Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1873
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: 405709
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 2 of 4
Found at i:154731 original size:33 final size:33
Alignment explanation
Indices: 154601--155004 Score: 346
Period size: 34 Copynumber: 12.2 Consensus size: 33
154591 TCGTCAAATA
*
154601 CCTTCTTAAAGTCCACGACTCCGTGGCACCTTTT
1 CCTT-TTAAAGTCCACAACTCCGTGGCACCTTTT
* * * *
154635 TCTTTTCAAAGCCCACAACTTCATGGCACTCTTTTT
1 CCTTTT-AAAGTCCACAACTCCGTGGCAC-C-TTTT
**
154671 CCCTTTTAAAGTCCACAACTCTATGGCACCTTGTT
1 -CCTTTTAAAGTCCACAACTCCGTGGCACCTT-TT
* * *
154706 CCTTTT-AAGTCCACGACCCCGTGGCATCTTGTT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCTT-TT
*
154739 CCTTTT-AAGTCTACAACTCCGTGGCACCTTTTT
1 CCTTTTAAAGTCCACAACTCCGTGGCACC-TTTT
* * *
154772 CTTTTTAAAGCCCACAACTCCATGGCACCTTTT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* * *
154805 TCTTTTCAAAGCCCACCACTCCGTGGCACCTTTT
1 CCTTTT-AAAGTCCACAACTCCGTGGCACCTTTT
* * *
154839 -CTTTTTAAGTCCACGACCCCGTGGCACCTTGTT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCTT-TT
* * *
154872 CCTTTCAAAGTCCACAACTCTGTGGCATCTTTT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* **
154905 --TTTCAAACCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC-C-TTTT
*
154938 CCCTTTT-AAGTCCACAATTCCGTGGCA-C----
1 -CCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
*
154966 CCTTTT-AAGTCCACAACTCCGTGGCATCTTTCT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCTTT-T
154999 CCTTTT
1 CCTTTT
155005 CAAAAGCCCA
Statistics
Matches: 304, Mismatches: 45, Indels: 43
0.78 0.11 0.11
Matches are distributed among these distances:
27 25 0.08
28 1 0.00
31 22 0.07
32 22 0.07
33 83 0.27
34 99 0.33
35 21 0.07
36 26 0.09
37 5 0.02
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.35
Consensus pattern (33 bp):
CCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
Found at i:154756 original size:66 final size:66
Alignment explanation
Indices: 154601--154971 Score: 327
Period size: 66 Copynumber: 5.5 Consensus size: 66
154591 TCGTCAAATA
* * * * ** *
154601 CCTTCTTAAAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTTCATGGCACTC
1 CCTT-TTAAAGTCCACAACTCCGTGGCACC-TTTTCTTTT-TAAGTCCACGACCCCGTGGCAC-C
*
154666 TTTTT
62 TTGTT
** * *
154671 CCCTTTTAAAGTCCACAACTCTATGGCACCTTGTTCCTTTTAAGTCCACGACCCCGTGGCATCTT
1 -CCTTTTAAAGTCCACAACTCCGTGGCACCTT-TTCTTTTTAAGTCCACGACCCCGTGGCACCTT
154736 GTT
64 GTT
* * * * *
154739 CCTTTT-AAGTCTACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCATGGCACCTT
1 CCTTTTAAAGTCCACAACTCCGTGGCACC-TTTTCTTTTT-AAGTCCACGACCCCGTGGCACCTT
154803 -TT
64 GTT
* * *
154805 TCTTTTCAAAGCCCACCACTCCGTGGCACCTTTTCTTTTTAAGTCCACGACCCCGTGGCACCTTG
1 CCTTTT-AAAGTCCACAACTCCGTGGCACCTTTTCTTTTTAAGTCCACGACCCCGTGGCACCTTG
154870 TT
65 TT
* * * ** ** * * *
154872 CCTTTCAAAGTCCACAACTCTGTGGCATCTTTT-TTTCAAACCCCACAACTCCGTGGCACTCTTT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCTTTTCTTTTTAAGTCCACGACCCCGTGGCAC-CTTG
154936 TT
65 TT
*
154938 CCCTTTT-AAGTCCACAATTCCGTGGCACCCTTTT
1 -CCTTTTAAAGTCCACAACTCCGTGGCA-CCTTTT
154972 AAGTCCACAA
Statistics
Matches: 245, Mismatches: 46, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
65 20 0.08
66 99 0.40
67 53 0.22
68 24 0.10
69 17 0.07
70 28 0.11
71 4 0.02
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.35
Consensus pattern (66 bp):
CCTTTTAAAGTCCACAACTCCGTGGCACCTTTTCTTTTTAAGTCCACGACCCCGTGGCACCTTGT
T
Found at i:154797 original size:100 final size:97
Alignment explanation
Indices: 154613--154971 Score: 369
Period size: 100 Copynumber: 3.6 Consensus size: 97
154603 TTCTTAAAGT
* * * *
154613 CCACGACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTTCATGGCACTCTTTTTCCCTTTT
1 CCACGACTCCGTGGCACCTTTTCCTTTT--AAGTCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
*
154678 AAAGTCCACAACTCTATGGCACCTTGTTCCTTTTAAGT
62 AAAGTCCACAACTCTATGGCACCTT-TT-CTTTTAAGC
* * * *
154716 CCACGACCCCGTGGCATCTTGTTCCTTTTAAGTCTACAACTCCGTGGCACCTTTTTCTTTTTAAA
1 CCACGACTCCGTGGCACCTT-TTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAA
* *
154781 GCCCACAACTCCATGGCACCTTTTTCTTTTCAAAGC
65 GTCCACAACTCTATGGCACC-TTTTCTTTT--AAGC
* * * * * *
154817 CCACCACTCCGTGGCACCTTTTCTTTTTAAGTCCACGACCCCGTGGCACCTTGTTCCTTTCAAAG
1 CCACGACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAAG
* * * *
154882 TCCACAACTCTGTGGCATCTTTT-TTTCAAACC
66 TCCACAACTCTATGGCACCTTTTCTTT-TAAGC
* * *
154914 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAATTCCGTGGCACCCTTTT
1 CCACGACTCCGTGGCAC-C-TTTT-CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
154972 AAGTCCACAA
Statistics
Matches: 214, Mismatches: 34, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
97 19 0.09
98 4 0.02
99 13 0.06
100 108 0.50
101 28 0.13
102 17 0.08
103 18 0.08
104 7 0.03
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.35
Consensus pattern (97 bp):
CCACGACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAAG
TCCACAACTCTATGGCACCTTTTCTTTTAAGC
Found at i:154976 original size:27 final size:27
Alignment explanation
Indices: 154938--154991 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
154928 CACTCTTTTT
*
154938 CCCTTTTAAGTCCACAATTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
154965 CCCTTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
154992 TCTTTCTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (27 bp):
CCCTTTTAAGTCCACAACTCCGTGGCA
Found at i:155019 original size:100 final size:96
Alignment explanation
Indices: 154724--155029 Score: 261
Period size: 100 Copynumber: 3.1 Consensus size: 96
154714 GTCCACGACC
* * *
154724 CCGTGGCA-TCTTGTTCCTTTTAAGTCTACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACA
1 CCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC-----C-TTTT-AAGTCCACA
* *
154788 ACTCCATGGCACCTTTTTCTTTTCAAAGCCCAC-C-ACT
59 ACTCCGTGGCATC-TTTTCTTTTCAAAGCCCACACAACT
* * * *
154825 CCGTGGCAC-C-TTTTCTTTTTAAGTCCACGACCCCGTGGCACCTTGTTCCTTTCAAAGTCCACA
1 CCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C-----CCTTT-TAAGTCCACA
*
154888 ACTCTGTGGCATC-TTT-TTTTCAAA-CCC-CACAACT
59 ACTCCGTGGCATCTTTTCTTTTCAAAGCCCACACAACT
*
154922 CCGTGGCACTCTTTTTCCCTTTTAAGTCCACAATTCCGTGGCACCCTTTTAAGTCCACAACTCCG
1 CCGTGGCACTCTTTTT-CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
*
154987 TGGCATCTTTCTCCTTTTCAAAAGCCCACACAAGT
65 TGGCATCTTT-T-CTTTTC-AAAGCCCACACAACT
*
155022 CGGTGGCA
1 CCGTGGCA
155030 ACCCTTCTCT
Statistics
Matches: 167, Mismatches: 18, Indels: 41
0.74 0.08 0.18
Matches are distributed among these distances:
93 21 0.13
94 7 0.04
95 2 0.01
96 4 0.02
97 25 0.15
98 7 0.04
99 8 0.05
100 81 0.49
101 11 0.07
106 1 0.01
ACGTcount: A:0.20, C:0.33, G:0.14, T:0.33
Consensus pattern (96 bp):
CCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
GGCATCTTTTCTTTTCAAAGCCCACACAACT
Found at i:155044 original size:33 final size:33
Alignment explanation
Indices: 155007--155629 Score: 959
Period size: 33 Copynumber: 18.9 Consensus size: 33
154997 CTCCTTTTCA
155007 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
* *
155040 AAAGCCCACACAATTCGGTGGCAA-CCTTCTTCA
1 AAAGCCCACACAAGTCGGTGGCAACCCTTC-TCT
155073 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
* * * * *
155106 AAAGCCCACACAAGTCGATGGTAACCTTTTTCA
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
155139 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
* * *
155172 AAAGCCTACACAAGTCGGTGGCAACCTTTTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
155205 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
* *
155238 AAAGCCCACACAAGTCGGTGGCAACCTTTTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
155271 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
* *
155304 AAAGCCCACACAAGTCGGTGGCAACCTTTTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
*
155337 GAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
* *
155370 AAAGCCCACACAAGTCGGTGGCAACCATTTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
*
155403 AAAGCCCACACAAGTCAGTGGCAACCCTTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
155436 AAAGCCCACACAAGTCGGTGGCAA-CCTTCTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTC-TCT
*
155469 AAAGCCCACACAAGTTGGTGGCAACCCTTCTC-
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
155501 AAAGCCCACACAAGTCGGTGGCAACCC-TCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
* * *
155533 AAAGCCCACACAAGTTGGTGGAAACCATTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
* *
155566 AAAGCCCACACAAGTTGGTGGCAACCATTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
*
155599 AAAGCCCACGA-AACTCGGTGGCAACCCTTCT
1 AAAGCCCAC-ACAAGTCGGTGGCAACCCTTCT
155630 AAGCCCAATA
Statistics
Matches: 538, Mismatches: 45, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
31 4 0.01
32 60 0.11
33 463 0.86
34 11 0.02
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (33 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
Found at i:155687 original size:49 final size:49
Alignment explanation
Indices: 155629--156233 Score: 729
Period size: 49 Copynumber: 12.7 Consensus size: 49
155619 GCAACCCTTC
* * *
155629 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
155678 TAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
155721 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCA----C--CTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
155764 TAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
155813 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
155856 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
155905 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTC--C--
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
155949 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
155997 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCAT-TT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
156045 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTT
*
156097 TAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
156146 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
156198 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
156234 ACATCCTTTT
Statistics
Matches: 486, Mismatches: 45, Indels: 47
0.84 0.08 0.08
Matches are distributed among these distances:
43 153 0.31
44 2 0.00
45 2 0.00
46 2 0.00
47 2 0.00
48 43 0.09
49 197 0.41
50 2 0.00
51 6 0.01
52 77 0.16
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:155740 original size:43 final size:43
Alignment explanation
Indices: 155675--156189 Score: 467
Period size: 43 Copynumber: 11.1 Consensus size: 43
155665 GCACCTTCAT
*
155675 CTTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
*
155718 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
155761 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
155808 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
155853 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
155900 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
155944 CTTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTT-TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
155988 ATTTATCTTTAAGTCCAATGTCA-CTGGCCTTGAATCAGCACATTGGCACC
1 ------CTTTAAGTCCAATGT-AGCTGGCCTTGAATCAGCACATTGGCA-C
* * * *
156038 TTCATTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 --C--TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT---G-----G-CAC
* *
156094 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTTC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
* * *
156141 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
156186 CTTT
1 CTTT
156190 TCCATCTTTA
Statistics
Matches: 397, Mismatches: 35, Indels: 80
0.78 0.07 0.16
Matches are distributed among these distances:
42 3 0.01
43 159 0.40
44 1 0.00
45 2 0.01
46 2 0.01
47 2 0.01
48 33 0.08
49 152 0.38
50 4 0.01
51 1 0.00
52 34 0.09
54 1 0.00
56 1 0.00
57 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:155742 original size:22 final size:21
Alignment explanation
Indices: 155717--155785 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 21
155707 CACATTGGCA
155717 CCTTTAAGTCCAATGTAGCTGG
1 CCTTTAAGTCCAAT-TAGCTGG
* *
155739 CCTTGAA-TCAGCACATTAGC--A
1 CCTTTAAGTC--CA-ATTAGCTGG
155760 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAAT-TAGCTGG
155782 CCTT
1 CCTT
155786 GAATCAACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 8 0.22
22 12 0.33
23 6 0.17
24 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (21 bp):
CCTTTAAGTCCAATTAGCTGG
Found at i:155763 original size:21 final size:21
Alignment explanation
Indices: 155696--155763 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
155686 ATGTAGTTGG
*
155696 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTAGCA
* *
155717 CCTTTAAGTC--CA-ATGTAGCTGG
1 CCTTGAA-TCAGCACAT-TAGC--A
155739 CCTTGAATCAGCACATTAGCA
1 CCTTGAATCAGCACATTAGCA
155760 CCTT
1 CCTT
155764 TAAGTCCAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 14
0.65 0.09 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 12 0.34
22 8 0.23
23 6 0.17
24 2 0.06
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCACATTAGCA
Found at i:155814 original size:92 final size:92
Alignment explanation
Indices: 155675--156242 Score: 765
Period size: 92 Copynumber: 6.0 Consensus size: 92
155665 GCACCTTCAT
* * * *
155675 CTTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
155734 GCTGGCCTTGAATCAGCACATTAGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
155761 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
155826 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
155853 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
155918 GCTGGCCTTGAATCAGCACATTGGCA-
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
155944 CTTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTTATCTTTAAGTCCAATGT
1 CTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
156009 CA-CTGGCCTTGAATCAGCACATTGGCACC
