Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold421
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: 441760
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 3 of 3
Found at i:330181 original size:16 final size:16
Alignment explanation
Indices: 330151--330181 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
330141 TTCTTTTCCA
*
330151 AAAAAAGAAACAAAAC
1 AAAAAAGAAAAAAAAC
330167 AAAAAAGAAAAAAAA
1 AAAAAAGAAAAAAAA
330182 AGAGAGGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAC
Found at i:331174 original size:31 final size:30
Alignment explanation
Indices: 331136--331336 Score: 199
Period size: 31 Copynumber: 6.5 Consensus size: 30
331126 AAAAAAAAAA
*
331136 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTGCTC
* *
331167 AAAGTCCACGACTCAGTGGCATCTTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATC--TTTGC-TC
*
331200 AAAGTCCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGT-CCACGACTCAGTGGC-ATCTTTGCTC
* *
331232 -AAGTCCACGACTCAGTGGCATCTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTGC-TC
331262 AAAGTCCACGACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTTG-CTC
* * * *
331292 AAGGTCCACGACTCAATGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTGC-TC
* *
331323 AAAGCCCACAACTC
1 AAAGTCCACGACTC
331337 CATGGCACCT
Statistics
Matches: 143, Mismatches: 17, Indels: 20
0.79 0.09 0.11
Matches are distributed among these distances:
29 6 0.04
30 44 0.31
31 62 0.43
32 4 0.03
33 9 0.06
34 15 0.10
35 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTGCTC
Found at i:331301 original size:61 final size:61
Alignment explanation
Indices: 331136--331336 Score: 280
Period size: 61 Copynumber: 3.2 Consensus size: 61
331126 AAAAAAAAAA
331136 AAAGTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAATCTCTGCTC-AAGTCCACGACTCAGTGGCATC--TTTTCTTT
331200 AAAGTCCCACGACTCAGTGGCAATCTCTGCTCAAGTCCACGACTCAGTGGCATCTTTTCTTT
1 AAAGT-CCACGACTCAGTGGCAATCTCTGCTCAAGTCCACGACTCAGTGGCATCTTTTCTTT
* * * *
331262 AAAGTCCACGACTCAGTGGC-AT-TTTGTCTCAAGGTCCACGACTCAATGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCAATCTCTG-CTCAA-GTCCACGACTCAGTGGCATCTTTTCTTT
* *
331323 AAAGCCCACAACTC
1 AAAGTCCACGACTC
331337 CATGGCACCT
Statistics
Matches: 128, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
59 3 0.02
60 7 0.05
61 52 0.41
62 13 0.10
64 27 0.21
65 26 0.20
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (61 bp):
AAAGTCCACGACTCAGTGGCAATCTCTGCTCAAGTCCACGACTCAGTGGCATCTTTTCTTT
Found at i:331459 original size:61 final size:62
Alignment explanation
Indices: 331315--331827 Score: 348
Period size: 61 Copynumber: 8.0 Consensus size: 62
331305 CAATGGCATT
* * *
331315 TTTTCTTCAAAGCCCACAACTCCATGGCAC-CTTTTCCTTTAAAG-CCACAACTCCGTGGCACC
1 TTTTCTT-AAAGCCCACAACTCCGTGGCACTTTTTTCATTT-AAGCCCACAACTCCGTGGCACC
* * *
331377 -CTT-TTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTAAGTCCACAACT-CGTGGCACC
1 TTTTCTTAAAGCCCACAACTCCGTGGCACTTTTTTCAT-TTAAGCCCACAACTCCGTGGCACC
* *
331437 TTTCCTTAAAGCCCA-AACTCCGTGGCAC-----TC-TTAAAGCCCACAACTCCGTGGCACC
1 TTTTCTTAAAGCCCACAACTCCGTGGCACTTTTTTCATTTAAGCCCACAACTCCGTGGCACC
* * * * *
331492 TTCTTCTTTTCAAAGCCCACAACTCTGTGGCACCTTCTTCTTTTTCAAAGCCCACAACTCTGTGG
1 TT-TTC--TT-AAAGCCCACAACTCCGTGGCACTTTTTTC-ATTT--AAGCCCACAACTCCGTGG
331557 CACC
59 CACC
* *
331561 TTCTTCTGTTCAAAGCCCACGACTCCGTGGCACTCTTTTT-A---AAGCCCACAACTCTGTGGCA
1 TT-TTC--TT-AAAGCCCACAACTCCGTGGCACT-TTTTTCATTTAAGCCCACAACTCCGTGGCA
331622 CTC
61 C-C
* *
331625 TTTTCCTCCT-AAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCA
1 TTTT-CT--TAAAGCCCACAACTCCGTGGCACT-TTTTTCATT-TAAGCCCACAACTCCGTGGCA
331689 TCC
61 -CC
* * * *
331692 --TT-TT-AAGCCCATAACTCCGTGGCACTTTTTTCATCTTTGAGTCCATAACTCCGTGGCACC
1 TTTTCTTAAAGCCCACAACTCCGTGGCACTTTTTTCA--TTTAAGCCCACAACTCCGTGGCACC
* *
331752 TTTTTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCC
1 ------TTTTC--TTAAAGCCCACAACTCCGTGGCACT-TTTTT--CATTTAAGCCCACAACTCC
*
331817 GTGGCATC
55 GTGGCACC
331825 TTT
1 TTT
331828 CTCCCTTCCT
Statistics
Matches: 368, Mismatches: 35, Indels: 91
0.74 0.07 0.18
Matches are distributed among these distances:
54 12 0.03
55 12 0.03
56 4 0.01
58 2 0.01
59 28 0.08
60 40 0.11
61 64 0.17
62 39 0.11
63 24 0.07
64 5 0.01
65 4 0.01
67 25 0.07
68 3 0.01
69 51 0.14
70 4 0.01
71 2 0.01
72 21 0.06
73 27 0.07
75 1 0.00
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (62 bp):
TTTTCTTAAAGCCCACAACTCCGTGGCACTTTTTTCATTTAAGCCCACAACTCCGTGGCACC
Found at i:331463 original size:89 final size:88
Alignment explanation
Indices: 331318--331659 Score: 277
Period size: 87 Copynumber: 3.7 Consensus size: 88
331308 TGGCATTTTT
* *
331318 TCTTCAAAGCCCACAACTCCATGGCACCTTTTCCTTTAAAGCCACAACTCCGTGGCACCCTTTTA
1 TCTT-AAAGCCCACAACT-CGTGGCACC-TTTCCTTTAAAGCCACAACTCCGTGGCA--CTCTTA
* * *
331383 AAGCCCACAATTCCGTGGCACTTTTTTC
61 AAGCCCACAACTCCGTGGCACCTTCTTC
*
331411 ATCTT-AAGTCCACAACTCGTGGCACCTTTCC-TTAAAGCC-CAAACTCCGTGGCACTCTTAAAG
1 -TCTTAAAGCCCACAACTCGTGGCACCTTTCCTTTAAAGCCAC-AACTCCGTGGCACTCTTAAAG
331473 CCCACAACTCCGTGGCACCTTCTTC
64 CCCACAACTCCGTGGCACCTTCTTC
* * *
331498 TTTTCAAAGCCCACAACTCTGTGGCACCTTCTTCTTTTTCAAAGCCCACAACTCTGTGGCACCTT
1 TCTT-AAAGCCCACAACTC-GTGGCACC-T-TTC-CTTT-AAAG-CCACAACTCCGTGGCA----
*
331563 CTTCTGTTCAAAGCCCACGACTCCGTGGCA-C-TCTT-
55 C-TC--TT-AAAGCCCACAACTCCGTGGCACCTTCTTC
* *
331598 T-TTAAAGCCCACAACTCTGTGGCACTCTTTTCCTCCT-AAGCCCACAACTCTGTGGCACTCTT
1 TCTTAAAGCCCACAACTC-GTGGCAC-C-TTTCCT-TTAAAG-CCACAACTCCGTGGCACTCTT
331660 TTTCCTTCTA
Statistics
Matches: 214, Mismatches: 13, Indels: 47
0.78 0.05 0.17
Matches are distributed among these distances:
86 3 0.01
87 30 0.14
88 13 0.06
89 30 0.14
90 6 0.03
91 13 0.06
92 12 0.06
93 2 0.01
94 8 0.04
95 13 0.06
96 21 0.10
97 1 0.00
98 26 0.12
99 6 0.03
100 3 0.01
101 4 0.02
102 3 0.01
103 20 0.09
ACGTcount: A:0.22, C:0.36, G:0.13, T:0.29
Consensus pattern (88 bp):
TCTTAAAGCCCACAACTCGTGGCACCTTTCCTTTAAAGCCACAACTCCGTGGCACTCTTAAAGCC
CACAACTCCGTGGCACCTTCTTC
Found at i:331473 original size:25 final size:26
Alignment explanation
Indices: 331441--331490 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
331431 GGCACCTTTC
331441 CTTAAAGCCCA-AACTCCGTGGCACT
1 CTTAAAGCCCACAACTCCGTGGCACT
331466 CTTAAAGCCCACAACTCCGTGGCAC
1 CTTAAAGCCCACAACTCCGTGGCAC
331491 CTTCTTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.28, C:0.38, G:0.16, T:0.18
Consensus pattern (26 bp):
CTTAAAGCCCACAACTCCGTGGCACT
Found at i:331512 original size:34 final size:34
Alignment explanation
Indices: 331469--331822 Score: 269
Period size: 34 Copynumber: 10.6 Consensus size: 34
331459 TGGCACTCTT
331469 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
*
331503 AAAGCCCACAACTCTGTGGCACCTTCTTCTTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTCTTC-TTTTC
* *
331538 AAAGCCCACAACTCTGTGGCACCTTCTTCTGTTC
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
*
331572 AAAGCCCACGACTCCGTGGCA-C-TC-T-TTTT-
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
* * *
331601 AAAGCCCACAACTCTGTGGCACTCTT-TTC-CTCC
1 AAAGCCCACAACTCCGTGGCAC-CTTCTTCTTTTC
* * * *
331634 TAAGCCCACAACTCTGTGGCACTCTTTTTC-CTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTCTTCTTTTC
*
331668 TAAGCCCACAACTCCGTGGCA---TC--CTTTT-
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
* * *
331696 -AAGCCCATAACTCCGTGGCACTTTTTTCATCTTT-
1 AAAGCCCACAACTCCGTGGCACCTTCTTC-T-TTTC
* * * * *
331730 -GAGTCCATAACTCCGTGGCACCTTTTTTTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
*
331763 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-
1 ----AAAGCCCACAACTCCGTGGCAC-CTTCTT--CTTTTC
*
331803 -AAGTCCACAACTCCGTGGCA
1 AAAGCCCACAACTCCGTGGCA
331823 TCTTTCTCCC
Statistics
Matches: 270, Mismatches: 25, Indels: 49
0.78 0.07 0.14
Matches are distributed among these distances:
27 19 0.07
28 1 0.00
29 21 0.08
30 5 0.02
31 2 0.01
32 9 0.03
33 28 0.10
34 104 0.39
35 53 0.20
38 18 0.07
39 6 0.02
41 4 0.01
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
Found at i:331580 original size:69 final size:67
Alignment explanation
Indices: 331469--331693 Score: 266
Period size: 69 Copynumber: 3.4 Consensus size: 67
331459 TGGCACTCTT
*
331469 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACCTTCTTCTT
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTCTTCAAAGCCCACAACTCTGTGGCA-C-TCTTCTT
331534 TTTC
64 TTTC
* * * *
331538 AAAGCCCACAACTCTGTGGCACCTTCTTCTGTTCAAAGCCCACGACTCCGTGGCA--C-TCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTCTTCAAAGCCCACAACTCTGTGGCACTCTTCTTTT
331600 T-
66 TC
* * *
331601 AAAGCCCACAACTCTGTGGCACTCTT-TTC-CTCCTAAGCCCACAACTCTGTGGCACTCTT-TTT
1 AAAGCCCACAACTCCGTGGCAC-CTTCTTCTCTTCAAAGCCCACAACTCTGTGGCACTCTTCTTT
331663 CCTTC
65 --TTC
*
331668 TAAGCCCACAACTCCGTGGCATCCTT
1 AAAGCCCACAACTCCGTGGCA-CCTT
331694 TTAAGCCCAT
Statistics
Matches: 137, Mismatches: 11, Indels: 18
0.83 0.07 0.11
Matches are distributed among these distances:
62 20 0.15
63 25 0.18
64 14 0.10
65 2 0.01
66 2 0.01
67 22 0.16
68 1 0.01
69 51 0.37
ACGTcount: A:0.20, C:0.36, G:0.13, T:0.30
Consensus pattern (67 bp):
AAAGCCCACAACTCCGTGGCACCTTCTTCTCTTCAAAGCCCACAACTCTGTGGCACTCTTCTTTT
TC
Found at i:331722 original size:27 final size:27
Alignment explanation
Indices: 331662--331715 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
331652 GCACTCTTTT
*
331662 TCCTTCTAAGCCCACAACTCCGTGGCA
1 TCCTTTTAAGCCCACAACTCCGTGGCA
*
331689 TCCTTTTAAGCCCATAACTCCGTGGCA
1 TCCTTTTAAGCCCACAACTCCGTGGCA
331716 CTTTTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.37, G:0.15, T:0.26
Consensus pattern (27 bp):
TCCTTTTAAGCCCACAACTCCGTGGCA
Found at i:331781 original size:72 final size:72
Alignment explanation
Indices: 331691--331827 Score: 197
Period size: 73 Copynumber: 1.9 Consensus size: 72
331681 CCGTGGCATC
* * * *
331691 CTTTTAAGCCCATAACTCCGTGGCACT-TTTTT-CATCTTTGAGTCCATAACTCCGTGGCACCTT
1 CTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCCT-TTTAAGTCCACAACTCCGTGGCACCTT
331754 TTTTTTTT
65 TTTTTTTT
*
331762 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTT
1 CTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCACCTT
331827 T
65 T
331828 CTCCCTTCCT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
71 5 0.09
72 21 0.36
73 30 0.52
74 2 0.03
ACGTcount: A:0.18, C:0.30, G:0.12, T:0.39
Consensus pattern (72 bp):
CTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCACCTTT
TTTTTTT
Found at i:331850 original size:73 final size:71
Alignment explanation
Indices: 331696--331847 Score: 173
Period size: 73 Copynumber: 2.1 Consensus size: 71
331686 GCATCCTTTT
* * * * ***
