Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2324
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: 67163
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Found at i:6403 original size:18 final size:17
Alignment explanation
Indices: 6377--6413 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
6367 TCCAAAAAAG
6377 AAAAAAAAAAGAAGAAGA
1 AAAAAAAAAAG-AGAAGA
6395 AACAAAAAAAAGAGAAGA
1 AA-AAAAAAAAGAGAAGA
6413 A
1 A
6414 GAAGGGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAGAGAAGA
Found at i:6424 original size:21 final size:21
Alignment explanation
Indices: 6377--6416 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6367 TCCAAAAAAG
6377 AAAAAAAAAAGAAGAAGAAAC
1 AAAAAAAAAAGAAGAAGAAAC
*
6398 AAAAAAAAGAGAAGAAGAA
1 AAAAAAAAAAGAAGAAGAA
6417 GGGAAAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAGAAGAAGAAAC
Found at i:7400 original size:31 final size:31
Alignment explanation
Indices: 7358--7690 Score: 372
Period size: 31 Copynumber: 10.7 Consensus size: 31
7348 TACCTTTTTT
*
7358 AAAGTCCATGACTCAGTGGAAATCTCTTCTC
1 AAAGTCCATGACTCAGTGGCAATCTCTTCTC
*
7389 AAAGTCAATGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCATGACTCAGTGGCAATCTCTTCTC
*
7420 AAAGTCCATAACTCAGTGGCAATCTCTTCTC
1 AAAGTCCATGACTCAGTGGCAATCTCTTCTC
* *
7451 AAAGTCCACGACTCAGTGGC-ATCCTTTTCTTC
1 AAAGTCCATGACTCAGTGGCAAT-CTCTTC-TC
*
7483 AAAGTCCATGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCATGACTCAGTGGCAATCTCTTCTC
* * *
7514 GAAGT-CATGACTCAGTGGCATTCTTTTCTTC
1 AAAGTCCATGACTCAGTGGCAATCTCTTC-TC
* *
7545 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCATGACTCAGTGGCAATCTCTTCTC
* * *
7576 AAAGTCCACGACTCAGTGGCATTCTTTTCTTC
1 AAAGTCCATGACTCAGTGGCAATCTCTTC-TC
* *
7608 AAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 AAAGTCCATGACTCAGTGGCAATCTCT-TCTC
* * *
7638 AAATTCCACT-ACTCAGTGGC-ATCCTTTTCTTT
1 AAAGTCCA-TGACTCAGTGGCAAT-CTCTTC-TC
*
7670 AAAGTCCACGACTCAGTGGCA
1 AAAGTCCATGACTCAGTGGCA
7691 TTTTTCTTCC
Statistics
Matches: 261, Mismatches: 28, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
30 46 0.18
31 126 0.48
32 87 0.33
33 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (31 bp):
AAAGTCCATGACTCAGTGGCAATCTCTTCTC
Found at i:7435 original size:62 final size:63
Alignment explanation
Indices: 7351--7690 Score: 435
Period size: 62 Copynumber: 5.5 Consensus size: 63
7341 CTTCAAATAC
* * * *
7351 CTTTT-TT-AAAGTCCATGACTCAGTGGAAATCTCTTCTCAAAGTCAATGACTCAGTGGCAAT
1 CTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCAAT
* * *
7412 CTCTTC-TCAAAGTCCATAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGC-AT
1 CTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCAAT
* * *
7473 CCTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTGCTCGAAGT-CATGACTCAGTGGCATT
1 -CTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCAAT
* *
7536 CTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCATT
1 CTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCAAT
* * * *
7599 CTTTTCTTCAAAGTCCACGACTCAGTGGC-AT-TTTGTCTCAAATTCCACTACTCAGTGGC-AT
1 CTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTG-CTCAAAGTCCACGACTCAGTGGCAAT
* *
7660 CCTTTTCTTTAAAGTCCACGACTCAGTGGCA
1 -CTTTTCTTCAAAGTCCATGACTCAGTGGCA
7691 TTTTTCTTCC
Statistics
Matches: 251, Mismatches: 19, Indels: 16
0.88 0.07 0.06
Matches are distributed among these distances:
61 11 0.04
62 159 0.63
63 81 0.32
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (63 bp):
CTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCAAT
Found at i:7547 original size:125 final size:125
Alignment explanation
Indices: 7350--7690 Score: 478
Period size: 125 Copynumber: 2.7 Consensus size: 125
7340 TCTTCAAATA
* * *
7350 CCTTTT-TT-AAAGTCCATGACTCAGTGGAAATCTCTTCTCAAAGTCAATGACTCAGTGGCAATC
1 CCTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTGCTCAAAGTC-ATGACTCAGTGGCATTC
* ** *
7413 TCTTC-TCAAAGTCCATAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAT
65 TTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCAT
*
7473 CCTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTGCTCGAAGTCATGACTCAGTGGCATTCT
1 CCTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTGCTCAAAGTCATGACTCAGTGGCATTCT
7538 TTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCAT
66 TTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCAT
* * * *
7598 TCTTTTCTTCAAAGTCCACGACTCAGTGGC-AT-TTTGTCTCAAATTCCACT-ACTCAGTGGCAT
1 CCTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTG-CTCAAAGT-CA-TGACTCAGTGGCAT
* *
7660 CCTTTTCTTTAAAGTCCACGACTCAGTGGCA
63 TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
7691 TTTTTCTTCC
Statistics
Matches: 197, Mismatches: 15, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
123 9 0.05
124 30 0.15
125 157 0.80
126 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (125 bp):
CCTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTGCTCAAAGTCATGACTCAGTGGCATTCT
TTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCAT
Found at i:7719 original size:62 final size:62
Alignment explanation
Indices: 7355--7890 Score: 340
Period size: 62 Copynumber: 8.4 Consensus size: 62
7345 AAATACCTTT
* * * * ** *
7355 TTTAAAGTCCATGACTCAGTGGAAATCTCTTC-TCAAAGTCAATGACTCAGTGGCAAT-CTCTTC
1 TTTAAAGTCCACGACTCAGTGG-CAT-TTTTCTTCAAAGTCCACAACTCAGTGGC-ATCCTTTTC
* ** * *
7418 -TCAAAGTCCATAACTCAGTGGCAATCTCTTC-TCAAAGTCCACGACTCAGTGGCATCCTTTTC
1 TTTAAAGTCCACGACTCAGTGGC-AT-TTTTCTTCAAAGTCCACAACTCAGTGGCATCCTTTTC
* * * * * ** *
7480 TTCAAAGTCCATGACTCAGTGGCA-ATCTCTGCTCGAAGT-CATGACTCAGTGGCATTCTTTTC
1 TTTAAAGTCCACGACTCAGTGGCATTTTTCT--TCAAAGTCCACAACTCAGTGGCATCCTTTTC
* * * * *
7542 TTCAAAGTCCACGACTCAGTGGCA-ATCTCTGCTCAAAGTCCACGACTCAGTGGCATTCTTTTC
1 TTTAAAGTCCACGACTCAGTGGCATTTTTCT--TCAAAGTCCACAACTCAGTGGCATCCTTTTC
* * *
7605 TTCAAAGTCCACGACTCAGTGGCATTTTGTC-TCAAATTCCACTACTCAGTGGCATCCTTTTC
1 TTTAAAGTCCACGACTCAGTGGCATTTT-TCTTCAAAGTCCACAACTCAGTGGCATCCTTTTC
* * *
7667 TTTAAAGTCCACGACTCAGTGGCATTTTTCTTCCAAGCCCACAACTCCGTGGCA-CTCTTTTCC
1 TTTAAAGTCCACGACTCAGTGGCATTTTTCTTCAAAGTCCACAACTCAGTGGCATC-CTTTT-C
* * * * *
7730 TTCT-AAGTCCACAACTCCGTGGCACTCTTTTCCCCTTTTAAAGTCCACAACCCCGTGGCA-CCT
1 TT-TAAAGTCCACGACTCAGTGGCA-T-TTTT---C-TTCAAAGTCCACAACTCAGTGGCATCCT
7793 TGTTCC
59 T-TT-C
* * * * * *
7799 TTTTAAGTCCACGACTCCGTGGCACCTTCTT-TTCAAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TTTAAAGTCCACGACTCAGTGGCA--TTTTTCTTC-AAAGTCCACAACTCAGTGGCA-TCCTTTT
