Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2704
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: 116081
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:1698 original size:58 final size:58
Alignment explanation
Indices: 1608--1724 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
1598 TAGCCTAATA
1608 ATGATAAAATGGGTTTCCGCTATACCTGAAATGAGCAGAAGAGTATCCACGATAGAAG
1 ATGATAAAATGGGTTTCCGCTATACCTGAAATGAGCAGAAGAGTATCCACGATAGAAG
1666 ATGATAAAATGGGTTTCCGCTATACCTGAAATGAGCAGAAGAGTATCCACGATAGAAG
1 ATGATAAAATGGGTTTCCGCTATACCTGAAATGAGCAGAAGAGTATCCACGATAGAAG
1724 A
1 A
1725 CCGACTTTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (58 bp):
ATGATAAAATGGGTTTCCGCTATACCTGAAATGAGCAGAAGAGTATCCACGATAGAAG
Found at i:5305 original size:2 final size:2
Alignment explanation
Indices: 5300--5336 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
5290 TGTGTGTGTG
5300 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5337 GTCTATGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7174 original size:29 final size:30
Alignment explanation
Indices: 7094--7174 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
7084 ATGATTTATA
*
7094 TTAAGATTCTATTTGAATATAAATTAAATGCT
1 TTAA-ATT-TATTTGAATATAAATTAAATGAT
** *
7126 AGAAACTTATTTGAATATAAATTAAA-GAT
1 TTAAATTTATTTGAATATAAATTAAATGAT
*
7155 TTAAATTTATTTAAATATAA
1 TTAAATTTATTTGAATATAA
7175 TAAAAATATA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 18 0.44
30 19 0.46
31 2 0.05
32 2 0.05
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (30 bp):
TTAAATTTATTTGAATATAAATTAAATGAT
Found at i:9587 original size:2 final size:2
Alignment explanation
Indices: 9580--9613 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9570 TTGGTGTGAA
9580 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9614 CTGTGAGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12638 original size:97 final size:97
Alignment explanation
Indices: 12506--12725 Score: 320
Period size: 97 Copynumber: 2.3 Consensus size: 97
12496 AATTTTATTT
* * * *
12506 ATCGGGGATACTCCAA-CCCATTCCTCCGAAGGGATACTCCAA-CCCTGCTTTTAAATATATCAA
1 ATCGGAGACACTCCAACCCCATTCCTCCGAAGGGATACTCCAATCCCT-CTTTTAAACACATCAA
12569 AGTTTAAATCTTATTCTCACTTAAATTGTCACC
65 AGTTTAAATCTTATTCTCACTTAAATTGTCACC
** *
12602 ATCGGAGACACTTTAACCCCATTCCTCC-AAGAGGATACTCCAATCCCTTTTTTAAACACATCAA
1 ATCGGAGACACTCCAACCCCATTCCTCCGAAG-GGATACTCCAATCCCTCTTTTAAACACATCAA
*
12666 AGTTTAAATCTTATTCTCACTTAAATTGTCATC
65 AGTTTAAATCTTATTCTCACTTAAATTGTCACC
*
12699 ATCGGGGACACTCCAACCCCATTCCTC
1 ATCGGAGACACTCCAACCCCATTCCTC
12726 TGGGGGATAC
Statistics
Matches: 110, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
96 15 0.14
97 91 0.83
98 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.30
Consensus pattern (97 bp):
ATCGGAGACACTCCAACCCCATTCCTCCGAAGGGATACTCCAATCCCTCTTTTAAACACATCAAA
GTTTAAATCTTATTCTCACTTAAATTGTCACC
Found at i:12750 original size:97 final size:97
Alignment explanation
Indices: 12506--12750 Score: 307
Period size: 97 Copynumber: 2.5 Consensus size: 97
12496 AATTTTATTT
* * * * * * *
12506 ATCGGGGATACTCCAA-CCCATTCCTCCGAAGGGATACTCCAACCCTG-CTTTTAAATATATCAA
1 ATCGGGGACACTCCAACCCCATTCCTCAG-GGGGATACTCCAACCCCGTTTTTTAAACACATCAA
12569 AGTTTAAATCTTATTCTCACTTAAATTGTCACC
65 AGTTTAAATCTTATTCTCACTTAAATTGTCACC
* ** * * *
12602 ATCGGAGACACTTTAACCCCATTCCTCCAAGAGGATACTCCAATCCC-TTTTTTAAACACATCAA
1 ATCGGGGACACTCCAACCCCATTCCT-CAGGGGGATACTCCAACCCCGTTTTTTAAACACATCAA
*
12666 AGTTTAAATCTTATTCTCACTTAAATTGTCATC
65 AGTTTAAATCTTATTCTCACTTAAATTGTCACC
* *
12699 ATCGGGGACACTCCAACCCCATTCCTCTGGGGGATACTCTAACCCCGTTTTT
1 ATCGGGGACACTCCAACCCCATTCCTCAGGGGGATACTCCAACCCCGTTTTT
12751 CAATCAAAAA
Statistics
Matches: 123, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
96 27 0.22
97 95 0.77
98 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (97 bp):
ATCGGGGACACTCCAACCCCATTCCTCAGGGGGATACTCCAACCCCGTTTTTTAAACACATCAAA
GTTTAAATCTTATTCTCACTTAAATTGTCACC
Found at i:18788 original size:30 final size:28
Alignment explanation
Indices: 18754--18844 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 28
18744 ACACATTTCC
18754 TAAAAGTCCACTACTCAGTGGCATCATTTT
1 TAAAAGTCCAC-ACTCAGTGGCATC-TTTT
18784 TAAAAGTCCACATCTCAGTGGCATCTTTATCT
1 TAAAAGTCCACA-CTCAGTGGCATC-TT-T-T
* *
18816 TAAAAGTTCACGACTCCGTGGCATCTTTT
1 TAAAAGTCCAC-ACTCAGTGGCATCTTTT
18845 CCTTCAAAGT
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
29 2 0.04
30 26 0.48
31 3 0.06
32 22 0.41
33 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (28 bp):
TAAAAGTCCACACTCAGTGGCATCTTTT
Found at i:18837 original size:32 final size:30
Alignment explanation
Indices: 18749--18880 Score: 122
Period size: 32 Copynumber: 4.2 Consensus size: 30
18739 TTGTGACACA
* *
18749 TTTCCTAAAAGTCCACTACTCAGTGGCATCA
1 TTTCTTAAAAGTCCAC-ACTCAGTGGCATCT
18780 TTT-TTAAAAGTCCACATCTCAGTGGCATCT
1 TTTCTTAAAAGTCCACA-CTCAGTGGCATCT
* *
18810 TTATCTTAAAAGTTCACGACTCCGTGGCATCT
1 TT-TCTTAAAAGTCCAC-ACTCAGTGGCATCT
* * * *
18842 TTTCCTTCAAAGTCCATAACTCCGTGGCACCT
1 TTT-CTTAAAAGTCCA-CACTCAGTGGCATCT
18874 TGTTCTT
1 T-TTCTT
18881 TTTAAGCCCA
Statistics
Matches: 86, Mismatches: 8, Indels: 13
0.80 0.07 0.12
Matches are distributed among these distances:
29 1 0.01
30 25 0.29
31 5 0.06
32 52 0.60
33 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (30 bp):
TTTCTTAAAAGTCCACACTCAGTGGCATCT
Found at i:18931 original size:33 final size:33
Alignment explanation
Indices: 18894--19603 Score: 245
Period size: 33 Copynumber: 21.7 Consensus size: 33
18884 AAGCCCACAA
18894 CACAACCCTGTGGCACCTTTTTTTTTCAAAG-C
1 CACAACCCTGTGGCACCTTTTTTTTTCAAAGTC
* *
18926 TCACAACTCC-GTGGCA--TTTTTTCCTTCAAGGTC
1 -CACAAC-CCTGTGGCACCTTTTTT-TTTCAAAGTC
* * **
18959 CATAATTCC-GTGGCACCATGTTCCTTTT--AAGTC
1 CACAA-CCCTGTGGCACC-T-TTTTTTTTCAAAGTC
* *
18992 CACAACCCCGTGGCACCTTTTTTTCTTCAAAGCC
1 CACAACCCTGTGGCACCTTTTTTT-TTCAAAGTC
* * * **
19026 CACAACTCAT-TGGCATCTATTTCCTTCAAAGTC
1 CACAAC-CCTGTGGCACCTTTTTTTTTCAAAGTC
* * *
19059 CACAACTCTGTGGCATCTTGTTCCTTTT--AAGTC
1 CACAACCCTGTGGCACCTT-TT-TTTTTCAAAGTC
* * * *
19092 CACAACCCAGTGGCACCGTTTTCTCTTCAAAGCC
1 CACAACCCTGTGGCACC-TTTTTTTTTCAAAGTC
* * **
19126 CACAACTCTGTGGCATC-TTTTCCTTCAAAGTC
1 CACAACCCTGTGGCACCTTTTTTTTTCAAAGTC
* *
19158 CACAACTCC-GTTGCACCTTTTTCTTTTCAAAGCC
1 CACAAC-CCTGTGGCACCTTTTT-TTTTCAAAGTC
* * * *
19192 CACAACTCTGTGGTATCTTTTCCTTTT--AAGTC
1 CACAACCCTGTGGCACCTTTT-TTTTTCAAAGTC
* * *
19224 CACAA-CTTCATGGCACC----CTTTT--AAGTC
1 CACAACCCT-GTGGCACCTTTTTTTTTCAAAGTC
* *
19251 CATAACTCC-GTGGCACCTTTTTCTTTTC-AAGACC
1 CACAAC-CCTGTGGCACCTTTTT-TTTTCAAAG-TC
* ** *
19285 CACAACTCC-GTGGCATC-TTTTCCTTCAAGGTC
1 CACAAC-CCTGTGGCACCTTTTTTTTTCAAAGTC
* *
19317 CATAACTCC-GTGGCACCTTGTTCCTTTT--AAGTC
1 CACAAC-CCTGTGGCACCTT-TT-TTTTTCAAAGTC
* *
19350 CACAACCCTGTGGCACCGTTTTCTTTTCAAAGCC
1 CACAACCCTGTGGCACC-TTTTTTTTTCAAAGTC
* * *
19384 CACAACTCC-GTGGCATCTTTTCTTTT-AAGGTC
1 CACAAC-CCTGTGGCACCTTTTTTTTTCAAAGTC
* * **
19416 CATAACTCTGTGGCATATTGTTCTTTTT--AAGTC
1 CACAACCCTGTGGCACCTT-TT-TTTTTCAAAGTC
* * * *
19449 CACAACCCCGTGGCACCGTTTTCTCTTCAAAGCC
1 CACAACCCTGTGGCACC-TTTTTTTTTCAAAGTC
* * * **
19483 CATAACTCTGTGGCATC-TTTTCCTTCAAAG-C
1 CACAACCCTGTGGCACCTTTTTTTTTCAAAGTC
* * * *
19514 TCACAA-CTTCGTGGTACTTTTTTCTTTTCAAAGCC
1 -CACAACCCT-GTGGCACCTTTTT-TTTTCAAAGTC
* * * *
19549 CACAACTCC-GTGACATCTTTTTTCTTT-TAAGTT
1 CACAAC-CCTGTGGCACCTTTTTT-TTTCAAAGTC
*
19582 CATAACTCC-GTGGCACCTTTTT
1 CACAAC-CCTGTGGCACCTTTTT
19604 AAGTCCACAA
Statistics
Matches: 506, Mismatches: 114, Indels: 114
0.69 0.16 0.16
Matches are distributed among these distances:
27 21 0.04
29 1 0.00
31 14 0.03
32 137 0.27
33 163 0.32
34 155 0.31
35 11 0.02
36 4 0.01
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (33 bp):
CACAACCCTGTGGCACCTTTTTTTTTCAAAGTC
Found at i:19157 original size:66 final size:64
Alignment explanation
Indices: 18786--19625 Score: 404
Period size: 66 Copynumber: 12.8 Consensus size: 64
18776 ATCATTTTTA
* * * * * * *
18786 AAAGTCCACATCTCAGTGGCATCTTTAT-CTTAAAAGTTCACGACTCCGTGGCATCTTTTC-CTT
1 AAAGCCCACAACTCCGTGGCATCTTT-TCCTTCAAAGTCCACAAC-CCGTGGCACCTTTTCTCTT
18849 C
64 C
* * * * ** *