331696 AAGCCCATAACTCCGTGGCACTTTTTTCATCTTTGAGTCCATAACTCCGTGGCACCTTTTTTTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTCTCCCT
*
331761 TCTTTTA
66 TC-TCTA
* *
331768 AAGCCCACAACTCCGTGGCACTCTTTTTC-CCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCC
1 AAGCCCACAACTCCGTGGCACT-TTTTTCATC-TTTAAGTCCACAACTCCGTGGCACCTTTCTCC
331832 CTTC-CTA
64 CTTCTCTA
331839 AAGCCCACA
1 AAGCCCACA
331848 CAAGTCGGTG
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
71 11 0.16
72 22 0.32
73 35 0.51
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.36
Consensus pattern (71 bp):
AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTCTCCCT
TCTCTA
Found at i:331875 original size:33 final size:35
Alignment explanation
Indices: 331832--331901 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
331822 ATCTTTCTCC
331832 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
331866 CTTCC-AAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
331900 CT
1 CT
331902 AAGCCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:331965 original size:49 final size:49
Alignment explanation
Indices: 331901--332525 Score: 667
Period size: 49 Copynumber: 12.9 Consensus size: 49
331891 GCAACCCTTC
*
331901 TAAGCCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTTCATCTT
*
331950 TAAGTCCAATGTAGCTGGCCTTGAATCAGCA-CATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATC-TTGGCATCTTCATCTT
* * * *
331993 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCATCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTTCATCTT
*
332042 TAAGTCCAATATCGCTGGCCTTGAATCAGCA-CATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATC-TTGGCATCTTCATCTT
* * *
332085 TAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTTCATCTT
* * * *
332134 TAAGTCCAATGTAGCTGGCCTTGACTCAGCA-CATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATC-TTGGCATCTTCATCTT
* * *
332183 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTTCATCTT
* * *
332232 TAAGTCCAATGTAGCTGGCCTTGACTCAGCA-CATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATC-TTGGCATCTTCATCTT
* *
332281 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTTCATCTT
* * * *
332330 TAAGACCAATGTAGCTGGCCTTGACTCAGCA-CATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATC-TTGGCATCTTCATCTT
* *
332379 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGG--CATCTT-CATCTT
* * *
332431 TAAGTTCAATGTAGCTGGCCTTGAATCAGCA-CGTTGACATCTTTTC-TCATCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATC-TTGGCATC--TTCATC-T-T
* * * * * *
332483 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTT
332526 TATCACTTTT
Statistics
Matches: 482, Mismatches: 63, Indels: 61
0.80 0.10 0.10
Matches are distributed among these distances:
43 76 0.16
45 2 0.00
47 2 0.00
48 1 0.00
49 316 0.66
50 7 0.01
51 6 0.01
52 72 0.15
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTTCATCTT
Found at i:332209 original size:98 final size:98
Alignment explanation
Indices: 331896--332525 Score: 852
Period size: 98 Copynumber: 6.5 Consensus size: 98
331886 CGGTGGCAAC
* * *
331896 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
331961 TAGCTGGCCTTGAATCAGCACATTGG------CA
65 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * *
331989 CCTTTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCATCTTCACCTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
332054 CGCTGGCCTTGAATCAGCACATTGG------CA
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTCA
*
332081 CCTTTAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
332146 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTCA
*
332179 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
332244 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
332277 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGACCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
332342 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
332375 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAA
* * * *
332440 TGTAGCTGGCCTTGAATCAGCACGTTGACATCTTTTCT
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTTCA
* * * * *
332478 CATCTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTT
1 CCT-TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
332526 TATCACTTTT
Statistics
Matches: 490, Mismatches: 35, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
92 165 0.34
93 4 0.01
98 233 0.48
100 5 0.01
101 40 0.08
102 6 0.01
103 4 0.01
104 33 0.07
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (98 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:333431 original size:33 final size:33
Alignment explanation
Indices: 333394--333460 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
333384 TTCAACGATT
333394 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
333427 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
333460 T
1 T
333461 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:333432 original size:13 final size:13
Alignment explanation
Indices: 333414--333438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
333404 CATAAAATGT
333414 TGTATCGATACAA
1 TGTATCGATACAA
333427 TGTATCGATACA
1 TGTATCGATACA
333439 TATTTTTTTG
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:333522 original size:13 final size:13
Alignment explanation
Indices: 333504--333528 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
333494 ATTACTCACA
333504 TGTATCGATACAT
1 TGTATCGATACAT
333517 TGTATCGATACA
1 TGTATCGATACA
333529 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:333665 original size:52 final size:52
Alignment explanation
Indices: 333537--333657 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
333527 CACTGATCTT
*
333537 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
333589 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
333641 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
333658 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:341004 original size:1 final size:1
Alignment explanation
Indices: 340960--340995 Score: 63
Period size: 1 Copynumber: 36.0 Consensus size: 1
340950 TACTCTTCAC
*
340960 AAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
340996 GGGGAAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:342019 original size:30 final size:30
Alignment explanation
Indices: 341966--342404 Score: 202
Period size: 34 Copynumber: 13.9 Consensus size: 30
341956 TGGCATTTTT
341966 TCTTTAAAGCCCACAATTCCGTGGCACCTCA
1 TCTTT-AAGCCCACAATTCCGTGGCACCTCA
*
341997 TCTTTAAGTCCACAACTT-CGTGGCACC-C-
1 TCTTTAAGCCCACAA-TTCCGTGGCACCTCA
342025 T-TTTACAGCCCACAATTCCGTGGCACCTCA
1 TCTTTA-AGCCCACAATTCCGTGGCACCTCA
*
342055 TCTTTAAGCCCACAACTCCGTGGCACTCTTTTTC-
1 TCTTTAAGCCCACAATTCCGTGGCAC-C----TCA
* *
342089 TCTTTTCAAAGCCCACGACTCCGTGGCA-CTC-
1 TC-TTT--AAGCCCACAATTCCGTGGCACCTCA
* * *
342120 T-TTAAAGCCCACAACTCCGTGGCACCTTCT
1 TCTTTAAGCCCACAATTCCGTGGCACC-TCA
* * *
342150 TCTTTTCAAAGCCCACAACTCTGTGGCACCTTCT
1 TC-TTT--AAGCCCACAATTCCGTGGCACC-TCA
* * *
342184 TCTTTTCAAAGCCCACAACTCTGTGGCACCTTCT
1 TC-TTT--AAGCCCACAATTCCGTGGCACC-TCA
* *
342218 TCTGTTCAAAGCCCACGACTCCGTGGCA-CTC-
1 TCT-TT--AAGCCCACAATTCCGTGGCACCTCA
* * *
342249 T-TTAAAGCCCACAACTCCGTGGCACCTTCT
1 TCTTTAAGCCCACAATTCCGTGGCACC-TCA
* * *
342279 TCTTTTCAAAGCCCACAACTCTGTGGCACCTTCT
1 TC-TTT--AAGCCCACAATTCCGTGGCACC-TCA
* * *
342313 TCTTTTCAAAGCCCACAACTCTGTGGCACCTTCT
1 TC-TTT--AAGCCCACAATTCCGTGGCACC-TCA
* *
342347 TCTGTTCAAAGCCCACGACTCCGTGGCA-CTC-
1 TCT-TT--AAGCCCACAATTCCGTGGCACCTCA
* * *
342378 TTTTTAAAGCCCACAACTCTGTGGCAC
1 TCTTT-AAGCCCACAATTCCGTGGCAC
342405 TCTTTTTCCT
Statistics
Matches: 358, Mismatches: 19, Indels: 63
0.81 0.04 0.14
Matches are distributed among these distances:
27 44 0.12
28 20 0.06
29 28 0.08
30 43 0.12
31 18 0.05
32 8 0.02
33 4 0.01
34 168 0.47
35 6 0.02
37 19 0.05
ACGTcount: A:0.21, C:0.36, G:0.14, T:0.29
Consensus pattern (30 bp):
TCTTTAAGCCCACAATTCCGTGGCACCTCA
Found at i:342042 original size:58 final size:58
Alignment explanation
Indices: 341968--342499 Score: 263
Period size: 68 Copynumber: 8.4 Consensus size: 58
341958 GCATTTTTTC
* *
341968 TTTAAAGCCCACAATTCCGTGGCACCTCATCTTTAAGTCCACAACTTCGTGGCACCCT
1 TTTAAAGCCCACAATTCCGTGGCACCTCATCTTTAAGCCCACAACTCCGTGGCACCCT
*
342026 TTTACAGCCCACAATTCCGTGGCACCTCATCTTTAAGCCCACAACTCCGTGGCACTCTTTTTCTC
1 TTTAAAGCCCACAATTCCGTGGCACCTCATCTTTAAGCCCACAACTCCGTGGCA--C-----C-C
342091 T
58 T
* * *
342092 TTTCAAAGCCCACGACTCCGTGGCA-CTC-T-TTAAAGCCCACAACTCCGTGGCACCTTCTTCT
1 TTT-AAAGCCCACAATTCCGTGGCACCTCATCTTTAAGCCCACAACTCCGTGGCA-C--C--CT
* * * *
342153 TTTCAAAGCCCACAACTCTGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACCTTCT
1 TTT-AAAGCCCACAATTCCGTGGCACC-TCATC-TTT--AAGCCCACAACTCCGTGGCACC--C-
342218 T
58 T
* * *
342219 CTGTTCAAAGCCCACGACTCCGTGGCA-CTC-T-TTAAAGCCCACAACTCCGTGGCACCTTCTTC
1 -T-TT-AAAGCCCACAATTCCGTGGCACCTCATCTTTAAGCCCACAACTCCGTGGCA-C--C--C
342281 T
58 T
* * * *
342282 TTTCAAAGCCCACAACTCTGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACCTTCT
1 TTT-AAAGCCCACAATTCCGTGGCACC-TCATC-TTT--AAGCCCACAACTCCGTGGCACC--C-
342347 T
58 T
* * * * *
342348 CTGTTCAAAGCCCACGACTCCGTGGCA-CTC-TTTTTAAAGCCCACAACTCTGTGGCACTCTTT
1 -T-TT-AAAGCCCACAATTCCGTGGCACCTCATCTTT-AAGCCCACAACTCCGTGGCAC-C-CT
* * * ** *
342410 TTCCTCCTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCATCC
1 TT--T--AAAGCCCACAATTCCGTGGCAC-C-TCAT-CTT-TAAGCCCACAACTCCGTGGCACCC
342475 T
58 T
* *
342476 TTT-AAGCCCATAACTCCGTGGCAC
1 TTTAAAGCCCACAATTCCGTGGCAC
342500 TTTTTTCATC
Statistics
Matches: 397, Mismatches: 34, Indels: 83
0.77 0.07 0.16
Matches are distributed among these distances:
58 51 0.13
60 5 0.01
61 87 0.22
62 6 0.02
63 50 0.13
64 33 0.08
65 13 0.03
66 22 0.06
67 26 0.07
68 103 0.26
69 1 0.00
ACGTcount: A:0.21, C:0.36, G:0.14, T:0.29
Consensus pattern (58 bp):
TTTAAAGCCCACAATTCCGTGGCACCTCATCTTTAAGCCCACAACTCCGTGGCACCCT
Found at i:342161 original size:34 final size:34
Alignment explanation
Indices: 342123--342605 Score: 449
Period size: 34 Copynumber: 14.6 Consensus size: 34
342113 GGCACTCTTT
342123 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
*
342157 AAAGCCCACAACTCTGTGGCACCTTCTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
* *
342191 AAAGCCCACAACTCTGTGGCACCTTCTTCTGTTC
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
*
342225 AAAGCCCACGACTCCGTGGCA----C-TC-TTT-
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
342252 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
*
342286 AAAGCCCACAACTCTGTGGCACCTTCTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
* *
342320 AAAGCCCACAACTCTGTGGCACCTTCTTCTGTTC
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
*