7863 CCC
62 --C
* *
7866 TTTCAAAGTCCACAACTCTGTGGCA
1 TTT-AAAGTCCACGACTCAGTGGCA
7891 CTCTTTTTCC
Statistics
Matches: 404, Mismatches: 42, Indels: 49
0.82 0.08 0.10
Matches are distributed among these distances:
60 2 0.00
61 5 0.01
62 189 0.47
63 94 0.23
64 5 0.01
65 25 0.06
66 2 0.00
67 8 0.02
68 23 0.06
69 49 0.12
70 2 0.00
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (62 bp):
TTTAAAGTCCACGACTCAGTGGCATTTTTCTTCAAAGTCCACAACTCAGTGGCATCCTTTTC
Found at i:7738 original size:125 final size:125
Alignment explanation
Indices: 7351--7896 Score: 413
Period size: 125 Copynumber: 4.3 Consensus size: 125
7341 CTTCAAATAC
** * * *
7351 CTTTT-TT-AAAGTCCATGACTCAGTGGAAATCTCT-TCTCAAAGT-CAATGACTCAGTGGCAAT
1 CTTTTCTTCAAAGTCCACAACTCAGTGG-CATCTTTGTCTCAAAGTCCACT-ACTCAGTGGC-AT
* ** * *
7412 -CTCTTC-TCAAAGTCCATAACTCAGTGGCAATCTCTTC-TCAAAGTCCACGACTCAGTGGCA-T
63 CCTTTTCTTCAAAGTCCACGACTCAGTGGC-AT-TCTTCTTCAAAGCCCACAACTCAGTGGCACT
** * *
7473 CCTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTG-CTCGAAGT-CA-TGACTCAGTGGCAT
1 -CTTTTCTTCAAAGTCCACAACTCAGTGGC-ATCTTTGTCTCAAAGTCCACT-ACTCAGTGGCAT
* * * * *
7535 TCTTTTCTTCAAAGTCCACGACTCAGTGGCAATC-TCTGCTCAAAGTCCACGACTCAGTGGCATT
63 CCTTTTCTTCAAAGTCCACGACTCAGTGGCATTCTTCT--TCAAAGCCCACAACTCAGTGGCACT
* *
7599 CTTTTCTTCAAAGTCCACGACTCAGTGGCAT-TTTGTCTCAAATTCCACTACTCAGTGGCATCCT
1 CTTTTCTTCAAAGTCCACAACTCAGTGGCATCTTTGTCTCAAAGTCCACTACTCAGTGGCATCCT
* * * *
7663 TTTCTTTAAAGTCCACGACTCAGTGGCATTTTTCTTCCAAGCCCACAACTCCGTGGCACT
66 TTTCTTCAAAGTCCACGACTCAGTGGCATTCTTCTTCAAAGCCCACAACTCAGTGGCACT
* * * * * *
7723 CTTTTCCTTCTAAGTCCACAACTCCGTGGCACTCTTT-TCCCCTTTTAAAGTCCACAACCCCGTG
1 CTTTT-CTTCAAAGTCCACAACTCAGTGGCA-TCTTTGT---C--TCAAAGTCCACTACTCAGTG
** * *
7787 GCA-CCTTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTT-TTCAAAAGCCCACAACTCCG
59 GCATCCTT-TT-CTTCAAAGTCCACGACTCAGTGGCA--TTCTTCTTC-AAAGCCCACAACTCAG
7850 TGGCACT
119 TGGCACT
*
7857 CTTTTTCCCTTTCAAAGTCCACAACTCTGTGGCACTCTTT
1 C-TTTT--C-TTCAAAGTCCACAACTCAGTGGCA-TCTTT
7897 TTCCCTTTTT
Statistics
Matches: 360, Mismatches: 33, Indels: 46
0.82 0.08 0.10
Matches are distributed among these distances:
122 2 0.01
123 12 0.03
124 53 0.15
125 171 0.47
126 7 0.02
127 3 0.01
129 1 0.00
130 4 0.01
131 20 0.06
132 23 0.06
133 3 0.01
134 27 0.08
135 4 0.01
136 2 0.01
137 28 0.08
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.32
Consensus pattern (125 bp):
CTTTTCTTCAAAGTCCACAACTCAGTGGCATCTTTGTCTCAAAGTCCACTACTCAGTGGCATCCT
TTTCTTCAAAGTCCACGACTCAGTGGCATTCTTCTTCAAAGCCCACAACTCAGTGGCACT
Found at i:7786 original size:36 final size:33
Alignment explanation
Indices: 7642--8058 Score: 305
Period size: 36 Copynumber: 12.6 Consensus size: 33
7632 TGTCTCAAAT
* *
7642 TCCACTACTCAGTGGCATCCTTTT-C-TTTAAAG
1 TCCACAACTCCGTGGCA-CCTTTTCCTTTTAAAG
* * * **
7674 TCCACGACTCAGTGGCA--TTTTTC-TTCCAAG
1 TCCACAACTCCGTGGCACCTTTTCCTTTTAAAG
* *
7704 CCCACAACTCCGTGGCACTCTTTTCCTTCT-AAG
1 TCCACAACTCCGTGGCAC-CTTTTCCTTTTAAAG
7737 TCCACAACTCCGTGGCACTCTTTTCCCCTTTTAAAG
1 TCCACAACTCCGTGGCAC-CTTTT--CCTTTTAAAG
*
7773 TCCACAACCCCGTGGCACCTTGTTCCTTTT-AAG
1 TCCACAACTCCGTGGCACCTT-TTCCTTTTAAAG
*
7806 TCCACGACTCCGTGGCACC--TT-CTTTTCAAAAG
1 TCCACAACTCCGTGGCACCTTTTCCTTTT--AAAG
* *
7838 CCCACAACTCCGTGGCACTCTTTTTCCCTTTCAAAG
1 TCCACAACTCCGTGGCAC-C-TTTT-CCTTTTAAAG
* *
7874 TCCACAACTCTGTGGCACTCTTTTTCCCTTTTTAAG
1 TCCACAACTCCGTGGCAC-C-TTTT-CCTTTTAAAG
* * *
7910 TCCATAATTCGGTGGCA-C----CCTTTT-AAG
1 TCCACAACTCCGTGGCACCTTTTCCTTTTAAAG
* * *
7937 TCCACGACTCCGTGGCACCTTAT--TTTCAAAG
1 TCCACAACTCCGTGGCACCTTTTCCTTTTAAAG
* *
7968 CCCACAACTCCGTGGCACTTTTTTTCCCTTTTAAAG
1 TCCACAACTCCGTGGCAC--CTTTT-CCTTTTAAAG
*
8004 TCCACAACTTCGTGGCACCTTGTTCCTTTT-AAG
1 TCCACAACTCCGTGGCACCTT-TTCCTTTTAAAG
*
8037 TCCACAACTTCGTGGCATCCTT
1 TCCACAACTCCGTGGCA-CCTT
8059 CACCCTCTCA
Statistics
Matches: 317, Mismatches: 37, Indels: 60
0.77 0.09 0.14
Matches are distributed among these distances:
27 16 0.05
28 7 0.02
29 9 0.03
30 25 0.08
31 19 0.06
32 35 0.11
33 75 0.24
34 20 0.06
35 10 0.03
36 97 0.31
38 4 0.01
ACGTcount: A:0.20, C:0.33, G:0.14, T:0.33
Consensus pattern (33 bp):
TCCACAACTCCGTGGCACCTTTTCCTTTTAAAG
Found at i:7951 original size:27 final size:27
Alignment explanation
Indices: 7903--7985 Score: 76
Period size: 27 Copynumber: 2.9 Consensus size: 27
7893 CTTTTTCCCT
* * *
7903 TTTTAAGTCCATAATTCGGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
7930 TTTTAAGTCCACGACTCCGTGGCACCTTA
1 TTTTAAGTCCACAACTCCGTGGCACC--C
*
7959 TTTTCAAAGCCCACAACTCCGTGGCAC
1 TTTT--AAGTCCACAACTCCGTGGCAC
7986 TTTTTTTCCC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
27 22 0.49
29 4 0.09
31 19 0.42
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCC
Found at i:8100 original size:32 final size:32
Alignment explanation
Indices: 8064--8264 Score: 284
Period size: 32 Copynumber: 6.4 Consensus size: 32
8054 TCCTTCACCC
*
8064 TCTCAAAGCCCACACAAGTTGGTGGCAACCAT
1 TCTCAAAGCCCACACAAGTCGGTGGCAACCAT
*
8096 TCTCAAAGCCCACACAAGTCGGTGGCAACC-C
1 TCTCAAAGCCCACACAAGTCGGTGGCAACCAT
* * *
8127 TCTCAAAGCCCACATAGGTTGGTGGCAACCAT
1 TCTCAAAGCCCACACAAGTCGGTGGCAACCAT
*
8159 TCTCAAAGCCCACACAAGTCGGTGGCAACC-C
1 TCTCAAAGCCCACACAAGTCGGTGGCAACCAT
8190 TCTCAAAGCCCACACAAGTCGGTGGCAACCAT
1 TCTCAAAGCCCACACAAGTCGGTGGCAACCAT
* * *
8222 TTTCTAAAGCCCACACAAGTCAGTGGCAACCCT
1 TCTC-AAAGCCCACACAAGTCGGTGGCAACCAT
8255 TCT--AAGCCCA
1 TCTCAAAGCCCA
8265 ATATAGCTGG
Statistics
Matches: 151, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
30 7 0.05
31 57 0.38
32 59 0.39
33 28 0.19
ACGTcount: A:0.30, C:0.34, G:0.18, T:0.17
Consensus pattern (32 bp):
TCTCAAAGCCCACACAAGTCGGTGGCAACCAT
Found at i:8133 original size:63 final size:63
Alignment explanation
Indices: 8060--8264 Score: 340
Period size: 63 Copynumber: 3.3 Consensus size: 63
8050 GGCATCCTTC
8060 ACCCTCTCAAAGCCCACACAAGTTGGTGGCAACCATTCTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTCTCAAAGCCCACACAAGTTGGTGGCAACCATTCTCAAAGCCCACACAAGTCGGTGGCA
* *
8123 ACCCTCTCAAAGCCCACATAGGTTGGTGGCAACCATTCTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTCTCAAAGCCCACACAAGTTGGTGGCAACCATTCTCAAAGCCCACACAAGTCGGTGGCA
* * *
8186 ACCCTCTCAAAGCCCACACAAGTCGGTGGCAACCATTTTCTAAAGCCCACACAAGTCAGTGGCA
1 ACCCTCTCAAAGCCCACACAAGTTGGTGGCAACCATTCTC-AAAGCCCACACAAGTCGGTGGCA
*
8250 ACCCT-TCTAAGCCCA
1 ACCCTCTCAAAGCCCA
8265 ATATAGCTGG
Statistics