18850 AAAGTCCATAACTCCGTGGCACCTTGTTCTTTTTAAGCCCACAACACAACCCTGTGGCACCTTTT
1 AAAGCCCACAACTCCGTGGCATCTT-TTCCTTCAAAG---TC--CACAACCC-GTGGCACCTTTT
* *
18915 TTTTTC
59 CTCTTC
* * * * * *
18921 AAAGCTCACAACTCCGTGGCATTTTTTCCTTCAAGGTCCATAATTCCGTGGCACCATGTTC-CTT
1 AAAGCCCACAACTCCGTGGCATCTTTTCCTTCAAAGTCCACAA-CCCGTGGCACC-TTTTCTCTT
*
18985 T
64 C
* * * * * * ** *
18986 TAAGTCCACAACCCCGTGGCACCTTTTTTTCTTCAAAGCCCACAACTCATTGGCATCTATTTC-C
1 AAAGCCCACAACTCCGTGGCA--TCTTTTCCTTCAAAGTCCACAAC-CCGTGGCACCT-TTTCTC
19050 TTC
62 TTC
* * **
19053 AAAGTCCACAACTCTGTGGCATCTTGTTCCTTTTAAGTCCACAACCCAGTGGCACCGTTTTCTCT
1 AAAGCCCACAACTCCGTGGCATCTT-TTCCTTCAAAGTCCACAACCC-GTGGCACC-TTTTCTCT
19118 TC
63 TC
* * *
19120 AAAGCCCACAACTCTGTGGCATCTTTTCCTTCAAAGTCCACAACTCCGTTGCACCTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTCCTTCAAAGTCCACAAC-CCGTGGCACC-TTTTCTCTT
19185 C
64 C
* * ** * *
19186 AAAGCCCACAACTCTGTGGTATCTTTTCCTTTTAAGTCCACAACTTCATGGCACC----CT-TT-
1 AAAGCCCACAACTCCGTGGCATCTTTTCCTTCAAAGTCCACAAC-CCGTGGCACCTTTTCTCTTC
* * * * * * *
19245 TAAGTCCATAACTCCGTGGCACCTTTTTCTTTTC-AAGACCCACAACTCCGTGGCATCTTTTC-C
1 AAAGCCCACAACTCCGTGGCATC-TTTTC-CTTCAAAG-TCCACAAC-CCGTGGCACCTTTTCTC
19308 TTC
62 TTC
* * * * ** *
19311 AAGGTCCATAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACCCTGTGGCACCGTTTTCTTT
1 AAAGCCCACAACTCCGTGGCATCTT-TTCCTTCAAAGTCCACAACCC-GTGGCACC-TTTTCTCT
19376 TC
63 TC
* * * * * **
19378 AAAGCCCACAACTCCGTGGCATCTTTTCTTTTAAGGTCCATAACTCTGTGGCATATTGTTCT-TT
1 AAAGCCCACAACTCCGTGGCATCTTTTCCTTCAAAGTCCACAAC-CCGTGGCACCTT-TTCTCTT
*
19442 T
64 C
* * * * * * * *
19443 TAAGTCCACAACCCCGTGGCACCGTTTTCTCTTCAAAGCCCATAACTCTGTGGCATCTTTTC-CT
1 AAAGCCCACAACTCCGTGGCATC-TTTTC-CTTCAAAGTCCACAAC-CCGTGGCACCTTTTCTCT
19507 TC
63 TC
* * * * * * * * *
19509 AAAGCTCACAACTTCGTGGTACTTTTTTCTTTTCAAAGCCCACAACTCCGTGACATCTTTTTTCT
1 AAAGCCCACAACTCCGTGGCA-TCTTTTC-CTTCAAAGTCCACAAC-CCGTGGCACCTTTTCTCT
*
19574 TT
63 TC
* ** * *
19576 TAAGTTCATAACTCCGTGGCA-CCTTT--TT--AAGTCCACAACTCCGTGGCACC
1 AAAGCCCACAACTCCGTGGCATCTTTTCCTTCAAAGTCCACAAC-CCGTGGCACC
19626 CCCTTCTAAA
Statistics
Matches: 604, Mismatches: 131, Indels: 86
0.74 0.16 0.10
Matches are distributed among these distances:
59 17 0.03
60 29 0.05
61 19 0.03
62 2 0.00
64 24 0.04
65 88 0.15
66 228 0.38
67 149 0.25
69 2 0.00
70 23 0.04
71 23 0.04
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.34
Consensus pattern (64 bp):
AAAGCCCACAACTCCGTGGCATCTTTTCCTTCAAAGTCCACAACCCGTGGCACCTTTTCTCTTC
Found at i:19245 original size:99 final size:98
Alignment explanation
Indices: 18781--19602 Score: 579
Period size: 99 Copynumber: 8.3 Consensus size: 98
18771 GTGGCATCAT
* * * * * * * *
18781 TTTTAAAAGTCCACATCTCAGTGGCATCTTTAT-CTTAAAAGTTCACGACTCCGTGGCATCTTTT
1 TTTTCAAAGCCCACAACTCCGTGGCATCTTT-TCCTTTAAAGTCCACAACTTCGTGGCATCTTTT
* *
18845 CCTTCAAAGTCCATAACTCCGTGGCACCTTGTTC
65 CCTTCAAAGTCCACAACTCCGTGGCACCTTTTTC
* * * ** *
18879 TTTT-TAAGCCCACAACACAACCCTGTGGCACCTTTTTTTTTCAAAG-CTCACAACTCCGTGGCA
1 TTTTCAAAGCCCAC-A-AC--TCC-GTGGCATCTTTTCCTTT-AAAGTC-CACAACTTCGTGGCA
* * * * * *
18942 TTTTTTCCTTCAAGGTCCATAATTCCGTGGCACCATGTTCC
59 TCTTTTCCTTCAAAGTCCACAACTCCGTGGCACC-TTTTTC
* * * * * * *
18983 TTTT--AAGTCCACAACCCCGTGGCACCTTTTTTTCTTCAAAGCCCACAAC-TCATTGGCATCTA
1 TTTTCAAAGCCCACAACTCCGTGGCA--TCTTTTCCTTTAAAGTCCACAACTTC-GTGGCATCT-
* * *
19045 TTTCCTTCAAAGTCCACAACTCTGTGGCATCTTGTTCC
62 TTTCCTTCAAAGTCCACAACTCCGTGGCACCTT-TTTC
* * * *
19083 TTTT--AAGTCCACAAC-CCAGTGGCACCGTTTTCTCTTCAAAGCCCACAAC-TCTGTGGCATCT
1 TTTTCAAAGCCCACAACTCC-GTGGCATC-TTTTC-CTTTAAAGTCCACAACTTC-GTGGCATCT
*
19144 TTTCCTTCAAAGTCCACAACTCCGTTGCACCTTTTTC
62 TTTCCTTCAAAGTCCACAACTCCGTGGCACCTTTTTC
* * * *
19181 TTTTCAAAGCCCACAACTCTGTGGTATCTTTTCCTTTTAAGTCCACAACTTCATGGCA-C----C
1 TTTTCAAAGCCCACAACTCCGTGGCATCTTTTCCTTTAAAGTCCACAACTTCGTGGCATCTTTTC
** *
19241 CTTTTAAGTCCATAACTCCGTGGCACCTTTTTC
66 CTTCAAAGTCCACAACTCCGTGGCACCTTTTTC
* * * * *
19274 TTTTC-AAGACCCACAACTCCGTGGCATCTTTTCCTTCAAGGTCCATAACTCCGTGGCACCTTGT
1 TTTTCAAAG-CCCACAACTCCGTGGCATCTTTTCCTTTAAAGTCCACAACTTCGTGGCATCTT-T
** *
19338 TCCTTTTAAGTCCACAAC-CCTGTGGCACCGTTTTC
64 TCCTTCAAAGTCCACAACTCC-GTGGCACCTTTTTC
* * * *
19373 TTTTCAAAGCCCACAACTCCGTGGCATCTTTTCTTTTAAGGTCCATAAC-TCTGTGGCATATTGT
1 TTTTCAAAGCCCACAACTCCGTGGCATCTTTTCCTTTAAAGTCCACAACTTC-GTGGCATCTT-T
* ** * *
19437 TCTTTTTAAGTCCACAACCCCGTGGCACCGTTTTC
64 TCCTTCAAAGTCCACAACTCCGTGGCACCTTTTTC
* * * * * *
19472 TCTTCAAAGCCCATAACTCTGTGGCATCTTTTCCTTCAAAG-CTCACAACTTCGTGGTACTTTTT
1 TTTTCAAAGCCCACAACTCCGTGGCATCTTTTCCTTTAAAGTC-CACAACTTCGTGGCA-TCTTT
* * * *
19536 TCTTTTCAAAGCCCACAACTCCGTGACATCTTTTTTC
64 TC-CTTCAAAGTCCACAACTCCGTGGCA-CCTTTTTC
** * *
19573 TTTT--AAGTTCATAACTCCGTGGCACCTTTT
1 TTTTCAAAGCCCACAACTCCGTGGCATCTTTT
19603 TAAGTCCACA
Statistics
Matches: 598, Mismatches: 88, Indels: 75
0.79 0.12 0.10
Matches are distributed among these distances:
92 3 0.01
93 76 0.13
94 1 0.00
97 8 0.01
98 41 0.07
99 248 0.41
100 131 0.22
101 14 0.02
102 13 0.02
103 56 0.09
104 7 0.01
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.35
Consensus pattern (98 bp):
TTTTCAAAGCCCACAACTCCGTGGCATCTTTTCCTTTAAAGTCCACAACTTCGTGGCATCTTTTC
CTTCAAAGTCCACAACTCCGTGGCACCTTTTTC
Found at i:19251 original size:27 final size:27
Alignment explanation
Indices: 19213--19272 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
19203 GGTATCTTTT
*
19213 CCTTTTAAGTCCACAACTTCATGGCAC
1 CCTTTTAAGTCCACAACTCCATGGCAC
* *
19240 CCTTTTAAGTCCATAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCATGGCAC
*
19267 CTTTTT
1 CCTTTT
19273 CTTTTCAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.35
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCATGGCAC
Found at i:19615 original size:27 final size:27
Alignment explanation
Indices: 19573--19625 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
19563 ATCTTTTTTC
* *
19573 TTTTAAGTTCATAACTCCGTGGCACCT
1 TTTTAAGTCCACAACTCCGTGGCACCT
19600 TTTTAAGTCCACAACTCCGTGGCACC
1 TTTTAAGTCCACAACTCCGTGGCACC
19626 CCCTTCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCT
Found at i:19808 original size:32 final size:32
Alignment explanation
Indices: 19757--19950 Score: 223
Period size: 32 Copynumber: 6.0 Consensus size: 32
19747 TCGGTGGAGA
* *
19757 AACCTTCTTCAAAAGCCCACACAAGTTGGTGGT
1 AACCTTCTT-AAAAGCCCACACAAGCTGGTGGC
* *
19790 AACCTTCTTTAAAGCCCACACAAGCTGGTGGT
1 AACCTTCTTAAAAGCCCACACAAGCTGGTGGC
* *
19822 AATCTTCTTCAAAAGCCCACACAAGTTGGTGGC
1 AACCTTCTT-AAAAGCCCACACAAGCTGGTGGC
* *
19855 AACC-CCTTCAAAGCCCACACAAGCTGGTGGC
1 AACCTTCTTAAAAGCCCACACAAGCTGGTGGC
* *
19886 AACCCTTC-TCAAAGCCCACTCAAGCTGGTGGC
1 AA-CCTTCTTAAAAGCCCACACAAGCTGGTGGC
* *
19918 AACCCTT-TCAAAAGCCCACACAAGTTGGTGGC
1 AA-CCTTCTTAAAAGCCCACACAAGCTGGTGGC
19950 A
1 A
19951 TCTCCTTTTG
Statistics
Matches: 141, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
31 23 0.16
32 85 0.60
33 33 0.23
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (32 bp):
AACCTTCTTAAAAGCCCACACAAGCTGGTGGC
Found at i:19932 original size:64 final size:64
Alignment explanation
Indices: 19757--19950 Score: 268
Period size: 64 Copynumber: 3.0 Consensus size: 64
19747 TCGGTGGAGA
*
19757 AACCTTCTTCAAAAGCCCACACAAGTTGGTGGTAACCTTCTTT-AAAGCCCACACAAGCTGGTGG
1 AACCTTCTTCAAAAGCCCACACAAGTTGGTGGCAACC--CTTTCAAAGCCCACACAAGCTGGTGG
*
19821 T
64 C
* *
19822 AATCTTCTTCAAAAGCCCACACAAGTTGGTGGCAACCCCTTCAAAGCCCACACAAGCTGGTGGC
1 AACCTTCTTCAAAAGCCCACACAAGTTGGTGGCAACCCTTTCAAAGCCCACACAAGCTGGTGGC
* * *
19886 AACCCTTC-TC-AAAGCCCACTCAAGCTGGTGGCAACCCTTTCAAAAGCCCACACAAGTTGGTGG
1 AA-CCTTCTTCAAAAGCCCACACAAGTTGGTGGCAACCCTTTC-AAAGCCCACACAAGCTGGTGG
19949 C
64 C
19950 A
1 A
19951 TCTCCTTTTG
Statistics
Matches: 117, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
63 31 0.26
64 47 0.40
65 39 0.33
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (64 bp):
AACCTTCTTCAAAAGCCCACACAAGTTGGTGGCAACCCTTTCAAAGCCCACACAAGCTGGTGGC
Found at i:19976 original size:95 final size:96
Alignment explanation
Indices: 19763--19950 Score: 281
Period size: 96 Copynumber: 2.0 Consensus size: 96
19753 GAGAAACCTT
* * * * * *
19763 CTTCAAAAGCCCACACAAGTTGGTGGTAACCTTCTTTAAAGCCCACACAAGCTGGTGGTAATCTT