342354 AAAGCCCACGACTCCGTGGCA-C-TC-T-TTTT-
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
* * * *
342383 AAAGCCCACAACTCTGTGGCACTCTTTTTC-CTCC
1 AAAGCCCACAACTCCGTGGCAC-CTTCTTCTTTTC
* * * *
342417 TAAGCCCACAACTCTGTGGCACTCTTTTTC-CTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTCTTCTTTTC
*
342451 TAAGCCCACAACTCCGTGGCA---TC--CTTTT-
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
* * *
342479 -AAGCCCATAACTCCGTGGCACTTTTTTCATCTTT-
1 AAAGCCCACAACTCCGTGGCACCTTCTTC-T-TTTC
* * * * *
342513 -GAGTCCATAACTCCGTGGCACCTTTTTTTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
*
342546 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-
1 ----AAAGCCCACAACTCCGTGGCAC-CTTCTT--CTTTTC
*
342586 -AAGTCCACAACTCCGTGGCA
1 AAAGCCCACAACTCCGTGGCA
342606 TCTTTCTCCC
Statistics
Matches: 387, Mismatches: 32, Indels: 59
0.81 0.07 0.12
Matches are distributed among these distances:
27 39 0.10
28 3 0.01
29 23 0.06
30 6 0.02
31 3 0.01
32 9 0.02
33 8 0.02
34 249 0.64
35 19 0.05
38 18 0.05
39 6 0.02
41 4 0.01
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.31
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
Found at i:342191 original size:95 final size:93
Alignment explanation
Indices: 341965--342476 Score: 446
Period size: 95 Copynumber: 5.3 Consensus size: 93
341955 GTGGCATTTT
* * * *
341965 TTCTTTAAAGCCCACAATTCCGTGGCACC-TCATC-TTT--AAGTCCACAACT-TCGTGGCACCC
1 TTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCT-GTGGCACTC
* * *
342025 TTTTACAGCCCACAATTCCGTGGCACCTC
65 TTTCAAAGCCCACAACTCCGTGGCACCTC
* * * *
342054 ATCTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCAC
1 TTCTTTAAAGCCCACAACTCCGTGGCAC-C-TTCT-TCTTTTCAAAGCCCACAACTCTGTGGCAC
342118 TCTTT-AAAGCCCACAACTCCGTGGCACCTTC
63 TCTTTCAAAGCCCACAACTCCGTGGCACC-TC
*
342149 TTCTTTTCAAAGCCCACAACTCTGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACC
1 TTC-TTT-AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCA--
*
342214 TTCTTCTGTTCAAAGCCCACGACTCCGTGGCA---C
62 --C-TCT-TTCAAAGCCCACAACTCCGTGGCACCTC
342247 -TCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACCTT
1 TTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCA----
*
342311 CTTCTTTTCAAAGCCCACAACTCTGTGGCACCTTC
62 C-TC-TTTCAAAGCCCACAACTCCGTGGCACC-TC
*
342346 TTCTGTTCAAAGCCCACGACTCCGTGGCA-C-TC-T-TTTT-AAAGCCCACAACTCTGTGGCACT
1 TTCT-TT-AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACT
* * *
342406 CTTTTTCCTCCTAAGCCCACAACTCTGTGGCACTCTTT
64 C---TT--T-CAAAGCCCACAACTCCGTGGCAC-C-TC
342444 TTCCTTCT-AAGCCCACAACTCCGTGGCATCCTT
1 TT-CTT-TAAAGCCCACAACTCCGTGGCA-CCTT
342477 TTAAGCCCAT
Statistics
Matches: 362, Mismatches: 23, Indels: 65
0.80 0.05 0.14
Matches are distributed among these distances:
88 20 0.06
89 6 0.02
91 1 0.00
92 4 0.01
93 4 0.01
94 24 0.07
95 135 0.37
96 11 0.03
97 65 0.18
98 31 0.09
99 7 0.02
100 9 0.02
101 5 0.01
102 40 0.11
ACGTcount: A:0.21, C:0.36, G:0.13, T:0.30
Consensus pattern (93 bp):
TTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCT
TTCAAAGCCCACAACTCCGTGGCACCTC
Found at i:342238 original size:129 final size:128
Alignment explanation
Indices: 342031--342476 Score: 639
Period size: 129 Copynumber: 3.4 Consensus size: 128
342021 ACCCTTTTAC
* * * * *
342031 AGCCCACAATTCCGTGGCACC-TCATCTTT--AAGCCCACAACTCCGTGGCACTCTTTTTCTCTT
1 AGCCCACAACTCTGTGGCACCTTCTTCTTTCAAAGCCCACAACTCCGTGGCAC-C-TTCT-TCTG
342093 TTCAAAGCCCACGACTCCGTGGCACTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCA
63 TTCAAAGCCCACGACTCCGTGGCACTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCA
342158 A
128 A
*
342159 AGCCCACAACTCTGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACCTTCTTCTGTT
1 AGCCCACAACTCTGTGGCACCTTCTTC-TTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTGTT
342224 CAAAGCCCACGACTCCGTGGCACTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAA
65 CAAAGCCCACGACTCCGTGGCACTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAA
*
342288 AGCCCACAACTCTGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACCTTCTTCTGTT
1 AGCCCACAACTCTGTGGCACCTTCTTC-TTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTGTT
* * * *
342353 CAAAGCCCACGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC-CTCC
65 CAAAGCCCACGACTCCGTGGCACTC--TTTAAAGCCCACAACTCCGTGGCAC-CTTCTTCTTTTC
*
342417 TA
127 AA
* * *
342419 AGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCATCCTT
1 AGCCCACAACTCTGTGGCAC-CTTCTTCTTTCAAAGCCCACAACTCCGTGGCA-CCTT
342477 TTAAGCCCAT
Statistics
Matches: 294, Mismatches: 15, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
128 19 0.06
129 163 0.55
130 6 0.02
131 70 0.24
132 36 0.12
ACGTcount: A:0.20, C:0.37, G:0.14, T:0.29
Consensus pattern (128 bp):
AGCCCACAACTCTGTGGCACCTTCTTCTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTGTTC
AAAGCCCACGACTCCGTGGCACTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAA
Found at i:342497 original size:61 final size:60
Alignment explanation
Indices: 342417--342607 Score: 177
Period size: 61 Copynumber: 2.9 Consensus size: 60
342407 TTTTTCCTCC
* *
342417 TAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCATCCTTT
1 TAAGCCCACAACTCCGTGGCACTCTTTTTCCTT-TAAGTCCACAACTCCGTGGCATCCTTT
* * *
342478 TAAGCCCATAACTCCGTGGCACT-TTTTTCATCTTTGAGTCCATAACTCCGTGGCACCTTTTTTT
1 TAAGCCCACAACTCCGTGGCACTCTTTTTC--CTTTAAGTCCACAACTCCGTGGCA---------
*
342542 TTTCTTT
55 -TCCTTT
342549 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATC
1 T-AAGCCCACAACTCCGTGGCACTCTTTTT-CC-TTTAAGTCCACAACTCCGTGGCATC
342608 TTTCTCCCTT
Statistics
Matches: 104, Mismatches: 10, Indels: 30
0.72 0.07 0.21
Matches are distributed among these distances:
60 6 0.06
61 39 0.38
62 3 0.03
63 1 0.01
71 6 0.06
72 22 0.21
73 26 0.25
74 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.35
Consensus pattern (60 bp):
TAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTAAGTCCACAACTCCGTGGCATCCTTT
Found at i:342505 original size:27 final size:27
Alignment explanation
Indices: 342445--342498 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
342435 GCACTCTTTT
*
342445 TCCTTCTAAGCCCACAACTCCGTGGCA
1 TCCTTTTAAGCCCACAACTCCGTGGCA
*
342472 TCCTTTTAAGCCCATAACTCCGTGGCA
1 TCCTTTTAAGCCCACAACTCCGTGGCA
342499 CTTTTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.37, G:0.15, T:0.26
Consensus pattern (27 bp):
TCCTTTTAAGCCCACAACTCCGTGGCA
Found at i:342540 original size:95 final size:97
Alignment explanation
Indices: 342090--342578 Score: 315
Period size: 95 Copynumber: 5.1 Consensus size: 97
342080 CTCTTTTTCT
* *
342090 CTTTTCAAAGCCCACGACTCCGTGGCACTC--TTT-A----AAGCCCACAACTCCGTGGCACCTT
1 CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCATCCTAAGCCCACAACTCTGTGGCACCTT
* *
342148 CTTCTT--TTCAAAGCCCACAACTCTGTGGCACCTTC
65 -TT-TTCCTTCTAAGCCCACAACTCCGTGGCA-C-TC
* * * * * * *
342183 TTCTTTTCAAAGCCCACAACTCTGTGGCAC-CTTCTTCTGTTCAAAGCCCACGACTCCGTGGCA-
1 --CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTC-ATCCTAAGCCCACAACTCTGTGGCAC
342246 C-----T-CTT-TAAAGCCCACAACTCCGTGGCACCTTC
62 CTTTTTTCCTTCT-AAGCCCACAACTCCGTGGCA-C-TC
* * * * *
342278 TTCTTTTCAAAGCCCACAACTCTGTGGCAC-CTTCTTCTTTTCAAAGCCCACAACTCTGTGGCAC
1 --CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTC-ATCCTAAGCCCACAACTCTGTGGCAC
* * * *
342342 C-TTCTTCTGTTCAAAGCCCACGACTCCGTGGCACTC
62 CTTTTTTC-CTTCTAAGCCCACAACTCCGTGGCACTC
* * *
342378 TTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTCCTAAGCCCACAACTCTGTGGCA-CTCT
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCATCCTAAGCCCACAACTCTGTGGCACCT-T
342442 TTTTCCTTCTAAGCCCACAACTCCGTGGCA-TC
65 TTTTCCTTCTAAGCCCACAACTCCGTGGCACTC
* * * * * *
342474 CTTTT-AAGCCCATAACTCCGTGGCACT-TTTTTCATCTTTGAGTCCATAACTCCGTGGCACCTT
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCATC-CTAAGCCCACAACTCTGTGGCACC--
* *
342537 TTTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTC
63 -TTTTTTCCTTCT-AAGCCCACAACTCCGTGGCACTC
*
342574 TTTTT
1 CTTTT
342579 CCCTTTTAAG
Statistics
Matches: 332, Mismatches: 34, Indels: 51
0.80 0.08 0.12
Matches are distributed among these distances:
94 10 0.03
95 149 0.45
96 11 0.03
97 66 0.20
98 24 0.07
99 21 0.06
100 9 0.03
101 2 0.01
102 40 0.12
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (97 bp):
CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCATCCTAAGCCCACAACTCTGTGGCACCTTT
TTTCCTTCTAAGCCCACAACTCCGTGGCACTC
Found at i:342564 original size:72 final size:72
Alignment explanation
Indices: 342474--342610 Score: 197
Period size: 73 Copynumber: 1.9 Consensus size: 72
342464 CCGTGGCATC
* * * *
342474 CTTTTAAGCCCATAACTCCGTGGCACT-TTTTT-CATCTTTGAGTCCATAACTCCGTGGCACCTT
1 CTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCCT-TTTAAGTCCACAACTCCGTGGCACCTT
342537 TTTTTTTT
65 TTTTTTTT
*
342545 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTT
1 CTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCACCTT
342610 T
65 T
342611 CTCCCTTCCT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
71 5 0.09
72 21 0.36
73 30 0.52
74 2 0.03
ACGTcount: A:0.18, C:0.30, G:0.12, T:0.39
Consensus pattern (72 bp):
CTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCACCTTT
TTTTTTT
Found at i:342633 original size:73 final size:71
Alignment explanation
Indices: 342479--342630 Score: 173
Period size: 73 Copynumber: 2.1 Consensus size: 71
342469 GCATCCTTTT
* * * * ***
342479 AAGCCCATAACTCCGTGGCACTTTTTTCATCTTTGAGTCCATAACTCCGTGGCACCTTTTTTTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTCTCCCT
*
342544 TCTTTTA
66 TC-TCTA
* *
342551 AAGCCCACAACTCCGTGGCACTCTTTTTC-CCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCC
1 AAGCCCACAACTCCGTGGCACT-TTTTTCATC-TTTAAGTCCACAACTCCGTGGCACCTTTCTCC
342615 CTTC-CTA
64 CTTCTCTA
342622 AAGCCCACA
1 AAGCCCACA
342631 CAAGTCGGTG
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
71 11 0.16
72 22 0.32
73 35 0.51
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.36
Consensus pattern (71 bp):
AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTCTCCCT
TCTCTA
Found at i:342658 original size:33 final size:35
Alignment explanation
Indices: 342615--342684 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
342605 ATCTTTCTCC
342615 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
342649 CTTCC-AAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
342683 CT
1 CT
342685 AAGCCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:342748 original size:49 final size:49
Alignment explanation
Indices: 342684--343244 Score: 661
Period size: 49 Copynumber: 11.6 Consensus size: 49
342674 GCAACCCTTC
*
342684 TAAGCCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTTCATCTT
*