65 -AGCTGGCCTTGAATCAGCACATTGGCA-C
*
156038 TTCATTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTC
1 --C--TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTTAAGTC
* *
156103 CAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTTC
59 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
*
156141 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCA
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCA
*
156206 ATGTAGCTGGCCTTGAATCAGCACATTGACATC
61 ATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
156239 CTTT
1 CTTT
156243 TTCTCATCTT
Statistics
Matches: 437, Mismatches: 23, Indels: 34
0.88 0.05 0.07
Matches are distributed among these distances:
86 38 0.09
90 1 0.00
91 3 0.01
92 214 0.49
93 1 0.00
96 5 0.01
97 38 0.09
98 4 0.01
99 1 0.00
100 43 0.10
101 86 0.20
103 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:156280 original size:55 final size:53
Alignment explanation
Indices: 155949--156280 Score: 343
Period size: 49 Copynumber: 6.5 Consensus size: 53
155939 TGGCACTTCC
* * *
155949 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C-ATT-T-ATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGACACCTTTTCTCATCTTT
* * *
155998 AAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACC---T-TCAT-TTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGACACCTTTTCTCATCTTT
* * * *
156046 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCC-TTTGTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGACACCTTTTCTCATCTTT
* * *
156098 AAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACC---T-TCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGACACCTTTTCTCATCTTT
* *
156147 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGACACCTTTTCTCATCTTT
* * *
156199 AAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGACA-CC-TTTTCTCATCTTT
* * * *
156254 AAGCCCAATATCGTTGGTCGTGAATCA
1 AAGTCCAATATCGCTGGCCTTGAATCA
156281 ATATATTGGC
Statistics
Matches: 244, Mismatches: 26, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
48 41 0.17
49 82 0.34
50 3 0.01
51 4 0.02
52 80 0.33
53 2 0.01
54 5 0.02
55 27 0.11
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (53 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGACACCTTTTCTCATCTTT
Found at i:156407 original size:49 final size:49
Alignment explanation
Indices: 156311--156408 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
156301 CTTTTCTCAT
* * *
156311 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCAGGCCTTGAATCAGCACAGTGGCAC
* * *
156360 CTTCATCTTTAAGTCCAGTGTGGCAGGCCTTGAATCTGCACAGTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCAGGCCTTGAATCAGCACAGTGGCAC
156409 ACTGCAAGAC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (49 bp):
CTTCATCTTTAAGTCCAATGTCGCAGGCCTTGAATCAGCACAGTGGCAC
Found at i:156999 original size:32 final size:32
Alignment explanation
Indices: 156943--157043 Score: 157
Period size: 32 Copynumber: 3.1 Consensus size: 32
156933 TTCAACGATT
156943 TGTATCGATACATAAAGTCTTGTATCGATACAA
1 TGTATCGATACAT-AAGTCTTGTATCGATACAA
* * *
156976 TGTATCAATATATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTCTTGTATCGATACAA
*
157008 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTCTTGTATCGATACAA
157040 TGTA
1 TGTA
157044 AGCTACTGCC
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
32 51 0.82
33 11 0.18
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTCTTGTATCGATACAA
Found at i:157013 original size:13 final size:13
Alignment explanation
Indices: 156995--157019 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
156985 ATATAAGTGT
156995 TGTATCGATACAA
1 TGTATCGATACAA
157008 TGTATCGATACA
1 TGTATCGATACA
157020 TAAGTTTTGT
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:157032 original size:19 final size:18
Alignment explanation
Indices: 156941--157038 Score: 72
Period size: 19 Copynumber: 5.8 Consensus size: 18
156931 ATTTCAACGA
156941 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
156960 TCTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
* *
156976 --TGTATCAATATATAAG
1 TTTGTATCGATACATAAG
156992 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
157008 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
157024 TTTTGTATCGATACA
1 -TTTGTATCGATACA
157039 ATGTAAGCTA
Statistics
Matches: 62, Mismatches: 4, Indels: 26
0.67 0.04 0.28
Matches are distributed among these distances:
13 20 0.32
15 4 0.06
17 4 0.06
19 22 0.35
20 12 0.19
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:157170 original size:52 final size:52
Alignment explanation
Indices: 157114--157242 Score: 197
Period size: 52 Copynumber: 2.5 Consensus size: 52
157104 CACTCATCTT
* *
157114 TGTATTGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATTGATACATGCAGGCAAATTTGCCAAGATGTATCGATACACTATAAAA
* * *
157166 TGTATCGATACATACAAGCAAATTTGCCAAGATGTATCGATACACTATAAAA
1 TGTATTGATACATGCAGGCAAATTTGCCAAGATGTATCGATACACTATAAAA
157218 TGT-TTCGATACATGCAGGCAAATTT
1 TGTATT-GATACATGCAGGCAAATTT
157243 TCATATTTCG
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 1 0.01
52 67 0.99
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (52 bp):
TGTATTGATACATGCAGGCAAATTTGCCAAGATGTATCGATACACTATAAAA
Found at i:161372 original size:77 final size:79
Alignment explanation
Indices: 161266--161428 Score: 186
Period size: 77 Copynumber: 2.1 Consensus size: 79
161256 TAAGTTTCAA
* * ** * * *
161266 TAAAATGGCAAATGCTTATGGAATGATGCAAATGCTAATGTCATGTAAA-ATGC-AAACGATGTA
1 TAAAATGGCAAATGCATATGAAACAATGCAAATACTAATATCATGCAAATATGCAAAACGATGTA
* * *
161329 GATGCAAGTATTAG
66 AATGCAACTATCAG
* *
161343 TAAAATGGTAAATGCATATGAAACAATGCAAATACTAATATCATGCAAATGTGCATGAAACGATG
1 TAAAATGGCAAATGCATATGAAACAATGCAAATACTAATATCATGCAAATATGCA--AAACGATG
161408 TAAATGCAACTATCAG
64 TAAATGCAACTATCAG
161424 TAAAA
1 TAAAA
161429 CAACAAATTC
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
77 41 0.59
78 3 0.04
81 26 0.37
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (79 bp):
TAAAATGGCAAATGCATATGAAACAATGCAAATACTAATATCATGCAAATATGCAAAACGATGTA
AATGCAACTATCAG
Found at i:166458 original size:156 final size:155
Alignment explanation
Indices: 166026--166506 Score: 531
Period size: 156 Copynumber: 3.1 Consensus size: 155
166016 TACTTCTAAG
* * *
166026 GGATACCTTCGACATAGAAGTACCTGATACCTCTAAAGGACTTAAAA-AGCATTCT-AAATGGGA
1 GGATACCTTCGACATAGAAGTGCCTGATACCCCTAAAGGACTTAAAAGAG-ATTATAAAATGGGA
* * * * *
166089 TGAACCTATCTTAAATACCCACCTTTGGTATAAAAAC-AGACCCGGTGATAACGTAGAACTTGGT
65 TGAACCTATCTTAAATACCCACCTTCGGCATAAAAACGA-ACCCAGTGATAACCTAGGACTTGGT
* *
166153 TTCAAAAAATTATCAAAATGTCCCTAAG-
129 TT-AAAAAATTACCAAAATG-CCCTTAGA
* * ** * * *
166181 GGATATCTTCGACGTAGAAGTGCCTGATATTCTTAAAGGACTTAAAAGGGATTATAGAATGGGAT
1 GGATACCTTCGACATAGAAGTGCCTGATACCCCTAAAGGACTTAAAAGAGATTATAAAATGGGAT
** * * * *
166246 GAACCTATCACAAATACCCACCTTCGGCATAAAAACGAACCCAGTGACAACTTAGGACTCGATTC
66 GAACCTATCTTAAATACCCACCTTCGGCATAAAAACGAACCCAGTGATAACCTAGGACTTGGTT-
166311 TAAAAAATTACCAAAATGCCCTTAGA
130 TAAAAAATTACCAAAATGCCCTTAGA
* *
166337 GGATATCTTTGACATAGAAGTGCCTGATACCCCTAAAGGACTTAAAAGAGATTATAAAATGGGAT
1 GGATACCTTCGACATAGAAGTGCCTGATACCCCTAAAGGACTTAAAAGAGATTATAAAATGGGAT
** * * * * * * *
166402 GAAAATATCTTAGATATCTACCTTCGGCATAAAAGCGAACCCCGTAATAACCTAGGAGTTGGTTT
66 GAACCTATCTTAAATACCCACCTTCGGCATAAAAACGAACCCAGTGATAACCTAGGACTTGGTTT
* * *
166467 TAAAAATTACGAAAATGCTCTTA-A
131 AAAAAATTACCAAAATGCCCTTAGA
*
166491 GGGATACCTTTGACAT
1 -GGATACCTTCGACAT
166507 GTATAGGAAA
Statistics
Matches: 272, Mismatches: 48, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
154 1 0.00
155 85 0.31
156 184 0.68
157 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (155 bp):
GGATACCTTCGACATAGAAGTGCCTGATACCCCTAAAGGACTTAAAAGAGATTATAAAATGGGAT
GAACCTATCTTAAATACCCACCTTCGGCATAAAAACGAACCCAGTGATAACCTAGGACTTGGTTT
AAAAAATTACCAAAATGCCCTTAGA
Found at i:168375 original size:17 final size:18
Alignment explanation
Indices: 168353--168397 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 18
168343 ATCAAAACTC
168353 ATGAAATAAATGAATT-T
1 ATGAAATAAATGAATTAT
*
168370 ATG-AA-AAATGATTTAAT
1 ATGAAATAAATGAATT-AT
168387 ATGAAATAAAT
1 ATGAAATAAAT
168398 AAATATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
15 8 0.35
16 2 0.09
17 7 0.30
18 2 0.09
19 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (18 bp):
ATGAAATAAATGAATTAT
Found at i:168739 original size:165 final size:164
Alignment explanation
Indices: 168163--168755 Score: 653
Period size: 165 Copynumber: 3.6 Consensus size: 164
168153 CGGAAAAGGG
* ** * * *
168163 AATTTCAAAG-AAAAATAAAAAACTTATGAAAATAAAAGAATTTTTGAAAACTTATTTAATATGA
1 AATTTCAAGGAAAAAATTCAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGA
* * * * * *
168227 AATAAATAACTATATTTGATAAATTTAAAAAATTAAAAACTAAGAAAAATCCCCCCAAAAACA-T
66 AATAAATAAATATATTTGATAAATTTTAAAAATCAAAAAC-AAAAAAAAT-CCTCCGAAAACATT
*** *
168291 TACATTGTAAAAAACTCCGTATTTC-AAAAATAGGAA
129 TACGGAGTAGAAAACTCCGTATTTCGAAAAA-AGGAA
* * *
168327 AATTTCAAGGAAAAAAATCAAAACTCATG-AAATAAATGAATTTATGAAAAATGATTTAATATGA
1 AATTTCAAGGAAAAAATTCAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGA
* *
168391 AATAAATAAATATATTTTATAAATTTTAAAAA-CTAAAAACAAAGAAAAATCTCTCTGAAAACAT
66 AATAAATAAATATATTTGATAAATTTTAAAAATC-AAAAACAAA-AAAAATC-CTCCGAAAACAT
* * * * *
168455 TTACGGAGTAGAAAATTTCGTATTTAGGAAATAGGAA
128 TTACGGAGTAGAAAACTCCGTATTTCGAAAAAAGGAA
* * *
168492 AATTTCAAGGAAAAAATTCAAAACTCATGAAAATAAATGAATTTTTAAAAACTAATTTAATATAA
1 AATTTCAAGGAAAAAATTCAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGA
* *
168557 AATAAATAAATATATTTGATGAATTTTAAAAATCAAAAACAAAAAAAATCCATCCGAAAATATTT
66 AATAAATAAATATATTTGATAAATTTTAAAAATCAAAAACAAAAAAAATCC-TCCGAAAACATTT
* *
168622 ACGGAGTAGAAAACTCCATTTTTCGAAAACAAGG-A
130 ACGGAGTAGAAAACTCCGTATTTCGAAAA-AAGGAA
* * * *
168657 AATTTTAA-GAAAAATATTCAAAACACATGAAAATGAATGAATTTTTGAAAACTGATTTAGTATG
1 AATTTCAAGGAAAAA-ATTCAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATG
* * * * * *
168721 CATTGAAT-GATAATATTTGATGAATTTTCAAAATC
65 AAATAAATAAAT-ATATTTGATAAATTTTAAAAATC
168756 TTAAACCCAT
Statistics
Matches: 362, Mismatches: 55, Indels: 23
0.82 0.12 0.05
Matches are distributed among these distances:
163 3 0.01
164 98 0.27
165 185 0.51
166 75 0.21
167 1 0.00
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (164 bp):
AATTTCAAGGAAAAAATTCAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGA
AATAAATAAATATATTTGATAAATTTTAAAAATCAAAAACAAAAAAAATCCTCCGAAAACATTTA
CGGAGTAGAAAACTCCGTATTTCGAAAAAAGGAA
Found at i:168857 original size:330 final size:329
Alignment explanation
Indices: 168181--168884 Score: 694
Period size: 330 Copynumber: 2.1 Consensus size: 329
168171 AGAAAAATAA
* * * * * * *
168181 AAAACTTATGAAAATAAAAGAATTTTTGAAAACTTATTTAATATGAAATAAATAACTATATTTGA
1 AAAACTCATAAAAATAAATGAATTTTTAAAAACTAATTTAATATAAAATAAATAAATATATTTGA
* * * ** *
168246 TAAATTTAAAAAATTAAAAACTAAGAAAAATCCCCCCAAAAACATTACATTGTAAAAAACTCCGT
66 TAAATTTAAAAAATCAAAAACTAAAAAAAATCCACCCAAAAACATTACAGAGTAAAAAACTCCAT
*
168311 ATTTCAAAAATAGGAAAATTTCAAGGAAAAAAATCAAAACTCATGAAATAAATGAATTTATGAAA
131 ATTTCAAAAATAGGAAAATTTCAAGGAAAAAAATCAAAACACATGAAATAAATGAATTTATGAAA
*
168376 AATGATTTAATATGAAATAAATAAATATATTTTATAAATTTTAAAAACTAAAAACAAAGAAAAAT
196 AATGATTTAATATGAAATAAATAAATATATTTGATAAATTTTAAAAACTAAAAACAAAGAAAAAT
** ** *
168441 CTCTCTGAAAACATTTACGGAGTAGAAAATTTCGTATTTAGGAAATAGGAAAATTTCAAGGAAAA
261 CTCTCTGAAAACATTTACGGAAAAGAAAACATCGTATTTAGAAAATAGGAAAATTT-AAGGAAAA
*
168506 AATTC
325 AAATC
*
168511 AAAACTCATGAAAATAAATGAATTTTTAAAAACTAATTTAATATAAAATAAATAAATATATTTGA
1 AAAACTCATAAAAATAAATGAATTTTTAAAAACTAATTTAATATAAAATAAATAAATATATTTGA
* * * * * * *
168576 TGAATTTTAAAAATCAAAAAC-AAAAAAAATCCATCCGAAAATATTTACGGAGTAGAAAACTCCA
66 TAAATTTAAAAAATCAAAAACTAAAAAAAATCCACCCAAAAACA-TTACAGAGTAAAAAACTCCA
* * * * *
168640 TTTTTCGAAAACA-AGG-AAATTTTAA-GAAAAATATTCAAAACACATGAAAATGAATGAATTTT
130 TATTTC-AAAA-ATAGGAAAATTTCAAGGAAAAA-AATCAAAACACATG-AAATAAATGAATTTA
* * * * * * * * * * * *
168702 TGAAAACTGATTTAGTATGCATTGAAT-GATAATATTTGATGAATTTTCAAAATCTTAAACCCAT
191 TGAAAAATGATTTAATATGAAATAAATAAAT-ATATTTGATAAATTTT-AAAAACTAAAAACAAA
* * *
168766 G-AAAATCT-TCTCGAAAATATTTATGGAAAAGAAAACCAT-GTAATTT-GAAAATAGGAGGAAT
254 GAAAAATCTCTCT-GAAAACATTTACGGAAAAGAAAA-CATCGT-ATTTAGAAAATAGGA-AAAT
168827 TT-A-GAAAGAAAATC
315 TTAAGGAAA-AAAATC
* * * * *
168841 AAGAATTTA-AAAAATAAAATGAAAATTTTCAAAACTGATTTAAT
1 AA-AACTCATAAAAAT-AAATG-AATTTTTAAAAACTAATTTAAT
168885 GAGTTTTAAA
Statistics
Matches: 306, Mismatches: 53, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
329 27 0.09
330 135 0.44
331 102 0.33
332 42 0.14
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (329 bp):
AAAACTCATAAAAATAAATGAATTTTTAAAAACTAATTTAATATAAAATAAATAAATATATTTGA
TAAATTTAAAAAATCAAAAACTAAAAAAAATCCACCCAAAAACATTACAGAGTAAAAAACTCCAT
ATTTCAAAAATAGGAAAATTTCAAGGAAAAAAATCAAAACACATGAAATAAATGAATTTATGAAA
AATGATTTAATATGAAATAAATAAATATATTTGATAAATTTTAAAAACTAAAAACAAAGAAAAAT
CTCTCTGAAAACATTTACGGAAAAGAAAACATCGTATTTAGAAAATAGGAAAATTTAAGGAAAAA
AATC
Found at i:171768 original size:17 final size:17
Alignment explanation
Indices: 171724--171773 Score: 68
Period size: 16 Copynumber: 2.9 Consensus size: 17
171714 ATATATAAAA
171724 TAAATAATTAAAA-ATTAT
1 TAAAT-ATTAAAATA-TAT
171742 TAAA-ATTAAAATATAT
1 TAAATATTAAAATATAT
171758 TAAATATTAAAATATA
1 TAAATATTAAAATATA
171774 GATACAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 14 0.47
17 12 0.40
18 4 0.13
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATATTAAAATATAT
Found at i:171828 original size:23 final size:23
Alignment explanation
Indices: 171779--171833 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
171769 ATATAGATAC
* *
171779 AAAATAATATTTATGTTAAATTA
1 AAAATAATATTTATGTAAAAATA
*
171802 AAAATTATATTTATGATAAAAATA
1 AAAATAATATTTATG-TAAAAATA
171826 AAAA-AATA
1 AAAATAATA
171834 AAATTGTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
AAAATAATATTTATGTAAAAATA
Found at i:171898 original size:25 final size:26
Alignment explanation
