56586 GCCAATCTCT
**
56596 TGTATCGATACAATTGTCCA
1 TGTATCGATACAATT-AACA
56616 TGTATCGATACAATTAACA
1 TGTATCGATACAATTAACA
*
56635 TATATCGATACAAT
1 TGTATCGATACAAT
56649 GTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAATTAACA
Found at i:65333 original size:20 final size:21
Alignment explanation
Indices: 65308--65361 Score: 85
Period size: 20 Copynumber: 2.7 Consensus size: 21
65298 GTTACAAGCA
65308 ATGTATCGATACAATT-CATC
1 ATGTATCGATACAATTGCATC
*
65328 ATGTATCGATAC-ATTGTATC
1 ATGTATCGATACAATTGCATC
65348 ATGTATCGATACAA
1 ATGTATCGATACAA
65362 ATAGTAGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 3 0.10
20 27 0.87
21 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACAATTGCATC
Found at i:67226 original size:38 final size:38
Alignment explanation
Indices: 67134--67228 Score: 111
Period size: 38 Copynumber: 2.5 Consensus size: 38
67124 CAACTCGATC
* *
67134 TCAAGCTATAGCAACTCGAGCTATTGAGCAAACGAAGT
1 TCAAGCTAGAGCAACTCAAGCTATTGAGCAAACGAAGT
* * * * *
67172 ACGAGCTAGAGTAACTCAAGCTATTGAGCAAGCTAAGT
1 TCAAGCTAGAGCAACTCAAGCTATTGAGCAAACGAAGT
67210 TCAAGCTTA-AGCAACTCAA
1 TCAAGC-TAGAGCAACTCAA
67229 ACATCAAACA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
38 44 0.96
39 2 0.04
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (38 bp):
TCAAGCTAGAGCAACTCAAGCTATTGAGCAAACGAAGT
Found at i:67707 original size:22 final size:22
Alignment explanation
Indices: 67665--67707 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
67655 ATTTTTGTTT
* *
67665 TTCTCCTTTCTCTTTGTCCCTC
1 TTCTCCTTCCTCTTTGCCCCTC
67687 TTCTCCTTCCTTCTTT-CCCCT
1 TTCTCCTTCC-TCTTTGCCCCT
67708 TCAATTAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.00, C:0.44, G:0.02, T:0.53
Consensus pattern (22 bp):
TTCTCCTTCCTCTTTGCCCCTC
Found at i:71317 original size:93 final size:93
Alignment explanation
Indices: 71184--71367 Score: 341
Period size: 93 Copynumber: 2.0 Consensus size: 93
71174 ATTTTGGTAG
* *
71184 AGTACGCTAAGCTAGATAGATCTTTTTTGTCAAGATTGAAGAAGGACTTCTGTTTTCTTTCAGGA
1 AGTACGCTAAGCTAGATAGATCATTTTTGTCAAGATTGAAGAAGGACTCCTGTTTTCTTTCAGGA
*
71249 CAAATGTTTCTCTATAAAACAACTATAA
66 CAAATGTTTCTCCATAAAACAACTATAA
71277 AGTACGCTAAGCTAGATAGATCATTTTTGTCAAGATTGAAGAAGGACTCCTGTTTTCTTTCAGGA
1 AGTACGCTAAGCTAGATAGATCATTTTTGTCAAGATTGAAGAAGGACTCCTGTTTTCTTTCAGGA
71342 CAAATGTTTCTCCATAAAACAACTAT
66 CAAATGTTTCTCCATAAAACAACTAT
71368 GTAAACTGGC
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 88 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (93 bp):
AGTACGCTAAGCTAGATAGATCATTTTTGTCAAGATTGAAGAAGGACTCCTGTTTTCTTTCAGGA
CAAATGTTTCTCCATAAAACAACTATAA
Found at i:71464 original size:16 final size:16
Alignment explanation
Indices: 71440--71472 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
71430 GCAATACAAC
*
71440 TTTCCCCCAAGTCCTG
1 TTTCACCCAAGTCCTG
71456 TTTCACCCAAGTCCTG
1 TTTCACCCAAGTCCTG
71472 T
1 T
71473 AGACAAGGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.39, G:0.12, T:0.33
Consensus pattern (16 bp):
TTTCACCCAAGTCCTG
Found at i:73012 original size:36 final size:36
Alignment explanation
Indices: 72972--73058 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 36
72962 TTTAATCAAT
* **
72972 ATTTAAATATATTTTTTAAATTTT-TAATTTTTAATA
1 ATTT-AATATATTTTTTAAATTTTAAAATTTAAAATA
*
73008 ATTTAATAT-TTTTATTAAGTTTTAAAATTTAAAATA
1 ATTTAATATATTTT-TTAAATTTTAAAATTTAAAATA
*
73044 ATTTAACATATTTTT
1 ATTTAATATATTTTT
73059 AATATTTACA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
34 4 0.09
35 13 0.30
36 22 0.51
37 4 0.09
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (36 bp):
ATTTAATATATTTTTTAAATTTTAAAATTTAAAATA
Found at i:73037 original size:19 final size:17
Alignment explanation
Indices: 72997--73066 Score: 61
Period size: 19 Copynumber: 3.9 Consensus size: 17
72987 TTAAATTTTT
72997 AATTTTTAATAATTTAA
1 AATTTTTAATAATTTAA
* *
73014 TATTTTTATTAAGTTTTAA
1 AATTTTTAATAA--TTTAA
**
73033 AATTTAAAATAATTTAA
1 AATTTTTAATAATTTAA
73050 CATATTTTTAAT-ATTTA
1 -A-ATTTTTAATAATTTA
73067 CACTATAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
17 15 0.37
18 6 0.15
19 20 0.49
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (17 bp):
AATTTTTAATAATTTAA
Found at i:75038 original size:18 final size:18