1 CTTC-AAAGCCCACACAAGCTGGTGGCAACCTTCTTCAAAGCCCACACAAGCTGGTGGCAACCCT
19828 CTTCAAAAGCCCACACAAGTTGGTGGCAACCC
65 CTTCAAAAGCCCACACAAGTTGGTGGCAACCC
*
19860 CTTCAAAGCCCACACAAGCTGGTGGCAACCCTTC-TCAAAGCCCACTCAAGCTGGTGGCAACCCT
1 CTTCAAAGCCCACACAAGCTGGTGGCAA-CCTTCTTCAAAGCCCACACAAGCTGGTGGCAACCCT
19924 -TTCAAAAGCCCACACAAGTTGGTGGCA
65 CTTCAAAAGCCCACACAAGTTGGTGGCA
19951 TCTCCTTTTG
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
95 27 0.33
96 47 0.57
97 9 0.11
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.20
Consensus pattern (96 bp):
CTTCAAAGCCCACACAAGCTGGTGGCAACCTTCTTCAAAGCCCACACAAGCTGGTGGCAACCCTC
TTCAAAAGCCCACACAAGTTGGTGGCAACCC
Found at i:20076 original size:49 final size:49
Alignment explanation
Indices: 19970--20456 Score: 390
Period size: 52 Copynumber: 9.6 Consensus size: 49
19960 GGGCCTAATA
* * *
19970 TCGCTGGCCTTGAATCAGCATATTGACACCTTTACCA-CATTTAAGTCCAATG
1 TCGCTAGCCTTGAATCAGCACATTGGCACC--T-CCATC-TTTAAGTCCAATG
* * *
20022 TCGCTAGCCTTGAATTAGCACATTGGCACCTCCATATTTAATTCCAATG
1 TCGCTAGCCTTGAATCAGCACATTGGCACCTCCATCTTTAAGTCCAATG
* *
20071 TCGCTAGCCTTGAATTAGCACATTGGCACCTCCATCTTTAAGGCCAATG
1 TCGCTAGCCTTGAATCAGCACATTGGCACCTCCATCTTTAAGTCCAATG
* * *
20120 TCGCTAGCCTTGAATTAACACATTGGCACCTCCATATTTAAGTCCAATG
1 TCGCTAGCCTTGAATCAGCACATTGGCACCTCCATCTTTAAGTCCAATG
* * * * *
20169 TTGCTAGCCTTGAATCAGCATATTGGCACCAT-CATCTTTAA-ACCTGATA
1 TCGCTAGCCTTGAATCAGCACATTGGCACC-TCCATCTTTAAGTCC-AATG
* * * * * **
20218 TCGC-AGGCCTTGAATCGGTATATTGGCATCTTTAACATCCCTAA-TCCCAATG
1 TCGCTA-GCCTTGAATCAGCACATTGGCA-C-CT-CCATCTTTAAGT-CCAATG
* * * * *
20270 TCGCTGGCCTTGAATTAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATG
1 TCGCTAGCCTTGAATCAGCACATTGGCA--CCTC-CATCTTTAAGTCCAATG
* * * * * * * *
20322 TCGCTGGCCGTGAATCAGCACATTGACATTCTTTGCACCTTTAAGCCCAATA
1 TCGCTAGCCTTGAATCAGCACATTGGCA--C-CTCCATCTTTAAGTCCAATG
* * * *
20374 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGCCCAATG
1 TCGCTAGCCTTGAATCAGCACATTGGCACC--T-CCATCTTTAAGTCCAATG
*
20426 TCGCTGGCCTTGAATCAGCACATTGGCACCT
1 TCGCTAGCCTTGAATCAGCACATTGGCACCT
20457 TTAAGTCCAA
Statistics
Matches: 362, Mismatches: 56, Indels: 36
0.80 0.12 0.08
Matches are distributed among these distances:
48 3 0.01
49 166 0.46
50 6 0.02
51 1 0.00
52 179 0.49
53 7 0.02
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (49 bp):
TCGCTAGCCTTGAATCAGCACATTGGCACCTCCATCTTTAAGTCCAATG
Found at i:20142 original size:98 final size:99
Alignment explanation
Indices: 19970--20456 Score: 408
Period size: 98 Copynumber: 4.8 Consensus size: 99
19960 GGGCCTAATA
* * *
19970 TCGCTGGCCTTGAATCAGCATATTGACACCTTTACCA-CATTTAAGTCCAATGTCGCTAGCCTTG
1 TCGCTAGCCTTGAATCAGCACATTGGCACC-TT-CCATC-TTTAAGTCCAATGTCGCTAGCCTTG
* **
20034 AATTAGCACATTGGCACCTCCATATTTAATTCCAATG
63 AATCAGCACATTGGCACCTCCATATTTAAGCCCAATG
* *
20071 TCGCTAGCCTTGAATTAGCACATTGGCACC-TCCATCTTTAAGGCCAATGTCGCTAGCCTTGAAT
1 TCGCTAGCCTTGAATCAGCACATTGGCACCTTCCATCTTTAAGTCCAATGTCGCTAGCCTTGAAT
* * *
20135 TAACACATTGGCACCTCCATATTTAAGTCCAATG
66 CAGCACATTGGCACCTCCATATTTAAGCCCAATG
* * * * * *
20169 TTGCTAGCCTTGAATCAGCATATTGGCACCAT-CATCTTTAA-ACCTGATATCGC-AGGCCTTGA
1 TCGCTAGCCTTGAATCAGCACATTGGCACCTTCCATCTTTAAGTCC-AATGTCGCTA-GCCTTGA
* * * * * *** *
20231 ATCGGTATATTGGCATCTTTAACATCCCTAATCCCAATG
64 ATCAGCACATTGGCA-C-CT-CCATATTTAAGCCCAATG
* * * * * * *
20270 TCGCTGGCCTTGAATTAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTGGCCGTGA
1 TCGCTAGCCTTGAATCAGCACATTGGCA-CCTTC-CATCTTTAAGTCCAATGTCGCTAGCCTTGA
* * * ** *
20335 ATCAGCACATTGACATTCTTTGCACCTTTAAGCCCAATA
64 ATCAGCACATTGGCA--C-CTCCATATTTAAGCCCAATG
* * * * *
20374 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGCCCAATGTCGCTGGCCTTGA
1 TCGCTAGCCTTGAATCAGCACATTGGCACC-TT-CCATCTTTAAGTCCAATGTCGCTAGCCTTGA
20439 ATCAGCACATTGGCACCT
64 ATCAGCACATTGGCACCT
20457 TTAAGTCCAA
Statistics
Matches: 313, Mismatches: 58, Indels: 30
0.78 0.14 0.07
Matches are distributed among these distances:
97 3 0.01
98 121 0.39
99 4 0.01
100 1 0.00
101 63 0.20
102 3 0.01
103 1 0.00
104 111 0.35
105 6 0.02
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (99 bp):
TCGCTAGCCTTGAATCAGCACATTGGCACCTTCCATCTTTAAGTCCAATGTCGCTAGCCTTGAAT
CAGCACATTGGCACCTCCATATTTAAGCCCAATG
Found at i:20473 original size:43 final size:43
Alignment explanation
Indices: 20412--20502 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 43
20402 CCTTTGTCAT
* **
20412 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAAAACATTGGCAC
* *
20455 CTTTAAGTCCAATATCGCTGGCCTTGAATCAAAATATTGGCAC
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAAAACATTGGCAC
20498 CTTTA
1 CTTTA
20503 TCATTATTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
CTTTAAGCCCAATATCGCTGGCCTTGAATCAAAACATTGGCAC
Found at i:20553 original size:61 final size:61
Alignment explanation
Indices: 20455--20581 Score: 173
Period size: 61 Copynumber: 2.1 Consensus size: 61
20445 ACATTGGCAC
* * *
20455 CTTTAAGTCCAATATCGCTGGCCTTGAATCAAAATATTGGCACCTTTATCATTATTCTCAT
1 CTTTAAGCCCAATATCGCTAGCCTTGAATCAAAATATTGGCACCTTTATCACTATTCTCAT
* * ** * *
20516 CTTTAAGCCCAATATCGCTAGTCTTGAATTAGCATATTGGCATCTTTATCACTCTTCTCAT
1 CTTTAAGCCCAATATCGCTAGCCTTGAATCAAAATATTGGCACCTTTATCACTATTCTCAT
20577 CTTTA
1 CTTTA
20582 TCATCTTTAA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (61 bp):
CTTTAAGCCCAATATCGCTAGCCTTGAATCAAAATATTGGCACCTTTATCACTATTCTCAT
Found at i:21248 original size:10 final size:9
Alignment explanation
Indices: 21222--21246 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
21212 AAATTGAAAA
21222 TAAAAAATT
1 TAAAAAATT
21231 TAAAAAATT
1 TAAAAAATT
21240 TAAAAAA
1 TAAAAAA
21247 ATGAAATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
TAAAAAATT
Found at i:21984 original size:19 final size:19
Alignment explanation
Indices: 21940--21985 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
21930 CACAGCATCT
*
21940 TCCAGCAGCCACAAGCAAT
1 TCCAGCAGCCACAAGCAAC
* **
21959 TCTAGCAGCCAGGAGCAAC
1 TCCAGCAGCCACAAGCAAC
21978 TCCAGCAG
1 TCCAGCAG
21986 TAGCAGCAGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.35, G:0.22, T:0.11
Consensus pattern (19 bp):
TCCAGCAGCCACAAGCAAC
Found at i:23104 original size:97 final size:97
Alignment explanation
Indices: 22873--23110 Score: 343
Period size: 97 Copynumber: 2.5 Consensus size: 97
22863 AAATTTTATT
* ** *
22873 TATCGGGGATACTCCAACCTTATTCCTCCGAGGGGATACTCCAACTCCGCTTTTAAACACATCAA
1 TATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAA
*
22938 AGTTTAAATCTTATTCTCACTTAAATTGTCAC
66 AGTTTAAATCTTATTCTCACTTAAATTATCAC
* * ** *
22970 TATCGGGGACACTTCAACCCCATTCCTCTGAAAGGATACTCCAACCCCGCTTTTAAACATATCAA
1 TATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAA
23035 AGTTTAAATCTTATTCTCACTTAAATTATCA-
66 AGTTTAAATCTTATTCTCACTTAAATTATCAC
* * *
23066 TCATTGGGGACACTCCAACCCCATTACTCCGAGGGGATATTCCAA
1 T-ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAA
23111 TCTCGTTTTT
Statistics
Matches: 123, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
96 1 0.01
97 122 0.99
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (97 bp):
TATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAA
AGTTTAAATCTTATTCTCACTTAAATTATCAC
Found at i:27198 original size:23 final size:22
Alignment explanation
Indices: 27172--27250 Score: 65
Period size: 23 Copynumber: 3.5 Consensus size: 22
27162 GTATATAGTG
27172 GATATGATATGTTTATGATAAAT
1 GATA-GATATGTTTATGATAAAT
27195 GATAGCATATG--T-TGATAAAT
1 GATAG-ATATGTTTATGATAAAT
* ** *
27215 GATAGATGTTGTGAATGATGAAT
1 GATAGAT-ATGTTTATGATAAAT
27238 GATAGGATATGTT
1 GATA-GATATGTT
27251 GATATTATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
19 2 0.04
20 15 0.33
21 1 0.02
22 1 0.02
23 23 0.51
24 3 0.07
ACGTcount: A:0.37, C:0.01, G:0.24, T:0.38
Consensus pattern (22 bp):
GATAGATATGTTTATGATAAAT
Found at i:27223 original size:17 final size:18
Alignment explanation
Indices: 27187--27238 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 18
27177 GATATGTTTA
27187 TGATAAATGATAGCATATGT
1 TGATAAATGATAG-A-ATGT
27207 TGATAAATGATAG-ATGT
1 TGATAAATGATAGAATGT
*
27224 TG-TGAATGAT-GAATG
1 TGATAAATGATAGAATG
27239 ATAGGATATG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 1 0.03
16 10 0.33
17 6 0.20