Indices: 171854--171904 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
171844 AAGTATATTT
* *
171854 ATATTAAAAATAAATTAATAAATAAA
1 ATATGAAAAATAAATAAATAAATAAA
171880 ATATGAAAAATAAA-AAATAAATAAA
1 ATATGAAAAATAAATAAATAAATAAA
171905 CAAAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (26 bp):
ATATGAAAAATAAATAAATAAATAAA
Found at i:172201 original size:16 final size:16
Alignment explanation
Indices: 172158--172205 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
172148 ATTTTATAAC
*
172158 TTAAAAAAATTTAAAT
1 TTAAAATAATTTAAAT
172174 TTAAAATAATTTAAAT
1 TTAAAATAATTTAAAT
* *
172190 TTAAACTGATTTAAAT
1 TTAAAATAATTTAAAT
172206 AAAAATATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (16 bp):
TTAAAATAATTTAAAT
Found at i:172256 original size:25 final size:25
Alignment explanation
Indices: 172231--172280 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
172221 TAATTTCAAA
*
172231 TAATTTAAATTTAAATTTAATAAAAT
1 TAATTTAAAATT-AATTTAATAAAAT
*
172257 TTATTTAAAATTAATTTAATAAAA
1 TAATTTAAAATTAATTTAATAAAA
172281 ATAAAAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TAATTTAAAATTAATTTAATAAAAT
Found at i:176397 original size:166 final size:165
Alignment explanation
Indices: 176050--176363 Score: 377
Period size: 166 Copynumber: 1.9 Consensus size: 165
176040 TTAAACCATC
* * * *
176050 AAAATTCATCAAATATTATAATTTGATTCACATTAAATTAGTTTTTAAAAATTATTTCATTTTCA
1 AAAATTCATCAAATATTATTATTTAATTCACATTAAATTAATTTTGAAAAATTATTTCATTTTCA
* ** * *
176115 TGAGTTTTTTATTTTTTCTTTGAAATTCTCCTATTTCCAAAATTAAAAATTTTCTTCTCCGTAAA
66 CGAGTTTTGAATTTTTTCTTTGAAATTCTCCTATTTCCAAAA-TAAAAAGTTTCTTCTCCATAAA
* * * *
176180 TTTTTTTGGGATGATTTTCATCGATTTAAAATTTTT
130 TATTTTCGAGAGGATTTTCATCGATTTAAAATTTTT
* *
176216 AAAATTCATCAAATATTATTATTTAATTCATATT-AATTCAATTTTGAAAATTTAATTT-ATTTT
1 AAAATTCATCAAATATTATTATTTAATTCACATTAAATT-AATTTTGAAAAATT-ATTTCATTTT
**
176279 CACGAGTTTTGAATTTTTTCTTTGAAATT-TCCCT-TTTCCCAAAA-AATCGAGTTTCTTACTCC
64 CACGAGTTTTGAATTTTTTCTTTGAAATTCT-CCTATTT-CCAAAATAA-AAAGTTTCTT-CTCC
176341 ATAAATATTTTCGAGAGGATTTT
125 ATAAATATTTTCGAGAGGATTTT
176364 TTTTTGTTTT
Statistics
Matches: 125, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
164 2 0.02
165 15 0.12
166 104 0.83
167 4 0.03
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (165 bp):
AAAATTCATCAAATATTATTATTTAATTCACATTAAATTAATTTTGAAAAATTATTTCATTTTCA
CGAGTTTTGAATTTTTTCTTTGAAATTCTCCTATTTCCAAAATAAAAAGTTTCTTCTCCATAAAT
ATTTTCGAGAGGATTTTCATCGATTTAAAATTTTT
Found at i:176648 original size:16 final size:16
Alignment explanation
Indices: 176604--176648 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 16
176594 ATCTTAATTT
176604 TCAATTTTTAATTTTTA
1 TCAATTTTT-ATTTTTA
176621 -CAATTTAATTATTTTTA
1 TCAATTT--TTATTTTTA
176638 TCAATTTTTAT
1 TCAATTTTTAT
176649 AATATAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 10 0.40
17 7 0.28
18 8 0.32
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (16 bp):
TCAATTTTTATTTTTA
Found at i:177570 original size:15 final size:14
Alignment explanation
Indices: 177550--177591 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
177540 CGAAACAATA
177550 AGCAAGAAAAGAAAC
1 AGCAAG-AAAGAAAC
177565 AGCAAG-AAGAAAC
1 AGCAAGAAAGAAAC
*
177578 AGCGAGCAAAGAAA
1 AGCAAG-AAAGAAA
177592 GAAGAAACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 12 0.50
15 12 0.50
ACGTcount: A:0.62, C:0.14, G:0.24, T:0.00
Consensus pattern (14 bp):
AGCAAGAAAGAAAC
Found at i:177596 original size:22 final size:22
Alignment explanation
Indices: 177568--177609 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
177558 AAGAAACAGC
177568 AAGAAGAAACAGCG-AGCAAAGA
1 AAGAAGAAACAG-GAAGCAAAGA
177590 AAGAAGAAACAGGAAGCAAA
1 AAGAAGAAACAGGAAGCAAA
177610 AGCAAAGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.62, C:0.12, G:0.26, T:0.00
Consensus pattern (22 bp):
AAGAAGAAACAGGAAGCAAAGA
Found at i:178971 original size:155 final size:153
Alignment explanation
Indices: 178690--179693 Score: 959
Period size: 155 Copynumber: 6.5 Consensus size: 153
178680 CATGCCTATC
* * * * * *
178690 CTTTTTAAGTCCTTTAGGGGTACCGAGATA-TTTTCACGTCGAAGGTATCCCT-TAGAGGTATTT
1 CTTTTTAAGTCCTTTA-GGTTGCC-AGGTACTTTT-ACGTCGAAGGTATACCTATAGGGGCATTT
* * * * * * *
178753 TCGTAATTTTTCAAAACCGAGTCCTAGGTTATCACTGGGTCCATTTTTATGCCAAATGTGGGTAT
63 TCGTAATTTTTTAGAACCGAGTCCTAGGTTGTCACCGGGTCTACTTTTATGCCAAAGGTGGGTAT
*
178818 TTAGGATAGGTGCACCATTTTCTAGT
128 TTAGGATAGGTTCACCATTTTCTAGT
* * * *
178844 CTTTTTAAGTCTTTTAATGTTGCTAGGGTACTTTTACGTCGAAAGTATACCTATAGGGGCATTTT
1 CTTTTTAAGTCCTTT-AGGTTGCCA-GGTACTTTTACGTCGAAGGTATACCTATAGGGGCATTTT
* ** * *
178909 CATAATTTCCTAGAACCGAGTCCTAGGTTGTCACCGGGTCTACTTTTATGTCGAAGGTGGGTATT
64 CGTAATTTTTTAGAACCGAGTCCTAGGTTGTCACCGGGTCTACTTTTATGCCAAAGGTGGGTATT
*
178974 TAGGATAGGTTCACCCTTTTCTAGT
129 TAGGATAGGTTCACCATTTTCTAGT
* * * * *
178999 CTTGTTAAGTCCTTTTGGGTTGACGAGGTACTTTTACGTCGAAGGTATACCCATAAGGGCATTTT
1 CTTTTTAAGTCC-TTTAGGTTG-CCAGGTACTTTTACGTCGAAGGTATACCTATAGGGGCATTTT
* * * * **
179064 TGTAATTTTTTAGAATCGAGTCCTAGGTTGTCACTGAGTCTGTTTTTATGCCAAAGGTGGGTATT
64 CGTAATTTTTTAGAACCGAGTCCTAGGTTGTCACCGGGTCTACTTTTATGCCAAAGGTGGGTATT
*
179129 TAGGATAGGTTCATTCC-TTTTCTTGT
129 TAGGATAGGTTCA--CCATTTTCTAGT
* * ** * *
179155 CCTTTTAGGTCCTTTAGGTTGTTTAGGTACTTTTACGTCAAAGGTATACCCATAGGGGCATTTTC
1 CTTTTTAAGTCCTTTAGGTTG-CCAGGTACTTTTACGTCGAAGGTATACCTATAGGGGCATTTTC
* * * * * * *
179220 ATAA-TTTTTAGAACCGAGTCCTAGGTTGCCACCGGGTCTGCTTTTATGTCGAAGGTGAGCATTT
65 GTAATTTTTTAGAACCGAGTCCTAGGTTGTCACCGGGTCTACTTTTATGCCAAAGGTGGGTATTT
179284 AGGATAGGTTCATCACCA-TTTCTAGT
130 AGGATAGG-T--TCACCATTTTCTAGT
* * * * * **
179310 CTTTTTAAGTCCTTTAGGGTACCATGATACTTTCACGTCGAAGGTATCCCCTA-A-AAGCATTTT
1 CTTTTTAAGTCCTTTAGGTTGCCA-GGTACTTTTACGTCGAAGGTAT-ACCTATAGGGGCATTTT
* ** * * *
179373 CGTAATTTTTTAGAACCGAGTCTTAGGTTAACACCGGATCTACTTTAATGCCGAAGGTGGGTATT
64 CGTAATTTTTTAGAACCGAGTCCTAGGTTGTCACCGGGTCTACTTTTATGCCAAAGGTGGGTATT
* *
179438 TAGGATAGGTTCACCCTTTTTATAGT
129 TAGGATAGGTTCA-CCATTTTCTAGT
* * * *
179464 CCTTTTAAGTCCTTTAGGGTTACCAGGATACTTTTATGTCGAAGGTATA-CTCACAGGGGCATTT
1 CTTTTTAAGTCCTTTA-GGTTGCCAGG-TACTTTTACGTCGAAGGTATACCT-ATAGGGGCATTT
* * * *
179528 TGGTAATTTTTTAGAACCGAGTCTTAGGTTGTCACCAGGT-TCAGTTTTATGCCAAAGGTGGGTA
63 TCGTAATTTTTTAGAACCGAGTCCTAGGTTGTCACCGGGTCT-ACTTTTATGCCAAAGGTGGGTA
** *
179592 TTTAGGATAGGTTCATCC-TATTTGGAAT
127 TTTAGGATAGGTTCA-CCAT-TTTCTAGT
* * *** * * *
179620 CCTTTTTACGTCCTTTAGGGGTATTAGGTACTTTTAGGTCGAAGGTATTCCT-TAAGGGCATTTT
1 -CTTTTTAAGTCCTTTA-GGTTGCCAGGTACTTTTACGTCGAAGGTATACCTATAGGGGCATTTT
*
179684 TGTAATTTTT
64 CGTAATTTTT
179694 CTTGAACTTA
Statistics
Matches: 704, Mismatches: 120, Indels: 51
0.80 0.14 0.06
Matches are distributed among these distances:
152 3 0.00
153 5 0.01
154 131 0.19
155 410 0.58
156 126 0.18
157 29 0.04
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.39
Consensus pattern (153 bp):
CTTTTTAAGTCCTTTAGGTTGCCAGGTACTTTTACGTCGAAGGTATACCTATAGGGGCATTTTCG
TAATTTTTTAGAACCGAGTCCTAGGTTGTCACCGGGTCTACTTTTATGCCAAAGGTGGGTATTTA
GGATAGGTTCACCATTTTCTAGT
Found at i:179432 original size:309 final size:306
Alignment explanation
Indices: 178690--179693 Score: 1135
Period size: 309 Copynumber: 3.2 Consensus size: 306
178680 CATGCCTATC
* * *
178690 CTTTTTAAGTCCTTTAGGGGTACCGAGATATTTTCACGTCGAAGGTATCCCTTAGAGGTATTTTC
1 CTTTTTAAGTCCTTTAGGGGTACC-AGATACTTTCACGTCGAAGGTATCCCTTAAAGGCATTTTC
* * * * * *
178755 GTAATTTTTCAAAACCGAGTCCTAGGTTATCACTGGGTCCATTTTTATGCCAAATGTGGGTATTT
65 GTAATTTTTTAGAACCGAGTCCTAGGTTATCACCGGATCTATTTTTATGCCAAAGGTGGGTATTT
* * * * * *
178820 AGGATAGGTGCACCATTTTCTAGTCTTTTTAAGTCTTTTAATGTTG-CTAGGGTACTTTTACGTC
130 AGGATAGGTTCACC-TTTTCTTGTCCTTTTAAGTCCTTT-AGGTTGTTTA-GGTACTTTTACGTC
* *
178884 GAAA-GTATACCTATAGGGGCATTTTCATAATTTCCTAGAACCGAGTCCTAGGTTGTCACCGGGT
192 -AAAGGTATACCCATAGGGGCATTTTCATAATTT-TTAGAACCGAGTCCTAGGTTGTCACCGGGT
* *
178948 CTACTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCA-CCCTTTTCTAGT
255 CTGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTTCTAGT
* * * * * * * *
178999 CTTGTTAAGTCCTTTTGGGTTGACGAGGTACTTTTACGTCGAAGGTATACCCATAAGGGCATTTT
1 CTTTTTAAGTCCTTTAGGGGT-ACCAGATACTTTCACGTCGAAGGTAT-CCCTTAAAGGCATTTT
* * * * *
179064 TGTAATTTTTTAGAATCGAGTCCTAGGTTGTCA-CTGAGTCTGTTTTTATGCCAAAGGTGGGTAT
64 CGTAATTTTTTAGAACCGAGTCCTAGGTTATCACCGGA-TCTATTTTTATGCCAAAGGTGGGTAT
*
179128 TTAGGATAGGTTCATTCCTTTTCTTGTCCTTTTAGGTCCTTTAGGTTGTTTAGGTACTTTTACGT
128 TTAGGATAGGTTCA--CCTTTTCTTGTCCTTTTAAGTCCTTTAGGTTGTTTAGGTACTTTTACGT
*
179193 CAAAGGTATACCCATAGGGGCATTTTCATAATTTTTAGAACCGAGTCCTAGGTTGCCACCGGGTC
191 CAAAGGTATACCCATAGGGGCATTTTCATAATTTTTAGAACCGAGTCCTAGGTTGTCACCGGGTC
* *
179258 TGCTTTTATGTCGAAGGTGAGCATTTAGGATAGGTTCATCACCATTTCTAGT
256 TGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATC-CCATTTCTAGT
* *
179310 CTTTTTAAGTCCTTTA-GGGTACCATGATACTTTCACGTCGAAGGTATCCCCTAAAAGCATTTTC
1 CTTTTTAAGTCCTTTAGGGGTACCA-GATACTTTCACGTCGAAGGTATCCCTTAAAGGCATTTTC
* * * * *
179374 GTAATTTTTTAGAACCGAGTCTTAGGTTAACACCGGATCTACTTTAATGCCGAAGGTGGGTATTT
65 GTAATTTTTTAGAACCGAGTCCTAGGTTATCACCGGATCTATTTTTATGCCAAAGGTGGGTATTT
* *
179439 AGGATAGGTTCACCCTTTT-TATAGTCCTTTTAAGTCCTTTAGG--GTTACCAGGATACTTTTAT
130 AGGATAGGTTCA-CCTTTTCT-T-GTCCTTTTAAGTCCTTTAGGTTGTT--TAGG-TACTTTTAC
* * * ** *
179501 GTCGAAGGTATACTCACAGGGGCATTTTGGTAATTTTTTAGAACCGAGTCTTAGGTTGTCACCAG
189 GTCAAAGGTATACCCATAGGGGCATTTTCATAA-TTTTTAGAACCGAGTCCTAGGTTGTCACC-G
* * * * * ** *
179566 GTTCAG-TTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCTATTTGGAAT
252 GGTCTGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTTCTAGT
* ** * * * * * *
179620 CCTTTTTACGTCCTTTAGGGGTATTAGGTACTTTTAGGTCGAAGGTATTCCTTAAGGGCATTTTT
1 -CTTTTTAAGTCCTTTAGGGGTACCAGATACTTTCACGTCGAAGGTATCCCTTAAAGGCATTTTC
179685 GTAATTTTT
65 GTAATTTTT
179694 CTTGAACTTA
Statistics
Matches: 588, Mismatches: 87, Indels: 38
0.82 0.12 0.05
Matches are distributed among these distances:
307 4 0.01
308 7 0.01
309 208 0.35
310 195 0.33
311 161 0.27
312 13 0.02
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.39
Consensus pattern (306 bp):
CTTTTTAAGTCCTTTAGGGGTACCAGATACTTTCACGTCGAAGGTATCCCTTAAAGGCATTTTCG
TAATTTTTTAGAACCGAGTCCTAGGTTATCACCGGATCTATTTTTATGCCAAAGGTGGGTATTTA
GGATAGGTTCACCTTTTCTTGTCCTTTTAAGTCCTTTAGGTTGTTTAGGTACTTTTACGTCAAAG
GTATACCCATAGGGGCATTTTCATAATTTTTAGAACCGAGTCCTAGGTTGTCACCGGGTCTGCTT
TTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTTCTAGT
Found at i:183330 original size:24 final size:25
Alignment explanation
Indices: 183302--183353 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
183292 AAAATATTTA
*
183302 AAAATTGG-TCCAACAT-AATTAAAT
1 AAAATAGGCTCCAA-ATAAATTAAAT
*
183326 AAAATAGGCTCCAAATAAATTAATT
1 AAAATAGGCTCCAAATAAATTAAAT
183351 AAA
1 AAA
183354 TAAACAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.54, C:0.12, G:0.08, T:0.27
Consensus pattern (25 bp):
AAAATAGGCTCCAAATAAATTAAAT
Found at i:184830 original size:35 final size:36
Alignment explanation
Indices: 184785--184856 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
184775 AGATAGAAAC
** *
184785 CTCCCTATC-TTTTCACGGGCTAAGATAGAACCTCT
1 CTCCCTATCTTTTTCAAAGGCTAAGAAAGAACCTCT
*
184820 CTCCCTATCTTTTTCAAAGGCTAAGAAAGAACTTCT
1 CTCCCTATCTTTTTCAAAGGCTAAGAAAGAACCTCT
184856 C
1 C
184857 AATCACTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 9 0.28
36 23 0.72
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (36 bp):
CTCCCTATCTTTTTCAAAGGCTAAGAAAGAACCTCT
Found at i:185357 original size:20 final size:19
Alignment explanation
Indices: 185332--185384 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
185322 ATACATGAAC
185332 AGTGATGAATAGTTCTCAAT
1 AGTGATGAATAGTT-TCAAT
*
185352 AGTGATGAATGAAG-TTGAAT
1 AGTGATGAAT--AGTTTCAAT
185372 AGTGATGAATAGT
1 AGTGATGAATAGT
185385 AAAAAATGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 2 0.07
20 24 0.83
21 1 0.03
22 2 0.07
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (19 bp):
AGTGATGAATAGTTTCAAT
Found at i:185380 original size:10 final size:10
Alignment explanation
Indices: 185326--185384 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
185316 GTATTGATAC
*
185326 ATGAACAGTG
1 ATGAATAGTG
*
185336 ATGAATAGTT
1 ATGAATAGTG
* *
185346 CTCAATAGTG
1 ATGAATAGTG
185356 ATGAATGAAGT-
1 ATGAAT--AGTG
185367 -TGAATAGTG
1 ATGAATAGTG
185376 ATGAATAGT
1 ATGAATAGT
185385 AAAAAATGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
8 3 0.08
10 32 0.84
12 3 0.08
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (10 bp):
ATGAATAGTG
Found at i:189214 original size:20 final size:20
Alignment explanation
Indices: 189169--189224 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
189159 GCCAAGGAAA
189169 TGTATCAATACATGCTTCAAAT
1 TGTATCAATACAT--TTCAAAT
**
189191 TGTATCAATACATTTCTTAT
1 TGTATCAATACATTTCAAAT
189211 TGTATCAATACATT
1 TGTATCAATACATT
189225 CTAGGTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 19 0.59
22 13 0.41
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (20 bp):
TGTATCAATACATTTCAAAT
Found at i:196323 original size:155 final size:154
Alignment explanation
Indices: 195635--196336 Score: 687
Period size: 155 Copynumber: 4.5 Consensus size: 154
195625 TCACTATCTC
* * * * *
195635 TAGTCTTTTTAAGTCCTTTAGGGTTGCCAGGATACTTTTACATCGAAGGTATTCCCTAAGGGCAT
1 TAGTCTTTTTAAGTCCTTTAGGGGTACCAGGATACTTTCACGTCGAAGGTA-TCCCTAGGGGCAT
** ** * * * * * *
195700 TTTTGTAA-TTTTTGGAACCAACTCTTAGGTTATCACCAGGTCTACTTTTGTGCCGAAGGTGGGT
65 TTTCATAATTTTTTAAAACTAAGTCTTAGGTTATAACCGGGTCTGCTTTTATGCCGAAGGTGGGT
* *
195764 ATTTAAGATAGGTTCACCCCTTTTA
130 ATTTAGGATAGGTTCATCCCTTTTA
* ** * *
195789 TAGTCCCTTTTAAGTCCTTTAGGGGTACTGGGATACTTTCACGTTGAAGGTAAATCTCCTAGGAG
1 TAGT-CTTTTTAAGTCCTTTAGGGGTACCAGGATACTTTCACGTCGAAGGT--ATC-CCTAGGGG
* * * * * *
195854 CATTTTCATAATTTTTTCAAAACTGAGTCCTAGGTTATAACTGGATCTGCTTTTATGCTGAAGGC
62 CATTTTCATAATTTTTT-AAAACTAAGTCTTAGGTTATAACCGGGTCTGCTTTTATGCCGAAGGT
* *
195919 AGGTATTTAGGATAGGTTCATCCCTTTTG
126 GGGTATTTAGGATAGGTTCATCCCTTTTA
*** * * *
195948 TAGTCATTTTTAAGTCCTTTAGGGGTATTGGGATACTTTCACGTTGAAGGTATCCTTTGCGGGCA