Alignment explanation
Indices: 75001--75038 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
74991 TAACATGTCA
*
75001 AAAAAATTTTAATAATTT
1 AAAAAATTTTAATAAATT
75019 AAAAAA-TTTAATGAAATT
1 AAAAAATTTTAAT-AAATT
75037 AA
1 AA
75039 CAATAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
AAAAAATTTTAATAAATT
Found at i:75144 original size:23 final size:24
Alignment explanation
Indices: 75095--75144 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
75085 AATGATATTT
*
75095 TAAA-AATTAAAATATCATAATAA
1 TAAATAATAAAAATATCATAATAA
*
75118 -AAATAATAAAAATAT-ATATTAA
1 TAAATAATAAAAATATCATAATAA
75140 TAAAT
1 TAAAT
75145 TTATTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
TAAATAATAAAAATATCATAATAA
Found at i:77380 original size:21 final size:20
Alignment explanation
Indices: 77350--77388 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
77340 CACATTTTTG
77350 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
77370 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
77389 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:77471 original size:19 final size:19
Alignment explanation
Indices: 77447--77507 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
77437 AAATAGTAAC
77447 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
77466 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
77479 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
77498 TGTATCGATA
1 TGTATCGATA
77508 TAATGTATCG
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.31
15 2 0.06
17 2 0.06
19 21 0.58
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:77484 original size:13 final size:13
Alignment explanation
Indices: 77466--77490 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77456 ACATAAGTGT
77466 TGTATCGATACAA
1 TGTATCGATACAA
77479 TGTATCGATACA
1 TGTATCGATACA
77491 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:77488 original size:32 final size:32
Alignment explanation
Indices: 77447--77522 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
77437 AAATAGTAAC
77447 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
77479 TGTATCGATACATAAGTGTTGTATCGATATAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
77511 TGTATCGCTACA
1 TGTATCGATACA
77523 AAGCTACTGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:77579 original size:13 final size:13
Alignment explanation
Indices: 77561--77588 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
77551 CATTACTCAA
77561 TGTATCGATACAT
1 TGTATCGATACAT
77574 TGTATCGATACAT
1 TGTATCGATACAT
77587 TG
1 TG
77589 ATCTTTGTAT
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:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:77583 original size:33 final size:33
Alignment explanation
Indices: 77541--77606 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
77531 GCCAAGGAAA
77541 TGTATCGATACATT-ACTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
77574 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
77607 CTGGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:79532 original size:20 final size:21
Alignment explanation
Indices: 79507--79559 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
79497 TACAAGCCAA
* *
79507 TGTATCGATACAAT-TTTTTG
1 TGTATCGATACAATACTTTGG
79527 TGTATCGATAC-ATACTTTGG
1 TGTATCGATACAATACTTTGG
79547 TGTATCGATACAA
1 TGTATCGATACAA
79560 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.90
21 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (21 bp):
TGTATCGATACAATACTTTGG
Found at i:79564 original size:19 final size:19
Alignment explanation
Indices: 79507--79565 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
79497 TACAAGCCAA
* *
79507 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA-CTTTGG
79527 TGTATCGATACATACTTTGG
1 TGTATCGATACA-ACTTTGG
*
79547 TGTATCGATACAAGTTTGG
1 TGTATCGATACAACTTTGG
79566 CTACTGCCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.17
20 28 0.80
21 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.42
Consensus pattern (19 bp):
TGTATCGATACAACTTTGG
Found at i:81589 original size:21 final size:20
Alignment explanation
Indices: 81560--81602 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
81550 GACTAGTGTG