20 13 0.43
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (18 bp):
TGATAAATGATAGAATGT
Found at i:28719 original size:13 final size:13
Alignment explanation
Indices: 28701--28757 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
28691 CATAAAGTGT
28701 TGTATCGATACAA
1 TGTATCGATACAA
28714 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
28729 GTTTTGTATCGATATAA
1 ----TGTATCGATACAA
28746 TGTATCGATACA
1 TGTATCGATACA
28758 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:28738 original size:19 final size:19
Alignment explanation
Indices: 28679--28776 Score: 94
Period size: 19 Copynumber: 5.7 Consensus size: 19
28669 ATTTCAACGA
28679 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACAT-AAGT
*
28699 GTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
28714 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
28731 TTTGTATCGAT--ATAA--
1 TTTGTATCGATACATAAGT
28746 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
28763 TTTGTATCGATACA
1 TTTGTATCGATACA
28777 ATTTAAGCTA
Statistics
Matches: 65, Mismatches: 1, Indels: 25
0.71 0.01 0.27
Matches are distributed among these distances:
13 20 0.31
15 6 0.09
17 6 0.09
19 21 0.32
20 12 0.18
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:28741 original size:32 final size:32
Alignment explanation
Indices: 28681--28778 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
28671 TTCAACGATT
*
28681 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTTTTGTATCGATACAA
*
28714 TGTATCGATACATAAGTTTTGTATCGATATAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
28746 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
28778 T
1 T
28779 TTAAGCTACT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 49 0.79
33 13 0.21
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:28837 original size:13 final size:13
Alignment explanation
Indices: 28819--28843 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28809 ATTACTCAAA
28819 TGTATCGATACAT
1 TGTATCGATACAT
28832 TGTATCGATACA
1 TGTATCGATACA
28844 CTTATCTTTG
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:28841 original size:34 final size:33
Alignment explanation
Indices: 28798--28864 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
28788 TGCCAAAAAA
28798 TGTATCGATACA-TTACTCAAATGTATCGATACAT
1 TGTATCGATACACTTA-TC-AATGTATCGATACAT
**
28832 TGTATCGATACACTTATCTTTGTATCGATACAT
1 TGTATCGATACACTTATCAATGTATCGATACAT
28865 GCAGGCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 13 0.43
34 14 0.47
35 3 0.10
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (33 bp):
TGTATCGATACACTTATCAATGTATCGATACAT
Found at i:28908 original size:52 final size:52
Alignment explanation
Indices: 28852--28976 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
28842 CACTTATCTT
* *
28852 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATTCATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
28904 TGTATCGATACATGCAGCCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
28956 TGTATCGATACATGCAGGCAA
1 TGTATCGATACATGCAGGCAA
28977 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:33386 original size:149 final size:150
Alignment explanation
Indices: 33105--33392 Score: 318
Period size: 149 Copynumber: 1.9 Consensus size: 150
33095 CGAACTTATC
* * * * *
33105 CCTAATATGTACCCTCGACATAGAAGCTACCCGGTAATTTCATAGGACTAGGTTTTGGGAAAAAT
1 CCTAATACGTACCCTCGACATAGAAGATACCCGGTAATTTCATAGGACTAAGTTTCGAGAAAAAT
* * * * * * *
33170 ACTAAAATTGTCCTTAAGGTCTGCCATTGATTTAGAAGTACCTAGTGATCCTAGAGGACTTGAAA
66 ACTAAAATGGTCCCTAAGGTCTACCATTGACTTAGAAATACCGAGTGATCCTAGAAGACTTGAAA
33235 AAG-TAAAAGTGAACGTTCG
131 AAGATAAAAGTGAACGTTCG
* * *
33254 CCTAATACGTACCCTC-AGCATAGAA-ATGACCTGGTAGTTTCATAGGGCTAAGTTTCGAGAGAA
1 CCTAATACGTACCCTCGA-CATAGAAGAT-ACCCGGTAATTTCATAGGACTAAGTTTCGAGA-AA
* * *
33317 AATCCTAAAA-GGTCCCTAAGGTCTACCATTGACTTAGAAATGCTCG-GAT-ATCCTAGAAGATT
63 AATACTAAAATGGTCCCTAAGGTCTACCATTGACTTAGAAATAC-CGAG-TGATCCTAGAAGACT
*
33379 TGGAAAAGATAAAA
126 TGAAAAAGATAAAA
33393 ACAAACCTAC
Statistics
Matches: 114, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
148 2 0.02
149 94 0.82
150 18 0.16
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (150 bp):
CCTAATACGTACCCTCGACATAGAAGATACCCGGTAATTTCATAGGACTAAGTTTCGAGAAAAAT
ACTAAAATGGTCCCTAAGGTCTACCATTGACTTAGAAATACCGAGTGATCCTAGAAGACTTGAAA
AAGATAAAAGTGAACGTTCG
Found at i:34321 original size:19 final size:19
Alignment explanation
Indices: 34297--34377 Score: 102
Period size: 19 Copynumber: 4.6 Consensus size: 19
34287 TTTCAACGAT
*
34297 TTGTATAGATACATAAGTG
1 TTGTATCGATACATAAGTG
34316 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
34330 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
34348 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
34367 TTGTATCGATA
1 TTGTATCGATA
34378 TAATGCATCG
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
13 11 0.20
15 2 0.04
17 2 0.04
19 39 0.72
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:34334 original size:32 final size:32
Alignment explanation
Indices: 34298--34360 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
34288 TTCAACGATT
34298 TGTATAGATACATAAGTGTTGTATCGATACAA
1 TGTATAGATACATAAGTGTTGTATCGATACAA
*
34330 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATAGATACATAAGTGTTGTATCGATACA
34361 TAAGTTTTGT
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:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATAGATACATAAGTGTTGTATCGATACAA
Found at i:34335 original size:13 final size:13
Alignment explanation
Indices: 34317--34341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34307 ACATAAGTGT
34317 TGTATCGATACAA
1 TGTATCGATACAA
34330 TGTATCGATACA
1 TGTATCGATACA
34342 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:34509 original size:52 final size:52
Alignment explanation
Indices: 34465--34593 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
34455 CACTGATCTT
34465 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
34517 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
34569 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
34594 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:42270 original size:58 final size:59
Alignment explanation
Indices: 42180--42371 Score: 171
Period size: 58 Copynumber: 3.3 Consensus size: 59
42170 CTTAAGTCAT
* * * * *
42180 AAATGACTTAAAT-ATTTTTAAAATATATGAAATTGCATGAAAGTCCCAAGATCATGAA
1 AAATGACCTAAATGACTTCTAACATACATGAAATTGCATGAAAGTCCCAAGATCATGAA
* * * * * *
42238 AAATGATCTAAATGACTTC-AACATACATGAAATTGTATAAAAGTTCCTAGATCTTGAA
1 AAATGACCTAAATGACTTCTAACATACATGAAATTGCATGAAAGTCCCAAGATCATGAA
* * * * *
42296 AAATAACCTCAATGAC-CCTAGCATACATGAAATTGCATAGAAA-TCCCTAA-ATCATAAA
1 AAATGACCTAAATGACTTCTAACATACATGAAATTGCAT-GAAAGTCCC-AAGATCATGAA
42354 AAATCG-CCTAAATGACTT
1 AAAT-GACCTAAATGACTT
42372 TAAAATGTAT
Statistics
Matches: 103, Mismatches: 25, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
57 1 0.01
58 95 0.92
59 7 0.07
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (59 bp):
AAATGACCTAAATGACTTCTAACATACATGAAATTGCATGAAAGTCCCAAGATCATGAA
Found at i:42384 original size:58 final size:58
Alignment explanation
Indices: 42219--42444 Score: 165
Period size: 58 Copynumber: 3.9 Consensus size: 58
42209 AAATTGCATG
* * * * * *
42219 AAAGTCCC-AAGATCATGAAAAATGATCTAAATGA-CTTCAACATACATGAAATTGTATA
1 AAAGTCCCTAA-ATCATAAAAAATGACCTAAATGACCTT-AAAATGCATGAAATTATAAA
* * * * * * * ** * *
42277 AAAGTTCCTAGATCTTGAAAAATAACCTCAATGACCCTAGCATACATGAAATTGCAT-AG
1 AAAGTCCCTAAATCATAAAAAATGACCTAAATGACCTTAAAATGCATGAAATT--ATAAA
* * *
42336 AAA-TCCCTAAATCATAAAAAATCG-CCTAAATGACTTTAAAATGTATGAAACTATAAA
1 AAAGTCCCTAAATCATAAAAAAT-GACCTAAATGACCTTAAAATGCATGAAATTATAAA
* * *
42393 AAAGTCCTTAAATTATAAAAAATGATCTAAATGACCTTAAAATGCATGAAAT
1 AAAGTCCCTAAATCATAAAAAATGACCTAAATGACCTTAAAATGCATGAAAT
42445 GACATAAATG
Statistics
Matches: 129, Mismatches: 31, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
56 2 0.02
57 5 0.04
58 115 0.89
59 6 0.05
60 1 0.01
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.27
Consensus pattern (58 bp):
AAAGTCCCTAAATCATAAAAAATGACCTAAATGACCTTAAAATGCATGAAATTATAAA