Matches: 133, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
63 106 0.80
64 27 0.20
ACGTcount: A:0.30, C:0.35, G:0.18, T:0.17
Consensus pattern (63 bp):
ACCCTCTCAAAGCCCACACAAGTTGGTGGCAACCATTCTCAAAGCCCACACAAGTCGGTGGCA
Found at i:8134 original size:31 final size:31
Alignment explanation
Indices: 8060--8264 Score: 277
Period size: 31 Copynumber: 6.5 Consensus size: 31
8050 GGCATCCTTC
*
8060 ACCCTCTCAAAGCCCACACAAGTTGGTGGCA
1 ACCCTCTCAAAGCCCACACAAGTCGGTGGCA
*
8091 ACCATTCTCAAAGCCCACACAAGTCGGTGGCA
1 ACC-CTCTCAAAGCCCACACAAGTCGGTGGCA
* * *
8123 ACCCTCTCAAAGCCCACATAGGTTGGTGGCA
1 ACCCTCTCAAAGCCCACACAAGTCGGTGGCA
*
8154 ACCATTCTCAAAGCCCACACAAGTCGGTGGCA
1 ACC-CTCTCAAAGCCCACACAAGTCGGTGGCA
8186 ACCCTCTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTCTCAAAGCCCACACAAGTCGGTGGCA
* * *
8217 ACCATTTTCTAAAGCCCACACAAGTCAGTGGCA
1 ACC-CTCTC-AAAGCCCACACAAGTCGGTGGCA
*
8250 ACCCT-TCTAAGCCCA
1 ACCCTCTCAAAGCCCA
8265 ATATAGCTGG
Statistics
Matches: 154, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
30 7 0.05
31 62 0.40
32 60 0.39
33 25 0.16
ACGTcount: A:0.30, C:0.35, G:0.18, T:0.17
Consensus pattern (31 bp):
ACCCTCTCAAAGCCCACACAAGTCGGTGGCA
Found at i:8315 original size:49 final size:48
Alignment explanation
Indices: 8257--8708 Score: 496
Period size: 43 Copynumber: 9.6 Consensus size: 48
8247 GCAACCCTTC
*
8257 TAAGCCCAATATAGCTGGCCTTGAATCAGCATCTTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCACCTTC-TCTT
*
8306 TAAGTCCAATGTAGCTGGCCTTGAATCAGCA-CATTGGCA----C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATC-TTGGCACCTTCTCTT
* *
8349 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCACCTTC-TCTT
*
8398 TAAGTCCAATATAGTTGGCCTTGAATCAGCA-CATTGGCA----C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATC-TTGGCACCTTCTCTT
*
8441 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCACCTTC-TCTT
* * *
8490 TAAGTCCAATGTAGCTGGCCTTGAATCAACA-CATTGGCACC--CT-TC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATC-TTGGCACCTTCTCTT
* *
8535 TAAGTCCAATATAGCTGGCTTTGAATCAGCATATTGGCACCTTCTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCACCTTCTCTT
* * *
8583 TATGTCCAATGTAGCTGGCCTTGAATCAGCACCTTGGCA----C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCACCTTCTCTT
* *
8626 TAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCACC--TT-C-TCTT
* * *
8678 TAAGTTCAATGTAGCTAGCCTTGAATCAGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCA
8709 CATTGACATC
Statistics
Matches: 340, Mismatches: 33, Indels: 57
0.79 0.08 0.13
Matches are distributed among these distances:
43 114 0.34
44 1 0.00
45 39 0.11
46 1 0.00
47 5 0.01
48 36 0.11
49 113 0.33
50 1 0.00
52 30 0.09
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (48 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCACCTTCTCTT
Found at i:8419 original size:92 final size:92
Alignment explanation
Indices: 8252--8713 Score: 746
Period size: 92 Copynumber: 5.0 Consensus size: 92
8242 CAGTGGCAAC
* *
8252 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATCTTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
8317 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* * *
8345 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
8410 AGTTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
8437 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
8502 AGCTGGCCTTGAATCAACACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
8529 CCCTTCTAAGTCCAATATAGCTGGCTTTGAATCAGCATATTGGCACCTTC-TCTTTATGTCCAAT
1 -CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
*
8593 GTAGCTGGCCTTGAATCAGCACCTTGGCA
64 GTAGCTGGCCTTGAATCAGCACATTGGCA
* *
8622 CCTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAA
*
8687 TGTAGCTAGCCTTGAATCAGCACATTG
63 TGTAGCTGGCCTTGAATCAGCACATTG
8714 ACATCTTTTT
Statistics
Matches: 342, Mismatches: 21, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
91 39 0.11
92 173 0.51
93 50 0.15
94 44 0.13
95 36 0.11
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:8760 original size:55 final size:54
Alignment explanation
Indices: 8623--8941 Score: 194
Period size: 49 Copynumber: 5.9 Consensus size: 54
8613 ACCTTGGCAC
*
8623 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCA-C-CTTTTCCAT
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCATCTTTTTTCCAT
* * * * * *
8675 CTTTAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTGACATCTTTTTTCTCAT
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCATCTTTTTTC-CAT
* * * *
8730 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCATC----T---TTTT-TC--C---
8795 AT
53 AT
* * * * *
8797 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C---CTT-CAT
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCATCTTTTTTCCAT
* * * * *
8846 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C---CTT-CAT
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCATCTTTTTTCCAT
* * * * *
8895 CTTTAAGTCTAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTT
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCATCTTT
8942 ATCTTTAAGT
Statistics
Matches: 222, Mismatches: 26, Indels: 37
0.78 0.09 0.13
Matches are distributed among these distances:
49 91 0.41
50 1 0.00
52 37 0.17
53 1 0.00
54 5 0.02
55 38 0.17
56 1 0.00
59 1 0.00
62 4 0.02
63 2 0.01
64 2 0.01
66 1 0.00
67 38 0.17
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCATCTTTTTTCCAT
Found at i:8863 original size:49 final size:49
Alignment explanation
Indices: 8791--8962 Score: 308
Period size: 49 Copynumber: 3.5 Consensus size: 49
8781 CTTTTCTCAT
8791 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
8840 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
* *
8889 CTTCATCTTTAAGTCTAATGTCGTTGGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
* *
8938 CTTTATCTTTAAGTCCAATATCGCT
1 CTTCATCTTTAAGTCCAATGTCGCT
8963 AGCCGCATAT
Statistics
Matches: 117, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 117 1.00
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.34
Consensus pattern (49 bp):
CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:8899 original size:122 final size:119
Alignment explanation
Indices: 8672--8887 Score: 285
Period size: 122 Copynumber: 1.8 Consensus size: 119
8662 GCACCTTTTC
* *
8672 CATCTTTAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTGACATCTTTTTTCTCATCTTTAAG
1 CATCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGACATC---TCTCTCATCTTTAAG