342733 TAAGTCCAATGTAGCTGGCCTTGAATCAGCA-CATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATC-TTGGCATCTTCATCTT
* * * *
342776 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCATCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTTCATCTT
*
342825 TAAGTCCAATATCGCTGGCCTTGAATCAGCA-CATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATC-TTGGCATCTTCATCTT
* * *
342868 TAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTTCATCTT
* * * *
342917 TAAGTCCAATGTAGCTGGCCTTGACTCAGCA-CATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATC-TTGGCATCTTCATCTT
* * *
342966 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTTCATCTT
* * *
343015 TAAGTCCAATGTAGCTGGCCTTGACTCAGCA-CATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATC-TTGGCATCTTCATCTT
* *
343064 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTTCATCTT
* * * *
343113 TAAGACCAATGTAGCTGGCCTTGACTCAGCA-CATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATC-TTGGCATCTTCATCTT
* *
343162 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGG--CATCTT-CATCTT
* *
343214 TAAGTTCAATGTAGCTGGCCTTGAATCAGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCA
343245 CGTTGACATC
Statistics
Matches: 436, Mismatches: 51, Indels: 47
0.82 0.10 0.09
Matches are distributed among these distances:
43 76 0.17
45 2 0.00
47 2 0.00
48 1 0.00
49 316 0.72
51 4 0.01
52 35 0.08
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTTCATCTT
Found at i:342992 original size:98 final size:98
Alignment explanation
Indices: 342679--343245 Score: 834
Period size: 98 Copynumber: 5.9 Consensus size: 98
342669 CGGTGGCAAC
* *
342679 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATCTTGGCATCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
342744 TAGCTGGCCTTGAATCAGCACATTGG------CA
65 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
342772 CCTTTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCATCTTCACCTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
342837 CGCTGGCCTTGAATCAGCACATTGG------CA
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
342864 CCTTTAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
342929 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
342962 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
343027 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
343060 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGACCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
343125 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
343158 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAA
343223 TGTAGCTGGCCTTGAATCAGCAC
63 TGTAGCTGGCCTTGAATCAGCAC
343246 GTTGACATCT
Statistics
Matches: 442, Mismatches: 23, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
92 165 0.37
93 4 0.01
98 233 0.53
100 5 0.01
101 35 0.08
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (98 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:343310 original size:55 final size:55
Alignment explanation
Indices: 342865--343374 Score: 351
Period size: 49 Copynumber: 9.8 Consensus size: 55
342855 ACATTGGCAC
* *
342865 CTTTAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGCATC-----T-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
* * * * *
342914 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C----CT-TCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
* *
342963 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC------ATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
* * * *
343012 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C----CT-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
*
343061 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC-----T-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
* * * * *
343110 CTTTAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C----CT-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
*
343159 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-ATTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
* * ** *
343211 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCTTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
* * * * * *
343266 CTTCAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG---C---AT--CTTTT-T--TC-TC
343331 AT
54 AT
*
343333 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
343375 CCTTCATCAT
Statistics
Matches: 383, Mismatches: 52, Indels: 40
0.81 0.11 0.08
Matches are distributed among these distances:
48 3 0.01
49 248 0.65
50 2 0.01
52 41 0.11
53 1 0.00
54 5 0.01
55 32 0.08
58 1 0.00
61 3 0.01
63 5 0.01
64 2 0.01
66 2 0.01
67 38 0.10
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
Found at i:344209 original size:33 final size:33
Alignment explanation
Indices: 344172--344238 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
344162 TTCAACGATT
344172 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
344205 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
344238 T
1 T
344239 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:344210 original size:13 final size:13
Alignment explanation
Indices: 344192--344216 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
344182 CATAAAATGT
344192 TGTATCGATACAA
1 TGTATCGATACAA
344205 TGTATCGATACA
1 TGTATCGATACA
344217 TATTTTTTTG
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:344301 original size:13 final size:13
Alignment explanation
Indices: 344283--344307 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
344273 ATTACTCACA
344283 TGTATCGATACAT
1 TGTATCGATACAT
344296 TGTATCGATACA
1 TGTATCGATACA
344308 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:344444 original size:52 final size:52
Alignment explanation
Indices: 344316--344436 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
344306 CACTGATCTT
*
344316 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
344368 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
344420 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
344437 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:351943 original size:52 final size:52
Alignment explanation
Indices: 351886--351993 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 52
351876 TTCATAATTA
* * *
351886 AATTGTATCGATATAAGGTGAATTGTATCGATACATTAAGCCCAACGGCTAT
1 AATTGTATCGATATAAGATGAATTGTATCGATACAGTAAGCCCAACGGCTAG
** * *
351938 AATTGTATCGATATATTATGAATTGTATCGATACAGTGAGCCCAATGGCTAG
1 AATTGTATCGATATAAGATGAATTGTATCGATACAGTAAGCCCAACGGCTAG
351990 AATT
1 AATT
351994 ACAAATGCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.32
Consensus pattern (52 bp):
AATTGTATCGATATAAGATGAATTGTATCGATACAGTAAGCCCAACGGCTAG
Found at i:352460 original size:35 final size:34
Alignment explanation
Indices: 352406--352471 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 34
352396 TAAGTGATTG
* * *
352406 AGAGGTTCTATCTTTGCCTTTATAAAAGATAGGGA
1 AGAGGTTCTATCGTAGCCTTCA-AAAAGATAGGGA
*
352441 AGAGGTTTTATCGTAGCCTTCAAAAAGATAG
1 AGAGGTTCTATCGTAGCCTTCAAAAAGATAG
352472 TGTTGTAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 9 0.33
35 18 0.67
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (34 bp):
AGAGGTTCTATCGTAGCCTTCAAAAAGATAGGGA
Found at i:357707 original size:19 final size:19
Alignment explanation
Indices: 357657--357710 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
357647 TTTCAATAAT
357657 TTGTATCGATACA-AACTG
1 TTGTATCGATACATAACTG
* *
357675 TAACTGTATTGATACATAAGTG
1 T---TGTATCGATACATAACTG
357697 TTGTATCGATACAT
1 TTGTATCGATACAT
357711 TGTATCGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 1 0.03
19 12 0.41
21 11 0.38
22 5 0.17
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAACTG
Found at i:357715 original size:13 final size:13
Alignment explanation
Indices: 357697--357722 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
357687 TACATAAGTG
357697 TTGTATCGATACA
1 TTGTATCGATACA
357710 TTGTATCGATACA
1 TTGTATCGATACA
357723 ACACTTATGT
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):
TTGTATCGATACA
Found at i:357812 original size:13 final size:13
Alignment explanation
Indices: 357794--357821 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
357784 ATTACTAAAA
357794 TGTATCGATACAT
1 TGTATCGATACAT
357807 TGTATCGATACAT
1 TGTATCGATACAT
357820 TG
1 TG
357822 ACCTTTGTAT
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:362209 original size:13 final size:13
Alignment explanation
Indices: 362191--362216 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
362181 AATTTTTTTA
362191 TGTATCGATACAT
1 TGTATCGATACAT
362204 TGTATCGATACAT
1 TGTATCGATACAT
362217 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:364323 original size:21 final size:20
Alignment explanation
Indices: 364294--364332 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
364284 GGCTAGTATG
*
364294 GGGACTGCCCGGTTGCGACTT
1 GGGACTG-CCGGTCGCGACTT
*
364315 GGGAGTGCCGGTCGCGAC
1 GGGACTGCCGGTCGCGAC
364333 CTGGTGGTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.10, C:0.28, G:0.44, T:0.18
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACTT
Found at i:370969 original size:13 final size:13
Alignment explanation
Indices: 370951--370976 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
370941 AATTTTTTTG
370951 TGTATCGATACAT
1 TGTATCGATACAT
370964 TGTATCGATACAT
1 TGTATCGATACAT
370977 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:371479 original size:16 final size:16
Alignment explanation
Indices: 371458--371490 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
371448 CATTTCTCTC
371458 CAAATTTCTCA-TTTCT
1 CAAATTT-TCACTTTCT
371474 CAAATTTTCACTTTCT
1 CAAATTTTCACTTTCT
371490 C
1 C
371491 TCTACCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.48
Consensus pattern (16 bp):
CAAATTTTCACTTTCT
Found at i:373695 original size:155 final size:156
Alignment explanation
Indices: 373372--373703 Score: 377
Period size: 155 Copynumber: 2.1 Consensus size: 156
373362 TCAGTTTTAG
* * * *
373372 AAAATTATGAAAATGCCCTTAAAGAATACCTTCGACGTAAAAGTATCTGATACCCTTAAAAGACT
1 AAAATTATGAAAATGCCTTTAAAGAATACCTTCGACATAAAAATACCTGATACCCTTAAAAGACT
** * * * *
373437 TAAAAAAAGATTTTAACTTGGATAAACCTACCTTATATATTCACCTTCGGCATCAAAGCAGACTC
66 TAAAAAAAGATTTTAACAAGGATAAACCTACCTTAAATATCCACATTCGGCATAAAAGCAGACTC
* *
373502 GATGACAACCAAGGAATTGGTTCTAA
131 GATGACAACCAAGGAATCGATTCTAA
* * *
373528 AAAATTACGAAAATGCCTTT-AAGAGATACCTTCTACATAAAAATACCTGATATCCTTAAAAGAC
1 AAAATTATGAAAATGCCTTTAAAGA-ATACCTTCGACATAAAAATACCTGATACCCTTAAAAGAC
* * **
373592 TT-AAAAAGGATTTTAA-AAGAGATGAACCTATCC-TAAATATCCACATTCGGCATAAAAGTGGA
65 TTAAAAAAAGATTTTAACAAG-GATAAACCTA-CCTTAAATATCCACATTCGGCATAAAAGCAGA