Found at i:42527 original size:59 final size:59
Alignment explanation
Indices: 42452--42619 Score: 162
Period size: 59 Copynumber: 2.9 Consensus size: 59
42442 AATGACATAA
* * * *
42452 ATGGAAATGATTAAAATGAAATAAAAATGCATTGAATGATATCAAAAATCCCCT-AGTC
1 ATGGAAATGACTAAAATGAAATAAAAATGAATGGAATGACATCAAAAATCCCCTAAGTC
* ** * * ** * *
42510 ATGGAAAATGACTAAAATGATATTGACATGGATGGAACAACATTAAAAAT-CTCTAAGTC
1 ATGG-AAATGACTAAAATGAAATAAAAATGAATGGAATGACATCAAAAATCCCCTAAGTC
* *
42569 ATGGTAAATGACCAAAATGACATAAAAATGAATGGAATGACA-CAAAAATCC
1 ATGG-AAATGACTAAAATGAAATAAAAATGAATGGAATGACATCAAAAATCC
42620 TTAATATGCA
Statistics
Matches: 85, Mismatches: 22, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
58 13 0.15
59 72 0.85
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.23
Consensus pattern (59 bp):
ATGGAAATGACTAAAATGAAATAAAAATGAATGGAATGACATCAAAAATCCCCTAAGTC
Found at i:43292 original size:13 final size:12
Alignment explanation
Indices: 43276--43305 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
43266 TTCTTTTTGG
43276 TTTTTTTCTCTTT
1 TTTTTTTCT-TTT
43289 TTTTTTTCTTTT
1 TTTTTTTCTTTT
43301 TTTTT
1 TTTTT
43306 ATTTTGCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:43305 original size:11 final size:11
Alignment explanation
Indices: 43259--43305 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
43249 AAACTCTCCA
*
43259 TTTTCTTTTCT
1 TTTTCTTTTTT
**
43270 TTTTGGTTTTT
1 TTTTCTTTTTT
*
43281 TTCTCTTTTTT
1 TTTTCTTTTTT
43292 TTTTCTTTTTT
1 TTTTCTTTTTT
43303 TTT
1 TTT
43306 ATTTTGCCTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.85
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:44099 original size:19 final size:20
Alignment explanation
Indices: 44075--44113 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
44065 ATCAAAACCC
44075 AATG-ATGTATCGATACATT
1 AATGAATGTATCGATACATT
44094 AATGATATGTATCGATACAT
1 AATGA-ATGTATCGATACAT
44114 CTTTATGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
21 14 0.78
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (20 bp):
AATGAATGTATCGATACATT
Found at i:44768 original size:19 final size:19
Alignment explanation
Indices: 44744--44805 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
44734 TTTTGAATTT
44744 CAAACAATTTGTATCGATA
1 CAAACAATTTGTATCGATA
**
44763 CAAACAGTAAATGTATCGATA
1 CAAACA--ATTTGTATCGATA
* *
44784 CATA-AGTGTTGTATCGATA
1 CAAACAAT-TTGTATCGATA
44803 CAA
1 CAA
44806 TGTATAGATA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
19 18 0.55
20 1 0.03
21 14 0.42
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (19 bp):
CAAACAATTTGTATCGATA
Found at i:44816 original size:32 final size:32
Alignment explanation
Indices: 44772--44842 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
44762 ACAAACAGTA
*
44772 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATAGATACATAAGTGTTGTATCGATAC
*
44804 AATGTATAGATACATAAGTTTTGTATCGATAC
1 AATGTATAGATACATAAGTGTTGTATCGATAC
44836 AATGTAT
1 AATGTAT
44843 TGCTACGAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (32 bp):
AATGTATAGATACATAAGTGTTGTATCGATAC
Found at i:44834 original size:19 final size:19
Alignment explanation
Indices: 44751--44836 Score: 67
Period size: 19 Copynumber: 4.7 Consensus size: 19
44741 TTTCAAACAA
*
44751 TTTGTATCGATACAAACAGT
1 TTTGTATCGATACATA-AGT
**
44771 AAATGTATCGATACATAAGT
1 -TTTGTATCGATACATAAGT
*
44791 GTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
*
44806 --TGTATAGATACATAAGT
1 TTTGTATCGATACATAAGT
44823 TTTGTATCGATACA
1 TTTGTATCGATACA
44837 ATGTATTGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
13 10 0.19
15 2 0.04
17 2 0.04
19 22 0.42
20 3 0.06
21 13 0.25
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:44886 original size:13 final size:13
Alignment explanation
Indices: 44868--44895 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
44858 GCCAAGGAAA
44868 TGTATCGATACAT
1 TGTATCGATACAT
44881 TGTATCGATACAT
1 TGTATCGATACAT
44894 TG
1 TG
44896 ATCTTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:47443 original size:79 final size:79
Alignment explanation
Indices: 47371--47686 Score: 291
Period size: 79 Copynumber: 4.0 Consensus size: 79
47361 GGGATGTTCT
* * * *
47371 AACTCCGATTTTATTT-TCAAAACACCGACTTTTCACAATCGGGGATACTCCAACCCCATTATTT
1 AACTCCGATTTTATTTCT-AAAACATCGATTTTTCACAATCGAGGATACTCCAACCCCGTTATTT
* * *
47435 TCGAGGGGACAATCC
65 CCGAGGGGATACTCC
* * * ** * * *
47450 AAC-CCCAGCTTTATTTCTAAAATATTAATTTCTCATAATCGAGGATACTCCAACCCTGTTATTT
1 AACTCCGA-TTTTATTTCTAAAACATCGATTTTTCACAATCGAGGATACTCCAACCCCGTTATTT
47514 CCGAGGGGATACTCC
65 CCGAGGGGATACTCC
* * * * * * *
47529 AACCTCAG-TTTTATTTCTAAAACATCAATTTTTTTATAGTCGGGGATACTTCAACCCCGTTATT
1 AA-CTCCGATTTTATTTCTAAAACATCGA-TTTTTCACAATCGAGGATACTCCAACCCCGTTATT
*
47593 TCCGAGGGGATGCTCC
64 TCCGAGGGGATACTCC
* * *
47609 AA-TCCCGATTTTATTTCCAAATCATCGATTTTTCACAA-CTGAGGATACTTCAACCCCGTTATT
1 AACT-CCGATTTTATTTCTAAAACATCGATTTTTCACAATC-GAGGATACTCCAACCCCGTTATT
* *
47672 TTCAAGGGGATACTC
64 TCCGAGGGGATACTC
47687 TAACCCCGTT
Statistics
Matches: 191, Mismatches: 38, Indels: 16
0.78 0.16 0.07
Matches are distributed among these distances:
78 5 0.03
79 120 0.63
80 65 0.34
81 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
AACTCCGATTTTATTTCTAAAACATCGATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTC
CGAGGGGATACTCC
Found at i:60114 original size:7 final size:7
Alignment explanation
Indices: 60102--60151 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
60092 CTTTTTCAAA
60102 AAAAAAC
1 AAAAAAC
60109 AAAAAAAC
1 -AAAAAAC
*
60117 AAGAAAC
1 AAAAAAC
60124 --AAAAC
1 AAAAAAC
60129 AAAAAAC
1 AAAAAAC
60136 --AAAAC
1 AAAAAAC
60141 AAAAAAC
1 AAAAAAC
60148 AAAA
1 AAAA
60152 CAAAGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
5 9 0.25
7 20 0.56
8 7 0.19
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:60127 original size:12 final size:12
Alignment explanation
Indices: 60098--60155 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
60088 CATTCTTTTT
*
60098 CAAAAAAAAACAA
1 CAAAACAAAA-AA
* *
60111 AAAAACAAGAAA
1 CAAAACAAAAAA
60123 CAAAACAAAAAA
1 CAAAACAAAAAA
60135 CAAAACAAAAAA
1 CAAAACAAAAAA
60147 CAAAACAAA
1 CAAAACAAA
60156 GAAAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
12 33 0.82
13 7 0.17
ACGTcount: A:0.83, C:0.16, G:0.02, T:0.00
Consensus pattern (12 bp):
CAAAACAAAAAA
Found at i:61480 original size:55 final size:55
Alignment explanation
Indices: 61246--61892 Score: 715
Period size: 55 Copynumber: 11.3 Consensus size: 55
61236 TTCGCCCTTT
* *
61246 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
61302 AGTCCTCAAAGAGCAGGACGCTGTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGA--C-G---CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * *
61363 AGTCCTCAAAAAGCAGGACACCTTTC-AAGCCCACATAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * * **
61417 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCTCACAGAATTTGGTGGCATTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * * *
61472 TGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTCGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
61527 AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
61582 AGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCC-TTTC-----AAAGCCCACACAAGTTGGTGGCATTTTCC
* *
61643 AGTCTTCAAAGAGCAGGACGCCTCTT-AAAACCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * *
61698 AGTACTCAAAGAGCAGGATGCCTTTCAAAGCCTACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * **
61753 AGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCTACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGA--C--GC-CTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * **
61814 AGTCCTCAAAAAGTAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCATTTTTT
1 AGTCCTCAAAGAGCAGGACG-C----C-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
61875 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
61893 TGCACTTTAT
Statistics
Matches: 502, Mismatches: 61, Indels: 51
0.82 0.10 0.08
Matches are distributed among these distances:
54 51 0.10
55 231 0.46
56 22 0.04
58 2 0.00
59 4 0.01
60 5 0.01
61 156 0.31