1 TAGTC-TTTTTAAGTCCTTTAGGGGTACCAGGATACTTTCACGTCGAAGGTATCCCTAG-GGGCA
* * * * * * *
196013 TTTTCGTAATTTTTTAAAATTTAGTCTTAGGTTCA-AATCGGGTCTGCTTTTACGTCGAAGGTGA
64 TTTTCATAATTTTTTAAAACTAAGTCTTAGGTT-ATAACCGGGTCTGCTTTTATGCCGAAGGTGG
*
196077 GTATTTAGAATAGGTTCATCCCTTTTA
128 GTATTTAGGATAGGTTCATCCCTTTTA
* * * * *
196104 TAGTCCTTTTAAGTCTTTTAGGGGTACC-GAGATACTTTCACGTCAAAGATATCTCCTAGAGGCA
1 TAGTCTTTTTAAGTCCTTTAGGGGTACCAG-GATACTTTCACGTCGAAGGTATC-CCTAGGGGCA
* * *
196168 TTTTCATAATTTTCTAAAACTAAGTTTTAGGTTATAACCGGGT-TCGCTTTTATGCCAAAGGTGG
64 TTTTCATAATTTTTTAAAACTAAGTCTTAGGTTATAACCGGGTCT-GCTTTTATGCCGAAGGTGG
* *
196232 GTATTTAGGATAGGTTCATTCATTTTA
128 GTATTTAGGATAGGTTCATCCCTTTTA
* * * **
196259 TAGTTCTTTTTAAGTCTTTTAGGGGTATCAGG-TAC-TTCTACATCGAAATTATCCCTTAGGGGC
1 TAG-TCTTTTTAAGTCCTTTAGGGGTACCAGGATACTTTC-ACGTCGAAGGTATCCC-TAGGGGC
*
196322 ATTTTTATAATTTTT
63 ATTTTCATAATTTTT
196337 CTTGAGCTTA
Statistics
Matches: 449, Mismatches: 82, Indels: 33
0.80 0.15 0.06
Matches are distributed among these distances:
154 12 0.03
155 190 0.42
156 97 0.22
157 39 0.09
158 6 0.01
159 105 0.23
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (154 bp):
TAGTCTTTTTAAGTCCTTTAGGGGTACCAGGATACTTTCACGTCGAAGGTATCCCTAGGGGCATT
TTCATAATTTTTTAAAACTAAGTCTTAGGTTATAACCGGGTCTGCTTTTATGCCGAAGGTGGGTA
TTTAGGATAGGTTCATCCCTTTTA
Found at i:196843 original size:20 final size:20
Alignment explanation
Indices: 196818--196857 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
196808 ATCACATTTT
196818 TTTCTAAATGTATCGATACA
1 TTTCTAAATGTATCGATACA
196838 TTTCTAAATGTATCGATACA
1 TTTCTAAATGTATCGATACA
196858 AGGTCCCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTCTAAATGTATCGATACA
Found at i:197247 original size:13 final size:13
Alignment explanation
Indices: 197229--197253 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
197219 CATAAAGTGT
197229 TGTATCGATACAA
1 TGTATCGATACAA
197242 TGTATCGATACA
1 TGTATCGATACA
197254 TAAGTTTTGT
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:197269 original size:32 final size:33
Alignment explanation
Indices: 197209--197274 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
197199 TTCAACGATT
197209 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
197242 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
197274 T
1 T
197275 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:197333 original size:13 final size:13
Alignment explanation
Indices: 197315--197339 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
197305 ATTACTCAAA
197315 TGTATCGATACAT
1 TGTATCGATACAT
197328 TGTATCGATACA
1 TGTATCGATACA
197340 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:203598 original size:20 final size:22
Alignment explanation
Indices: 203563--203606 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
203553 GTTACATTTT
203563 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
*
203584 CAAAT-TGTATTGATACATTCA
1 CAAATATGTATCGATACATTCA
203605 CA
1 CA
203607 CGGGAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:205765 original size:22 final size:21
Alignment explanation
Indices: 205738--205789 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
205728 TTGCAAGTTG
205738 AAATAAAAAATTTAGCTAATG-A
1 AAATAAAAAA-TTAGCTAA-GAA
**
205760 AAATAATGAATTAGCTAAGAA
1 AAATAAAAAATTAGCTAAGAA
205781 AAATAAAAA
1 AAATAAAAA
205790 CTTGCATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 16 0.64
22 8 0.32
ACGTcount: A:0.63, C:0.04, G:0.10, T:0.23
Consensus pattern (21 bp):
AAATAAAAAATTAGCTAAGAA
Found at i:210198 original size:28 final size:28
Alignment explanation
Indices: 210158--210229 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
210148 GGAATAAAGC
**
210158 CGGGGTTGGAGTATCCCCTCGGA-AGTAA
1 CGGGGTTGGAGTATCCCCGAGGAGA-TAA
*
210186 CGGGGTTGGAGTATCCCCGATGAGATAA
1 CGGGGTTGGAGTATCCCCGAGGAGATAA
*
210214 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
210230 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAGATAA
Found at i:210281 original size:54 final size:51
Alignment explanation
Indices: 210220--210341 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 51
210210 ATAACGAGGT
* * *
210220 TGGAGTATCCTCGATTGTGAAAAAAATTGGTGTTTTTAGAAATAAAATCGGAGC
1 TGGAGTATCCTCGATTGT-AAAAAAA-TAGTGTTTTGA-AAATAAAATCGGAGA
* * *
210274 TGGAGTATCCTCGATTATAGAAATATAGTGTTTTGAAAATAAAATCGGAGA
1 TGGAGTATCCTCGATTGTAAAAAAATAGTGTTTTGAAAATAAAATCGGAGA
* *
210325 TGGAATATCCCCGATTG
1 TGGAGTATCCTCGATTG
210342 CGGAGAATTG
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
51 28 0.47
52 9 0.15
53 5 0.08
54 17 0.29
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (51 bp):
TGGAGTATCCTCGATTGTAAAAAAATAGTGTTTTGAAAATAAAATCGGAGA
Found at i:212723 original size:13 final size:13
Alignment explanation
Indices: 212705--212730 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
212695 ACAAAGATCC
212705 ATGTATCGATACA
1 ATGTATCGATACA
212718 ATGTATCGATACA
1 ATGTATCGATACA
212731 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:212726 original size:33 final size:33
Alignment explanation
Indices: 212684--212750 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
212674 AAAATTTCAA
***
212684 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
212717 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
212750 A
1 A
212751 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:212794 original size:19 final size:18
Alignment explanation
Indices: 212770--212837 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
212760 CAGTAGCTAA
212770 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
212789 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
212804 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
212821 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
212838 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:212810 original size:13 final size:13
Alignment explanation
Indices: 212792--212816 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
212782 ACAATACTTA
212792 TGTATCGATACAT
1 TGTATCGATACAT
212805 TGTATCGATACA
1 TGTATCGATACA
212817 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:212814 original size:32 final size:32
Alignment explanation
Indices: 212773--212835 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
212763 TAGCTAATTA
*
212773 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
212805 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
212836 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:213744 original size:13 final size:13
Alignment explanation
Indices: 213726--213763 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
213716 CATTTTTCTT
213726 TGTATCGATACAC
1 TGTATCGATACAC
213739 TGTATCGATACAC
1 TGTATCGATACAC
213752 TGTATCGATACA
1 TGTATCGATACA
213764 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:214242 original size:21 final size:20
Alignment explanation
Indices: 214205--214247 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
214195 GCAGCACCCA
*
214205 CCAGGTCACGACCGGCACTC
1 CCAGGTCACAACCGGCACTC
* *
214225 CCAGGTCGCAACCAGGCAGTC
1 CCAGGTCACAACC-GGCACTC
214246 CC
1 CC
214248 CACACTAGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.21, C:0.44, G:0.26, T:0.09
Consensus pattern (20 bp):
CCAGGTCACAACCGGCACTC
Found at i:216431 original size:20 final size:22
Alignment explanation
Indices: 216400--216443 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
216390 GCTACATTTT
216400 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
216421 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
216442 CA
1 CA
216444 CGGGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:218622 original size:11 final size:11
Alignment explanation
Indices: 218591--218647 Score: 62
Period size: 12 Copynumber: 5.0 Consensus size: 11
218581 TGTTCTTTTC
*
218591 CAAAAAATAAA
1 CAAAAAAAAAA
218602 CAAAACAAAAAA
1 CAAAA-AAAAAA
*
218614 GGAAAAAAAAAA
1 -CAAAAAAAAAA
218626 C-AAAAAAAAA
1 CAAAAAAAAAA
218636 CAAACAAAAAAA
1 CAAA-AAAAAAA
218648 AAGGGAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 10 0.26
11 7 0.18
12 18 0.46
13 4 0.10
ACGTcount: A:0.84, C:0.11, G:0.04, T:0.02
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:218633 original size:14 final size:14
Alignment explanation
Indices: 218616--218649 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
218606 ACAAAAAAGG
218616 AAAAAAAAAACAAA
1 AAAAAAAAAACAAA
*
218630 AAAAAACAAACAAA
1 AAAAAAAAAACAAA
218644 AAAAAA
1 AAAAAA
218650 GGGAAAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAACAAA
Found at i:218644 original size:24 final size:25
Alignment explanation
Indices: 218591--218649 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
218581 TGTTCTTTTC
*
218591 CAAAAAATAAACAAAACAAAAAAGGA
1 CAAAAAA-AAACAAAACAAAAAAGAA
218617 -AAAAAAAAACAAAA-AAAAACA-AA
1 CAAAAAAAAACAAAACAAAAA-AGAA
218640 CAAAAAAAAA
1 CAAAAAAAAA
218650 GGGAAAAACC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 6 0.20
24 18 0.60
25 6 0.20
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.02
Consensus pattern (25 bp):
CAAAAAAAAACAAAACAAAAAAGAA
Found at i:219704 original size:30 final size:31
Alignment explanation
Indices: 219597--219810 Score: 173
Period size: 30 Copynumber: 6.8 Consensus size: 31
219587 TCAAATACCT
* * *
219597 TCTT-AAAGTCCACGACTCCGTGGCACCTTC
1 TCTTCAAAGTCCACGACTCAGTGGCATCTTG
* * * * *
219627 TTTTCAAAGCCCACAACTCTGTGGCACTCTTTAT
1 TCTTCAAAGTCCACGACTCAGTGGCA-TC-TT-G
** *
219661 TCCTTTTAAGTCCACGACTTAGTGGCATCTTG
1 T-CTTCAAAGTCCACGACTCAGTGGCATCTTG
*
219693 TC-TCAAAGTCCACGACTCAGTGGCATCCTTT
1 TCTTCAAAGTCCACGACTCAGTGGCAT-CTTG
*
219724 TCTTCAAAGTCCACGACTCAGTGGCATTTTG
1 TCTTCAAAGTCCACGACTCAGTGGCATCTTG
* * * * *
219755 TCTT-AATGTCCACGATTTAGTGGCATTTTT
1 TCTTCAAAGTCCACGACTCAGTGGCATCTTG
* * *
219785 TCTTCAAAGCCCACAACTCCGTGGCA
1 TCTTCAAAGTCCACGACTCAGTGGCA
219811 CCTTTTTCTT
Statistics
Matches: 146, Mismatches: 30, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
30 50 0.34
31 45 0.31
32 26 0.18
33 4 0.03
34 3 0.02
35 18 0.12
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (31 bp):
TCTTCAAAGTCCACGACTCAGTGGCATCTTG
Found at i:219747 original size:62 final size:62
Alignment explanation
Indices: 219596--219810 Score: 209
Period size: 62 Copynumber: 3.4 Consensus size: 62
219586 TTCAAATACC
* * * * * * *
219596 TTCTT-AAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTT-GTCTCAAAGTCCACGACTCAGTGGCA-TCTTT
** * *
219659 ATTCCTTTTAAGTCCACGACTTAGTGGCATCTTGTCTCAAAGTCCACGACTCAGTGGCATCCTT
1 -TT-CTTCAAAGTCCACGACTCAGTGGCATCTTGTCTCAAAGTCCACGACTCAGTGGCATCTTT
* * * * *
219723 TTCTTCAAAGTCCACGACTCAGTGGCATTTTGTCTTAATGTCCACGATTTAGTGGCAT-TTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTTGTCTCAAAGTCCACGACTCAGTGGCATCTTT
* * *
219784 TTCTTCAAAGCCCACAACTCCGTGGCA
1 TTCTTCAAAGTCCACGACTCAGTGGCA
219811 CCTTTTTCTT
Statistics
Matches: 127, Mismatches: 22, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
61 26 0.20
62 48 0.38
63 2 0.02
64 6 0.05
65 24 0.19
66 21 0.17
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (62 bp):
TTCTTCAAAGTCCACGACTCAGTGGCATCTTGTCTCAAAGTCCACGACTCAGTGGCATCTTT
Found at i:219831 original size:34 final size:34
Alignment explanation
Indices: 219780--219884 Score: 124
Period size: 34 Copynumber: 3.1 Consensus size: 34
219770 TTTAGTGGCA
*
219780 TTTTTTCTTC-AAAGCCCACAACTCCGTGGCACC
1 TTTTTCCTTCTAAAGCCCACAACTCCGTGGCACC
* * *
219813 TTTTTCTTTTTAAAGCCCACAACTCCGTGGCACT
1 TTTTTCCTTCTAAAGCCCACAACTCCGTGGCACC
* * *
219847 TTTTTCCTTCT-AAGTCCACAATTTCGTGGCACC
1 TTTTTCCTTCTAAAGCCCACAACTCCGTGGCACC
*
219880 CTTTT
1 TTTTT
219885 AAGTCCACAA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 29 0.48
34 31 0.52
ACGTcount: A:0.19, C:0.31, G:0.11, T:0.38
Consensus pattern (34 bp):
TTTTTCCTTCTAAAGCCCACAACTCCGTGGCACC
Found at i:219849 original size:33 final size:32
Alignment explanation
Indices: 219596--219878 Score: 150
Period size: 30 Copynumber: 8.9 Consensus size: 32
219586 TTCAAATACC
* * * *
219596 TTCTT-AAAGTCCACGACTCCGTGGCACCTTC
1 TTCTTCAAAGCCCACAACTCCGTGGCACTTTT
*
219627 TT-TTCAAAGCCCACAACTCTGTGGCACTCTTT
1 TTCTTCAAAGCCCACAACTCCGTGGCACT-TTT
** * * ** *
219659 ATTCCTTTTAAGTCCACGACTTAGTGGCA-TCTT
1 -TT-CTTCAAAGCCCACAACTCCGTGGCACTTTT
* * * * *
219692 GTC-TCAAAGTCCACGACTCAGTGGCA-TCCTT
1 TTCTTCAAAGCCCACAACTCCGTGGCACT-TTT
* * *
219723 TTCTTCAAAGTCCACGACTCAGTGGCA-TTTT
1 TTCTTCAAAGCCCACAACTCCGTGGCACTTTT
* * * * * **
219754 GTCTT-AATGTCCACGATTTAGTGGCA-TTTT
1 TTCTTCAAAGCCCACAACTCCGTGGCACTTTT
219784 TTCTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TTCTTCAAAGCCCACAACTCCGTGGCA-CTTTT
* *
219817 TCTTTTTAAAGCCCACAACTCCGTGGCACTTTT
1 T-TCTTCAAAGCCCACAACTCCGTGGCACTTTT
* * * *
219850 TTCCTTCTAAGTCCACAATTTCGTGGCAC
1 TT-CTTCAAAGCCCACAACTCCGTGGCAC
219879 CCTTTTAAGT
Statistics
Matches: 203, Mismatches: 37, Indels: 22
0.77 0.14 0.08
Matches are distributed among these distances:
30 49 0.24
31 48 0.24
32 28 0.14
33 35 0.17
34 25 0.12
35 18 0.09
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.34
Consensus pattern (32 bp):
TTCTTCAAAGCCCACAACTCCGTGGCACTTTT
Found at i:219890 original size:27 final size:27
Alignment explanation
Indices: 219852--219904 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
219842 GCACTTTTTT
* *
219852 CCTTCTAAGTCCACAATTTCGTGGCAC
1 CCTTCTAAGTCCACAACTCCGTGGCAC
*
219879 CCTTTTAAGTCCACAACTCCGTGGCA
1 CCTTCTAAGTCCACAACTCCGTGGCA
219905 TATTTCTCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.28
Consensus pattern (27 bp):
CCTTCTAAGTCCACAACTCCGTGGCAC
Found at i:219916 original size:33 final size:33
Alignment explanation
Indices: 219795--219917 Score: 98
Period size: 34 Copynumber: 3.9 Consensus size: 33
219785 TCTTCAAAGC
** * * *
219795 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCATATTTCTCCTTTT-AAGT
* *
219829 CCACAACTCCGTGGCACT-TTTTTCCTTCTAAGT
1 CCACAACTCCGTGGCA-TATTTCTCCTTTTAAGT
* *
219862 CCACAATTTCGTGGC--A---C-CCTTTTAAGT