* *
8737 CCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTT
63 CCCAATATCGCTGGCCGTGAATCAACACATTGGCATCTTTATCACTTTTCTCATCTT
* * * *
8794 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-CT-TCATCTTTAAGTCC
1 CATCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGACATCTCTCTCATCTTTAAGCCC
* * *
8856 AATGTCGCTGGCCTTGAATCAGCACATTGGCA
66 AATATCGCTGGCCGTGAATCAACACATTGGCA
8888 CCTTCATCTT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
116 40 0.48
117 1 0.01
121 1 0.01
122 41 0.49
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.35
Consensus pattern (119 bp):
CATCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGACATCTCTCTCATCTTTAAGCCC
AATATCGCTGGCCGTGAATCAACACATTGGCATCTTTATCACTTTTCTCATCTT
Found at i:9302 original size:13 final size:13
Alignment explanation
Indices: 9284--9308 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9274 ATTACTAAAA
9284 TGTATCGATACAT
1 TGTATCGATACAT
9297 TGTATCGATACA
1 TGTATCGATACA
9309 CTGATCTTTG
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:9373 original size:52 final size:52
Alignment explanation
Indices: 9317--9445 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
9307 CACTGATCTT
*
9317 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
9369 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
9421 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
9446 TCATATTTTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:12713 original size:79 final size:75
Alignment explanation
Indices: 12525--12732 Score: 238
Period size: 79 Copynumber: 2.7 Consensus size: 75
12515 TTCTAAATAC
* * * *
12525 AGGGTTGGAGTACCCCCGATGATGAAAATTTTAATATTTTAGAAATAAAAACAGGGTTGGAGTAT
1 AGGGTTGGAGTATCCTCGA-GATGAAAATTTTAATATTTCA-AAATAAAAACAGAGTTGGAGTAT
* **
12590 CTCTTTAAAAAA
64 CCCTCGAAAAAA
* *
12602 ATGGGTTGAAGTATCCTCGAGATGAAAATTTTAATGTTTCAAAACTAAAAACAGAGTTGGAGTAT
1 A-GGGTTGGAGTATCCTCGAGATGAAAATTTTAATATTTCAAAA-TAAAAACAGAGTTGGAGTAT
*
12667 CCCCTCGACAATAGCA
64 -CCCTCGA-AA-A-AA
12683 A-GGTTGGAGTATCCTCGAGATGAAAATTTTAATATTTCAAAAATAAAAAC
1 AGGGTTGGAGTATCCTCGAGATGAAAATTTTAATATTTC-AAAATAAAAAC
12733 GGGGTTAGCG
Statistics
Matches: 112, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
76 3 0.03
77 39 0.35
78 19 0.17
79 44 0.39
80 5 0.04
81 2 0.02
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.29
Consensus pattern (75 bp):
AGGGTTGGAGTATCCTCGAGATGAAAATTTTAATATTTCAAAATAAAAACAGAGTTGGAGTATCC
CTCGAAAAAA
Found at i:12860 original size:35 final size:34
Alignment explanation
Indices: 12814--13104 Score: 251
Period size: 31 Copynumber: 8.7 Consensus size: 34
12804 CCGTGGACTT
* * * *
12814 AAAAGGGTGCCACCGAATTATGGACTTAAAAGGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAA-GGA
* *
12849 AAAAGAGTGCCACAGAGTTGTGGACTTTGAAAGGGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TT-AAAAGGA
* **
12885 AAAAGAGTG-CACGGAGTTGTGGGCTTTGAA--A
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
12916 AGAAG-GTGCCACGGAGTCGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
12949 ACAAG-GTGCCACGGGGTTGTGGACTTTAAAAGGGG
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAA-GGA
*
12984 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* **
13018 AAAAGAGTGCCACGGAGTTGTGGGCTTGGAA-GA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
13051 AAAA-A-TGCCACTGAGTCGTGGACTTTAAA-GA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
13082 AAAGGA-TGCCACTGAGTAGTGGA
1 AAAAGAGTGCCACGGAGTTGTGGA
13105 ATTTGAGACA
Statistics
Matches: 215, Mismatches: 32, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
30 3 0.01
31 46 0.21
32 18 0.08
33 29 0.13
34 39 0.18
35 45 0.21
36 32 0.15
37 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:13060 original size:134 final size:133
Alignment explanation
Indices: 12793--13093 Score: 377
Period size: 134 Copynumber: 2.3 Consensus size: 133
12783 TGAAAAAAGG
* ** *
12793 TGCCACGGAGTCCGTGGACTTAAAAG----GG-TGCCACCGAATTATGGACTTAAAAGGGAAAAA
1 TGCCACGGAGT-CGTGGACTTAAAAGAAAAGGATGCCACGGGGTTGTGGACTTAAAAGGGAAAAA
* *
12853 GAGTGCCACAGAGTTGTGGACTTTGAAAGGGAAAAAGAGTGCACGGAGTTGTGGGCTTTGAAAAG
65 GAGTGCCACAGAGTTGTGGACTTAGAAAGGGAAAAAGAGTGCACGGAGTTGTGGGCTTGGAAAAG
**
12918 AAGG
130 AAAA
*
12922 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGG-TGCCACGGGGTTGTGGACTTTAAAAGGGGAA
1 TGCCACGGAGTCGTGGACTTAAAA-GAA-AAGGATGCCACGGGGTTGTGGAC-TTAAAAGGGAAA
*
12986 AAGAGTGCCACGGAGTTGTGGACTTAG-AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTGGAA
63 AAGAGTGCCACAGAGTTGTGGACTTAGAAAGGGAAAAAGAGTG-CACGGAGTTGTGGGCTTGGAA
13049 GAA-AAAA
127 -AAGAAAA
* *
13056 TGCCACTGAGTCGTGGACTTTAAAGAAAAGGATGCCAC
1 TGCCACGGAGTCGTGGACTTAAAAGAAAAGGATGCCAC
13094 TGAGTAGTGG
Statistics
Matches: 150, Mismatches: 12, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
128 13 0.09
129 12 0.08
132 4 0.03
133 21 0.14
134 62 0.41
135 38 0.25
ACGTcount: A:0.33, C:0.15, G:0.34, T:0.19
Consensus pattern (133 bp):
TGCCACGGAGTCGTGGACTTAAAAGAAAAGGATGCCACGGGGTTGTGGACTTAAAAGGGAAAAAG
AGTGCCACAGAGTTGTGGACTTAGAAAGGGAAAAAGAGTGCACGGAGTTGTGGGCTTGGAAAAGA
AAA
Found at i:13082 original size:31 final size:30
Alignment explanation
Indices: 12991--13391 Score: 289
Period size: 31 Copynumber: 12.8 Consensus size: 30
12981 GGGAAAAGAG
* * *
12991 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
1 TGCCACTGAGTCGTGGACTT-TAA-GAAAAA-A
* * * *
13024 GTGCCACGGAGTTGTGGGCTTGGAAGAAAAAA
1 -TGCCACTGAGTCGTGGACTT-TAAGAAAAAA
*
13056 TGCCACTGAGTCGTGGACTTTAAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTT-AAGAAAA-AA
* * * *
13088 TGCCACTGAGTAGTGGAATTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAGAAAAAA
13118 TGCCACTGAGTCGTGGACTTTGAAGAAAAGAA
1 TGCCACTGAGTCGTGGACTTT-AAGAAAA-AA
* * * *
13150 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAG-AAAAAA
13181 TGCCACTGAGTCGTGGACTTTGAAGAAAAGAA
1 TGCCACTGAGTCGTGGACTTT-AAGAAAA-AA
* ** * * *
13213 TGCCACTGAGTCATGGACTTCGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAG-AAAAAA
* *
13244 TGCCACTGAGTCATGGACTTTGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTT-AAGAAAA-AA
* * *
13276 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAGAA-AAAA
** * * *
13307 TGCCACTGAGTTATGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAGAA-AAAA
* * * * *
13338 TGCCACTGAGTCATTGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAGAA-AAAA
* *