* * * *
373654 TTCGGTGACAACCTAA-GACTCGATTCTAG
128 CTCGATGACAACC-AAGGAATCGATTCTAA
*
373683 GAAATTATGAAAATGCCTTTA
1 AAAATTATGAAAATGCCTTTA
373704 TGGATATACT
Statistics
Matches: 146, Mismatches: 25, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
154 1 0.01
155 87 0.60
156 58 0.40
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (156 bp):
AAAATTATGAAAATGCCTTTAAAGAATACCTTCGACATAAAAATACCTGATACCCTTAAAAGACT
TAAAAAAAGATTTTAACAAGGATAAACCTACCTTAAATATCCACATTCGGCATAAAAGCAGACTC
GATGACAACCAAGGAATCGATTCTAA
Found at i:375181 original size:18 final size:18
Alignment explanation
Indices: 375158--375195 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
375148 AATCCAACTA
375158 TTTTTCACTATT-TTTTCT
1 TTTTTCACT-TTCTTTTCT
*
375176 TTTTTCTCTTTCTTTTCT
1 TTTTTCACTTTCTTTTCT
375194 TT
1 TT
375196 CTTTTTTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTCACTTTCTTTTCT
Found at i:380734 original size:16 final size:16
Alignment explanation
Indices: 380708--380743 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
380698 ATGAAAAAGA
380708 ATTTTTTATTA-TTTT
1 ATTTTTTATTATTTTT
380723 ATTTTGTTATTATTTTT
1 ATTTT-TTATTATTTTT
380740 ATTT
1 ATTT
380744 AATTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 6 0.32
17 8 0.42
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (16 bp):
ATTTTTTATTATTTTT
Found at i:382634 original size:138 final size:138
Alignment explanation
Indices: 382490--383049 Score: 1014
Period size: 138 Copynumber: 4.1 Consensus size: 138
382480 CCTCCATATG
*
382490 TTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTACCATATGTTTCTTCAT
1 TTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTCTTCAT
* * *
382555 GATTTGCATTTCCCATCACTTTTTCATTTGCATGTTGCTGTGCTTTCTTTCCATTTGCTTGTGTT
66 GATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTTGTGTT
382620 CCTCATGA
131 CCTCATGA
*
382628 TTGCATGGTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTCTTCAT
1 TTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTCTTCAT
*
382693 GATTTGCATCTCTCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTTGTGTT
66 GATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTTGTGTT
382758 CCTCATGA
131 CCTCATGA
*
382766 TTGCATGCTTCATGATTTTCTGCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTCTTCAT
1 TTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTCTTCAT
*
382831 GATTTGCATCTCCCATCACTTTTTTATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTTGTGTT
66 GATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTTGTGTT
382896 CCTCATGA
131 CCTCATGA
*
382904 TTGCATGCTTCATGATTTTCTCCATGTGACCTCCAATTC-TTTTGTTTGCCATATGTTTCTTCAT
1 TTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTCTTCAT
* *
382968 GATTTGCATCTCCCATCCCTTTTTCATTTGCACGTTGCTTTACTTTCTTTCCATTTGCTTGTGTT
66 GATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTTGTGTT
383033 CCTCATGA
131 CCTCATGA
383041 TTGCATGCT
1 TTGCATGCT
383050 ACATTTCATT
Statistics
Matches: 407, Mismatches: 15, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
137 104 0.26
138 303 0.74
ACGTcount: A:0.14, C:0.24, G:0.14, T:0.48
Consensus pattern (138 bp):
TTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTCTTCAT
GATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTTGTGTT
CCTCATGA
Found at i:383431 original size:42 final size:43
Alignment explanation
Indices: 383369--383470 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
383359 AGACAAAATT
** *
383369 AGGGAAAG-AAGTCTTTAAGGTC-AAAGCCAACAAG-CAGACTA
1 AGGGAAAGAAAGTCTCCAAGGTCAAAAGCCAAC-AGTCAAACTA
* *
383410 AGGGTAGGAAAGTCTCCAAGGTCAAAAGCCAACAGTCAAACTA
1 AGGGAAAGAAAGTCTCCAAGGTCAAAAGCCAACAGTCAAACTA
383453 AGGGAAAGAAAGTCTCCA
1 AGGGAAAGAAAGTCTCCA
383471 GAAGTTTAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
41 6 0.12
42 14 0.27
43 31 0.61
ACGTcount: A:0.43, C:0.19, G:0.25, T:0.14
Consensus pattern (43 bp):
AGGGAAAGAAAGTCTCCAAGGTCAAAAGCCAACAGTCAAACTA
Found at i:388197 original size:10 final size:10
Alignment explanation
Indices: 388185--388218 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
388175 TTGAAAATAT
*
388185 AGCCGTTACT
1 AGCCGTTACA
388195 AGCCGTTACA
1 AGCCGTTACA
388205 AGCCGTTACA
1 AGCCGTTACA
388215 AGCC
1 AGCC
388219 AATGTATCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.26, C:0.32, G:0.21, T:0.21
Consensus pattern (10 bp):
AGCCGTTACA
Found at i:388260 original size:13 final size:13
Alignment explanation
Indices: 388242--388267 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
388232 AATTTTTTGG
388242 TGTATCGATACAT
1 TGTATCGATACAT
388255 TGTATCGATACAT
1 TGTATCGATACAT
388268 ACTTGGTGTA
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:390684 original size:21 final size:21
Alignment explanation
Indices: 390660--390706 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
390650 TTTGAAGATG
390660 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
*
390680 AATTTGAAGTGAAAAACAAGT
1 ATTTTGAAGTGAAAAACAAGT
390701 ATTTTG
1 ATTTTG
390707 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:397038 original size:13 final size:13
Alignment explanation
Indices: 397020--397045 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
397010 AATTTTTTGG
397020 TGTATCGATACAT
1 TGTATCGATACAT
397033 TGTATCGATACAT
1 TGTATCGATACAT
397046 ACTTGGTGTA
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:397168 original size:20 final size:20
Alignment explanation
Indices: 397116--397170 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
397106 CATATTTTTC
*
397116 ATGTATCGATACATTGCAAT
1 ATGTATCGATACTTTGCAAT
397136 ATGTATCGATACTTTG-AATT
1 ATGTATCGATACTTTGCAA-T
*
397156 GTGTATCGATACTTT
1 ATGTATCGATACTTT
397171 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:406141 original size:13 final size:13
Alignment explanation
Indices: 406123--406165 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
406113 AAAAAGAATT
406123 TTTTATTATTTTA
1 TTTTATTATTTTA
406136 TTTTATTATTTTA
1 TTTTATTATTTTA
*
406149 TTTT-TTATTTAA
1 TTTTATTATTTTA
406161 TTTTA
1 TTTTA
406166 ATTTCGTACC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTATTATTTTA
Found at i:408054 original size:138 final size:138
Alignment explanation
Indices: 407897--408455 Score: 985
Period size: 138 Copynumber: 4.1 Consensus size: 138
407887 CAGCCCCCCA
407897 CATG-TTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTC
1 CATGATTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTC
* *
407961 TTCATGATTTGCATCTCTCATCACTTTTTCATTTGCACGTTGCTTTGTTTTCTTTCCATTTGCTT
66 TTCATGATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTT
408026 GTGTTCCT
131 GTGTTCCT
* *
408034 CATGATTGCATGCTTCATGATTTTCTCCATATGGCCTCCAATTCATTTTGTTTGCCATATATTTC
1 CATGATTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTC
* *
408099 TTCATGATTTGCATCTCCCATCACTTTTTCATTTGCGCGTTGCTTTGCATTCTTTCCATTTGCTT
66 TTCATGATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTT
408164 GTGTTCCT
131 GTGTTCCT
* * * *
408172 CATGATTGCATACTTTATGATTTTCTCTATGTGGCCTCTAATTCATTTTGTTTGCCATATGTTTC
1 CATGATTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTC
408237 TTCATGATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTT
66 TTCATGATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTT
408302 GTGTTCCT
131 GTGTTCCT
* *
408310 CATGAGTGCATGCTTCATGATTTTCTCCATGTGGCCTCTAATTCATTTTGTTTGCCATATGTTTC
1 CATGATTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTC
* *
408375 TTCATGATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGGTTTGCTTTCTTTCTATTTGCTT
66 TTCATGATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTT
408440 GTGTTCCT
131 GTGTTCCT
408448 CATGATTG
1 CATGATTG
408456 TGTGCTACAT
Statistics
Matches: 400, Mismatches: 21, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
137 4 0.01
138 396 0.99
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.49
Consensus pattern (138 bp):
CATGATTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTC
TTCATGATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTT
GTGTTCCT
Found at i:412914 original size:12 final size:11
Alignment explanation
Indices: 412881--412914 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
412871 TATTAATTAA
412881 AATAATATTTT
1 AATAATATTTT
412892 AATAA-ATTTT
1 AATAATATTTT
412902 AATATATATTTT
1 AATA-ATATTTT
412914 A
1 A
412915 TTTTTAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.43
11 6 0.29
12 6 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AATAATATTTT
Found at i:412936 original size:35 final size:35
Alignment explanation
Indices: 412892--413006 Score: 119
Period size: 35 Copynumber: 3.2 Consensus size: 35
412882 ATAATATTTT
412892 AATA-AATTTTAATATATATTTTATTTTTAATATA
1 AATATAATTTTAATATATATTTTATTTTTAATATA
*
412926 AATATAATTTTAATAAAT-TTTTAATTATTATTCAATATA
1 AATATAATTTTAATATATATTTT-A-T-TT-TT-AATATA
* **
412965 AATATAATTTT-ATTTATATCATATTATTTAATATA
1 AATATAATTTTAATATATATTTTATT-TTTAATATA
413000 AATATAA
1 AATATAA
413007 ATATAATTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
34 8 0.12
35 26 0.38
36 4 0.06
37 4 0.06
38 7 0.10
39 19 0.28
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (35 bp):
AATATAATTTTAATATATATTTTATTTTTAATATA
Found at i:414898 original size:76 final size:78
Alignment explanation
Indices: 414797--415000 Score: 218
Period size: 76 Copynumber: 2.6 Consensus size: 78
414787 GAGATAATAA
* * * * *
414797 CGGGGTTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATG
1 CGGGGTTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-
*
414861 A-TT-AGAA-AAAAT
64 ATTTGAGAATAAAAC
* * **
414873 CGGGATTGGAGTATCCCTTCGAAAATAACGAGGTTGGAGTATCCCTAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-
* *
414938 TTTGGGAATAAAGC
65 TTTGAGAATAAAAC
* * *
414952 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGAT
415001 GAAATAACGA
Statistics
Matches: 104, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
75 7 0.07
76 47 0.45
77 2 0.02
78 3 0.03
79 45 0.43
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTGAGAATAAAAC
Found at i:414992 original size:28 final size:28
Alignment explanation
Indices: 414952--415023 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
414942 GGAATAAAGC
** *
414952 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
414980 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
415008 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
415024 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:415081 original size:52 final size:50
Alignment explanation
Indices: 415012--415181 Score: 182
Period size: 52 Copynumber: 3.3 Consensus size: 50
415002 AAATAACGAG
* * *