62 31 0.06
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:61654 original size:226 final size:226
Alignment explanation
Indices: 61246--61892 Score: 817
Period size: 226 Copynumber: 2.8 Consensus size: 226
61236 TTCGCCCTTT
*
61246 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCCAGTCCTCAA
61311 AGAGCAGGACGCTGTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAG
65 AGAGCAGGA-GCTG---CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAG
* *
61376 CAGGACACC-TTTC-----AAGCCCACATAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
126 CAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGA
* * * * **
61435 CGCCT-TTCAAAGCTCACAGAATTTGGTGGCATTTTTT
190 CGCCTCTT-AAAACCCACACAAGTTGGTGGCATTTTCC
* * *
61472 TGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTCGGTGGCACTTCCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAA
* * * *
61537 GAGTAGGA-C-GCCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGA
66 GAGCAGGAGCTGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGA
*
61600 CACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCTTCAAAGAGCAGGACGCC
131 CACCTTTTC-TTTTAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACGCC
61665 TCTTAAAACCCACACAAGTTGGTGGCATTTTCC
194 TCTTAAAACCCACACAAGTTGGTGGCATTTTCC
* * * * * *
61698 AGTACTCAAAGAGCAGGATGCCTTTCAAAGCCTACACAAGTTGGTGGCATTTTTCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAA
* * ** *
61763 GAGCAGGATGCTTTCTCTTTGCAAAGCCTACACAAGTTGGTGGCACCTTCCAGTCCTCAAAAAGT
66 GAGCAGGA-GC-TGC-CTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGC
* * *
61828 AGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGA
127 AGGACACCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGA
61893 TGCACTTTAT
Statistics
Matches: 365, Mismatches: 39, Indels: 28
0.84 0.09 0.06
Matches are distributed among these distances:
219 54 0.15
220 4 0.01
222 1 0.00
223 1 0.00
225 23 0.06
226 178 0.49
227 2 0.01
228 1 0.00
230 1 0.00
231 8 0.02
232 88 0.24
233 4 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (226 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAA
GAGCAGGAGCTGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGA
CACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACGCCTC
TTAAAACCCACACAAGTTGGTGGCATTTTCC
Found at i:61677 original size:116 final size:115
Alignment explanation
Indices: 61246--61892 Score: 679
Period size: 116 Copynumber: 5.7 Consensus size: 115
61236 TTCGCCCTTT
* *
61246 AGTCCTCAAAGAGCAGGAC-GC---CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCC
*
61307 TCAAAGAGCAGGACGCTGTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
65 TCAAAGAGCAGGACGC---CT-C-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
61363 AGTCCTCAAAAAGCAGGACACCTTTC-----AAGCCCACATAAGTTGGTGGCACCTTT-CAGTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCC
* * * **
61422 TCAAAGAGCAGGACGCCT-TTCAAAGCTCACAGAATTTGGTGGCATTTTTT
65 TCAAAGAGCAGGACGCCTCTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * * *
61472 TGTCCTCAAAGAGCAGGAC-GC---CTTTTAAAGCCCACACAAGTCGGTGGCACTTCCCAGTCCT
1 AGTCCTCAAAGAGCAGGACACCTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
* * *
61533 CAAAGAGTAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCATTTTCT
66 CAAAGAGCAGGACGCCTCTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
61582 AGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
1 AGTCCTCAAAGAGCAGGACACC-TTTC-TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
* *
61647 TTCAAAGAGCAGGACGCCTCTT-AAAACCCACACAAGTTGGTGGCATTTTCC
64 CTCAAAGAGCAGGACGCCTCTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* ** * *
61698 AGTACTCAAAGAGCAGGATGCCTTTC----AAAGCCTACACAAGTTGGTGGCATTTTTCAGTCCT
1 AGTCCTCAAAGAGCAGGACACCTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
* * **
61759 CAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCTACACAAGTTGGTGGCACCTTCC
66 CAAAGAGCAGGACGC---CTC-TT-CAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * * **
61814 AGTCCTCAAAAAGTAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCATTTTTTAGTC
1 AGTCCTCAAAGAGCAGGACACC-TTTCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
61879 CTCAAAGAGCAGGA
64 CTCAAAGAGCAGGA
61893 TGCACTTTAT
Statistics
Matches: 450, Mismatches: 51, Indels: 53
0.81 0.09 0.10
Matches are distributed among these distances:
105 1 0.00
108 1 0.00
109 47 0.10
110 134 0.30
111 1 0.00
112 1 0.00
113 3 0.01
114 2 0.00
115 26 0.06
116 164 0.36
117 24 0.05
118 1 0.00
121 1 0.00
122 44 0.10
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (115 bp):
AGTCCTCAAAGAGCAGGACACCTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
CAAAGAGCAGGACGCCTCTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:61680 original size:171 final size:171
Alignment explanation
Indices: 61268--61892 Score: 712
Period size: 171 Copynumber: 3.6 Consensus size: 171
61258 GCAGGACGCC
* *
61268 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCTGTTTCCTTT
1 TTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGC---CT-C-TT
* *
61333 CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGACACCTTTC-AAGCCCAC
60 -AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCAC
* * *
61397 ATAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACGCC-TTTC-
124 ACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCT
* * * *** *
61443 ----AAAGCTCACAGAATTTGGTGGCATTTTTTTGTCCTCAAAGAGCAGGACGCCTTTTAAAGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCC
* * * * *
61504 CACACAAGTCGGTGGCACTTCCCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTT
66 CACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTT
61569 GGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCT
131 GGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCT
* *
61610 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCTTCAAAGAGCAGGACGCCTCTTAAAACC
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCC
* * *
61675 CACACAAGTTGGTGGCATTTTCCAGTACTCAAAGAGCAGGATGCCTTTCAAAGCCTACACAAGTT
66 CACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTT
**
61740 GGTGGCATTTT-TCAGTCCTCAAAGAGCAGGA-TGCTTTCTCT
131 GGTGGCATTTTCT-AGTCCTCAAAGAGCAGGACACCTTT-TCT
** * ** * *
61781 TTGCAAAGCCTACACAAGTTGGTGGCACCTTCCAGTCCTCAAAAAGTAGGACGCCTTTTCTTTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCC---TC--TT-
* **
61846 AAAGCCCACACGAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGA
60 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
61893 TGCACTTTAT
Statistics
Matches: 385, Mismatches: 49, Indels: 30
0.83 0.11 0.06
Matches are distributed among these distances:
164 53 0.14
165 43 0.11
166 4 0.01
167 1 0.00
170 30 0.08
171 208 0.54
174 2 0.01
176 2 0.01
177 42 0.11
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (171 bp):
TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCC
CACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTT
GGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCT
Found at i:65026 original size:79 final size:79
Alignment explanation
Indices: 64943--65295 Score: 399
Period size: 79 Copynumber: 4.5 Consensus size: 79
64933 CTTCGCAATC
* * *
64943 GGGGATATTCCAACTCCGATTTTATTTCCAAAATA-CTGACTTTTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATATC-GATTTTTCACAATCGGGGATACTCCAA
* *
65007 CCCTGTTATTTCTGA
65 CCCCGTTATTTCTAA
* * * ** * * *
65022 GGGGACACTCCAACCCCGACTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATATCGATTTTTCACAATCGGGGATACTCCAAC
*
65087 CCCGTTATTTCCAA
66 CCCGTTATTTCTAA
* * * * * * *
65101 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATCAATTTTTTTATAGTCGGGGATACTTCAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATATCGA-TTTTTCACAATCGGGGATACTCCAA
*
65166 CCCCGTTATTTCTGA
65 CCCCGTTATTTCTAA
* * *
65181 GGGGATGCTCCAATCCCGATTTTATTTCC-AAATCATCGATTTTTCACAACCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAT-ATCGATTTTTCACAATCGGGGATACTCCAA
65245 CCCCGTTATTT-TCAA
65 CCCCGTTATTTCT-AA
*
65260 GGGGATACTCCAACCCCG-TTATTATCTCCAAAATAT
1 GGGGATACTCCAACCCCGATT-TTATTTCCAAAATAT
65296 TAAATTTCGC
Statistics
Matches: 229, Mismatches: 39, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
78 3 0.01
79 160 0.70