13369 TTCCACTGAGTCATGGACTTTAA
1 TGCCACTGAGTCGTGGACTTTAA
13392 AAAGGTATTT
Statistics
Matches: 308, Mismatches: 48, Indels: 25
0.81 0.13 0.07
Matches are distributed among these distances:
30 20 0.06
31 167 0.54
32 93 0.30
33 6 0.02
34 22 0.07
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTAAGAAAAAA
Found at i:13164 original size:94 final size:92
Alignment explanation
Indices: 13048--13389 Score: 386
Period size: 94 Copynumber: 3.7 Consensus size: 92
13038 TGGGCTTGGA
* * *
13048 AGAAAA-AATGCCACTGAGTCGTGGACTTTAAAGAAAAGGATGCCACTGAGTAGTGGAATTTGAG
1 AGAAAAGAATGCCACTGAGTCATGGACTTT-AAGAAAAGGATGCCACTGAGTCGTGGACTTTGAG
*
13112 ACAA-AATGCCACTGAGTCGTGGACTTTG
65 A-AAGAATGCCACTGAGTCATGGACTTTG
* * * *
13140 AAGAAAAGAATGCCACTGAGTCGTGGACTTTGAGCAGA-GATTGCCACTGAGTCGTGGACTTTGA
1 -AGAAAAGAATGCCACTGAGTCATGGACTTTAAGAAAAGGA-TGCCACTGAGTCGTGGACTTTG-
*
13204 AGAAAAGAATGCCACTGAGTCATGGACTTCG
63 AG-AAAGAATGCCACTGAGTCATGGACTTTG
* * *
13235 AGCAGAGATTGCCACTGAGTCATGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAG
1 AGAAAAGAATGCCACTGAGTCATGGACTTT-AAGAAAAGGATGCCACTGAGTCGTGGACTTTGAG
* *
13300 AAGAGATTGCCACTGAGTTATGGACTTTG
65 AA-AGAATGCCACTGAGTCATGGACTTTG
* * * * * * *
13329 AGAAGAGATTGCCACTGAGTCATTGACTTTGAGAAGA-GATTTCCACTGAGTCATGGACTTT
1 AGAAAAGAATGCCACTGAGTCATGGACTTTAAGAAAAGGA-TGCCACTGAGTCGTGGACTTT
13390 AAAAAGGTAT
Statistics
Matches: 217, Mismatches: 23, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
92 4 0.02
93 56 0.26
94 106 0.49
95 49 0.23
96 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (92 bp):
AGAAAAGAATGCCACTGAGTCATGGACTTTAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGA
AAGAATGCCACTGAGTCATGGACTTTG
Found at i:13209 original size:63 final size:63
Alignment explanation
Indices: 13056--13389 Score: 467
Period size: 63 Copynumber: 5.3 Consensus size: 63
13046 GAAGAAAAAA
* * * * * *
13056 TGCCACTGAGTCGTGGACTTTAAAGAAAAGGATGCCACTGAGTAGTGGAATTTGAGACA-A-AA
1 TGCCACTGAGTCATGGACTTTGAAGAAAAGAATGCCACTGAGTCGTGGACTTTGAG-CAGAGAT
*
13118 TGCCACTGAGTCGTGGACTTTGAAGAAAAGAATGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCATGGACTTTGAAGAAAAGAATGCCACTGAGTCGTGGACTTTGAGCAGAGAT
* * *
13181 TGCCACTGAGTCGTGGACTTTGAAGAAAAGAATGCCACTGAGTCATGGACTTCGAGCAGAGAT
1 TGCCACTGAGTCATGGACTTTGAAGAAAAGAATGCCACTGAGTCGTGGACTTTGAGCAGAGAT
* *
13244 TGCCACTGAGTCATGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCATGGACTTTGAAGAAAAGAATGCCACTGAGTCGTGGACTTTGAGCAGAGAT
* * * * * *
13307 TGCCACTGAGTTATGGACTTTG-AGAAGAGATTGCCACTGAGTCATTGACTTTGAGAAGAGAT
1 TGCCACTGAGTCATGGACTTTGAAGAAAAGAATGCCACTGAGTCGTGGACTTTGAGCAGAGAT
*
13369 TTCCACTGAGTCATGGACTTT
1 TGCCACTGAGTCATGGACTTT
13390 AAAAAGGTAT
Statistics
Matches: 250, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
61 2 0.01
62 107 0.43
63 141 0.56
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (63 bp):
TGCCACTGAGTCATGGACTTTGAAGAAAAGAATGCCACTGAGTCGTGGACTTTGAGCAGAGAT
Found at i:14351 original size:21 final size:21
Alignment explanation
Indices: 14326--14373 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
14316 TGAAAAGGGG
14326 TTTTTCCCTTCTTCTTCTCTT
1 TTTTTCCCTTCTTCTTCTCTT
*** *
14347 TTTTTTGTTTCTTCTTCTTTT
1 TTTTTCCCTTCTTCTTCTCTT
14368 TTTTTC
1 TTTTTC
14374 TTTTTGGAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTTTCCCTTCTTCTTCTCTT
Found at i:20029 original size:12 final size:12
Alignment explanation
Indices: 20012--20039 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
20002 GGTTCAAAAT
20012 GAAGTGTCTACA
1 GAAGTGTCTACA
20024 GAAGTGTCTACA
1 GAAGTGTCTACA
20036 GAAG
1 GAAG
20040 GTACACTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (12 bp):
GAAGTGTCTACA
Found at i:23945 original size:20 final size:21
Alignment explanation
Indices: 23894--23950 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
23884 ATAATGAAAC
23894 ATGTATCGATACATTTACTGT
1 ATGTATCGATACATTTACTGT
*
23915 TTGTATCGATACATTTACT-T
1 ATGTATCGATACATTTACTGT
*
23935 ATGTGTCGATACATTT
1 ATGTATCGATACATTT
23951 CCTTTCCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (21 bp):
ATGTATCGATACATTTACTGT
Found at i:24001 original size:21 final size:21
Alignment explanation
Indices: 23975--24030 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
23965 AGGGTGGTTT
*
23975 TGTATCGATACATTTCAGGCA
1 TGTATCGATACATTTCACGCA
* *
23996 TGTATCAATACA-TTCACTCA
1 TGTATCGATACATTTCACGCA
24016 TGTATCGATACATTT
1 TGTATCGATACATTT
24031 GCTATTTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTCACGCA
Found at i:27706 original size:13 final size:13
Alignment explanation
Indices: 27688--27717 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
27678 ACTTTTTACC
27688 ATGTATCGATACA
1 ATGTATCGATACA
27701 ATGTATCGATACA
1 ATGTATCGATACA
27714 ATGT
1 ATGT
27718 CCCATGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:27709 original size:33 final size:33
Alignment explanation
Indices: 27667--27731 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
27657 CGTTAGGCAT
** *
27667 AATGTATCGATACTTTTTACCATGTATCGATAC
1 AATGTATCGATACAATGTACCATGTATCGATAC
*
27700 AATGTATCGATACAATGTCCCATGTATCGATA
1 AATGTATCGATACAATGTACCATGTATCGATA
27732 TATTTCACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (33 bp):
AATGTATCGATACAATGTACCATGTATCGATAC
Found at i:28562 original size:28 final size:27
Alignment explanation
Indices: 28506--28562 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
28496 AAAGCTCTTC
*
28506 TTTTGTTAAAAATGATTTTCTCCCCCT
1 TTTTGTTAAAAATGAATTTCTCCCCCT
28533 TTTTGTTATCAAAAT-AATTTCTCCCCCT
1 TTTTGTTA--AAAATGAATTTCTCCCCCT
28561 TT
1 TT
28563 GTCAAATGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 8 0.30
28 14 0.52
29 5 0.19
ACGTcount: A:0.23, C:0.23, G:0.05, T:0.49
Consensus pattern (27 bp):
TTTTGTTAAAAATGAATTTCTCCCCCT
Found at i:30426 original size:13 final size:13
Alignment explanation
Indices: 30404--30440 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
30394 ATAGTAACCC
* *
30404 TGTATGGATACAT
1 TGTATCGATACAA
30417 TGTATCGATACAA
1 TGTATCGATACAA
30430 TGTATCGATAC
1 TGTATCGATAC
30441 TTAGAACATG
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):
TGTATCGATACAA
Found at i:30498 original size:16 final size:16
Alignment explanation
Indices: 30477--30507 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
30467 GTTTTTTCAG
30477 AATGTATCGATACATC
1 AATGTATCGATACATC
30493 AATGTATCGATACAT
1 AATGTATCGATACAT