* *
81560 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
81581 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
81601 GG
1 GG
81603 TGGTGTTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:82054 original size:13 final size:13
Alignment explanation
Indices: 82036--82072 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
82026 TAATCCCCCG
*
82036 GTATCGATATAGT
1 GTATCGATACAGT
*
82049 GTATCGATACATT
1 GTATCGATACAGT
82062 GTATCGATACA
1 GTATCGATACA
82073 AAGAAAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (13 bp):
GTATCGATACAGT
Found at i:84173 original size:15 final size:15
Alignment explanation
Indices: 84153--84183 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
84143 ATTTCGTTTG
*
84153 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
84168 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
84183 G
1 G
84184 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:85400 original size:21 final size:21
Alignment explanation
Indices: 85367--85407 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
85357 CTAAGTAAAA
85367 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
85388 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
85408 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:85472 original size:20 final size:19
Alignment explanation
Indices: 85447--85517 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
85437 ACCCTGAAAA
85447 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
85467 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
85486 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
85507 GTATCGATACA
1 GTATCGATACA
85518 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:85570 original size:53 final size:53
Alignment explanation
Indices: 85487--85623 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
85477 AAATTGCATA
85487 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
85541 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
85594 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
85624 TTGGAAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:85666 original size:10 final size:10
Alignment explanation
Indices: 85647--85677 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
85637 AATCTCATTT
85647 TCACTGTTCA
1 TCACTGTTCA
*
85657 TCACTATTCA
1 TCACTGTTCA
85667 TCACTGTTCA
1 TCACTGTTCA
85677 T
1 T
85678 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:85699 original size:21 final size:21
Alignment explanation
Indices: 85665--85716 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 21
85655 CATCACTATT
85665 CATCACTGTTCATGTATCGATA
1 CATCACT-TTCATGTATCGATA
85687 CATCACTTTCATGTATCGATA
1 CATCACTTTCATGTATCGATA
85708 CATCACTTT
1 CATCACTTT
85717 TCATAGGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (21 bp):
CATCACTTTCATGTATCGATA
Found at i:90303 original size:13 final size:13
Alignment explanation
Indices: 90285--90309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90275 TTTTCCAGAT
90285 TGTATCGATACAA
1 TGTATCGATACAA
90298 TGTATCGATACA
1 TGTATCGATACA
90310 TTACTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:91970 original size:21 final size:21
Alignment explanation
Indices: 91937--91977 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
91927 CTAAGTAAAA
91937 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
91958 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
91978 CAAGGTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:92042 original size:20 final size:19
Alignment explanation
Indices: 92017--92087 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
92007 ACCCTGAAAA
92017 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
92037 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
92056 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
92077 GTATCGATACA
1 GTATCGATACA
92088 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:92140 original size:53 final size:53
Alignment explanation
Indices: 92057--92193 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
92047 AAATTGCATA
92057 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
92111 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