415012 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGT-GTTTT-GAAATAAAACCGGA
** * *
415064 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTG-AAATAAAACC-GGA
*
415117 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AACGATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGAA--ATAAAACCGGA
415168 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
415182 TCGAAAATAA
Statistics
Matches: 99, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
50 2 0.02
51 4 0.04
52 81 0.82
53 12 0.12
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAATAAAACCGGA
Found at i:415200 original size:28 final size:28
Alignment explanation
Indices: 415155--415236 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 28
415145 AGTGTTTTAA
* *
415155 CGATAAA-ACCGGAGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
415182 TCGA-AAATAACGGGGTTGGAGTAT-CCC
1 -CGATAAATAACGGGGTTGGAGTATCCCC
* *
415209 CGATGATTAACGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
415237 GATTGTGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.06
27 24 0.51
28 20 0.43
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (28 bp):
CGATAAATAACGGGGTTGGAGTATCCCC
Found at i:417671 original size:13 final size:13
Alignment explanation
Indices: 417653--417678 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
417643 ACAAAGATCC
417653 ATGTATCGATACA
1 ATGTATCGATACA
417666 ATGTATCGATACA
1 ATGTATCGATACA
417679 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:417674 original size:33 final size:33
Alignment explanation
Indices: 417632--417698 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
417622 AAAATTTCCA
***
417632 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
417665 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
417698 A
1 A
417699 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:417742 original size:19 final size:18
Alignment explanation
Indices: 417718--417785 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
417708 CAGTAGCTAA
417718 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
417737 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
417752 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
417769 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
417786 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:417758 original size:13 final size:13
Alignment explanation
Indices: 417740--417764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
417730 ACAATACTTA
417740 TGTATCGATACAT
1 TGTATCGATACAT
417753 TGTATCGATACA
1 TGTATCGATACA
417765 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:417762 original size:32 final size:32
Alignment explanation
Indices: 417721--417783 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
417711 TAGCTAATTA
*
417721 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
417753 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
417784 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:417865 original size:21 final size:21
Alignment explanation
Indices: 417841--417897 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
417831 CATTTGTAGG
417841 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
417862 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
417883 ATGTATCGATACATT
1 ATGTATCGATACATT
417898 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:417921 original size:16 final size:16
Alignment explanation
Indices: 417900--417930 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
417890 GATACATTTA
417900 AATTTTTTTTTTTTTC
1 AATTTTTTTTTTTTTC
417916 AATTTTTTTTTTTTT
1 AATTTTTTTTTTTTT
417931 TCAAACACTT
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:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (16 bp):
AATTTTTTTTTTTTTC
Found at i:417924 original size:17 final size:17
Alignment explanation
Indices: 417902--417934 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
417892 TACATTTAAA
417902 TTTTTTTTTTTTTCAAT
1 TTTTTTTTTTTTTCAAT
417919 TTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTCAA
417935 ACACTTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTTTTCAAT
Found at i:418498 original size:79 final size:78
Alignment explanation
Indices: 418361--418691 Score: 339
Period size: 79 Copynumber: 4.2 Consensus size: 78
418351 ACAACAGGGC
* * * * *
418361 TGGAGTATCCCCGATTATGAAAAATTGGTGTTCT-GAAAATAAAATCG-GGATTGAAGTATCCCC
1 TGGAGTATCCCCGATTATGAAAAATCGATGTTTTAG-AAAT-AAAGCGAGG-TTGGAGTATCCCC
*
418424 TCAAAAATAACGGGGT
63 TCGAAAATAACGGGGT
* *
418440 TGGAGTATCCCCGATTAT-AGAAAATCGATGTTTT-GAAAATAAAATCGATGTTGGAGTAT-CCC
1 TGGAGTATCCCCGATTATGA-AAAATCGATGTTTTAG-AAAT-AAAGCGAGGTTGGAGTATCCCC
418502 TCCGAAAATAACGGGGT
63 T-CGAAAATAACGGGGT
* * * * * *
418519 TGGAGTATCCTCGATTATGAAAAATCGATGCTTTAGAAATAAGGCCAGGGTTAGAGTATCCCCGC
1 TGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAGCGA-GGTTGGAGTATCCCCTC
* *
418584 GAAAATAACAGTGT
65 GAAAATAACGGGGT
* * * * *
418598 TGGAGTATCCCCGATTGTGATAAATCAATATTTTAGAAATAAAGCTGGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAGC-GAGGTTGGAGTATCCCCTC
* *
418663 GGAAATAATGGGGT
65 GAAAATAACGGGGT
418677 TGGAGTATCCCCGAT
1 TGGAGTATCCCCGAT
418692 GAAATAACGA
Statistics
Matches: 213, Mismatches: 31, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
78 9 0.04
79 198 0.93
80 6 0.03
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (78 bp):
TGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAGCGAGGTTGGAGTATCCCCTCG
AAAATAACGGGGT
Found at i:418677 original size:28 final size:28
Alignment explanation
Indices: 418643--418718 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
418633 GAAATAAAGC
**
418643 TGGGGTTGGAGTATCCCCTCGGAAATAA
1 TGGGGTTGGAGTATCCCCGAGGAAATAA
*
418671 TGGGGTTGGAGTATCCCCGATGAAATAA
1 TGGGGTTGGAGTATCCCCGAGGAAATAA
* * *
418699 CGAGGTTGGAGTATCTCCGA
1 TGGGGTTGGAGTATCCCCGA
418719 TTGTGAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (28 bp):
TGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:418683 original size:107 final size:107
Alignment explanation
Indices: 418566--418797 Score: 274
Period size: 107 Copynumber: 2.2 Consensus size: 107
418556 AATAAGGCCA
* *
418566 GGGTTAGAGTATCCCCG-CGAAAATAAC-AGTGTTGGAGTATCCCCGATTGTGATAAATCAATAT
1 GGGTTGGAGTATCCCCGACG-AAATAACGAG-GTTGGAGTATCCCCGATTGTGAAAAATCAATAT
* *
418629 TTT-AGAAAT-AAAGCTGGGGTTGGAGTATCCCCTCGGAAATAATG
64 TTTGA-AAATAAAATC-GGAGTTGGAGTATCCCCTCGGAAATAATG
* * ** *
418673 GGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCTCCGATTGTGAAAAATTGATGTTT
1 GGGTTGGAGTATCCCCGACGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTT
* * *
418738 TGAAAATAAAATCGGAGTTTGAGTATCCCCTTGGAAATTATG
66 TGAAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAATG
* *
418780 GGATTGGAGTATCTCCGA
1 GGGTTGGAGTATCCCCGA
418798 TTATGAAAAA
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
107 99 0.93
108 8 0.07
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (107 bp):
GGGTTGGAGTATCCCCGACGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTT
TGAAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAATG
Found at i:418841 original size:79 final size:78
Alignment explanation
Indices: 418673--418844 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 78
418663 GGAAATAATG
* *
418673 GGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCTCCGATTGTGAAAAATTGATGTTT
1 GGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCTCCGATTATGAAAAATTGATATTT
*
418738 TGAAAATAAAATC
66 TGAAAATAAAACC
* * * *
418751 GGAGTTTGAGTATCCCC-TTGGAAATTATG-GGATTGGAGTATCTCCGATTATGAAAAATTGATA
1 GG-GTTGGAGTATCCCCGAT-GAAATAACGAGG-TTGGAGTATCTCCGATTATGAAAAATTGATA
* *
418814 TTTTGGAAATAAGACC
63 TTTTGAAAATAAAACC
418830 AGGGTTGGAGTATCC
1 -GGGTTGGAGTATCC
418845 TTGAGATGAA
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
78 5 0.06
79 73 0.91
80 2 0.03
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCTCCGATTATGAAAAATTGATATTT
TGAAAATAAAACC
Found at i:422248 original size:2 final size:2
Alignment explanation
Indices: 422243--422277 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
422233 GATTTTCAAA
* *
422243 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
422278 AATAAAACAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:423088 original size:24 final size:24
Alignment explanation
Indices: 423057--423108 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 24
423047 TTGATTTTGA
423057 TTTTTTT-TCAATCTCTCTCCCCTTT
1 TTTTTTTCTCAA-CTC-CTCCCCTTT
423082 TTTTTTTCTCAACTCCTCCCCTTT
1 TTTTTTTCTCAACTCCTCCCCTTT
423106 TTT
1 TTT
423109 ATCAAACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 12 0.46
25 10 0.38
26 4 0.15
ACGTcount: A:0.08, C:0.33, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTTTTCTCAACTCCTCCCCTTT
Found at i:423866 original size:47 final size:48
Alignment explanation
Indices: 423773--423938 Score: 246
Period size: 48 Copynumber: 3.5 Consensus size: 48
423763 TGTGCCAATA
*
423773 CAAGGCCAACGACATCT-AGCTAAGGGAAAAGTGGACAATGTGCTGATT
1 CAAGGCCAGCGACAT-TGAGCTAAGGGAAAAGTGGACAATGTGCTGATT
* * *
423821 CAAGTCTAGCGACATTGAGCTAAGGGACAA-TGGACAATGTGCTGATT
1 CAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAATGTGCTGATT
*
423868 CAAGGCCAGCAACATTGAGCTAAGGGAAAAGTGGACAATGTGCTGATT
1 CAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAATGTGCTGATT
* *
423916 CAAGGCCAGTGATATTGAGCTAA
1 CAAGGCCAGCGACATTGAGCTAA
423939 TAAAGGTGCC
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
47 44 0.42
48 61 0.58
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.20
Consensus pattern (48 bp):
CAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAATGTGCTGATT
Found at i:424102 original size:28 final size:28
Alignment explanation
Indices: 424047--425080 Score: 837
Period size: 28 Copynumber: 36.0 Consensus size: 28
424037 TTCAAAAAAA
*
424047 GGTGCCACTAACTTGTGTGGGCTTTG-AAG
1 GGTGCCACTGAC-T-TGTGGGCTTTGAAAG
**
424076 AAATGCCACTGACTTGTGGGCTTTGAAAG
1 -GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
424105 GATGCCACTAACTCGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
424133 GGTGCCACTAACTTATGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
424161 GATGCCACTGACTTATGGGCTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
424189 GGTACCACTGACTTGTGGGCTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
424217 GATGCCACTGACTTATGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* * *
424246 TGTTGCCACCGACTCGTGGGCTTTGAAAG
1 -GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
424275 GATGCCACCGACTTGTGAGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* *
424304 GGTTACCACTGACTCGTGTAGGCTTTGAAAG
1 GG-TGCCACTGACT--TGTGGGCTTTGAAAG