80 66 0.29
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAATATCGATTTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTCTAA
Found at i:65109 original size:130 final size:128
Alignment explanation
Indices: 64853--65100 Score: 302
Period size: 130 Copynumber: 1.9 Consensus size: 128
64843 AAACATCAAT
* * * **
64853 TTTTCATAATCGGGGATACTCCAACCCCATTGTTTCCGAGGGGATACTCCAACCCCGGTTTTATT
1 TTTTCACAATCGGGGATACTCCAACCCCATTATTTCCGAGGGGACACTCCAACCCCGACTTTATT
* * * *
64918 TCTGAAACACCAATTCTTCGCAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAATACTGAC
66 TCTAAAACACCAATTCTTCACAATCGGGGATACTCCAACCCCG--TTTATTTCCAAAATACTGAC
** *
64983 TTTTCACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGGGACACTCCAACCCCGACTTTATT
1 TTTTCACAATCGGGGATACTCCAACCCCATTATTTCCGAGGGGACACTCCAACCCCGACTTTATT
* ** * *
65048 TCTAAAATATTAATT-TCTCATAATCGGGGATACTCTAACCCCG-TTATTTCCAA
66 TCTAAAACACCAATTCT-TCACAATCGGGGATACTCCAACCCCGTTTATTTCCAA
65101 GGGGATACTC
Statistics
Matches: 100, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
127 10 0.10
129 1 0.01
130 89 0.89
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (128 bp):
TTTTCACAATCGGGGATACTCCAACCCCATTATTTCCGAGGGGACACTCCAACCCCGACTTTATT
TCTAAAACACCAATTCTTCACAATCGGGGATACTCCAACCCCGTTTATTTCCAAAATACTGAC
Found at i:65193 original size:159 final size:159
Alignment explanation
Indices: 64992--65295 Score: 432
Period size: 159 Copynumber: 1.9 Consensus size: 159
64982 CTTTTCACAA
*
64992 TCGGGGATACTCCAACCCTGTTATTTCTGAGGGGACACTCCAACCCCGACTTTATTTCTAAAAT-
1 TCGGGGATACTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCCCGACTTTATTTC-AAAATC
* * * *
65056 ATTAATTTCTCATAATCGGGGATACTCTAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGT
65 ATCAATTTCTCACAACCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCC-GT
* *
65121 T-TTATTTCTAAAATATCAATTTTTTTATAG
129 TATTATCTCCAAAATATCAATTTTTTTATAG
* ** * * *
65151 TCGGGGATACTTCAACCCCGTTATTTCTGAGGGGATGCTCCAATCCCGATTTTATTTCCAAATCA
1 TCGGGGATACTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCCCGACTTTATTTCAAAATCA
* * *
65216 TCGATTTTTCACAACCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGTTA
66 TCAATTTCTCACAACCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGTTA
65281 TTATCTCCAAAATAT
131 TTATCTCCAAAATAT
65296 TAAATTTCGC
Statistics
Matches: 127, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
158 7 0.06
159 120 0.94
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (159 bp):
TCGGGGATACTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCCCGACTTTATTTCAAAATCA
TCAATTTCTCACAACCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGTTA
TTATCTCCAAAATATCAATTTTTTTATAG
Found at i:65326 original size:159 final size:159
Alignment explanation
Indices: 64943--65303 Score: 374
Period size: 159 Copynumber: 2.3 Consensus size: 159
64933 CTTCGCAATC
* * * * * * * **
64943 GGGGATATTCCAACTCCGATTTTATTTCCAAAATACTGACT-TTTCACAATCGGGGATAC-TCCA
1 GGGGATACTCCAACCCCGGTTTTATCTCCAAAATA-TCAATATTTCACAGTCGGAAATACTTCCA
* * *
65006 ACCCTGTTATTTCTGAGGGGACACTCCAACCCCGACTTTATTTCTAAAATATTAATTTCTCATAA
65 ACCCCGTTATTTCTGAGGGGACACTCCAACCCCGACTTTATTTCTAAAATATCAATTTCTCACAA
* *
65071 TCGGGGATACTCTAACCCCGTTATTTCCAA
130 CCGGGGATACTCCAACCCCGTTATTTCCAA
* * * * * **
65101 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATCAATTTTTTTATAGTCGGGGATACTT-CA
1 GGGGATACTCCAACCCCGGTTTTATCTCCAAAATATCAA-TATTTCACAGTCGGAAATACTTCCA
** * * * * *
65165 ACCCCGTTATTTCTGAGGGGATGCTCCAATCCCGATTTTATTTC-CAAATCATCGATTTTTCACA
65 ACCCCGTTATTTCTGAGGGGACACTCCAACCCCGACTTTATTTCTAAAAT-ATCAATTTCTCACA
*
65229 ACCGGGGATACTCCAACCCCGTTATTTTCAA
129 ACCGGGGATACTCCAACCCCGTTATTTCCAA
*
65260 GGGGATACTCCAACCCC-GTTATTATCTCCAAAATATTAA-ATTTC
1 GGGGATACTCCAACCCCGGTT-TTATCTCCAAAATATCAATATTTC
65304 GCATCGAGAA
Statistics
Matches: 171, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
157 5 0.03
158 39 0.23
159 126 0.74
160 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (159 bp):
GGGGATACTCCAACCCCGGTTTTATCTCCAAAATATCAATATTTCACAGTCGGAAATACTTCCAA
CCCCGTTATTTCTGAGGGGACACTCCAACCCCGACTTTATTTCTAAAATATCAATTTCTCACAAC
CGGGGATACTCCAACCCCGTTATTTCCAA
Found at i:68813 original size:15 final size:15
Alignment explanation
Indices: 68786--68826 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
68776 AAAATAAATC
68786 AAATTTAAAAAAACTT
1 AAATTT-AAAAAACTT
*
68802 AAATTTAAAAAATTT
1 AAATTTAAAAAACTT
*
68817 AAATTCAAAA
1 AAATTTAAAA
68827 TATCTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.74
16 6 0.26
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATTTAAAAAACTT
Found at i:73807 original size:45 final size:45
Alignment explanation
Indices: 73749--73854 Score: 185
Period size: 45 Copynumber: 2.4 Consensus size: 45
73739 TATCTCCATG
*
73749 TATCAACAGTAGGTTGGGACTGAGGTTGAGTGGGTTGTATAGATA
1 TATCAACAATAGGTTGGGACTGAGGTTGAGTGGGTTGTATAGATA
* *
73794 TATCAACAATAGGTTGGGATTGAGGTTGAGTGGGTTGTATAGATG
1 TATCAACAATAGGTTGGGACTGAGGTTGAGTGGGTTGTATAGATA
73839 TATCAACAATAGGTTG
1 TATCAACAATAGGTTG
73855 AATAGACTGT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.28, C:0.07, G:0.33, T:0.32
Consensus pattern (45 bp):
TATCAACAATAGGTTGGGACTGAGGTTGAGTGGGTTGTATAGATA
Found at i:78232 original size:2 final size:2
Alignment explanation
Indices: 78225--78261 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
78215 ACGGCAATTA
78225 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
78262 AAGTTCTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:84656 original size:13 final size:13
Alignment explanation
Indices: 84638--84663 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84628 ACATTTTGGG
84638 ATGTATCGATACA
1 ATGTATCGATACA
84651 ATGTATCGATACA
1 ATGTATCGATACA
84664 TAATGTGTGT
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:84658 original size:33 final size:32
Alignment explanation
Indices: 84616--84683 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
84606 CGTTACAAGC
**
84616 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATAATGGG-TGTATCGATA
*
84649 CAATGTATCGATACATAATGTGTGTATCGATA
1 CAATGTATCGATACATAATGGGTGTATCGATA
84681 CAA
1 CAA
84684 ACAGTTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (32 bp):
CAATGTATCGATACATAATGGGTGTATCGATA
Found at i:84771 original size:20 final size:21
Alignment explanation
Indices: 84720--84776 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
84710 AACTGCCAAT
*
84720 GACATGTATCGATACATTCTT
1 GACATGTATCGATACATTCTG
* *
84741 TACAAGTATCGATACATT-TG
1 GACATGTATCGATACATTCTG
*
84761 GCCATGTATCGATACA
1 GACATGTATCGATACA
84777 ATGTATCGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (21 bp):
GACATGTATCGATACATTCTG
Found at i:86788 original size:21 final size:21
Alignment explanation
Indices: 86757--86801 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
86747 GCTGCTAGTG
*
86757 TGGGGGCTGCCCCGTTGCGACC
1 TGGGGGCTG-CCCGTCGCGACC
*
86779 TGGGGG-TGCCGGTCGCGACC
1 TGGGGGCTGCCCGTCGCGACC
86799 TGG
1 TGG
86802 TTGGTGCTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 2 0.10
22 6 0.29
ACGTcount: A:0.04, C:0.31, G:0.47, T:0.18
Consensus pattern (21 bp):
TGGGGGCTGCCCGTCGCGACC
Found at i:87260 original size:13 final size:13
Alignment explanation
Indices: 87244--87279 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
87234 AAACCCCTTA
*
87244 TATCGATACACTG
1 TATCGATACAATG
87257 TATCGATACAATG
1 TATCGATACAATG
87270 TATCGATACA
1 TATCGATACA
87280 GAGAATGCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:87495 original size:8 final size:8
Alignment explanation
Indices: 87482--87507 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
87472 AACGTCATTC
87482 ATCACAAA
1 ATCACAAA
87490 ATCACAAA
1 ATCACAAA
87498 ATCACAAA
1 ATCACAAA
87506 AT
1 AT
87508 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:93350 original size:13 final size:13
Alignment explanation
Indices: 93332--93357 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93322 ACATTTTGGG
93332 ATGTATCGATACA
1 ATGTATCGATACA
93345 ATGTATCGATACA
1 ATGTATCGATACA
93358 TAATGTGTGT
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:93352 original size:33 final size:32
Alignment explanation