92164 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
92194 TTGGAAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:92236 original size:10 final size:10
Alignment explanation
Indices: 92217--92247 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
92207 AATCTCATTT
92217 TCACTGTTCA
1 TCACTGTTCA
*
92227 TCACTATTCA
1 TCACTGTTCA
92237 TCACTGTTCA
1 TCACTGTTCA
92247 T
1 T
92248 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:92269 original size:21 final size:21
Alignment explanation
Indices: 92235--92286 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 21
92225 CATCACTATT
92235 CATCACTGTTCATGTATCGATA
1 CATCACT-TTCATGTATCGATA
92257 CATCACTTTCATGTATCGATA
1 CATCACTTTCATGTATCGATA
92278 CATCACTTT
1 CATCACTTT
92287 TCATAGGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (21 bp):
CATCACTTTCATGTATCGATA
Found at i:96873 original size:13 final size:13
Alignment explanation
Indices: 96855--96879 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96845 TTTTCCAGAT
96855 TGTATCGATACAA
1 TGTATCGATACAA
96868 TGTATCGATACA
1 TGTATCGATACA
96880 TTACTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:98541 original size:21 final size:21
Alignment explanation
Indices: 98508--98548 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
98498 CTAAGTAAAA
98508 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
98529 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
98549 CAAGGTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:98613 original size:20 final size:19
Alignment explanation
Indices: 98588--98658 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
98578 ACCCTGAAAA
98588 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
98608 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
98627 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
98648 GTATCGATACA
1 GTATCGATACA
98659 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:98711 original size:53 final size:53
Alignment explanation
Indices: 98628--98764 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
98618 AAATTGCATA
98628 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
98682 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
98735 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
98765 TTGGAAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:98807 original size:10 final size:10
Alignment explanation
Indices: 98788--98818 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
98778 AATCTCATTT
98788 TCACTGTTCA
1 TCACTGTTCA
*
98798 TCACTATTCA
1 TCACTGTTCA
98808 TCACTGTTCA
1 TCACTGTTCA
98818 T
1 T
98819 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:98840 original size:21 final size:21
Alignment explanation
Indices: 98806--98857 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 21
98796 CATCACTATT
98806 CATCACTGTTCATGTATCGATA
1 CATCACT-TTCATGTATCGATA
98828 CATCACTTTCATGTATCGATA
1 CATCACTTTCATGTATCGATA
98849 CATCACTTT
1 CATCACTTT
98858 TCATAGGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (21 bp):
CATCACTTTCATGTATCGATA
Found at i:102868 original size:13 final size:13
Alignment explanation
Indices: 102850--102875 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102840 CAATTTTTTG
102850 TGTATCGATACAT
1 TGTATCGATACAT
102863 TGTATCGATACAT
1 TGTATCGATACAT
102876 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:102872 original size:33 final size:33
Alignment explanation
Indices: 102830--102894 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
102820 TACTGGCCAA
* *
102830 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
102863 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
102895 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:107304 original size:13 final size:13
Alignment explanation
Indices: 107286--107311 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107276 CAATTTTTTG
107286 TGTATCGATACAT
1 TGTATCGATACAT
107299 TGTATCGATACAT
1 TGTATCGATACAT
107312 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:107323 original size:32 final size:33
Alignment explanation
Indices: 107266--107329 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
107256 TACAAGCCAA
**
107266 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