30508 TCTGGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (16 bp):
AATGTATCGATACATC
Found at i:36548 original size:19 final size:20
Alignment explanation
Indices: 36503--36559 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
36493 ATACTTTTTA
36503 CCATGTATCGATACAATGTC
1 CCATGTATCGATACAATGTC
* *
36523 CCATGTATCGATACGA-GTT
1 CCATGTATCGATACAATGTC
*
36542 TCATGTATCGATACAATG
1 CCATGTATCGATACAATG
36560 AACATGTATC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (20 bp):
CCATGTATCGATACAATGTC
Found at i:36565 original size:19 final size:20
Alignment explanation
Indices: 36504--36574 Score: 74
Period size: 19 Copynumber: 3.6 Consensus size: 20
36494 TACTTTTTAC
**
36504 CATGTATCGATACAATGTCC
1 CATGTATCGATACAATGTAA
* **
36524 CATGTATCGATACGA-GTTT
1 CATGTATCGATACAATGTAA
36543 CATGTATCGATACAATG-AA
1 CATGTATCGATACAATGTAA
*
36562 CATGTATCAATAC
1 CATGTATCGATAC
36575 TTTCTAGGGT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
19 28 0.65
20 15 0.35
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATGTAA
Found at i:48151 original size:79 final size:79
Alignment explanation
Indices: 48026--48768 Score: 594
Period size: 79 Copynumber: 9.6 Consensus size: 79
48016 AAATAACAAG
* ** * * * *
48026 GTTGAAGTATCCCTAATGGTGAAAAATCAATATTTTAGAAACAAAATCGGGGTTGGAGTATCCCT
1 GTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCT
* *
48091 TCATAAATAATGGA
66 TCAGAAATAACGGA
** * *** *
48105 GTTGGAGTATCCCCGATGGTGGAAAATCAGTGCCTTAGAAGTAAAATTATGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCT
*
48170 TCAAAAATAAC-GA
66 TCAGAAATAACGGA
* * * *
48183 GGTTGGAG-ATCCTCGATGGTGAAAAAT-AGAT-ATTTAGAAATAAAATCGGGGTTAGAGTATCC
1 -GTTGGAGTATCCCCGATGGTGGAAAATCAG-TGTTTTAGAAATAAAATCGGGGTTGGAGTATCC
* * * *
48245 CCTAAGAAACAACGGG
64 CTTCAGAAATAACGGA
* * * * * *
48261 GTTAGG-GCATTCTCGATAGTGGAAAATCAGTGTTTTAGAAATACAATAGGGGTTGGAGTATCCC
1 GTT-GGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAATCGGGGTTGGAGTAT-CC
* *
48325 CTTGA-AAATAACAGA
64 CTTCAGAAATAACGGA
* *
48340 GTTGGAGTATCCTCGATGGTGGAAAATCATTGTTTTAGAAATAAAA-CTGGGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAATC-GGGGTTGGAGTATCCC
* *
48404 TTCAGAAATAAAGGG
65 TTCAGAAATAACGGA
* * * * * *
48419 GTTGGAATATCCCCAATGGTGGAAAATCGGTGTTTCAG-AATAAAATCGAGGTTAGAGTATCCCC
1 GTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAATCGGGGTTGGAGTAT-CCC
*
48483 TT-AGAAATAACGGG
65 TTCAGAAATAACGGA
* * * * * *
48497 GTTGGAGTATCCCCAATGGTGAAAAATCAGTGTTTTAGGAATAAAACCGAGATTGGAGTAT-CCT
1 GTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCT
* *
48561 CTAAAAAATAACAGG-
66 -TCAGAAATAAC-GGA
* * ** * * * **
48576 GTTAGAGTATCTCCGATGGTACAAAATCGGTGTTTTAGGAATAAAACCAAGGTTGGAGTATCCCT
1 GTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCT
48641 T--G-AA-AA---A
66 TCAGAAATAACGGA
** ** * * * *
48648 --T--AGTATCTTCGATGGTGGAAAATTGGTATTTTAGAAATAAAATAGAGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCT
* * *
48709 TCAAAAATAACAGT
66 TCAGAAATAACGGA
* *
48723 GTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAAAAAAAA
1 GTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAA
48769 AATATCAATG
Statistics
Matches: 540, Mismatches: 94, Indels: 60
0.78 0.14 0.09
Matches are distributed among these distances:
68 51 0.09
70 1 0.00
71 2 0.00
72 2 0.00
75 2 0.00
76 2 0.00
77 44 0.08
78 112 0.21
79 314 0.58
80 10 0.02
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCT
TCAGAAATAACGGA
Found at i:48540 original size:157 final size:156
Alignment explanation
Indices: 48016--48767 Score: 675
Period size: 157 Copynumber: 4.9 Consensus size: 156
48006 AATATTTTGT
* * * *
48016 AAATAACAAGGTTGAAGTATCC-CTAATGGTGAAAAATCAATATTTTAGAAACAAAATCGGGGTT
1 AAATAACAAGGTTGGAGTATCCTC-GATGGTGAAAAATCAGTATTTTAGAAATAAAATCGGGGTT
* * * * **
48080 GGAGTATCCCTTCATAAATAATGGAGTTGGAGTATCCCCGATGGTGGAAAATCAGTGCCTTAGAA
65 GGAGTATCCCTTCAAAAATAAAGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAA
* **
48145 GTAAAAT-TATGGTTGGAGTATCCCCTCAA
130 -TAAAATCGA-GGTTGGAGTATCCCCT-TG
*
48174 AAATAACGAGGTTGGAG-ATCCTCGATGGTGAAAAAT-AG-ATATTTAGAAATAAAATCGGGGTT
1 AAATAACAAGGTTGGAGTATCCTCGATGGTGAAAAATCAGTAT-TTTAGAAATAAAATCGGGGTT
* * * * * * * * *
48236 AGAGTATCCCCT-AAGAAACAACGGGGTTAGG-GCATTCTCGATAGTGGAAAATCAGTGTTTTAG
65 GGAGTATCCCTTCAA-AAATAAAGGGGTT-GGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAG
* * *
48299 AAATACAATAGGGGTTGGAGTATCCCCTTG
128 -AATAAAATCGAGGTTGGAGTATCCCCTTG
* * *
48329 AAAATAAC-AGAGTTGGAGTATCCTCGATGGTGGAAAATCATTGTTTTAGAAATAAAA-CTGGGG
1 -AAATAACAAG-GTTGGAGTATCCTCGATGGTGAAAAATCAGTATTTTAGAAATAAAATC-GGGG
* * * *
48392 TTGGAGTATCCCTTCAGAAATAAAGGGGTTGGAATATCCCCAATGGTGGAAAATCGGTGTTTCAG
63 TTGGAGTATCCCTTCAAAAATAAAGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAG
*
48457 AATAAAATCGAGGTTAGAGTATCCCCTTAG
128 AATAAAATCGAGGTTGGAGTATCCCCTT-G
** * * * * * * *
48487 AAATAACGGGGTTGGAGTATCCCCAATGGTGAAAAATCAGTGTTTTAGGAATAAAACCGAGATTG
1 AAATAACAAGGTTGGAGTATCCTCGATGGTGAAAAATCAGTATTTTAGAAATAAAATCGGGGTTG
* * * **
48552 GAGTAT-CCTCTAAAAAATAACA-GGGTTAGAGTATCTCCGATGGTACAAAATCGGTGTTTTAGG
66 GAGTATCCCT-TCAAAAATAA-AGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTA-G
* *
48615 AATAAAACCAAGGTTGGAGTAT-CCCTTG
128 AATAAAATCGAGGTTGGAGTATCCCCTTG
* * ** * *
48643 --A-AA-AA---T--AGTATCTTCGATGGTGGAAAATTGGTATTTTAGAAATAAAATAGAGGTTG
1 AAATAACAAGGTTGGAGTATCCTCGATGGTGAAAAATCAGTATTTTAGAAATAAAATCGGGGTTG
* *
48699 GAGTATCCCCTCAAAAATAACA-GTGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAA
66 GAGTATCCCTTCAAAAATAA-AGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAA
*
48763 AAAAA
130 TAAAA
48768 AAATATCAAT
Statistics
Matches: 490, Mismatches: 83, Indels: 54
0.78 0.13 0.09
Matches are distributed among these distances:
146 7 0.01
147 90 0.18
148 2 0.00
149 1 0.00
153 2 0.00
154 1 0.00
155 5 0.01
156 106 0.22
157 169 0.34
158 105 0.21
159 2 0.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (156 bp):
AAATAACAAGGTTGGAGTATCCTCGATGGTGAAAAATCAGTATTTTAGAAATAAAATCGGGGTTG
GAGTATCCCTTCAAAAATAAAGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAAT
AAAATCGAGGTTGGAGTATCCCCTTG
Found at i:48559 original size:236 final size:235
Alignment explanation
Indices: 48016--48768 Score: 737
Period size: 236 Copynumber: 3.2 Consensus size: 235
48006 AATATTTTGT
* * * * * *
48016 AAATAACAAGGTTGAAGTATCCCTAATGGTGAAAAATCAATATTTTAGAAACAAAATCGGGGTTG