424335 GGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
424363 GGTGCCACTGAATTGTGGGCTTTAAAAAG
1 GGTGCCACTGACTTGTGGGCTTT-GAAAG
*
424392 GGTTGCCACCGACTCGTGTGGGCTTTGAAAAG
1 GG-TGCCACTGACT--TGTGGGCTTTG-AAAG
* *
424424 AGTGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
424452 GGTGCTACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
424480 GGTGCCACTGACTTATGGGCTTTGAAAGG
1 GGTGCCACTGACTTGTGGGCTTTGAAA-G
*
424509 GGTTGCCACCGACTTGTGTGGGCTTTGAAAG
1 GG-TGCCACTGAC-T-TGTGGGCTTTGAAAG
*
424540 GGTGCCACTGATTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
424568 GGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
424596 GGTGCCACTGATTTGTGGGCTTTGAAATG
1 GGTGCCACTGACTTGTGGGCTTTGAAA-G
* *
424625 GGTTGCCACCGACTTGTGTGGGCTTTCAAATG
1 GG-TGCCACTGAC-T-TGTGGGCTTTGAAA-G
* *
424657 GGTTGCCACCGACTTGTGTGGGCTTTCAAATG
1 GG-TGCCACTGAC-T-TGTGGGCTTTGAAA-G
*
424689 GGTTGCCACTGACTTGTATGGGCTTTCAAATG
1 GG-TGCCACTGACTTG--TGGGCTTTGAAA-G
*
424721 GGTTGCCACCGACTTGTGTGGGCTTT-AGAAG
1 GG-TGCCACTGAC-T-TGTGGGCTTTGA-AAG
**
424752 GGTGCCACTGACTTGTGGGCTTAAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
424780 GATGCCAC-GAAGTTGTGGAC-TTAAAAG
1 GGTGCCACTG-ACTTGTGGGCTTTGAAAG
* * ** *
424807 GATGCCAC-GAAGTTGTGAAC-TTAAAAG
1 GGTGCCACTG-ACTTGTGGGCTTTGAAAG
* * * * *
424834 AGTGCCACGGAGTTGTGGACTTTGAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
424862 GGTGCCACGGAGTTGTGGACTTT-AAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * * *
424889 GGTACCACGGAGTTGTGGAC-TTAAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
424916 GATGCCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
424944 GGTGCCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
424972 GGTGCCACGGAGTTGTGGAC-TTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
424999 GGTGCCACAGAGTTGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * * *
425027 GATACCACGGAGTTGTGGAC-TTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
425054 GATGCCACGGAGTTGTGGACTTTGAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAA
425081 AGAAATGCCA
Statistics
Matches: 890, Mismatches: 81, Indels: 68
0.86 0.08 0.07
Matches are distributed among these distances:
26 2 0.00
27 145 0.16
28 447 0.50
29 43 0.05
30 93 0.10
31 25 0.03
32 132 0.15
33 1 0.00
34 2 0.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (28 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:424355 original size:88 final size:85
Alignment explanation
Indices: 424042--425082 Score: 847
Period size: 88 Copynumber: 12.1 Consensus size: 85
424032 GGCTTTTCAA
* * **
424042 AAAAAGGTGCCACTAACTTGTGTGGGCTTTG-AAGAAATGCCACTGACTTGTGGGCTTTGAAAGG
1 AAAAGGGTGCCACTGAC-T-TGTGGGCTTTGAAAG-GGTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
424106 ATGCCACTAACTCGTGGGCTTTG
63 GTGCCACTGACTTGTGGGCTTTG
* * * * * *
424129 -AAAGGGTGCCACTAACTTATGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTAAAAGGGTA
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTG
424193 CCACTGACTTGTGGGCTTT-
66 CCACTGACTTGTGGGCTTTG
* * * * * *
424212 AAAAGGATGCCACTGACTTATGGGCTTTGAAAAGTGTTGCCACCGACTCGTGGGCTTTGAAAGGA
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCACTGACTTGTGGGCTTTGAAAGGG
* *
424277 TGCCACCGACTTGTGAGCTTTG
64 TGCCACTGACTTGTGGGCTTTG
* *
424299 AAAAGGGTTACCACTGACTCGTGTAGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
1 AAAAGGG-TGCCACTGACT--TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
* *
424364 GTGCCACTGAATTGTGGGCTTTA
63 GTGCCACTGACTTGTGGGCTTTG
* * *
424387 AAAAGGGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAG
1 AAAAGGG-TGCCACTGACT--TGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
*
424452 GGTGCTACTGACTTGTGGGCTTTG
62 GGTGCCACTGACTTGTGGGCTTTG
* *
424476 -AAAGGGTGCCACTGACTTATGGGCTTTGAAAGGGGTTGCCACCGACTTGTGTGGGCTTTGAAAG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAA-GGG-TGCCACTGAC-T-TGTGGGCTTTGAAAG
*
424540 GGTGCCACTGATTTGTGGGCTTTG
62 GGTGCCACTGACTTGTGGGCTTTG
*
424564 -AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTTGAAATGGGT
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA-GGG-
* *
424628 TGCCACCGACTTGTGTGGGCTTTC
64 TGCCACTGAC-T-TGTGGGCTTTG
* * * *
424652 AAATGGGTTGCCACCGACTTGTGTGGGCTTTCAAATGGGTTGCCACTGACTTGTATGGGCTTTCA
1 AAAAGGG-TGCCACTGAC-T-TGTGGGCTTTGAAA-GGG-TGCCACTGACTTG--TGGGCTTTGA
*
424717 AATGGGTTGCCACCGACTTGTGTGGGCTTT-
59 AA-GGG-TGCCACTGAC-T-TGTGGGCTTTG
* ** * * * * *
424747 AGAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGATGCCAC-GAAGTTGTGGAC-TTAAAAGGAT
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTG-ACTTGTGGGCTTTGAAAGGGT
* **
424810 GCCAC-GAAGTTGTGAAC-TT-
65 GCCACTG-ACTTGTGGGCTTTG
* * * * * * * * * *
424829 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAGGTGCCACGGAGTTGTGGACTTT-AAAAGGTA
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTG
* * *
424893 CCACGGAGTTGTGGAC-TT-
66 CCACTGACTTGTGGGCTTTG
* * * * * * * * * *
424911 AAAAAGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTG
* * *
424976 CCACGGAGTTGTGGAC-TT-
66 CCACTGACTTGTGGGCTTTG
* * * * * * * * * * *
424994 AAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGATACCACGGAGTTGTGGAC-TTAAAAGGATG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTG
* * *
425058 CCACGGAGTTGTGGACTTTG
66 CCACTGACTTGTGGGCTTTG
425078 AAAAG
1 AAAAG
425083 AAATGCCACT
Statistics
Matches: 824, Mismatches: 97, Indels: 69
0.83 0.10 0.07
Matches are distributed among these distances:
82 141 0.17
83 83 0.10
84 104 0.13
85 31 0.04
86 83 0.10
87 26 0.03
88 170 0.21
89 61 0.07
90 28 0.03
91 3 0.00
92 25 0.03
93 4 0.00
94 21 0.03
95 5 0.01
96 39 0.05
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (85 bp):
AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTG
CCACTGACTTGTGGGCTTTG
Found at i:424813 original size:27 final size:27
Alignment explanation
Indices: 424749--425075 Score: 435
Period size: 27 Copynumber: 11.9 Consensus size: 27
424739 TGGGCTTTAG
* * * *
424749 AAGGGTGCCACTGACTTGTGGGCTTAAA
1 AAGGATGCCACGGAGTTGTGGACTT-AA
*
424777 AAGGATGCCACGAAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
* *
424804 AAGGATGCCACGAAGTTGTGAACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
424831 AA-GAGTGCCACGGAGTTGTGGACTTTGAA
1 AAGGA-TGCCACGGAGTTGTGGAC-TT-AA
424860 AAGG-TGCCACGGAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
*
424887 AAGG-TACCACGGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
*
424913 AAAGATGCCACGGAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
*
424941 AAGGGTGCCACGGAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
*
424969 AAGGGTGCCACGGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
* *
424996 AAGGGTGCCACAGAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
*
425024 AAGGATACCACGGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
425051 AAGGATGCCACGGAGTTGTGGACTT
1 AAGGATGCCACGGAGTTGTGGACTT
425076 TGAAAAGAAA
Statistics
Matches: 274, Mismatches: 18, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
26 9 0.03
27 140 0.51
28 120 0.44
29 4 0.01
30 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (27 bp):
AAGGATGCCACGGAGTTGTGGACTTAA
Found at i:424823 original size:55 final size:55
Alignment explanation
Indices: 424737--425091 Score: 459
Period size: 55 Copynumber: 6.4 Consensus size: 55
424727 CACCGACTTG
* * * * * * *
424737 TGTGGGCTTTAGAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGATGCCACGAAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT-AAAAGGATGCCACGGAGT
* *
424793 TGTGGAC-TTAAAAGGATGCCACGAAGTTGTGAACTTAAAA-GAGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGA-TGCCACGGAGT
*
424847 TGTGGACTTTGAAAAGG-TGCCACGGAGTTGTGGACTTTAAAAGG-TACCACGGAGT
1 TGTGGACTTT-AAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGT
* *
424902 TGTGGAC-TTAAAAAGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGT
* * *
424957 TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGT
*
425012 TGTGGACTTTAAAAGGATACCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGT
*
425067 TGTGGACTTTGAAAAGAAATGCCAC
1 TGTGGACTTT-AAAAG-GATGCCAC
425092 TGAATCATGG
Statistics
Matches: 266, Mismatches: 23, Indels: 19
0.86 0.07 0.06
Matches are distributed among these distances:
53 7 0.03
54 50 0.19
55 154 0.58
56 48 0.18
57 7 0.03
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (55 bp):
TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGT
Found at i:424868 original size:82 final size:83
Alignment explanation
Indices: 424753--425075 Score: 476
Period size: 82 Copynumber: 3.9 Consensus size: 83
424743 CTTTAGAAGG
* * * * * *
424753 GTGCCACTGACTTGTGGGCTTAAAAAGGATGCCACGAAGTTGTGGAC-TTAAAAGGATGCCACGA
1 GTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGG
*
424817 AGTTGTGAACTTAAAAGA
66 AGTTGTGGACTTAAAAGA
*
424835 GTGCCACGGAGTTGTGGACTTTGAAAAGG-TGCCACGGAGTTGTGGACTTTAAAAGG-TACCACG
1 GTGCCACGGAGTTGTGGACTTT-AAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACG
424898 GAGTTGTGGACTTAAAA-A
65 GAGTTGTGGACTTAAAAGA
* *
424916 GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACG
1 G-TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACG
*
424981 GAGTTGTGGACTTAAAAGG
65 GAGTTGTGGACTTAAAAGA
* *
425000 GTGCCACAGAGTTGTGGACTTTAAAAGGATACCACGGAGTTGTGGAC-TTAAAAGGATGCCACGG
1 GTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGG
425064 AGTTGTGGACTT
66 AGTTGTGGACTT
425076 TGAAAAGAAA
Statistics
Matches: 221, Mismatches: 14, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
81 8 0.04
82 132 0.60
83 80 0.36
84 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (83 bp):
GTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGG
AGTTGTGGACTTAAAAGA
Found at i:430602 original size:52 final size:52
Alignment explanation
Indices: 430522--430639 Score: 191
Period size: 52 Copynumber: 2.3 Consensus size: 52
430512 AAGTTGCTTA
** *
430522 CATGTATCGATACATTTAATTGTTTATCGATACATCTGGGCAAATTTCCCTG
1 CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTCCCTG
* *
430574 CATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTCCCTG
430626 CATGTATCGATACA
1 CATGTATCGATACA
430640 AAGATCAGTG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (52 bp):
CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTCCCTG
Found at i:430652 original size:52 final size:52
Alignment explanation
Indices: 430546--430659 Score: 167
Period size: 52 Copynumber: 2.2 Consensus size: 52
430536 TTTAATTGTT
***
430546 TATCGATACATCTGGGCAAATTTCCCTGCATGTATCGATACATTTTATAATG
1 TATCGATACATCTGGGCAAATTTCCCTGCATGTATCGATACATAAGATAATG
* *
430598 TATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACA-AAGATCAGTG
1 TATCGATACATCTGGGCAAATTTCCCTGCATGTATCGATACATAAGAT-AATG