107299 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
107330 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:107434 original size:20 final size:20
Alignment explanation
Indices: 107382--107436 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
107372 CATCTTTTTC
*
107382 ATGTATCGATACATTGCAAT
1 ATGTATCGATACTTTGCAAT
107402 ATGTATCGATACTTTG-AATT
1 ATGTATCGATACTTTGCAA-T
*
107422 GTGTATCGATACTTT
1 ATGTATCGATACTTT
107437 TAAGGGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACTTTGCAAT
Found at i:109462 original size:20 final size:20
Alignment explanation
Indices: 109410--109456 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
109400 GCCCGGTTGT
* *
109410 GACCTGGGAGTGCTGGTCGC
1 GACCTGGGAGTGCCGGTCAC
109430 GACCTGGGAGTGCCGGTCAC
1 GACCTGGGAGTGCCGGTCAC
109450 GACCTGG
1 GACCTGG
109457 TGGTGCTGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.13, C:0.28, G:0.43, T:0.17
Consensus pattern (20 bp):
GACCTGGGAGTGCCGGTCAC
Found at i:113929 original size:13 final size:13
Alignment explanation
Indices: 113911--113936 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
113901 CAATTTTTTG
113911 TGTATCGATACAT
1 TGTATCGATACAT
113924 TGTATCGATACAT
1 TGTATCGATACAT
113937 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:113948 original size:32 final size:33
Alignment explanation
Indices: 113891--113954 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
113881 TACAAGCCAA
**
113891 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
113924 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
113955 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:120962 original size:13 final size:13
Alignment explanation
Indices: 120944--120969 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
120934 ATTTTAAGCA
120944 TGTATCGATACAT
1 TGTATCGATACAT
120957 TGTATCGATACAT
1 TGTATCGATACAT
120970 CTACTGTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:121491 original size:21 final size:20
Alignment explanation
Indices: 121440--121515 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 20
121430 TAAAGGGGAG
* *
121440 AAAAGAAAGAAAAG-ATAGA
1 AAAAGAAAGAAAAGAAAAAA
* * *
121459 GAGAGAAAGAAAATAAAAGAA
1 AAAAGAAAGAAAAGAAAA-AA
*
121480 AAAAGAATGAAAAGAAAAAA
1 AAAAGAAAGAAAAGAAAAAA
* *
121500 ATAAGAGA-AAAAGAAA
1 AAAAGAAAGAAAAGAAA
121516 GAAAGAGAAA
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 19 0.44
20 9 0.21
21 15 0.35
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (20 bp):
AAAAGAAAGAAAAGAAAAAA
Found at i:121500 original size:29 final size:29
Alignment explanation
Indices: 121445--121526 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 29
121435 GGGAGAAAAG
* *
121445 AAAG-AAAAGATAGAGAGAGAAAGAAAATA
1 AAAGAAAAAGAAAGAAAGAGAAA-AAAATA
*
121474 AAAGAAAAAAGAATGAAA-AGAAAAAAATA
1 AAAG-AAAAAGAAAGAAAGAGAAAAAAATA
*
121503 AGAGAAAAAGAAAGAAAGAGAAAA
1 AAAGAAAAAGAAAGAAAGAGAAAA
121527 GAAGGGAAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 12 0.27
29 19 0.42
30 5 0.11
31 9 0.20
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (29 bp):
AAAGAAAAAGAAAGAAAGAGAAAAAAATA
Found at i:121523 original size:16 final size:16
Alignment explanation
Indices: 121474--121526 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 16
121464 AAAGAAAATA
*
121474 AAAGA-AAAAAGAATG
1 AAAGAGAAAAAGAAAG
121489 AAA-AG-AAAA-AAA-
1 AAAGAGAAAAAGAAAG
*
121501 TAAGAGAAAAAGAAAG
1 AAAGAGAAAAAGAAAG
121517 AAAGAGAAAA
1 AAAGAGAAAA
121527 GAAGGGAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
12 2 0.07
13 4 0.13
14 9 0.30
15 6 0.20
16 9 0.30
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (16 bp):
AAAGAGAAAAAGAAAG
Found at i:122658 original size:34 final size:35
Alignment explanation
Indices: 122620--122686 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
122610 CCTTACAACA
122620 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
122654 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
122687 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:123296 original size:22 final size:22
Alignment explanation
Indices: 123241--123296 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
123231 AGTAATAACG