1 CCACAACTCCGTGGCATATTTCTCCTTTTAAGT
219889 CCACAACTCCGTGGCATATTTCTCCTTTT
1 CCACAACTCCGTGGCATATTTCTCCTTTT
219918 CTAAAGCCCA
Statistics
Matches: 71, Mismatches: 10, Indels: 17
0.72 0.10 0.17
Matches are distributed among these distances:
27 22 0.31
29 1 0.01
32 1 0.01
33 22 0.31
34 25 0.35
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.36
Consensus pattern (33 bp):
CCACAACTCCGTGGCATATTTCTCCTTTTAAGT
Found at i:219953 original size:33 final size:33
Alignment explanation
Indices: 219912--220146 Score: 329
Period size: 33 Copynumber: 7.2 Consensus size: 33
219902 GCATATTTCT
*
219912 CCTT-TTCTAAAGCCCACACAAGTCAGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
*
219944 CCTTCTTCTAAAGCCCACATAAGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
219977 CC--CTTCTCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAA
220009 CCCTTC-TCTAAAGCCCACACAAGTCGGTGGCAA
1 -CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
*
220042 CCTTCTTCTAAAGCCCACACAAGTCAGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
* *
220075 CCCTC-TCTAAAGCCCACACAAGTTGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
* *
220107 CCATTC-TCTAAAGCCCACATAAGTCGGTGGAAA
1 CC-TTCTTCTAAAGCCCACACAAGTCGGTGGCAA
220140 CCCTTCT
1 -CCTTCT
220147 AAGTCCAATA
Statistics
Matches: 183, Mismatches: 11, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
31 5 0.03
32 59 0.32
33 113 0.62
34 5 0.03
35 1 0.01
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.21
Consensus pattern (33 bp):
CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:219974 original size:98 final size:98
Alignment explanation
Indices: 219912--220146 Score: 328
Period size: 98 Copynumber: 2.4 Consensus size: 98
219902 GCATATTTCT
* * *
219912 CCTTTTCTAAAGCCCACACAAGTCAGTGGCAACCTTCTTCTAAAGCCCACATAAGTCGGTGGCAA
1 CCTTCTCTAAAGCCCACACAAGTCAGTGGCAACCTTCTTCTAAAGCCCACACAAGTCAGTGGCAA
* *
219977 CCCTTCTCAAAGCCCACACAAGTCGGTGGCAAC
66 CCCTTCTCAAAGCCCACACAACTCCGTGGCAAC
*
220010 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCAGTGGCAA
1 CCTTCTCTAAAGCCCACACAAGTCAGTGGCAACCTTCTTCTAAAGCCCACACAAGTCAGTGGCAA
* **
220075 CCC-TCTCTAAAGCCCACACAAGTTGGTGGCAAC
66 CCCTTCTC-AAAGCCCACACAACTCCGTGGCAAC
* * * *
220108 CATTCTCTAAAGCCCACATAAGTCGGTGGAAACCCTTCT
1 CCTTCTCTAAAGCCCACACAAGTCAGTGGCAA-CCTTCT
220147 AAGTCCAATA
Statistics
Matches: 127, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
97 4 0.03
98 117 0.92
99 6 0.05
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.21
Consensus pattern (98 bp):
CCTTCTCTAAAGCCCACACAAGTCAGTGGCAACCTTCTTCTAAAGCCCACACAAGTCAGTGGCAA
CCCTTCTCAAAGCCCACACAACTCCGTGGCAAC
Found at i:219990 original size:65 final size:66
Alignment explanation
Indices: 219912--220146 Score: 352
Period size: 65 Copynumber: 3.6 Consensus size: 66
219902 GCATATTTCT
* *
219912 CCTTTTCTAAAGCCCACACAAGTCAGTGGCAA-CCTTCTTCTAAAGCCCACATAAGTCGGTGGCA
1 CCTTCTCTAAAGCCCACACAAGTCAGTGGCAACCCTTC-TCTAAAGCCCACACAAGTCGGTGGCA
219976 AC
65 AC
*
219978 CCTTCTC-AAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTCTAAAGCCCACACAAGTCAGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
220042 -
66 C
*
220042 CCTTCTTCTAAAGCCCACACAAGTCAGTGGCAACCC-TCTCTAAAGCCCACACAAGTTGGTGGCA
1 CCTTC-TCTAAAGCCCACACAAGTCAGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
220106 AC
65 AC
* * * *
220108 CATTCTCTAAAGCCCACATAAGTCGGTGGAAACCCTTCT
1 CCTTCTCTAAAGCCCACACAAGTCAGTGGCAACCCTTCT
220147 AAGTCCAATA
Statistics
Matches: 155, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
64 5 0.03
65 106 0.68
66 44 0.28
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.21
Consensus pattern (66 bp):
CCTTCTCTAAAGCCCACACAAGTCAGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
C
Found at i:220216 original size:49 final size:49
Alignment explanation
Indices: 220146--220484 Score: 389
Period size: 52 Copynumber: 7.1 Consensus size: 49
220136 GAAACCCTTC
* *
220146 TAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
220195 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-GCA----C--CTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
220237 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
220286 TAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCA----C--CTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
220329 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTT
* *
220381 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-AC-CT-TCATCTT
* *
220433 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
220482 TAA
1 TAA
220485 CATTCCTAAG
Statistics
Matches: 252, Mismatches: 20, Indels: 36
0.82 0.06 0.12
Matches are distributed among these distances:
42 36 0.14
43 40 0.16
44 1 0.00
45 1 0.00
47 1 0.00
48 3 0.01
49 80 0.32
50 2 0.01
51 1 0.00
52 86 0.34
53 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:220301 original size:91 final size:91
Alignment explanation
Indices: 220141--220484 Score: 445
Period size: 91 Copynumber: 3.6 Consensus size: 91
220131 CGGTGGAAAC
* *
220141 CCTTCTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
220206 TAGCTGGCCTTGAATCAGCACATTGCA
65 TAGCTGGCCTTGAATCAGCACATTGCA
* *
220233 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
220298 AGCTGGCCTTGAATTAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATT-GCA
*
220325 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTTAAGTCCAA
* * *
220390 TATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCA
63 TGTAGCTGGCCTTGAATCAGC--A-------CATTG-CA
* * *
220429 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAA
220485 CATTCCTAAG
Statistics
Matches: 224, Mismatches: 14, Indels: 19
0.87 0.05 0.07
Matches are distributed among these distances:
91 81 0.36
92 50 0.22
94 1 0.00
95 33 0.15
97 1 0.00
101 10 0.04
102 1 0.00
103 1 0.00
104 46 0.21
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (91 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGCA
Found at i:220346 original size:43 final size:43
Alignment explanation
Indices: 220283--220372 Score: 135
Period size: 43 Copynumber: 2.1 Consensus size: 43
220273 GCACCTTCTT
* *
220283 CTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
220326 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
220369 CTTT
1 CTTT
220373 GTCATCTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:221349 original size:20 final size:19
Alignment explanation
Indices: 221324--221421 Score: 94
Period size: 20 Copynumber: 5.7 Consensus size: 19
221314 TTTCAACGAT
221324 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
221344 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
221358 -TGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
221377 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
221391 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
221409 TTGTATCGATACA
1 TTGTATCGATACA
221422 ATTTAAGCTA
Statistics
Matches: 65, Mismatches: 0, Indels: 27
0.71 0.00 0.29
Matches are distributed among these distances:
13 22 0.34
15 2 0.03
16 2 0.03
17 4 0.06
19 12 0.18
20 23 0.35
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:221363 original size:13 final size:13
Alignment explanation
Indices: 221345--221402 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
221335 CATAAAGTGT
221345 TGTATCGATACAA
1 TGTATCGATACAA
221358 TGTATCGATACATAAA
1 TGTATCGATAC---AA
221374 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
221391 TGTATCGATACA
1 TGTATCGATACA
221403 TAAGTGTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 23 0.61
16 2 0.05
17 2 0.05
20 11 0.29
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:221367 original size:33 final size:33
Alignment explanation
Indices: 221325--221423 Score: 191
Period size: 33 Copynumber: 3.0 Consensus size: 33
221315 TTCAACGATT
221325 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
221358 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
221391 TGTATCGATACAT-AAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
221423 T
1 T
221424 TTAAGCTACT
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
32 20 0.30
33 46 0.70
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:221480 original size:13 final size:13
Alignment explanation
Indices: 221462--221488 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
221452 ACATTACTCA
221462 AATGTATCGATAC
1 AATGTATCGATAC
221475 AATGTATCGATAC
1 AATGTATCGATAC
221488 A
1 A
221489 CTGATCTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:221535 original size:52 final size:50
Alignment explanation
Indices: 221476--221625 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 50
221466 TATCGATACA
* *
221476 ATGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCTAG
1 ATGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAG
*
221528 ATGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAG
221580 ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTT
1 ATGTATCGATACACTATT--ATGTATCGATACATGCAGGCAAATTT
221626 TCATATTTCG
Statistics
Matches: 90, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
51 2 0.02
52 88 0.98
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (50 bp):
ATGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:224735 original size:19 final size:18
Alignment explanation
Indices: 224711--224773 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
224701 AAACAGTAAA
224711 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
224730 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
224743 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
*
224762 TGTATCAATACA
1 TGTATCGATACA
224774 ATGTATCACT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:224748 original size:13 final size:13
Alignment explanation
Indices: 224730--224754 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
224720 ACATAAGTTT
224730 TGTATCGATACAA
1 TGTATCGATACAA
224743 TGTATCGATACA
1 TGTATCGATACA
224755 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:224750 original size:32 final size:32
Alignment explanation
Indices: 224709--224780 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
224699 ACAAACAGTA
* *
224709 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCAATAC
224741 AATGTATCGATACATAAGTGTTGTATCAATAC
1 AATGTATCGATACATAAGTGTTGTATCAATAC
224773 AATGTATC
1 AATGTATC
224781 ACTACAAAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCAATAC
Found at i:224828 original size:20 final size:20
Alignment explanation
Indices: 224803--224867 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
224793 CTGCCAAGGA
224803 AATGTATCGATACATTACTC
1 AATGTATCGATACATTACTC
224823 AATGTATCGAT--A-TA-T-
1 AATGTATCGATACATTACTC
224838 --TGTATCGATACATTACTC
1 AATGTATCGATACATTACTC
224856 AATGTATCGATA
1 AATGTATCGATA
224868 TATTGTATCG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 9 0.24
15 1 0.03
16 3 0.08
17 3 0.08
18 1 0.03
20 21 0.55
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACATTACTC
Found at i:224843 original size:13 final size:13
Alignment explanation
Indices: 224825--224885 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 13
224815 CATTACTCAA
224825 TGTATCGATATAT
1 TGTATCGATATAT
224838 TGTATCGATACATTACT
1 TGTATCGAT--A-TA-T
224855 CAATGTATCGATATAT
1 ---TGTATCGATATAT
*
224871 TGTATCGATACAT
1 TGTATCGATATAT
224884 TG
1 TG
224886 ATCTTTGTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
13 23 0.57
15 1 0.03
16 3 0.08
17 3 0.08
18 1 0.03
20 9 0.22
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATATAT
Found at i:224900 original size:33 final size:33
Alignment explanation
Indices: 224805--224884 Score: 160
Period size: 33 Copynumber: 2.4 Consensus size: 33
224795 GCCAAGGAAA
224805 TGTATCGATACATTACTCAATGTATCGATATAT
1 TGTATCGATACATTACTCAATGTATCGATATAT
224838 TGTATCGATACATTACTCAATGTATCGATATAT
1 TGTATCGATACATTACTCAATGTATCGATATAT
224871 TGTATCGATACATT
1 TGTATCGATACATT
224885 GATCTTTGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATTACTCAATGTATCGATATAT
Found at i:231970 original size:52 final size:52
Alignment explanation
Indices: 231892--232020 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
231882 CGAAATATGA
* *
231892 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
231944 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
231996 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
232021 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:232033 original size:52 final size:51
Alignment explanation
Indices: 231892--232040 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
231882 CGAAATATGA
*
231892 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
231944 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
231996 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
232041 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:232047 original size:13 final size:13
Alignment explanation
Indices: 232029--232053 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
232019 CAAAGATCAG
232029 TGTATCGATACAA
1 TGTATCGATACAA
232042 TGTATCGATACA
1 TGTATCGATACA
232054 TTTGAGTAAT
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:232137 original size:13 final size:13
Alignment explanation
Indices: 232119--232143 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
232109 CAAAAAAATA
232119 TGTATCGATACAT
1 TGTATCGATACAT
232132 TGTATCGATACA
1 TGTATCGATACA
232144 ACACTTTATG
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:232139 original size:33 final size:33
Alignment explanation
Indices: 232097--232163 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
232087 AGTAGCTTAA
232097 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
232130 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
232163 A
1 A
232164 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:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:232992 original size:49 final size:49
Alignment explanation
Indices: 232870--232992 Score: 210
Period size: 49 Copynumber: 2.5 Consensus size: 49