430650 TATCGATACA
1 TATCGATACA
430660 ATGTATCGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 2 0.04
52 54 0.96
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (52 bp):
TATCGATACATCTGGGCAAATTTCCCTGCATGTATCGATACATAAGATAATG
Found at i:430666 original size:13 final size:13
Alignment explanation
Indices: 430648--430672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
430638 CAAAGATCAG
430648 TGTATCGATACAA
1 TGTATCGATACAA
430661 TGTATCGATACA
1 TGTATCGATACA
430673 TGTGAGTAAT
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:430756 original size:13 final size:13
Alignment explanation
Indices: 430738--430762 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
430728 CAAAAAAATA
430738 TGTATCGATACAT
1 TGTATCGATACAT
430751 TGTATCGATACA
1 TGTATCGATACA
430763 ACATTTTATG
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:430758 original size:33 final size:33
Alignment explanation
Indices: 430716--430782 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
430706 AGTAGCTTAA
430716 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
430749 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
430782 A
1 A
430783 AATCGTTGAA
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:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:436527 original size:19 final size:20
Alignment explanation
Indices: 436500--436539 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
436490 ATCCGGCGAC
*
436500 CGACCACCAT-GTCGGTCGT
1 CGACCACCATCGTCAGTCGT
*
436519 CGACGACCATCGTCAGTCGT
1 CGACCACCATCGTCAGTCGT
436539 C
1 C
436540 ACTCAACGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.17, C:0.38, G:0.25, T:0.20
Consensus pattern (20 bp):
CGACCACCATCGTCAGTCGT
Found at i:438482 original size:29 final size:29
Alignment explanation
Indices: 438438--438509 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
438428 GATACATTGA
438438 AAAATGTATCGATACATCTAGGTAAACCC
1 AAAATGTATCGATACATCTAGGTAAACCC
* * *
438467 AGAATGTATCGATACATCTGGGTAAACCT
1 AAAATGTATCGATACATCTAGGTAAACCC
438496 AAAATGTATCGATA
1 AAAATGTATCGATA
438510 TAATGAACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (29 bp):
AAAATGTATCGATACATCTAGGTAAACCC
Found at i:438548 original size:33 final size:33
Alignment explanation
Indices: 438500--438564 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
438490 AAACCTAAAA
* * *
438500 TGTATCGATATAATGAACAATGTATCGATACAT
1 TGTATCAATACAATGAACAATGTATCAATACAT
*
438533 TGTATCAATACAATGAATAATGTATCAATACA
1 TGTATCAATACAATGAACAATGTATCAATACA
438565 ATGAATAATG
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:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (33 bp):
TGTATCAATACAATGAACAATGTATCAATACAT
Found at i:438558 original size:20 final size:20
Alignment explanation
Indices: 438533--438584 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
438523 ATCGATACAT
438533 TGTATCAATACAATGAATAA
1 TGTATCAATACAATGAATAA
438553 TGTATCAATACAATGAATAA
1 TGTATCAATACAATGAATAA
*
438573 TGTATCGATACA
1 TGTATCAATACA
438585 TCTGGGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (20 bp):
TGTATCAATACAATGAATAA
Found at i:438599 original size:53 final size:52
Alignment explanation
Indices: 438469--438600 Score: 155
Period size: 53 Copynumber: 2.6 Consensus size: 52
438459 GTAAACCCAG
* * *
438469 AATGTATCGATACATCTGGGT-AAAC-CT-AAAATGTATCGATATAATGAAC
1 AATGTATCGATACATCTGGGTAAAACAATGAAAATGTATCAATACAATGAAC
** * *
438518 AATGTATCGATACAT-TGTATCAATACAATGAATAATGTATCAATACAATGAAT
1 AATGTATCGATACATCTGGGT-AAAACAATGAA-AATGTATCAATACAATGAAC
438571 AATGTATCGATACATCTGGGTAAAACAATG
1 AATGTATCGATACATCTGGGTAAAACAATG
438601 TATCGATACA
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
48 3 0.04
49 15 0.22
50 3 0.04
51 1 0.01
52 2 0.03
53 40 0.60
54 3 0.04
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (52 bp):
AATGTATCGATACATCTGGGTAAAACAATGAAAATGTATCAATACAATGAAC
Found at i:438618 original size:20 final size:20
Alignment explanation
Indices: 438594--438631 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
438584 ATCTGGGTAA
*
438594 AACAATGTATCGATACAATA
1 AACAATGTATCGATACAATG
*
438614 AACAATGCATCGATACAA
1 AACAATGTATCGATACAA
438632 ATTGTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.18, G:0.11, T:0.21
Consensus pattern (20 bp):
AACAATGTATCGATACAATG
Found at i:439339 original size:16 final size:16
Alignment explanation
Indices: 439273--439341 Score: 77
Period size: 16 Copynumber: 4.3 Consensus size: 16
439263 GCTCGTTCGA
* *
439273 GTTCAGGCTTATTCGG
1 GTTCAAGCTTATACGG
*
439289 GTTCGAGCTTATACGG
1 GTTCAAGCTTATACGG
*
439305 GTTCGAA-CTTATATGG
1 GTTC-AAGCTTATACGG
*
439321 GTTCAAGCTTATACAG
1 GTTCAAGCTTATACGG
439337 GTTCA
1 GTTCA
439342 GGTTTTTTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
15 2 0.05
16 41 0.93
17 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (16 bp):
GTTCAAGCTTATACGG
Found at i:439479 original size:27 final size:29
Alignment explanation
Indices: 439447--439514 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
439437 ATAATTTAAA
439447 AAGTAAA-TTATTAAACTATTA-ATTTTT
1 AAGTAAATTTATTAAACTATTATATTTTT
*
439474 AAGTAAATTTTTATTATACTATTATATTTTT
1 AAGTAAA--TTTATTAAACTATTATATTTTT
*
439505 AA-TATATTTA
1 AAGTAAATTTA
439515 ATTATTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 7 0.20
28 4 0.11
30 16 0.46
31 8 0.23
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (29 bp):
AAGTAAATTTATTAAACTATTATATTTTT
Found at i:439566 original size:18 final size:17
Alignment explanation
Indices: 439538--439576 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
439528 TGAAATCTAT
*
439538 ATTTATATATATAATTA
1 ATTTATATATAAAATTA
439555 ATTTATTATATAAAATTA
1 ATTTA-TATATAAAATTA
439573 ATTT
1 ATTT
439577 TTTAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTATATATAAAATTA
Found at i:439585 original size:18 final size:18
Alignment explanation
Indices: 439550--439585 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
439540 TTATATATAT
*
439550 AATTAATTTATTATATAA
1 AATTAATTTATTAAATAA
*
439568 AATTAATTTTTTAAATAA
1 AATTAATTTATTAAATAA
439586 TTTATTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTAATTTATTAAATAA
Found at i:441007 original size:16 final size:16
Alignment explanation
Indices: 440986--441060 Score: 73
Period size: 16 Copynumber: 4.7 Consensus size: 16
440976 TTTAGATCAG
*
440986 TCTCGGGTTTGGGTTT
1 TCTCGGGTTCGGGTTT
*
441002 TCTCGGGTTCAGGTTT
1 TCTCGGGTTCGGGTTT
*
441018 TTTCGGGTTCGGGTTCT
1 TCTCGGGTTCGGGTT-T
*
441035 T-TCGGGTTTGGGCTTT
1 TCTCGGGTTCGGG-TTT
*
441051 T-TCGAGTTCG
1 TCTCGGGTTCG
441061 AGCTATTTCG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
16 46 0.92
17 4 0.08
ACGTcount: A:0.03, C:0.16, G:0.35, T:0.47
Consensus pattern (16 bp):
TCTCGGGTTCGGGTTT
Found at i:441052 original size:32 final size:31
Alignment explanation
Indices: 440988--441077 Score: 90
Period size: 32 Copynumber: 2.8 Consensus size: 31
440978 TAGATCAGTC
* ** *
440988 TCGGGTTTGGGTTTTCTCGGGTTCAGGTTTTT
1 TCGGGTTCGGGTTTT-TCGGGTTTGGGCTTTT
441020 TCGGGTTCGGGTTCTTTCGGGTTTGGGCTTTT
1 TCGGGTTCGGGTT-TTTCGGGTTTGGGCTTTT
* * *
441052 TCGAGTTCGAGCTATTTCGGGTTTGG
1 TCGGGTTCG-GGTTTTTCGGGTTTGG
441078 ATAATTTCGA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
32 45 0.92
33 4 0.08
ACGTcount: A:0.04, C:0.14, G:0.36, T:0.46
Consensus pattern (31 bp):
TCGGGTTCGGGTTTTTCGGGTTTGGGCTTTT
Found at i:441273 original size:22 final size:25
Alignment explanation
Indices: 441246--441308 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 25
441236 CTCTCTTATT
* *
441246 TTATTATTTTTTAATATAATTTTAA
1 TTATTATTTATAAATATAATTTTAA
441271 TTATTATTTAGTAAATATAATTTTAA
1 TTATTATTTA-TAAATATAATTTTAA
*
441297 TATATAATTTAT
1 T-TATTATTTAT
441309 TATTTAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 9 0.27
26 16 0.48
27 8 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (25 bp):
TTATTATTTATAAATATAATTTTAA
Found at i:441314 original size:34 final size:36
Alignment explanation
Indices: 441282--441501 Score: 169
Period size: 36 Copynumber: 6.4 Consensus size: 36
441272 TATTATTTAG
441282 TAAATATAATTTTAATATATAATTTATTATTTAATA
1 TAAATATAATTTTAATATATAATTTATTATTTAATA
441318 TAAATATAATTTT--T-TGATAATTTATT-TTT-A-A
1 TAAATATAATTTTAATAT-ATAATTTATTATTTAATA
* * * *
441349 T--ATATAATTTTAATATTTTA-TAATTATTTAACA
1 TAAATATAATTTTAATATATAATTTATTATTTAATA
** * *
441382 TAAATATCTTTTTAATTTATATTTTATTATTTAATA
1 TAAATATAATTTTAATATATAATTTATTATTTAATA
* * * *
441418 TAAATATGATTTCAATAAATTTAAATTATTATTT-ATA
1 TAAATATAATTTTAAT--ATATAATTTATTATTTAATA
* ** *
441455 -ATAATATAA-TTT-ATTTATTTTTTATTATTTGATA
1 TA-AATATAATTTTAATATATAATTTATTATTTAATA
441489 TAAATATAATTTT
1 TAAATATAATTTT
441502 TAATTATTTA
Statistics
Matches: 143, Mismatches: 25, Indels: 33
0.71 0.12 0.16
Matches are distributed among these distances:
29 10 0.07
30 4 0.03
31 8 0.06
32 3 0.02
33 17 0.12
34 21 0.15
35 19 0.13
36 40 0.28
37 9 0.06
38 12 0.08
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (36 bp):
TAAATATAATTTTAATATATAATTTATTATTTAATA
Found at i:441359 original size:27 final size:26
Alignment explanation
Indices: 441291--441369 Score: 65
Period size: 27 Copynumber: 3.0 Consensus size: 26
441281 GTAAATATAA
*
441291 TTTTAATATATAA-TTTATTATTTA-
1 TTTTAATATATAATTTTATAATTTAT
* *
441315 ATATAA-ATATAATTTTTTGATAATTTAT
1 TTTTAATATATAA--TTTT-ATAATTTAT
*
441343 TTTTAATATATAATTTTAATATTTTAT
1 TTTTAATATATAATTTT-ATAATTTAT
441370 AATTATTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
23 6 0.14
24 4 0.10
26 3 0.07
27 19 0.45
28 4 0.10
29 6 0.14
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (26 bp):
TTTTAATATATAATTTTATAATTTAT
Found at i:441482 original size:33 final size:33
Alignment explanation
Indices: 441443--441515 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
441433 TAAATTTAAA
* *
441443 TTATTATTT-ATA-ATAATATAATTTATTTATTTT
1 TTATTATTTGATATA-AATATAATTT-TTAATTAT
441476 TTATTATTTGATATAAATATAATTTTTAATTAT
1 TTATTATTTGATATAAATATAATTTTTAATTAT
441509 TTATTAT
1 TTATTAT
441516 ATACACTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
33 22 0.61
34 13 0.36
35 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (33 bp):
TTATTATTTGATATAAATATAATTTTTAATTAT
Found at i:441640 original size:21 final size:21
Alignment explanation
Indices: 441615--441667 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
441605 CATTAATTTT
*
441615 AATCTCATCATTATAATATCC
1 AATCTCATCATTATAATAACC
* *
441636 AATCTCATCGTTATAATAACT
1 AATCTCATCATTATAATAACC
*
441657 AATCTTATCAT
1 AATCTCATCAT
441668 CTAATTATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.40
Consensus pattern (21 bp):
AATCTCATCATTATAATAACC
Done.