123241 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
123263 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
123284 ATGAACAGTGATG
1 ATGAACAGTGATG
123297 AATAGGATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:124773 original size:13 final size:13
Alignment explanation
Indices: 124755--124780 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
124745 TACACAAAGT
124755 ATGTATCGATACA
1 ATGTATCGATACA
124768 ATGTATCGATACA
1 ATGTATCGATACA
124781 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:124778 original size:32 final size:33
Alignment explanation
Indices: 124737--124800 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
124727 GAGCCAAACT
**
124737 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
124769 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
124801 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:124863 original size:20 final size:20
Alignment explanation
Indices: 124835--124872 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
124825 CTATATTTTC
*
124835 AAATATGTATTGATACATCA
1 AAATATGTATCGATACATCA
*
124855 AAATTTGTATCGATACAT
1 AAATATGTATCGATACAT
124873 TCACACGGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (20 bp):
AAATATGTATCGATACATCA
Found at i:125835 original size:13 final size:13
Alignment explanation
Indices: 125817--125842 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
125807 CAATTTTTTG
125817 TGTATCGATACAT
1 TGTATCGATACAT
125830 TGTATCGATACAT
1 TGTATCGATACAT
125843 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:125854 original size:32 final size:33
Alignment explanation
Indices: 125797--125860 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
125787 TGCAAGCCAA
**
125797 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
125830 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
125861 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:127678 original size:40 final size:40
Alignment explanation
Indices: 127623--127699 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
127613 TATATCAAAA
127623 CCAAGATTAATTTGAGAATAACATAATTGGCTAGGTCTCC
1 CCAAGATTAATTTGAGAATAACATAATTGGCTAGGTCTCC
*
127663 CCAAGATTCATTTGAGAATAACATAATTGGCTAGGTC
1 CCAAGATTAATTTGAGAATAACATAATTGGCTAGGTC
127700 CCCTCTTCCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (40 bp):
CCAAGATTAATTTGAGAATAACATAATTGGCTAGGTCTCC
Found at i:128347 original size:2 final size:2
Alignment explanation
Indices: 128342--128370 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
128332 TCTTTCTTTC
128342 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
128371 TAGAAAAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:136493 original size:18 final size:17
Alignment explanation
Indices: 136472--136528 Score: 62
Period size: 16 Copynumber: 3.3 Consensus size: 17
136462 GGTCCTTCGT
136472 AAAAAAAAGAAAAAAAAG
1 AAAAAAAA-AAAAAAAAG
* *
136490 AAAAAAACAACAAAAA-
1 AAAAAAAAAAAAAAAAG
*
136506 AAAAAAAAAAAACAAAG
1 AAAAAAAAAAAAAAAAG
136523 CAAAAA
1 -AAAAA
136529 GGAAGAAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
16 13 0.41
17 7 0.22
18 12 0.38
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAG
Found at i:136528 original size:1 final size:1
Alignment explanation
Indices: 136472--136517 Score: 56
Period size: 1 Copynumber: 46.0 Consensus size: 1
136462 GGTCCTTCGT
* * * *
136472 AAAAAAAAGAAAAAAAAGAAAAAAACAACAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
136518 CAAAGCAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.91, C:0.04, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:141517 original size:51 final size:52
Alignment explanation
Indices: 141454--141622 Score: 186
Period size: 53 Copynumber: 3.3 Consensus size: 52
141444 GAAATAACGA
*
141454 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTG-AAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGAAAATAAAATCGG
** * * * *
141505 AATTGGAGTATCCCCGATTAAAG-GAGAAATTGGT-GTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT---GTGAAAAATTGGTATTTTTGAAAATAAAATCGG
* * *
141558 GGTTGGAGTATCCCCGATTATGAAAAATT-G-ATATTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGAAAATAAAATCGG
141608 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