232860 ATATGCGGCT
* *
232870 AGCGATATTGGACTTAAAGATAAAGGTGCCAATGTACTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGGTGCCAATGTACTGATTCAAGGCC
*
232919 AGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGGTGCCAATGTACTGATTCAAGGCC
*
232968 AGCGACATTGGACTTAAAGGTGAAG
1 AGCGACATTGGACTTAAAGATGAAG
232993 ATGAGAAAAG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 70 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (49 bp):
AGCGACATTGGACTTAAAGATGAAGGTGCCAATGTACTGATTCAAGGCC
Found at i:233107 original size:55 final size:52
Alignment explanation
Indices: 233015--233435 Score: 307
Period size: 49 Copynumber: 8.7 Consensus size: 52
233005 ATACAGATGC
* * * *
233015 CAATATGTTGATTCACGGCCAACAATATTGGGCTTAAAGATGAGAAAAAGGATGT
1 CAATATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATG-G-AAAAGG-TGT
* * *
233070 CAATGTGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGAAAAGGTGT
1 CAATATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATGGAAAAGGTGT
* *
233122 CAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---AAAGGTGC
1 CAATATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATGGAAAAGGTGT
* * * * *
233165 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AG-AAA-GTGC
1 CAATATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATGGAAAAGGTGT
* * * *
233214 CAATATGCTGATTCAAGGCCAGCTAAATTGGACTT----A--G-AAGGGTGC
1 CAATATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATGGAAAAGGTGT
* * * * *
233259 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--ATGGTGC
1 CAATATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATGGAAAAGGTGT
* *
233308 CAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---AAAGGTGC
1 CAATATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATGGAAAAGGTGT
* * * *
233351 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
1 CAATATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATGGAAAAGGTGT
*
233400 CAATATGCTGATTCAAGGCCAACTATATTGGGCTTA
1 CAATATGCTGATTCAAGGCCAACTATATTGGACTTA
233436 GAAGGGTTGC
Statistics
Matches: 315, Mismatches: 29, Indels: 50
0.80 0.07 0.13
Matches are distributed among these distances:
43 76 0.24
44 5 0.02
45 38 0.12
46 1 0.00
48 1 0.00
49 115 0.37
50 4 0.01
51 1 0.00
52 32 0.10
53 6 0.02
54 1 0.00
55 35 0.11
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (52 bp):
CAATATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATGGAAAAGGTGT
Found at i:233233 original size:49 final size:48
Alignment explanation
Indices: 233070--233435 Score: 425
Period size: 49 Copynumber: 7.8 Consensus size: 48
233060 AAAAGGATGT
* * * * *
233070 CAATGTGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGAAAAGGTGT
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A--GAAGAGGTGC
*
233122 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----AA-AGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAGGTGC
* *
233165 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAG-AGGTGC
*
233214 CAATATGCTGATTCAAGGCCAGCTAAATTGGACTT--AGAAG-GGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAGGTGC
* *
233259 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGA-GGTGC
*
233308 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----AA-AGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAGGTGC
* *
233351 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAG-AGGTGC
* * *
233400 CAATATGCTGATTCAAGGCCAACTATATTGGGCTTA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
233436 GAAGGGTTGC
Statistics
Matches: 274, Mismatches: 24, Indels: 35
0.82 0.07 0.11
Matches are distributed among these distances:
43 76 0.28
44 3 0.01
45 38 0.14
47 12 0.04
49 114 0.42
52 31 0.11
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (48 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAGGTGC
Found at i:233387 original size:186 final size:189
Alignment explanation
Indices: 233070--233447 Score: 645
Period size: 186 Copynumber: 2.0 Consensus size: 189
233060 AAAAGGATGT
*
233070 CAATGTGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGAAAAGGTGTCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGG-AAAGGTGCCAATATGCTGATT
233135 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
65 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
233200 AAAGAAGAAAGTGCCAATATGCTGATTCAAGGCCAGCTAAATTGGACTTAGAAGGG-TGC
130 AAAGAAGAAAGTGCCAATATGCTGATTCAAGGCCAACTAAATTGGACTTAGAAGGGTTGC
* * *
233259 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-ATGGTGCCAATATGCTGATTC
1 CAATGTGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGAAAGGTGCCAATATGCTGATTC
233322 AAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
66 AAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
* * * *
233387 AAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACTATATTGGGCTTAGAAGGGTTGC
131 AAGAAGAAAGTGCCAATATGCTGATTCAAGGCCAACTAAATTGGACTTAGAAGGGTTGC
233446 CA
1 CA
233448 CCGACTTGTG
Statistics
Matches: 179, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
186 134 0.75
187 5 0.03
188 1 0.01
189 39 0.22
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (189 bp):
CAATGTGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGAAAGGTGCCAATATGCTGATTC
AAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
AAGAAGAAAGTGCCAATATGCTGATTCAAGGCCAACTAAATTGGACTTAGAAGGGTTGC
Found at i:233392 original size:92 final size:92
Alignment explanation
Indices: 233061--233440 Score: 607
Period size: 92 Copynumber: 4.1 Consensus size: 92
233051 AAGATGAGAA
* * * *
233061 AAAGGATGTCAATGTGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGAAAAGGTGTCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
233126 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
233157 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAAGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
233222 TGATTCAAGGCCAGCTAAATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
*
233249 AGAAGGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATAT
1 A-AA-GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATAT
233314 GCTGATTCAAGGCCAGCTATATTGGACTT
64 GCTGATTCAAGGCCAGCTATATTGGACTT
233343 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
233408 TGATTCAAGGCCAACTATATTGGGCTT
66 TGATTCAAGGCCAGCTATATTGGACTT
233435 AGAAGG
1 A-AAGG
233441 GTTGCCACCG
Statistics
Matches: 267, Mismatches: 14, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
92 127 0.48
93 8 0.03
94 87 0.33
95 40 0.15
96 5 0.02
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:233545 original size:63 final size:65
Alignment explanation
Indices: 233440--233722 Score: 407
Period size: 63 Copynumber: 4.4 Consensus size: 65
233430 GGCTTAGAAG
233440 GGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAA
* * * *
233505 GGTTGCCACC-ACTTGTATGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTTGAGAAG
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAA
*
233568 GGTTGCCACCGACTTGTGTGGGCTTT---AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTT-GAAAA
233630 A
65 A
* * * *
233631 GGTTGCCAACAACTTGTGTGGGCTTTAGAAAAAAGGTTGCCACCGACTTGTGTGGGCTTT-AGGA
1 GGTTGCCACCGACTTGTGTGGGCTTTAG-AAGAAGGTTGCCACCGACTTGTGTGGGCTTTGA-AA
*
233695 AG
64 AA
233697 GGTTGCCACCGACTTGTGTGGGCTTT
1 GGTTGCCACCGACTTGTGTGGGCTTT
233723 GGGAAGGGAG
Statistics
Matches: 194, Mismatches: 17, Indels: 13
0.87 0.08 0.06
Matches are distributed among these distances:
62 29 0.15
63 70 0.36
64 30 0.15
65 11 0.06
66 25 0.13
67 29 0.15
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (65 bp):
GGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAA
Found at i:233730 original size:32 final size:31
Alignment explanation
Indices: 233428--233722 Score: 416
Period size: 32 Copynumber: 9.3 Consensus size: 31
233418 CCAACTATAT
233428 TGGGC-TTAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTG
233458 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAG--GGTTGCCACCGACTTGTG
* * *
233491 TGGGCTTTGAAAAAGGTTGCCACC-ACTTGTA
1 TGGGCTTT-AGAAGGGTTGCCACCGACTTGTG
233522 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGA-AGGGTTGCCACCGACTTGTG
233554 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTT-AGAAGGGTTGCCACCGACTTGTG
233586 TGGGCTTTAGAA-GGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTG
* *
233616 TGGGCTTTAGAAGAAGGTTGCCAACAACTTGTG
1 TGGGCTTTAGAAG--GGTTGCCACCGACTTGTG
*
233649 TGGGCTTTAGAAAAAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAG---AAGGGTTGCCACCGACTTGTG
233683 TGGGCTTTAGGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTA-GAAGGGTTGCCACCGACTTGTG
233715 TGGGCTTT
1 TGGGCTTT
233723 GGGAAGGGAG
Statistics
Matches: 239, Mismatches: 12, Indels: 26
0.86 0.04 0.09
Matches are distributed among these distances:
30 37 0.15
31 36 0.15
32 80 0.33
33 55 0.23
34 28 0.12
35 1 0.00
36 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (31 bp):
TGGGCTTTAGAAGGGTTGCCACCGACTTGTG
Found at i:233763 original size:97 final size:94
Alignment explanation
Indices: 233454--233722 Score: 290
Period size: 95 Copynumber: 2.8 Consensus size: 94
233444 GCCACCGACT
* *
233454 TGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAAGGTTGCCACC-ACT
1 TGTGTGGACTTTA-AA-AAGGTTGCCACCGACTTGTGTGGGCTTT--AGAAGGTTGCCACCGACT
* ** * * * *
233518 TGTATGGGCTTTAG-AGAGGGTTGCCACCGACT
62 TGTGTGGGCTTTAGAAGAAAGATGCCAACAACG
* * *
233550 TGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGTTGCCACCGACTTGT
1 TGTGTGGACTTT-AAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGTTGCCACCGACTTGT
* * *
233615 GTGGGCTTTAGAAGAAGGTTGCCAACAACT
65 GTGGGCTTTAGAAGAAAGATGCCAACAACG
*
233645 TGTGTGGGCTTTAGAAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGGGTTGCCACCGAC
1 TGTGTGGACTTT---AAAAAGGTTGCCACCGACTTGTGTGGGCTTTA-GAA-GGTTGCCACCGAC
233710 TTGTGTGGGCTTT
61 TTGTGTGGGCTTT
233723 GGGAAGGGAG
Statistics
Matches: 156, Mismatches: 10, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
93 13 0.08
94 16 0.10
95 54 0.35
96 13 0.08
97 31 0.20
98 3 0.02
99 26 0.17
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (94 bp):
TGTGTGGACTTTAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGTTGCCACCGACTTGTG
TGGGCTTTAGAAGAAAGATGCCAACAACG
Found at i:233783 original size:35 final size:34
Alignment explanation
Indices: 233733--234040 Score: 346
Period size: 34 Copynumber: 9.1 Consensus size: 34
233723 GGGAAGGGAG
* *
233733 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAA-GGAA
*
233767 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGGAA
*
233802 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAA
*
233836 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGGAA
* **
233871 AAAGGTGCCACGAAGTTGTGGGCTTTAAAAACAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAA
* *
233905 AAA-GTGCCACGGAGTGGTGGGCTTTGAGAA-GAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGGAA
* *
233938 AAAGGTTGCCACGAAATTGTGGGCTTTAAAA-G--
1 AAAGG-TGCCACGGAGTTGTGGGCTTTAAAAGGAA
* *
233970 ---GGTGCCACGGAGTTGTGGACTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAA
* *
234001 AAAGGTACCACGGAGTTGTGGGCCTTGAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGG-CTTTAAAA-GGAA
234037 AAAG
1 AAAG
234041 AGTCTACAAC
Statistics
Matches: 237, Mismatches: 23, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
28 22 0.09
29 3 0.01
33 25 0.11
34 94 0.40
35 80 0.34
36 13 0.05
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.20
Consensus pattern (34 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAA
Found at i:233977 original size:28 final size:28
Alignment explanation
Indices: 233937--233996 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
233927 TTTGAGAAGA
* *
233937 AAAAGGTTGCCACGAAATTGTGGGCTTT
1 AAAAGGGTGCCACGAAATTGTGGACTTT
* *
233965 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGAAATTGTGGACTTT
233993 AAAA
1 AAAA
233997 AGAAAAAGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (28 bp):
AAAAGGGTGCCACGAAATTGTGGACTTT
Found at i:237326 original size:20 final size:19
Alignment explanation
Indices: 237303--237367 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
237293 TAATGTATGG
*
237303 ATACATCTCAAATTATATCA
1 ATACATATCAAA-TATATCA
* *
237323 ATACA-AGACATAATGTATCA
1 ATACATA-TCA-AATATATCA
237343 ATACATATCAAAATATATCA
1 ATACATATC-AAATATATCA
237363 ATACA
1 ATACA
237368 CTAAGCTACA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
20 32 0.89
21 4 0.11
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.29
Consensus pattern (19 bp):
ATACATATCAAATATATCA
Found at i:237333 original size:40 final size:40
Alignment explanation
Indices: 237278--237367 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
237268 TATTGATTTG
* ** * *
237278 TATCAATACAGGACATAATGTATGGATACATCTCAAATTA
1 TATCAATACAAGACATAATGTATCAATACATATCAAAATA
237318 TATCAATACAAGACATAATGTATCAATACATATCAAAATA
1 TATCAATACAAGACATAATGTATCAATACATATCAAAATA
237358 TATCAATACA
1 TATCAATACA
237368 CTAAGCTACA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.29
Consensus pattern (40 bp):
TATCAATACAAGACATAATGTATCAATACATATCAAAATA
Found at i:238001 original size:11 final size:11
Alignment explanation
Indices: 237985--238009 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
237975 CTTACCTTAA
237985 TTTCTTTTTAT
1 TTTCTTTTTAT
237996 TTTCTTTTTAT
1 TTTCTTTTTAT
238007 TTT
1 TTT
238010 AAATTTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCTTTTTAT
Found at i:241249 original size:21 final size:21
Alignment explanation
Indices: 241223--241269 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
241213 CCATAGGTCT
*
241223 CTAGCTGCTAGTGTTCACACC
1 CTAGCTACTAGTGTTCACACC
*
241244 CTAGCTATTAGTGTTCACACC
1 CTAGCTACTAGTGTTCACACC
241265 CTAGC
1 CTAGC
241270 AATGACATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.32, G:0.17, T:0.30
Consensus pattern (21 bp):
CTAGCTACTAGTGTTCACACC
Found at i:245138 original size:21 final size:21
Alignment explanation
Indices: 245114--245155 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