1 AAATAACAGGGTTGGAGTATCCCCAATGGTGAAAAATCAGTGTTTTAGAAATAAAATCGGGGTTG
* ** * **
48081 GAGTAT-CCCTTCATAAATAATGGAGTTGGAGTATCCCCGATGGTGGAAAATCAGTGCCTTAGAA
66 GAGTATCCCCTT-AAAAATAACAGAGTTGGAGTATCCTCGATGGTGGAAAATCAGTGTTTTAGAA
* * * * * * * *
48145 GTAAAATTATGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGG-AGATCCTCGATGGTGAAAAA
130 ATAAAACTAAGGTTGGAGTATCCCTTCAGAAATAAAG-GGTTGGAATATCCTCGATGGTGGAAAA
* *
48209 TAGATATTTAGAAATAAAATCGGGGTTAGAGTATCCCCTAAG
194 TAGGTATTTAGAAATAAAATCGAGGTTAGAGTATCCCCTAAG
* * * * * * * * * *
48251 AAACAACGGGGTTAGG-GCATTCTCGATAGTGGAAAATCAGTGTTTTAGAAATACAATAGGGGTT
1 AAATAACAGGGTT-GGAGTATCCCCAATGGTGAAAAATCAGTGTTTTAGAAATAAAATCGGGGTT
* *
48315 GGAGTATCCCCTTGAAAATAACAGAGTTGGAGTATCCTCGATGGTGGAAAATCATTGTTTTAGAA
65 GGAGTATCCCCTTAAAAATAACAGAGTTGGAGTATCCTCGATGGTGGAAAATCAGTGTTTTAGAA
** * *
48380 ATAAAACTGGGGTTGGAGTATCCCTTCAGAAATAAAGGGGTTGGAATATCCCCAATGGTGGAAAA
130 ATAAAACTAAGGTTGGAGTATCCCTTCAGAAATAAA-GGGTTGGAATATCCTCGATGGTGGAAAA
* * *
48445 TCGGTGTTTCAG-AATAAAATCGAGGTTAGAGTATCCCCTTAG
194 TAGGTATTT-AGAAATAAAATCGAGGTTAGAGTATCCCCTAAG
* * * * *
48487 AAATAACGGGGTTGGAGTATCCCCAATGGTGAAAAATCAGTGTTTTAGGAATAAAACCGAGATTG
1 AAATAACAGGGTTGGAGTATCCCCAATGGTGAAAAATCAGTGTTTTAGAAATAAAATCGGGGTTG
* * * * ** * *
48552 GAGTATCCTCTAAAAAATAACAGGGTTAGAGTAT-CTCCGATGGTACAAAATCGGTGTTTTAGGA
66 GAGTATCCCCTTAAAAATAACAGAGTTGGAGTATCCT-CGATGGTGGAAAATCAGTGTTTTAGAA
* * *
48616 ATAAAACCAAGGTTGGAGTATCCCTT--G-AA-AAA----T--AGTATCTTCGATGGTGGAAAAT
130 ATAAAACTAAGGTTGGAGTATCCCTTCAGAAATAAAGGGTTGGAATATCCTCGATGGTGGAAAAT
* * *
48671 TGGTATTTTAGAAATAAAATAGAGGTTGGAGTATCCCCTCAA-
195 AGGTA-TTTAGAAATAAAATCGAGGTTAGAGTATCCCCT-AAG
* * * * *
48713 AAATAACAGTGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAAAAAAAA
1 AAATAACAGGGTTGGAGTATCCCCAATGGTGAAAAATCAGTGTTTTAGAAATAAAA
48769 AATATCAATG
Statistics
Matches: 426, Mismatches: 82, Indels: 29
0.79 0.15 0.05
Matches are distributed among these distances:
225 23 0.05
226 77 0.18
227 2 0.00
232 3 0.01
233 2 0.00
234 1 0.00
235 136 0.32
236 180 0.42
237 2 0.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (235 bp):
AAATAACAGGGTTGGAGTATCCCCAATGGTGAAAAATCAGTGTTTTAGAAATAAAATCGGGGTTG
GAGTATCCCCTTAAAAATAACAGAGTTGGAGTATCCTCGATGGTGGAAAATCAGTGTTTTAGAAA
TAAAACTAAGGTTGGAGTATCCCTTCAGAAATAAAGGGTTGGAATATCCTCGATGGTGGAAAATA
GGTATTTAGAAATAAAATCGAGGTTAGAGTATCCCCTAAG
Found at i:48697 original size:68 final size:68
Alignment explanation
Indices: 48581--48717 Score: 177
Period size: 68 Copynumber: 2.0 Consensus size: 68
48571 ACAGGGTTAG
* * * *
48581 AGTATCTCCGATGGTACAAAATCGGTGTTTTAGGAATAAAACCAAGGTTGGAGTATCCCTTGAAA
1 AGTATCTCCGATGGTACAAAATCGGTATTTTAGAAATAAAACCAAGGTTGGAGTATCCCCTCAAA
48646 AAT
66 AAT
* ** * *
48649 AGTATCTTCGATGGTGGAAAATTGGTATTTTAGAAATAAAA-TAGAGGTTGGAGTATCCCCTCAA
1 AGTATCTCCGATGGTACAAAATCGGTATTTTAGAAATAAAACCA-AGGTTGGAGTATCCCCTCAA
48713 AAAT
65 AAAT
48717 A
1 A
48718 ACAGTGTTGG
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
67 1 0.02
68 58 0.98
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (68 bp):
AGTATCTCCGATGGTACAAAATCGGTATTTTAGAAATAAAACCAAGGTTGGAGTATCCCCTCAAA
AAT
Found at i:51167 original size:51 final size:51
Alignment explanation
Indices: 51112--51279 Score: 291
Period size: 51 Copynumber: 3.3 Consensus size: 51
51102 CTATATTGAG
* *
51112 AAATGTATCGATACATCTAGGTAAAAACCTAGAATGTATCGATACAATGAA
1 AAATGTATCGATACATCTAGGTTAAAACCCAGAATGTATCGATACAATGAA
*
51163 AAATGTATCGATACATCTAGGTTAAAACCCAGAATGTATCGATATAATGAA
1 AAATGTATCGATACATCTAGGTTAAAACCCAGAATGTATCGATACAATGAA
*
51214 AAATGTATCGATACATCTAGGTTGAAACCCAGAATGTATCGATACAATGAA
1 AAATGTATCGATACATCTAGGTTAAAACCCAGAATGTATCGATACAATGAA
*
51265 AATTGTATCGATACA
1 AAATGTATCGATACA
51280 AATAGTAAAT
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 111 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (51 bp):
AAATGTATCGATACATCTAGGTTAAAACCCAGAATGTATCGATACAATGAA
Found at i:51228 original size:102 final size:102
Alignment explanation
Indices: 51092--51279 Score: 304
Period size: 102 Copynumber: 1.8 Consensus size: 102
51082 AAAAATGCCT
* * * * *
51092 GAATGTATTGCTATATTGAGAAATGTATCGATACATCTAGGTAAAAACCTAGAATGTATCGATAC
1 GAATGTATCGATATAATGAAAAATGTATCGATACATCTAGGTAAAAACCCAGAATGTATCGATAC
51157 AATGAAAAATGTATCGATACATCTAGGTTAAAACCCA
66 AATGAAAAATGTATCGATACATCTAGGTTAAAACCCA
**
51194 GAATGTATCGATATAATGAAAAATGTATCGATACATCTAGGTTGAAACCCAGAATGTATCGATAC
1 GAATGTATCGATATAATGAAAAATGTATCGATACATCTAGGTAAAAACCCAGAATGTATCGATAC
*
51259 AATGAAAATTGTATCGATACA
66 AATGAAAAATGTATCGATACA
51280 AATAGTAAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 78 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.28
Consensus pattern (102 bp):
GAATGTATCGATATAATGAAAAATGTATCGATACATCTAGGTAAAAACCCAGAATGTATCGATAC
AATGAAAAATGTATCGATACATCTAGGTTAAAACCCA
Found at i:51294 original size:21 final size:20
Alignment explanation
Indices: 51246--51300 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
51236 TGAAACCCAG
51246 AATGTATCGATAC-AATGAA
1 AATGTATCGATACAAATGAA
*
51265 AATTGTATCGATACAAATAGTA
1 AA-TGTATCGATACAAAT-GAA
51287 AATGTATCGATACA
1 AATGTATCGATACA
51301 TTTACTTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 2 0.06
20 11 0.34
21 15 0.47
22 4 0.12
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAAATGAA
Found at i:55357 original size:97 final size:97
Alignment explanation
Indices: 55226--55414 Score: 281
Period size: 97 Copynumber: 1.9 Consensus size: 97
55216 CAACATAAGT
* * *
55226 TGGCACTTTTTTTTTCAAAGCCTACAACTTCGTGGCACCTTCCTTTTAAATTCCATAACTCTATG
1 TGGCACTTTTTTTTTCAAAGCCCACAACTCCGTGGCACCTTCCTTTTAAAGTCCATAACTCTATG
*
55291 GCACTTTATCCTTTTAAGCCAACACAAGTCGG
66 GCACTTCATCCTTTTAAGCCAACACAAGTCGG
* **
55323 TGGCACTTTTTTCTTT-AAAGCCCATAACTCCGTGGCATGTTCCTTTTAAAGTCCATAACTCTAT
1 TGGCACTTTTTT-TTTCAAAGCCCACAACTCCGTGGCACCTTCCTTTTAAAGTCCATAACTCTAT
* *
55387 GGCACTTCATCTTTTTAAGCCCACACAA
65 GGCACTTCATCCTTTTAAGCCAACACAA
55415 ATTGGTGGTA
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
97 79 0.96
98 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (97 bp):
TGGCACTTTTTTTTTCAAAGCCCACAACTCCGTGGCACCTTCCTTTTAAAGTCCATAACTCTATG
GCACTTCATCCTTTTAAGCCAACACAAGTCGG
Found at i:55612 original size:32 final size:32
Alignment explanation
Indices: 55533--55621 Score: 124
Period size: 33 Copynumber: 2.8 Consensus size: 32
55523 AGCTAGACAC
* **
55533 CAAAGCCCACACAAGTTTGTGGCAACCTTTTT
1 CAAAGCCCACACAAGTTGGTGGCAACCTTCCT