141623 TCAGAAATAA
Statistics
Matches: 96, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
50 30 0.31
51 23 0.24
52 4 0.04
53 38 0.40
54 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGAAAATAAAATCGG
Found at i:141668 original size:27 final size:28
Alignment explanation
Indices: 141605--141680 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
141595 AAAATAAAGT
*
141605 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
141633 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
141660 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
141681 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:144165 original size:13 final size:13
Alignment explanation
Indices: 144147--144172 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
144137 ACAAAGATCC
144147 ATGTATCGATACA
1 ATGTATCGATACA
144160 ATGTATCGATACA
1 ATGTATCGATACA
144173 CAGAAAAATG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:144168 original size:33 final size:33
Alignment explanation
Indices: 144126--144192 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
144116 AAAATTTCCA
***
144126 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
144159 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
144192 A
1 A
144193 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:144236 original size:19 final size:18
Alignment explanation
Indices: 144212--144279 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
144202 CAGTAGCTAA
144212 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
144231 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
144246 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
144263 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
144280 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:144252 original size:13 final size:13
Alignment explanation
Indices: 144234--144258 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
144224 ACAATACTTA
144234 TGTATCGATACAT
1 TGTATCGATACAT
144247 TGTATCGATACA
1 TGTATCGATACA
144259 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:144256 original size:32 final size:32
Alignment explanation
Indices: 144215--144277 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
144205 TAGCTAATTA
*
144215 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
144247 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
144278 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:144359 original size:21 final size:21
Alignment explanation
Indices: 144335--144391 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
144325 CATTTGTAGG
144335 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
144356 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
144377 ATGTATCGATACATT
1 ATGTATCGATACATT
144392 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:145778 original size:19 final size:19
Alignment explanation
Indices: 145754--145807 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
145744 TTCCTTTTTG
145754 TTTTGTTTTTTTTTTATTT
1 TTTTGTTTTTTTTTTATTT
* *
145773 TTTTGTTGTTTTTTTCTTT
1 TTTTGTTTTTTTTTTATTT
145792 TTTT-TCTTTTTTTTTA
1 TTTTGT-TTTTTTTTTA
145808 CGAAGGACCC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 1 0.03
19 29 0.97
ACGTcount: A:0.04, C:0.04, G:0.06, T:0.87
Consensus pattern (19 bp):
TTTTGTTTTTTTTTTATTT
Found at i:145792 original size:27 final size:28
Alignment explanation
Indices: 145751--145804 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
145741 TTCTTCCTTT
145751 TTGTTTTG-TTTTTTTTTTATTTTTTTG
1 TTGTTTTGTTTTTTTTTTTATTTTTTTG
*
145778 TTGTTTT-TTTCTTTTTTTTCTTTTTTT
1 TTGTTTTGTTT-TTTTTTTTATTTTTTT
145805 TTACGAAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.02, C:0.04, G:0.07, T:0.87
Consensus pattern (28 bp):
TTGTTTTGTTTTTTTTTTTATTTTTTTG
Found at i:145823 original size:1 final size:1
Alignment explanation
Indices: 145748--145806 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
145738 CCTTTCTTCC
* * * * * * *
145748 TTTTTGTTTTGTTTTTTTTTTATTTTTTTGTTGTTTTTTTCTTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
145807 ACGAAGGACC
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.02, C:0.03, G:0.07, T:0.88
Consensus pattern (1 bp):
T
Done.