245104 AGATAAAACT
*
245114 ATTTATAATTTAAATATAACC
1 ATTTAAAATTTAAATATAACC
*
245135 ATTTAAAATTTAATTATAACC
1 ATTTAAAATTTAAATATAACC
245156 TTATTTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTTAAAATTTAAATATAACC
Found at i:252751 original size:33 final size:33
Alignment explanation
Indices: 252700--252766 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
252690 CGAGAGTTGA
* *
252700 TCACTTCACTTTCACAACGTATGAGTAAGCACT
1 TCACTTCACTTTCACAACGCATGAATAAGCACT
* *
252733 TCACTTCACTCTT-GCAACGCATGAATGAGCACT
1 TCACTTCACT-TTCACAACGCATGAATAAGCACT
252766 T
1 T
252767 TGGTGCACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (33 bp):
TCACTTCACTTTCACAACGCATGAATAAGCACT
Found at i:253642 original size:13 final size:13
Alignment explanation
Indices: 253624--253648 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
253614 CAATTTTTTG
253624 TGTATCGATACAT
1 TGTATCGATACAT
253637 TGTATCGATACA
1 TGTATCGATACA
253649 AACTTGCTGT
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:254548 original size:24 final size:24
Alignment explanation
Indices: 254516--254564 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
254506 TCAACACTCA
*
254516 AGCTTAGTTGGATAATATTATGCT
1 AGCTTAGTTGGATAATATCATGCT
254540 AGCTTAGTTGGATAATATCATGCT
1 AGCTTAGTTGGATAATATCATGCT
254564 A
1 A
254565 CCAGCAGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (24 bp):
AGCTTAGTTGGATAATATCATGCT
Found at i:254635 original size:14 final size:14
Alignment explanation
Indices: 254616--254642 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
254606 AACACTACCC
254616 TTTTGGCTATAAAA
1 TTTTGGCTATAAAA
254630 TTTTGGCTATAAA
1 TTTTGGCTATAAA
254643 TAAGCTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (14 bp):
TTTTGGCTATAAAA
Found at i:259406 original size:155 final size:156
Alignment explanation
Indices: 258935--259452 Score: 596
Period size: 157 Copynumber: 3.3 Consensus size: 156
258925 TCCAAGAGTA
* * * ** * * *
258935 ACAAGCAAGATTCGGCCAAATACTGTTATCCTTAGAACAAAATTTTTGAATAAACCCACTAGACT
1 ACAAGAAAGATTCGGCCAAGTACTTTTGGCCTTAGAACAAAATTTTTAAATAAA--CTCTAAACT
* * *
259000 TTCTAATTTTGCAAATTAGT-TCTTACATAATTAAAACACAAAATTAAACATCCAAGAAATCAAA
64 TTCTAAATTTGCAAATTAGTCTCTTATATAATTAAAACACAAAATTAAACATCAAAGAAATCAAA
*
259064 ATCAACATACAAAACACATCCAAAAGTT
129 ATCAACATACAAAACACATCCAAAAATT
* ** * **** ** *
259092 ATAAGGGAGGTTTTTTCAAGTACTTTTGGCCTTAGAACAAAATTTTCGAATAAACTCCCTAAATT
1 ACAAGAAAGATTCGGCCAAGTACTTTTGGCCTTAGAACAAAATTTTTAAATAAACT--CTAAACT
* **
259157 TTCTAAATTTGCAAATTAGTC-CTTATATAATTAAAACACAAAATTAAGCATCAAAGAAATGGAA
64 TTCTAAATTTGCAAATTAGTCTCTTATATAATTAAAACACAAAATTAAACATCAAAGAAATCAAA
* * * *
259221 ATCAGCATCCAAAACACATCCTAAACTT
129 ATCAACATACAAAACACATCCAAAAATT
*
259249 ACAAGAAAGATTCGGCTAAGTACTTTTGGCCTTAGAACAAAATTTTTAAATAGAACTCTAAACTT
1 ACAAGAAAGATTCGGCCAAGTACTTTTGGCCTTAGAACAAAATTTTTAAATA-AACTCTAAACTT
* * * * * *
259314 TCTAAATTTGCAAATTGGTCTC-TATA-AATTAAAACATAAAATTAAATATCAAACATATTAAAA
65 TCTAAATTTGCAAATTAGTCTCTTATATAATTAAAACACAAAATTAAACATCAAAGAAATCAAAA
* *
259377 TCAACA-AAAAAATCAGATCCAAAAATT
130 TCAACATACAAAA-CACATCCAAAAATT
259404 ACAAGAAAGATTCGGCCAAGTACTTTTGGCCTTAGAACAAAATTTTTAA
1 ACAAGAAAGATTCGGCCAAGTACTTTTGGCCTTAGAACAAAATTTTTAA
259453 TATTTACAAA
Statistics
Matches: 302, Mismatches: 53, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
154 4 0.01
155 95 0.31
156 30 0.10
157 169 0.56
158 4 0.01
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (156 bp):
ACAAGAAAGATTCGGCCAAGTACTTTTGGCCTTAGAACAAAATTTTTAAATAAACTCTAAACTTT
CTAAATTTGCAAATTAGTCTCTTATATAATTAAAACACAAAATTAAACATCAAAGAAATCAAAAT
CAACATACAAAACACATCCAAAAATT
Found at i:259475 original size:155 final size:155
Alignment explanation
Indices: 258858--259477 Score: 448
Period size: 157 Copynumber: 4.0 Consensus size: 155
258848 TTTTTCCAAT
* * * * * * * * ** ** *
258858 TTAGTCCCTATATGATTAAAATACAAAATTAAACATCAAATATATTATAATTAGTACCAAAACCA
1 TTAGTCCTTATATAATTAAAACACAAAATTAAACATCAAACAAATGAAAATCAACATAAAAAACA
* * * * * * * **
258923 TATCCAAGAGTAACAAGCAAGATTCGGCCAAATACTGTTATCCTTAGAACAAAATTTTTGAATA-
66 CATCCAAAAATTACAAGAAAGATTCGGCCAAGTACTTTTGGCCTTAGAACAAAATTTTT-AATAT
* * * ** * *
258987 AACCCACTAGACTTTCTAATTTTGCAAA
130 TA-CAAATTTACTCT-TAAATTTGCAAA
* * * * * *
259015 TTAGTTCTTACATAATTAAAACACAAAATTAAACATCCAAGAAATCAAAATCAACATACAAAACA
1 TTAGTCCTTATATAATTAAAACACAAAATTAAACATCAAACAAATGAAAATCAACATAAAAAACA
* * ** * **** *
259080 CATCCAAAAGTTATAAGGGAGGTTTTTTCAAGTACTTTTGGCCTTAGAACAAAATTTTCGAATAA
66 CATCCAAAAATTACAAGAAAGATTCGGCCAAGTACTTTTGGCCTTAGAACAAAATTTT-TAAT--
**
259145 ACTCCCTAAATTT--TC-TAAATTTGCAAA
128 A-TTAC-AAATTTACTCTTAAATTTGCAAA
* * * * **
259172 TTAGTCCTTATATAATTAAAACACAAAATTAAGCATCAAAGAAATGGAAATCAGCATCCAAAACA
1 TTAGTCCTTATATAATTAAAACACAAAATTAAACATCAAACAAATGAAAATCAACATAAAAAACA
* * *
259237 CATCCTAAACTTACAAGAAAGATTCGGCTAAGTACTTTTGGCCTTAGAACAAAATTTTTAA-A-T
66 CATCCAAAAATTACAAGAAAGATTCGGCCAAGTACTTTTGGCCTTAGAACAAAATTTTTAATATT
* * * *
259300 AGAACTCTAAACTTTCTAAATTTGCAAA
131 ACAAAT-T-TACTCT-TAAATTTGCAAA
* * * * *
259328 TTGGT-CTCTATA-AATTAAAACATAAAATTAAATATCAAACATATTAAAATCAACA-AAAAAAT
1 TTAGTCCT-TATATAATTAAAACACAAAATTAAACATCAAACAAATGAAAATCAACATAAAAAA-
*
259390 CAGATCCAAAAATTACAAGAAAGATTCGGCCAAGTACTTTTGGCCTTAGAACAAAATTTTTAATA
64 CACATCCAAAAATTACAAGAAAGATTCGGCCAAGTACTTTTGGCCTTAGAACAAAATTTTTAATA
*
259455 TTTACAAATTTACCCTTAAATTT
129 -TTACAAATTTACTCTTAAATTT
259478 TTAAAATTAT
Statistics
Matches: 359, Mismatches: 87, Indels: 36
0.74 0.18 0.07
Matches are distributed among these distances:
150 3 0.01
151 1 0.00
153 1 0.00
154 5 0.01
155 103 0.29
156 26 0.07
157 210 0.58
158 5 0.01
159 2 0.01
160 1 0.00
161 2 0.01
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.30
Consensus pattern (155 bp):
TTAGTCCTTATATAATTAAAACACAAAATTAAACATCAAACAAATGAAAATCAACATAAAAAACA
CATCCAAAAATTACAAGAAAGATTCGGCCAAGTACTTTTGGCCTTAGAACAAAATTTTTAATATT
ACAAATTTACTCTTAAATTTGCAAA
Found at i:259804 original size:30 final size:32
Alignment explanation
Indices: 259746--259804 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 32
259736 CAAAAACAAT
** *
259746 TTTTCTTAAAATTTTGCAAATTATTCCCTGAA
1 TTTTCTTAAAATTTTGCAAAAAAGTCCCTGAA
259778 TTTTC-TAAAA-TTTGCAAAAAAGTCCCT
1 TTTTCTTAAAATTTTGCAAAAAAGTCCCT
259805 AAAGGTGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 14 0.58
31 5 0.21
32 5 0.21
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (32 bp):
TTTTCTTAAAATTTTGCAAAAAAGTCCCTGAA
Found at i:260235 original size:163 final size:163
Alignment explanation
Indices: 259962--260450 Score: 820
Period size: 163 Copynumber: 3.0 Consensus size: 163
259952 TTAAAAATCA
*
259962 ATGAAATCACTAATATTTCAACATGAATCAATACAAACAT-GACATGATAAATATATCACAAAAC
1 ATGAAATCACTAATATTTCAACATGAATCAACACAAACATAG-CATGAT-AA-ATATCACAAAAC
*
260026 ATATATT-TATGAAGATAATATCATTTCTGCTAATGAACACAAATCACCATAATGAAAATCAACA
63 ATATATTCT-TGAAGATAATATCATTTCTACTAATGAACACAAATCACCATAATGAAAATCAACA
* *
260090 TAAATACAACAAAAATAAAGTAAATCATCAAAATTAC
127 TAAATACAACCAAAATCAAGTAAATCATCAAAATTAC
260127 ATGAAATCACTAATATTTCAACATGAATCAACACAAACATAGCATGATAAATATCACAAAACATA
1 ATGAAATCACTAATATTTCAACATGAATCAACACAAACATAGCATGATAAATATCACAAAACATA
* *
260192 TATTCTTGAAAATAATATCATTTCTACTAATGAACACAAATCACCATAATGAAAATCAACATAGA
66 TATTCTTGAAGATAATATCATTTCTACTAATGAACACAAATCACCATAATGAAAATCAACATAAA
260257 TACAACCAAAATCAAGTAAATCATCAAAATTAC
131 TACAACCAAAATCAAGTAAATCATCAAAATTAC
* *
260290 ATGAAATCACTAATATTTCAATATGAATCAACACAAACATAGCATGATAAATACCACAAAACATA
1 ATGAAATCACTAATATTTCAACATGAATCAACACAAACATAGCATGATAAATATCACAAAACATA
* * * *
260355 TATGCATGAAGATAATATCATTTCTACTAATGAACACAAATCATCATAATGAAAATCAATATAAA
66 TATTCTTGAAGATAATATCATTTCTACTAATGAACACAAATCACCATAATGAAAATCAACATAAA
260420 TACAACCAAAATCAAGTAAATCATCAAAATT
131 TACAACCAAAATCAAGTAAATCATCAAAATT
260451 CATAAACTTT
Statistics
Matches: 308, Mismatches: 14, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
163 259 0.84
164 3 0.01
165 45 0.15
166 1 0.00
ACGTcount: A:0.52, C:0.17, G:0.06, T:0.26
Consensus pattern (163 bp):
ATGAAATCACTAATATTTCAACATGAATCAACACAAACATAGCATGATAAATATCACAAAACATA
TATTCTTGAAGATAATATCATTTCTACTAATGAACACAAATCACCATAATGAAAATCAACATAAA
TACAACCAAAATCAAGTAAATCATCAAAATTAC
Found at i:261468 original size:154 final size:152
Alignment explanation
Indices: 261109--261821 Score: 723
Period size: 153 Copynumber: 4.7 Consensus size: 152
261099 ATTATATGTA
* * * * *
261109 AAAAATGC-AAAACTCATAAAATAAATTAAA-TTTTCACAAGCTGATTTAATATGAATTTAAGAA
1 AAAAATTCTAAAACTCATAAAATAAATTAAATTTTTTA-AAACTGATTTAATATGAATTAAAAAA
* * * * * *****
261172 GAATATTTGATGAATTTTAAAAATTTTAAAC-TGAGAAATC-CAATTGGAAAATTTACAGA-TCA
65 TAATATTTGAAGAATTTTAAAAATTATAAACTTGAAAAATCTTACCAAAAAAATTTACAGAGT-A
* * * *
261234 GAAGACTTTGTAACTTGGT-ATA-
129 GAAAACTTCGTATCTTGGTAAAAG
* * * *
261256 AAAAATTCTAAAACTCAAAAAATAATTTGAATATTTT-AAACTGATTTAATATGAATTAAAAAAT
1 AAAAATTCTAAAACTCATAAAATAAATTAAATTTTTTAAAACTGATTTAATATGAATTAAAAAAT
* * *
261320 AATATTTGAAGAATTTTAAAAGTTATAAACTTAAAAAAATCTTACCTAAAAAATTTACAGAGTAG
66 AATATTTGAAGAATTTTAAAAATTATAAACTT-GAAAAATCTTACCAAAAAAATTTACAGAGTAG
*
261385 AAAAC-TCTATATCTTGGTAACAAG
130 AAAACTTC-GTATCTTGGTAA-AAG
* * * *
261409 AAAAATTTTAAAGCTCATAAAATAAATTAAATTTTTTAAAACTGATTTACTATGAATTAAAAACT
1 AAAAATTCTAAAACTCATAAAATAAATTAAATTTTTTAAAACTGATTTAATATGAATTAAAAAAT
*
261474 AATATTTGAAGAATTTTGAAAAATCATAAACTTTGAAAAAT-TCTACCAAAAAAATTTA-AGAAG
66 AATATTTGAAGAATTTT-AAAAATTATAAAC-TTGAAAAATCT-TACCAAAAAAATTTACAG-AG
* ** *
261537 TAGAAAACTTCGCATCCCGGTAACAAC
127 TAGAAAACTTCGTATCTTGGTAA-AAG
* * * *
261564 AAAAATTTTGAAACTCATAAAATAAAATAAATTTTTT-AAACTGATTTAATATGAATTAAATAAT
1 AAAAATTCTAAAACTCATAAAATAAATTAAATTTTTTAAAACTGATTTAATATGAATTAAAAAAT
* * * * * ** * **
261628 AATATTTAAATAATTTTTAAAATTATAGACTTAAAAAATGATATCAAAAAAATTTATGGAGTAGA
66 AATATTTGAAGAATTTTAAAAATTATAAACTTGAAAAATCTTACCAAAAAAATTTACAGAGTAGA
*
261693 AAACTTCGTATCTCT-GTAATAG
131 AAACTTCGTATCT-TGGTAAAAG
* * *
261715 AAAAAATTCTAAAACTCATAAAATAAATTAAATTTTTCAAAATTGATTTAATATGAATTAAACAA
1 -AAAAATTCTAAAACTCATAAAATAAATTAAATTTTTTAAAACTGATTTAATATGAATTAAAAAA
*
261780 TAATATTTGAAGAATTTTAAAAATTATAAATTTAGAAAAATC
65 TAATATTTGAAGAATTTTAAAAATTATAAACTT-GAAAAATC
261822 CTACAGAATA
Statistics
Matches: 469, Mismatches: 75, Indels: 37
0.81 0.13 0.06
Matches are distributed among these distances:
147 57 0.12
148 20 0.04
149 10 0.02
150 28 0.06
151 3 0.01
152 77 0.16
153 94 0.20
154 90 0.19
155 86 0.18
156 4 0.01
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (152 bp):
AAAAATTCTAAAACTCATAAAATAAATTAAATTTTTTAAAACTGATTTAATATGAATTAAAAAAT
AATATTTGAAGAATTTTAAAAATTATAAACTTGAAAAATCTTACCAAAAAAATTTACAGAGTAGA
AAACTTCGTATCTTGGTAAAAG
Found at i:261873 original size:19 final size:19
Alignment explanation
Indices: 261829--261866 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
261819 ATCCTACAGA
261829 ATAAAATAAGATAAATTTT
1 ATAAAATAAGATAAATTTT
261848 ATAAAATAAGATAAATTTT
1 ATAAAATAAGATAAATTTT
261867 TTGAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
ATAAAATAAGATAAATTTT
Found at i:261891 original size:21 final size:22
Alignment explanation
Indices: 261865--261905 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
261855 AAGATAAATT
*
261865 TTTTGAAATTTA-TAAAATGCA
1 TTTTGAAATTGATTAAAATGCA
261886 TTTTGAAATTGATTAAAATG
1 TTTTGAAATTGATTAAAATG
261906 TTTAAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.44
Consensus pattern (22 bp):
TTTTGAAATTGATTAAAATGCA
Found at i:261921 original size:27 final size:27
Alignment explanation
Indices: 261891--261957 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
261881 ATGCATTTTG
*
261891 AAATTGATTAAAATGTTT-AAAAATGCA
1 AAATTGA-TAAAATCTTTAAAAAATGCA
*
261918 AAATAAGA-AAAATCTTTAAAAAATGCA
1 AAAT-TGATAAAATCTTTAAAAAATGCA
*
261945 AAATTTATAAAAT
1 AAATTGATAAAAT
261958 AAGATAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 9 0.27
27 22 0.67
28 2 0.06
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.30
Consensus pattern (27 bp):
AAATTGATAAAATCTTTAAAAAATGCA
Found at i:265956 original size:49 final size:49
Alignment explanation
Indices: 265893--266031 Score: 199
Period size: 49 Copynumber: 2.9 Consensus size: 49
265883 GAGAGGAGTG
* **
265893 CCAATGTGCCAATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGA
1 CCAATGTGCTAATTCAAGGCCAGCGACATTGGGCTAAGAAAAAAGTGGA
*
265942 CCAATGTGCTAATTCAAGGCCAACGACATTGGGCTAAGAAAAAAGTGGA
1 CCAATGTGCTAATTCAAGGCCAGCGACATTGGGCTAAGAAAAAAGTGGA
* * * *
265991 -CAATGTGCTGATTCAAGGCTAGCGACATTGAGCTAATAAAA
1 CCAATGTGCTAATTCAAGGCCAGCGACATTGGGCTAAGAAAA
266032 GTGCCAATAT
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
48 36 0.44
49 45 0.56
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (49 bp):
CCAATGTGCTAATTCAAGGCCAGCGACATTGGGCTAAGAAAAAAGTGGA
Found at i:266153 original size:28 final size:28
Alignment explanation
Indices: 266091--266917 Score: 559
Period size: 28 Copynumber: 28.4 Consensus size: 28
266081 AAAGTGGTGA
266091 TTTGAAAAAGGTTGCCA-TCGACTTGCGTGGGC
1 TTTG-AAAAGG-TGCCACT-GACTT--GTGGGC
* *
266123 TTTGAAAAGGTGTCACTGACTTGTGGAC
1 TTTGAAAAGGTGCCACTGACTTGTGGGC
** *
266151 TTTGAAAAAATGCCACTAACTTGTGGGC
1 TTTGAAAAGGTGCCACTGACTTGTGGGC
* *
266179 TTTG-AAAGGATGCCACTGATTTCTGGGC
1 TTTGAAAAGG-TGCCACTGACTTGTGGGC
* *
266207 TTTG-AAAGGATGCCACCGACTTGTGAGC
1 TTTGAAAAGG-TGCCACTGACTTGTGGGC
* *
266235 TTTGAAAAGGATGCCACTAACTTGTGGAC
1 TTTGAAAAGG-TGCCACTGACTTGTGGGC
*
266264 TTTG-AAAGGATGCCACTGATTTGTGGGC
1 TTTGAAAAGG-TGCCACTGACTTGTGGGC
* * *
266292 TTTGAAAGGGTGCCATTGATTTGTGGGC
1 TTTGAAAAGGTGCCACTGACTTGTGGGC
* * *
266320 TTTGAAATGATGCCACCGACTTGTGGGC
1 TTTGAAAAGGTGCCACTGACTTGTGGGC
266348 TTTGAAAAGGATGCCACTGACTTGTGGGC
1 TTTGAAAAGG-TGCCACTGACTTGTGGGC
*
266377 TTTGAAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGGTGCCACTGACTTGTGGGC
* * * *
266405 TTTGAAAGGGTGCCCCTGATTTGTGAGC
1 TTTGAAAAGGTGCCACTGACTTGTGGGC
* * *
266433 TTTGAAATGGGTTACCACCGACTTGTGTGGGC
1 TTTGAAA-AGG-TGCCACTGAC-T-TGTGGGC
* **
266465 TTTGAAATGGGTTGCCACCAACTTGTGTGGGC