* *
55565 CTAAAACCCACACAAGCTGGTGGCAACCTTCCT
1 C-AAAGCCCACACAAGTTGGTGGCAACCTTCCT
55598 CAAAGCCCACACAAGTTGGTGGCA
1 CAAAGCCCACACAAGTTGGTGGCA
55622 TCCCCTTCCA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
32 22 0.45
33 27 0.55
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.20
Consensus pattern (32 bp):
CAAAGCCCACACAAGTTGGTGGCAACCTTCCT
Found at i:56015 original size:52 final size:52
Alignment explanation
Indices: 55959--56060 Score: 132
Period size: 52 Copynumber: 2.0 Consensus size: 52
55949 TCCTAAGCCC
* * *
55959 AATGTTGCTGACCTTGAATTAGCATATTGGCACTCTTTTCATCTTCAAGTTT
1 AATGTAGCTGACCTTGAATCAGCACATTGGCACTCTTTTCATCTTCAAGTTT
* * * * *
56011 AATGTAGTTGACCTTGAATCAGCACGTTGGCATTTTTTTCATCTTTAAGT
1 AATGTAGCTGACCTTGAATCAGCACATTGGCACTCTTTTCATCTTCAAGT
56061 CCGATATCGC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.42
Consensus pattern (52 bp):
AATGTAGCTGACCTTGAATCAGCACATTGGCACTCTTTTCATCTTCAAGTTT
Found at i:56197 original size:62 final size:62
Alignment explanation
Indices: 56098--56291 Score: 257
Period size: 61 Copynumber: 3.2 Consensus size: 62
56088 ATTGGCATCG
** * * * *
56098 CATCTTTAAGCCTAATATCACTGGCTTTGAATCAACATATTAGCACCTTTTATCATTTTTCT
1 CATCTTTAAGCCCGATATCACTAGCCTTGAATCAACATATTGGCACCTTTTATCATTCTTCT
*
56160 CATCTTTAAGCCCGATATCACTAGCCTTGAATTAACATATTGGCACC-TTTATCATTCTTCT
1 CATCTTTAAGCCCGATATCACTAGCCTTGAATCAACATATTGGCACCTTTTATCATTCTTCT
* * * * * *
56221 CATCTTCAAGCTCGATATGACTAGCCATGAATCAGCATATTGGCA-CTTTTATCATTCTTCA
1 CATCTTTAAGCCCGATATCACTAGCCTTGAATCAACATATTGGCACCTTTTATCATTCTTCT
56282 CATCTTTAAG
1 CATCTTTAAG
56292 TCTAACGTCA
Statistics
Matches: 116, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
60 1 0.01
61 74 0.64
62 41 0.35
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.38
Consensus pattern (62 bp):
CATCTTTAAGCCCGATATCACTAGCCTTGAATCAACATATTGGCACCTTTTATCATTCTTCT
Found at i:56313 original size:61 final size:61
Alignment explanation
Indices: 56098--56313 Score: 238
Period size: 61 Copynumber: 3.5 Consensus size: 61
56088 ATTGGCATCG
* * * *
56098 CATCTTTAAGCCTAATATCACTGGCTTTGAATCAACATATTAGCACCTTTTATCATTTTTCT
1 CATCTTTAAGCCTAATATCACTAGCCTTGAATCAACATATTGGCA-CTTTTATCATTCTTCT
** * *
56160 CATCTTTAAGCCCGATATCACTAGCCTTGAATTAACATATTGGCACCTTTATCATTCTTCT
1 CATCTTTAAGCCTAATATCACTAGCCTTGAATCAACATATTGGCACTTTTATCATTCTTCT
* * * * * *
56221 CATCTTCAAG-CTCGATATGACTAGCCATGAATCAGCATATTGGCACTTTTATCATTCTTCA
1 CATCTTTAAGCCT-AATATCACTAGCCTTGAATCAACATATTGGCACTTTTATCATTCTTCT
* **
56282 CATCTTTAAGTCTAACGTCACT-GACCTTGAAT
1 CATCTTTAAGCCTAATATCACTAG-CCTTGAAT
56314 TAGCACATTG
Statistics
Matches: 129, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
60 2 0.02
61 86 0.67
62 41 0.32
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (61 bp):
CATCTTTAAGCCTAATATCACTAGCCTTGAATCAACATATTGGCACTTTTATCATTCTTCT
Found at i:56346 original size:122 final size:123
Alignment explanation
Indices: 56125--56352 Score: 271
Period size: 122 Copynumber: 1.9 Consensus size: 123
56115 TCACTGGCTT
* * * *
56125 TGAATCAACATATTAGCACCTTTTATCATTTTTCTCATCTTTAAGCCCGATATCACTAGCCTTGA
1 TGAATCAACATATTAGCACCTTTTATCATTCTTCACATCTTTAAGCCCAACATCACTAGCCTTGA
* * * *
56190 ATTAACATATTGGCACCTTTATCATTCTTCTCATCTTCAAGCTCGATATGACTAGCCA
66 ATTAACACATTGACACCTTTATCATCCTTATCATCTTCAAGCTCGATATGACTAGCCA
* * * * *
56248 TGAATCAGCATATTGGCA-CTTTTATCATTCTTCACATCTTTAAGTCTAACGTCACT-GACCTTG
1 TGAATCAACATATTAGCACCTTTTATCATTCTTCACATCTTTAAGCCCAACATCACTAG-CCTTG
* ** * *
56311 AATTAGCACATTGACATTTTTCTTATCCTTATCATCTTCAAG
65 AATTAACACATTGACACCTTTATCATCCTTATCATCTTCAAG
56353 TCCAATGTCG
Statistics
Matches: 86, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
121 1 0.01
122 69 0.80
123 16 0.19
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (123 bp):
TGAATCAACATATTAGCACCTTTTATCATTCTTCACATCTTTAAGCCCAACATCACTAGCCTTGA
ATTAACACATTGACACCTTTATCATCCTTATCATCTTCAAGCTCGATATGACTAGCCA
Found at i:57202 original size:52 final size:52
Alignment explanation
Indices: 57124--57240 Score: 173
Period size: 52 Copynumber: 2.2 Consensus size: 52
57114 TGCTTACAAT
* * * *
57124 TGTATCGATATATTTCTCATTGTATCGATACATTCTGGGTTTTTAACCCAAA
1 TGTATTGATACATTTCTCATTGTATCGATACATTATGGGGTTTTAACCCAAA
*
57176 TGTATTGATACATTTCTCATTGTATCGATACATTATGGGGTTTTGACCCAAA
1 TGTATTGATACATTTCTCATTGTATCGATACATTATGGGGTTTTAACCCAAA
57228 TGTATCT-ATACAT
1 TGTAT-TGATACAT
57241 ACAAGCGAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 58 0.98
53 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (52 bp):
TGTATTGATACATTTCTCATTGTATCGATACATTATGGGGTTTTAACCCAAA
Found at i:62332 original size:13 final size:13
Alignment explanation
Indices: 62314--62339 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62304 ATACCAAGAA
62314 AATGTATCGATAC
1 AATGTATCGATAC
62327 AATGTATCGATAC
1 AATGTATCGATAC
62340 TAAGCAATAT
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):
AATGTATCGATAC
Found at i:62491 original size:22 final size:21
Alignment explanation
Indices: 62465--62520 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
62455 GATTATTTTT
62465 ACTTGAAAACATATG-ATTTA
1 ACTTGAAAACATATGTATTTA
*
62485 TAGCTTGAAAAACATTTGTATTTA
1 -A-CTTG-AAAACATATGTATTTA
*
62509 ACTTTAAAACAT
1 ACTTGAAAACAT
62521 CTTTGATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 8 0.27
22 7 0.23
23 10 0.33
24 5 0.17
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (21 bp):
ACTTGAAAACATATGTATTTA
Found at i:64052 original size:22 final size:22
Alignment explanation
Indices: 64027--64087 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
64017 ATTCAATAAC
*
64027 AATTAAGCAC-AAAACATCAGCA
1 AATT-AGCACAAAAACACCAGCA
**
64049 AATTTTCACAAAAACACCAGCA
1 AATTAGCACAAAAACACCAGCA
**
64071 AATTTTCACAAAAACAC
1 AATTAGCACAAAAACAC
64088 AAGATCATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 3 0.09
22 32 0.91
ACGTcount: A:0.52, C:0.25, G:0.05, T:0.18
Consensus pattern (22 bp):
AATTAGCACAAAAACACCAGCA
Found at i:64060 original size:21 final size:21
Alignment explanation
Indices: 64034--64083 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 21
64024 AACAATTAAG
*
64034 CACAAAACATCAGCAAATTTT
1 CACAAAACACCAGCAAATTTT
64055 CACAAAAACACCAGCAAATTTT
1 CAC-AAAACACCAGCAAATTTT
64077 CACAAAA
1 CACAAAA
64084 ACACAAGATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.52, C:0.26, G:0.04, T:0.18
Consensus pattern (21 bp):
CACAAAACACCAGCAAATTTT
Done.