1 TTTGAAA-AGG-TGCCACTGAC-T-TGTGGGC
**
266497 TTT-AAAATGG-GTTACTATCGACTTGTGTAGGC
1 TTTGAAAA-GGTGCCAC--T-GACTTGTG--GGC
* *
266529 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAA-AGG-TGCCACTGAC-T-TGTGGGC
** * *
266561 TTTGAACTGATGCCACTAACTTGTGGGC
1 TTTGAAAAGGTGCCACTGACTTGTGGGC
* *
266589 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAA-AGG-TGCCACTGAC-T-TGTGGGC
* *
266621 TTTTAAATGAGTTGCCACTGACTTGTGTGGGC
1 TTTGAAA--AGGTGCCACTGAC-T-TGTGGGC
*
266653 TTTG-AAAGAATGCCACTGACTTGTGGG-
1 TTTGAAAAG-GTGCCACTGACTTGTGGGC
* * *
266680 TTTAAAAAGTGGTGCCATTGACTTGTGGAC
1 TTTGAAAA--GGTGCCACTGACTTGTGGGC
* ** *
266710 TTT-AGAAGGGTGCCACCAACGTGTGGGC
1 TTTGA-AAAGGTGCCACTGACTTGTGGGC
*
266738 TTTGAAAAGGATGCCACTGACTTGTGGAC
1 TTTGAAAAGG-TGCCACTGACTTGTGGGC
266767 TTTG-AAAGGATGCCACTGACTTGTGGGC
1 TTTGAAAAGG-TGCCACTGACTTGTGGGC
* * *
266795 TTTGAAAGGGTGCCAC--ATTTGTGGAC
1 TTTGAAAAGGTGCCACTGACTTGTGGGC
* * *
266821 TTT-AAAAGGCTGCCACAGAGTTGTGGAC
1 TTTGAAAAGG-TGCCACTGACTTGTGGGC
* *
266849 TTT-AAAAGGATGCCAC-GAAGTTGTGGAC
1 TTTGAAAAGG-TGCCACTG-ACTTGTGGGC
* * * *
266877 TTTAAAAAGAAATGCCACTGAATTGTGGAC
1 TTTGAAAAG--GTGCCACTGACTTGTGGGC
*
266907 TTTGAAGAGGT
1 TTTGAAAAGGT
266918 CACAGTACTA
Statistics
Matches: 655, Mismatches: 97, Indels: 90
0.78 0.12 0.11
Matches are distributed among these distances:
25 5 0.01
26 17 0.03
27 7 0.01
28 313 0.48
29 109 0.17
30 73 0.11
31 19 0.03
32 98 0.15
33 7 0.01
34 4 0.01
35 3 0.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
TTTGAAAAGGTGCCACTGACTTGTGGGC
Found at i:266270 original size:113 final size:113
Alignment explanation
Indices: 266097--266912 Score: 655
Period size: 113 Copynumber: 7.0 Consensus size: 113
266087 GTGATTTGAA
* * * ** * *
266097 AAAGGTTGCCATCGACTTGCGTGGGCTTTGAAAAGG-TGTCACTGACTTGTGGACTTTGAAAAAA
1 AAAGGATGCCACCGACTT--GTGGGCTTTGAAAAGGATGCCACCAACTTGTGGGCTTTGAAAAGA
* *
266161 TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGATTTCTGGGCTTTG
64 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGATTTGTGGGCTTTG
* * * *
266211 AAAGGATGCCACCGACTTGTGAGCTTTGAAAAGGATGCCACTAACTTGTGGACTTTGAAAGGATG
1 AAAGGATGCCACCGACTTGTGGGCTTTGAAAAGGATGCCACCAACTTGTGGGCTTTGAAAAGATG
* * *
266276 CCACTGATTTGTGGGCTTTGAAAGGGTGCCATTGATTTGTGGGCTTTG
66 CCACTGACTTGTGGGCTTTGAAAGGATGCCACTGATTTGTGGGCTTTG
* ** * *
266324 AAATGATGCCACCGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTG
1 AAAGGATGCCACCGACTTGTGGGCTTTGAAAAGGATGCCACCAACTTGTGGGCTTTGAAAAGATG
* * *
266389 CCACTGACTTGTGGGCTTTGAAAGGGTGCCCCTGATTTGTGAGCTTTG
66 CCACTGACTTGTGGGCTTTGAAAGGATGCCACTGATTTGTGGGCTTTG
* * * *
266437 AAATGGGTTACCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTT-A
1 AAA--GGATGCCACCGAC-T-TGTGGGCTTTGAAA-AGGATGCCACCAAC-T-TGTGGGCTTTGA
* ** * *
266501 AAATG-GGTTACTATCGACTTGTGTAGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTG
59 AAA-GATGCCAC--T-GACTTGTG--GGCTTTGAAA--GGATGCCACTGA-TT-TGTGGGCTTTG
** ** * * * *
266565 AACTGATGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTTAAATG
1 AAAGGATGCCACCGACTTGTGGGCTTTGAAA-AGGATGCCACCAAC-T-TGTGGGCTTTGAAA--
* * * *
266630 AGTTGCCACTGACTTGTGTGGGCTTTGAAAGAATGCCACTGACTTGTGGG-TTTAA
61 AGATGCCACTGAC-T-TGTGGGCTTTGAAAGGATGCCACTGATTTGTGGGCTTT-G
* ** * * * *
266685 AAAGTGGTGCCATTGACTTGTGGACTTT-AGAAGGGTGCCACCAACGTGTGGGCTTTGAAAAGGA
1 AAAG-GATGCCACCGACTTGTGGGCTTTGAAAAGGATGCCACCAACTTGTGGGCTTTGAAAA-GA
* *
266749 TGCCACTGACTTGTGGACTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
64 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGATTTGTGGGCTTTG
* * * * * *
266799 AAAGGGTGCCA-C-ATTTGTGGACTTT-AAAAGGCTGCCA-CAGAGTTGTGGACTTT-AAAAGGA
1 AAAGGATGCCACCGACTTGTGGGCTTTGAAAAGGATGCCACCA-ACTTGTGGGCTTTGAAAA-GA
* * * * * *
266859 TGCCAC-GAAGTTGTGGACTTTAAAAAGAAATGCCACTGAATTGTGGACTTTG
64 TGCCACTG-ACTTGTGGGCTTT-GAAAG-GATGCCACTGATTTGTGGGCTTTG
266911 AA
1 AA
266913 GAGGTCACAG
Statistics
Matches: 591, Mismatches: 79, Indels: 66
0.80 0.11 0.09
Matches are distributed among these distances:
109 1 0.00
110 27 0.05
111 36 0.06
112 38 0.06
113 183 0.31
114 52 0.09
115 15 0.03
116 12 0.02
117 27 0.05
118 10 0.02
119 21 0.04
120 21 0.04
121 21 0.04
122 17 0.03
124 64 0.11
125 6 0.01
126 22 0.04
127 6 0.01
128 12 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (113 bp):
AAAGGATGCCACCGACTTGTGGGCTTTGAAAAGGATGCCACCAACTTGTGGGCTTTGAAAAGATG
CCACTGACTTGTGGGCTTTGAAAGGATGCCACTGATTTGTGGGCTTTG
Found at i:266274 original size:85 final size:84
Alignment explanation
Indices: 266117--266912 Score: 608
Period size: 85 Copynumber: 9.1 Consensus size: 84
266107 ATCGACTTGC
* * *
266117 GTGGGCTTTGAAAAGG-TGTCACTGACTTGTGGACTTTGAAAA-AATGCCACTAACTTGTGGGCT
1 GTGGGCTTTG-AAAGGATGCCACTGACTTGTGG-CTTTGAAAAGGATGCCACTGACTTGTGGGCT
266180 TTGAAAGGATGCCACTGATTT
64 TTGAAAGGATGCCACTGATTT
* * * *
266201 CTGGGCTTTGAAAGGATGCCACCGACTTGTGAGCTTTGAAAAGGATGCCACTAACTTGTGGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTTGTG-GCTTTGAAAAGGATGCCACTGACTTGTGGGCTT
266266 TGAAAGGATGCCACTGATTT
65 TGAAAGGATGCCACTGATTT
* * * * *
266286 GTGGGCTTTGAAAGGGTGCCATTGATTTGTGGGCTTTG-AAATGATGCCACCGACTTGTGGGCTT
1 GTGGGCTTTGAAAGGATGCCACTGACTTGT-GGCTTTGAAAAGGATGCCACTGACTTGTGGGCTT
*
266350 TGAAAAGGATGCCACTGACTT
65 TG-AAAGGATGCCACTGATTT
* * * * *
266371 GTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCCCTGATTTGTGAGCTT
1 GTGGGCTTTGAAAGGATGCCACTGACTTGT-GGCTTTGAAAAGGATGCCACTGACTTGTGGGCTT
* * *
266435 TGAAATGGGTTACCACCGACTTGT
65 TGAAA--GGATGCCACTGA-TT-T
* ** * * *
266459 GTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTT-AAAATGGGTTACTA-TCGACTTG
1 GTGGGCTTTGAAA--GGATGCCACTGAC-T-TGT-GGCTTTGAAAA--GGATGCCACT-GACTTG
* *
266522 TGTAGGCTTTGAAATGGGTTGCCACCGACTTGT
58 TG--GGCTTTGAAA--GGATGCCACTGA-TT-T
** * * * *
266555 GTGGGCTTTGAACTGATGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGG
1 GTGGGCTTTGAAAGGATGCCACTGACTTGT-GGCTTTGAAA-AGGATGCCACTGAC-T-TGTGGG
* *
266620 CTTTTAAATGAGTTGCCACTGACTTGT
62 CTTTGAAA-G-GATGCCACTGA-TT-T
* * * * * *
266647 GTGGGCTTTGAAAGAATGCCACTGACTTGTGGGTTTAAAAAGTGGTGCCATTGACTTGTGGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTTGTGGCTTTGAAAAG-GATGCCACTGACTTGTGGGCTT
* ** **
266712 T-AGAAGGGTGCCACCAACGT
65 TGA-AAGGATGCCACTGATTT
266732 GTGGGCTTTGAAAAGGATGCCACTGACTTGTGGACTTTG-AAAGGATGCCACTGACTTGTGGGCT
1 GTGGGCTTTG-AAAGGATGCCACTGACTTGTGG-CTTTGAAAAGGATGCCACTGACTTGTGGGCT
*
266796 TTGAAAGGGTGCCAC--ATTT
64 TTGAAAGGATGCCACTGATTT
* * * * * * *
266815 GTGGACTTTAAAAGGCTGCCACAGAGTTGTGGACTTT-AAAAGGATGCCAC-GAAGTTGTGGACT
1 GTGGGCTTTGAAAGGATGCCACTGACTTGTGG-CTTTGAAAAGGATGCCACTG-ACTTGTGGGCT
* * *
266878 TTAAAAAGAAATGCCACTGAATT
64 TT-GAAAG-GATGCCACTGATTT
*
266901 GTGGACTTTGAA
1 GTGGGCTTTGAA
266913 GAGGTCACAG
Statistics
Matches: 592, Mismatches: 84, Indels: 70
0.79 0.11 0.09
Matches are distributed among these distances:
81 1 0.00
82 47 0.08
83 19 0.03
84 64 0.11
85 189 0.32
86 50 0.08
87 12 0.02
88 16 0.03
89 11 0.02
90 12 0.02
91 19 0.03
92 82 0.14
93 6 0.01
94 25 0.04
96 39 0.07
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (84 bp):
GTGGGCTTTGAAAGGATGCCACTGACTTGTGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTT
GAAAGGATGCCACTGATTT
Found at i:266509 original size:64 final size:62
Alignment explanation
Indices: 266169--266810 Score: 433
Period size: 57 Copynumber: 11.0 Consensus size: 62
266159 AATGCCACTA
* * * *
266169 ACTTGTGGGCTTTGAAA--GGATGCCACTGA-TT-TCTGGGCTTTGAAA--GGATGCCACCG
1 ACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * * ** * * *
266225 ACTTGTGAGCTTTGAAA-AGGATGCCACTAAC-T-TGTGGACTTTGAAA--GGATGCCACTG
1 ACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* ** *
266282 ATTTGTGGGCTTTGAAA-GGG-TGCCATTGA-TT-TGTGGGCTTTGAAAT--GATGCCACCG
1 ACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * * *
266338 ACTTGTGGGCTTTGAAA-AGGATGCCACTGAC-T-TGTGGGCTTTGAAA-GGG-TGCCACTG
1 ACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* *
266395 ACTTGTGGGCTTTGAAA-GGG-TGCC-CCTGA-TT-TGTGAGCTTTGAAATGGGTTACCACCG
1 ACTTGTGGGCTTTGAAATGGGTTGCCACC-GACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * * * *
266453 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTAAAATGGGTTACTATCG
1 AC-T-TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * **
266517 ACTTGTGTAGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAACT--GATGCCACTA
1 ACTTGTG--GGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * *
266579 ACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTTAAATGAGTTGCCACTG
1 ACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
** * * * **
266641 ACTTGTGTGGGCTTTGAAA--GAATGCCACTGAC-T-TGTGGG-TTTAAAAAGTGG-TGCCATTG
1 AC-T-TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATG-GGTTGCCACCG
* * * * *
266700 ACTTGTGGACTTT-AGAA-GGG-TGCCACCAAC--GTGTGGGCTTTGAAA-AGGATGCCACTG
1 ACTTGTGGGCTTTGA-AATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * *
266757 ACTTGTGGACTTTGAAA--GGATGCCACTGAC-T-TGTGGGCTTTGAAA-GGG-TGCCAC
1 ACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCAC
266811 ATTTGTGGAC
Statistics
Matches: 496, Mismatches: 56, Indels: 68
0.80 0.09 0.11
Matches are distributed among these distances:
55 1 0.00
56 95 0.19
57 174 0.35
58 18 0.04
59 17 0.03
60 62 0.12
61 4 0.01
62 40 0.08
63 6 0.01
64 79 0.16
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (62 bp):
ACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
Found at i:266607 original size:156 final size:148
Alignment explanation
Indices: 266172--266864 Score: 581
Period size: 156 Copynumber: 4.8 Consensus size: 148
266162 GCCACTAACT
* * * * * *
266172 TGTGGGCTTTGAAA-GGATGCCACTGA-TT-TCTGGGCTTTG-AAAGGATGCCACCGACTTGTGA
1 TGTGGGCTTTGAAATGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGATACCACTGACTTGTGG
* ** *
266233 GCTTTGAAAAGGATGCCACTAACTTGTGGACTTTGAAAGGATGCCACTGATTTGTGGGCTTTGAA
66 GCTTTG-AAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGATTTGTGGGCTTTGAA
**
266298 A-GGG-TGCCATTGA-TT-
130 ATGGGTTGCCACCGACTTG
* *
266313 TGTGGGCTTTGAAAT-GATGCCACCGAC-T-TGTGGGCTTTGAAAAGGATGCCACTGACTTGTGG
1 TGTGGGCTTTGAAATGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGATACCACTGACTTGTGG
* * * *
266375 GCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCCCTGATTTGTGAGCTTTGAAA
66 GCTTTGAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGATTTGTGGGCTTTGAAA
*
266440 TGGGTTACCACCGACTTG
131 TGGGTTGCCACCGACTTG
* * *
266458 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTT-AAAATGGGTTACTA-TCGACTT
1 TGTGGGCTTTGAAAT-GGTTGCCACCGACTTGTGTGGGCTTTGAAAA--GGATACCACT-GACTT
** * *
266521 GTGTAGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAACTGATGCCACTAACTTGTG
62 GTG--GGCTTTGAAA-GGG-TGCCACCGAC-T-TGTGGGCTTTGAAAGGATGCCACTGATTTGTG
266586 GGCTTTGAAATGGGTTGCCACCGACTTG
121 GGCTTTGAAATGGGTTGCCACCGACTTG
* * * *
266614 TGTGGGCTTTTAAATGAGTTGCCACTGACTTGTGTGGGCTTTG-AAAGAATGCCACTGACTTGTG
1 TGTGGGCTTTGAAATG-GTTGCCACCGACTTGTGTGGGCTTTGAAAAGGATACCACTGACTTGTG
* ** * * ** **
266678 GG-TTTAAAAAGTGGTGCCATTGACTTGTGGACTTT-AGAAGGGTGCCACCAACGTGTGGGCTTT
65 GGCTTT-GAAAG-GGTGCCACCGACTTGTGGGCTTTGA-AAGGATGCCACTGATTTGTGGGCTTT
* * *
266741 GAAA-AGGATGCCACTGAC-T-
127 GAAATGGGTTGCCACCGACTTG
* * * * * *
266760 TGTGGACTTTGAAA-GGATGCCACTGAC-T-TGTGGGCTTTG-AAAGGGTGCCAC--ATTTGTGG
1 TGTGGGCTTTGAAATGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGATACCACTGACTTGTGG
* * * * * * *
266819 ACTTTAAAAGGCTGCCACAGAGTTGTGGACTTTAAAAGGATGCCAC
66 GCTTTGAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCAC
266865 GAAGTTGTGG
Statistics
Matches: 466, Mismatches: 58, Indels: 58
0.80 0.10 0.10
Matches are distributed among these distances:
139 29 0.06
140 13 0.03
141 91 0.20
142 50 0.11
143 7 0.02
144 13 0.03
145 16 0.03
146 12 0.03
147 11 0.02
148 17 0.04
149 45 0.10
150 14 0.03
151 12 0.03
152 17 0.04
153 3 0.01
154 21 0.05
155 3 0.01
156 92 0.20
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (148 bp):
TGTGGGCTTTGAAATGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGATACCACTGACTTGTGG
GCTTTGAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGATTTGTGGGCTTTGAAA
TGGGTTGCCACCGACTTG
Found at i:267623 original size:270 final size:270
Alignment explanation
Indices: 267142--267685 Score: 1025
Period size: 270 Copynumber: 2.0 Consensus size: 270
267132 ATGAATGCAT
*
267142 AATGCAAGAAATGATGTTATTGATGTTATGATGGCATGATCATAGCACAAAAGCCTAATGCTGAG
1 AATGCAAGAAATGATGTTATTGATGTTATGATGGCATGATCATAACACAAAAGCCTAATGCTGAG
*
267207 AATGACCATAGCCATATCAAGTTATCCAGATCAACCTTGGGGATTACGATTTCCACACAACTAGG
66 AATGACCATAGCCATAGCAAGTTATCCAGATCAACCTTGGGGATTACGATTTCCACACAACTAGG
267272 GCCACTTGAGTCTTGGCATTGCCAACAGCTTTGGGTGTTTTTTTCACATGATGCCACATCTGACT
131 GCCACTTGAGTCTTGGCATTGCCAACAGCTTTGGGTGTTTTTTTCACATGATGCCACATCTGACT
* *
267337 CGTATCTCGAGTATAAACAAGATTTTTTCTTTAAAGCAAAACCAAATGGTTTTTCTAGGTGAATG
196 CGTATCTCGAGTATAAACAAGATTTTTTCTTCAAAGCAAAACCAAATGGCTTTTCTAGGTGAATG
267402 GTTAGTAAAA
261 GTTAGTAAAA
267412 AATGCAAGAAATGATGTTATTGATGTTATGATGGCATGATCATAACACAAAAGCCTAATGCTGAG
1 AATGCAAGAAATGATGTTATTGATGTTATGATGGCATGATCATAACACAAAAGCCTAATGCTGAG
*
267477 AATGACCATAGCCATAGCAAGTTATCTAGATCAACCTTGGGGATTACGATTTCCACACAACTAGG
66 AATGACCATAGCCATAGCAAGTTATCCAGATCAACCTTGGGGATTACGATTTCCACACAACTAGG
*
267542 GCCACTTGAGTCTTGGCATTGCCAACAGCTTTGGGTGTTTTTTTCACATGATGCCACATCTGATT
131 GCCACTTGAGTCTTGGCATTGCCAACAGCTTTGGGTGTTTTTTTCACATGATGCCACATCTGACT
*
267607 CGTATCTCGAGTATAAACAAGATTTTTTCTTCGAAGCAAAACCAAATGGCTTTTCTAGGTGAATG
196 CGTATCTCGAGTATAAACAAGATTTTTTCTTCAAAGCAAAACCAAATGGCTTTTCTAGGTGAATG
267672 GTTAGTAAAA
261 GTTAGTAAAA
267682 AATG
1 AATG
267686 GTTCGGCTCA
Statistics
Matches: 267, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
270 267 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Consensus pattern (270 bp):
AATGCAAGAAATGATGTTATTGATGTTATGATGGCATGATCATAACACAAAAGCCTAATGCTGAG
AATGACCATAGCCATAGCAAGTTATCCAGATCAACCTTGGGGATTACGATTTCCACACAACTAGG
GCCACTTGAGTCTTGGCATTGCCAACAGCTTTGGGTGTTTTTTTCACATGATGCCACATCTGACT
CGTATCTCGAGTATAAACAAGATTTTTTCTTCAAAGCAAAACCAAATGGCTTTTCTAGGTGAATG
GTTAGTAAAA
Done.