Indices: 93310--93377 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
93300 CGTTACAAGC
**
93310 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATAATGGG-TGTATCGATA
*
93343 CAATGTATCGATACATAATGTGTGTATCGATA
1 CAATGTATCGATACATAATGGGTGTATCGATA
93375 CAA
1 CAA
93378 ACAGTTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (32 bp):
CAATGTATCGATACATAATGGGTGTATCGATA
Found at i:93465 original size:20 final size:21
Alignment explanation
Indices: 93414--93470 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
93404 AACTGCCAAT
*
93414 GACATGTATCGATACATTCTT
1 GACATGTATCGATACATTCTG
* *
93435 TACAAGTATCGATACATT-TG
1 GACATGTATCGATACATTCTG
*
93455 GCCATGTATCGATACA
1 GACATGTATCGATACA
93471 ATGTATCGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (21 bp):
GACATGTATCGATACATTCTG
Found at i:95944 original size:104 final size:102
Alignment explanation
Indices: 95834--96198 Score: 370
Period size: 104 Copynumber: 3.6 Consensus size: 102
95824 TTAGAGTCAT
95834 TTAATATAATATAAACTCTATTTTTAAATATTTATTAATTAAATTTAAATAAATTAATAAAATTA
1 TTAATATAATATAAACTCTATTTTTAAATATTTATTAATTAAATTTAAATAAATTAATAAAATT-
*
95899 AAAATTTAAATAGAAACTTTTTATTATTTTTAAAATAGA
65 AAAATTTAAATAGAAA-TTTTTATTAATTTTAAAATAGA
* *** * * *
95938 TTAATATCAT-GCGACTTTTATCTTTAAATA--T-TT-GTT-AATTTAAATAAATTAATAAAATT
1 TTAATATAATATAAAC-TCTATTTTTAAATATTTATTAATTAAATTTAAATAAATTAATAAAATT
** * * * *
95997 TCATTTTAAATTGGATATTTTT-TTAATTTTAAAAT-CA
65 AAAATTTAAA-TAGAAATTTTTATTAATTTTAAAATAGA
* * * *
96034 TTAATATTATATAAACTCTATTTTTAAATATTTATGAATTAGAGTTAAATAAATTAATAAAATTG
1 TTAATATAATATAAACTCTATTTTTAAATATTTATTAATTAAATTTAAATAAATTAATAAAATT-
* ** *
96099 AATATTTAAATAGAAAAAATTTATTAATTTTAAAGTAGA
65 AAAATTTAAATAG-AAATTTTTATTAATTTTAAAATAGA
* * * *
96138 TTAATATAATGTGAACTTTATTTTTAAATATCTATTAATTTAAATTTAAAT-AATTAATAAA
1 TTAATATAATATAAACTCTATTTTTAAATATTTATTAA-TTAAATTTAAATAAATTAATAAA
96199 TTTTTATTTT
Statistics
Matches: 206, Mismatches: 42, Indels: 26
0.75 0.15 0.09
Matches are distributed among these distances:
96 22 0.11
97 14 0.07
98 13 0.06
99 28 0.14
100 4 0.02
101 25 0.12
102 12 0.06
103 14 0.07
104 64 0.31
105 10 0.05
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (102 bp):
TTAATATAATATAAACTCTATTTTTAAATATTTATTAATTAAATTTAAATAAATTAATAAAATTA
AAATTTAAATAGAAATTTTTATTAATTTTAAAATAGA
Found at i:96084 original size:200 final size:204
Alignment explanation
Indices: 95767--96182 Score: 556
Period size: 200 Copynumber: 2.1 Consensus size: 204
95757 TGTAGTTCAT
* *
95767 TTAAGTTTAAATAAATTAATAAAACTTATATATTTAAACAAGGATAGTTTACTAATTTTAGAGTC
1 TTAA-TTTAAATAAATTAATAAAACTTATATATTTAAACAAGGATAGTTTACTAATTTTAAAATC
* *
95832 ATTTAATATAATATAAACTCTATTTTTAAATATTTATTAATTAAATTTAAATAAATTAATAAAAT
65 ATTTAATATAATATAAACTCTATTTTTAAATATTTATGAATTAAAGTTAAATAAATTAATAAAAT
*** * *
95897 TAAAAATTTAAATAGAAACTTTTTATTATTTTTAAAATAGATTAATATCATGCG-ACTTTTATCT
130 TAAAAATTTAAATAGAAAAAATTTATTAATTTTAAAATAGATTAATATAATGCGAAC-TTTATCT
* *
95961 TTAAATATTTG
194 TTAAATATCTA
** * **
95972 TTAATTTAAATAAATTAATAAAA-TT-TCAT-TTTAAA-TTGGATATTTTTTTAATTTTAAAATC
1 TTAATTTAAATAAATTAATAAAACTTAT-ATATTTAAACAAGGATAGTTTACTAATTTTAAAATC
* *
96033 A-TTAATATTATATAAACTCTATTTTTAAATATTTATGAATTAGAGTTAAATAAATTAATAAAAT
65 ATTTAATATAATATAAACTCTATTTTTAAATATTTATGAATTAAAGTTAAATAAATTAATAAAAT
* * * * *
96097 TGAATATTTAAATAGAAAAAATTTATTAATTTTAAAGTAGATTAATATAATGTGAACTTTATTTT
130 TAAAAATTTAAATAGAAAAAATTTATTAATTTTAAAATAGATTAATATAATGCGAACTTTATCTT
96162 TAAATATCTA
195 TAAATATCTA
96172 TTAATTTAAAT
1 TTAATTTAAAT
96183 TTAAATAATT
Statistics
Matches: 186, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
200 130 0.70
201 22 0.12
202 7 0.04
203 4 0.02
204 19 0.10
205 4 0.02
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (204 bp):
TTAATTTAAATAAATTAATAAAACTTATATATTTAAACAAGGATAGTTTACTAATTTTAAAATCA
TTTAATATAATATAAACTCTATTTTTAAATATTTATGAATTAAAGTTAAATAAATTAATAAAATT
AAAAATTTAAATAGAAAAAATTTATTAATTTTAAAATAGATTAATATAATGCGAACTTTATCTTT
AAATATCTA
Found at i:96373 original size:17 final size:17
Alignment explanation
Indices: 96351--96411 Score: 56
Period size: 16 Copynumber: 3.7 Consensus size: 17
96341 TTTTGAAATT
96351 TTTGGGTCATTTTCGAG
1 TTTGGGTCATTTTCGAG
*
96368 TTTGGGT-AATTTC-AG
1 TTTGGGTCATTTTCGAG
* *
96383 ATTGAGGTCATTTTAGA-
1 TTTG-GGTCATTTTCGAG
*
96400 TTTGAGTCATTT
1 TTTGGGTCATTT
96412 CAGTTTCGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
15 5 0.14
16 15 0.43
17 14 0.40
18 1 0.03
ACGTcount: A:0.20, C:0.08, G:0.25, T:0.48
Consensus pattern (17 bp):
TTTGGGTCATTTTCGAG
Found at i:96395 original size:16 final size:15
Alignment explanation
Indices: 96376--96429 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 15
96366 AGTTTGGGTA
96376 ATTTCAGATTGAGGTC
1 ATTTCAGATTGA-GTC
*
96392 ATTTTAGATTTGAGTC
1 ATTTCAGA-TTGAGTC
*
96408 ATTTCAGTTTCGAGTC
1 ATTTCAGATT-GAGTC
96424 ATTTCA
1 ATTTCA
96430 AGTTCGAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 2 0.06
16 27 0.82
17 4 0.12
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (15 bp):
ATTTCAGATTGAGTC
Found at i:96425 original size:32 final size:33
Alignment explanation
Indices: 96355--96445 Score: 89
Period size: 32 Copynumber: 2.8 Consensus size: 33
96345 GAAATTTTTG
* *
96355 GGTCATTTTCGAGTTTGGGTAATTTCAGATTGA
1 GGTCATTTTAGAGTTTGAGTAATTTCAGATTGA
* *
96388 GGTCATTTTAGA-TTTGAGTCATTTCAGTTTCGA
1 GGTCATTTTAGAGTTTGAGTAATTTCAGATT-GA
* * *
96421 -GTCATTTCA-AGTTCGAGTTATTTCA
1 GGTCATTTTAGAGTTTGAGTAATTTCA
96446 AGTTTGGGTC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
31 1 0.02
32 35 0.71
33 13 0.27
ACGTcount: A:0.22, C:0.12, G:0.22, T:0.44
Consensus pattern (33 bp):
GGTCATTTTAGAGTTTGAGTAATTTCAGATTGA
Found at i:96435 original size:16 final size:16
Alignment explanation
Indices: 96403--96449 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
96393 TTTTAGATTT
96403 GAGTCATTTC-AGTTTC
1 GAGTCATTTCAAG-TTC
96419 GAGTCATTTCAAGTTC
1 GAGTCATTTCAAGTTC
*
96435 GAGTTATTTCAAGTT
1 GAGTCATTTCAAGTT
96450 TGGGTCAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 27 0.93
17 2 0.07
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (16 bp):
GAGTCATTTCAAGTTC
Found at i:96509 original size:53 final size:54
Alignment explanation
Indices: 96448--96561 Score: 142
Period size: 53 Copynumber: 2.1 Consensus size: 54
96438 TTATTTCAAG
* * *
96448 TTTGGGTCAATCGGGTTTAATACTTAAGTT-AATTAAGTTCGAA-TCATTTTGGA
1 TTTGGGTCAATCGAGTTTAACACTTAAGTTGAATTAAGTT-GAAGTCATTTTAGA
* * * *
96501 TTTGGGTCAATCGAGTTTAACATTTGAGTTGAATTATGTTTAAGTCATTTTAGA
1 TTTGGGTCAATCGAGTTTAACACTTAAGTTGAATTAAGTTGAAGTCATTTTAGA
96555 TTTGGGT
1 TTTGGGT
96562 TTGAATCAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 28 0.54
54 24 0.46
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (54 bp):
TTTGGGTCAATCGAGTTTAACACTTAAGTTGAATTAAGTTGAAGTCATTTTAGA
Found at i:97854 original size:16 final size:16
Alignment explanation
Indices: 97830--97886 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
97820 TAATTATTTA
*
97830 AGTCTTTTCGAGTTTG
1 AGTCATTTCGAGTTTG
* **
97846 AGTCATTTCGAATTCA
1 AGTCATTTCGAGTTTG
* * *
97862 AATTATTTTGAGTTTG
1 AGTCATTTCGAGTTTG
97878 AGTCATTTC
1 AGTCATTTC
97887 AAATTCGAAT
Statistics
Matches: 28, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.47
Consensus pattern (16 bp):
AGTCATTTCGAGTTTG
Found at i:97875 original size:32 final size:33
Alignment explanation
Indices: 97834--97901 Score: 111
Period size: 32 Copynumber: 2.1 Consensus size: 33
97824 TATTTAAGTC
*
97834 TTTTCGAGTTTGAGTCATTTCGAATTCAAATTA
1 TTTTCGAGTTTGAGTCATTTCAAATTCAAATTA
*
97867 TTTT-GAGTTTGAGTCATTTCAAATTCGAATTA
1 TTTTCGAGTTTGAGTCATTTCAAATTCAAATTA
97899 TTT
1 TTT
97902 CAAGTTCAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 29 0.88
33 4 0.12
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (33 bp):
TTTTCGAGTTTGAGTCATTTCAAATTCAAATTA
Found at i:97916 original size:32 final size:32
Alignment explanation
Indices: 97835--97917 Score: 87
Period size: 32 Copynumber: 2.6 Consensus size: 32
97825 ATTTAAGTCT
* * *
97835 TTTCGAGTTTGAGTCATTTCGAATTCAAATTA
1 TTTCAAGTTAGAGTCATTTCAAATTCAAATTA
** * *
97867 TTTTGAGTTTGAGTCATTTCAAATTCGAATTA
1 TTTCAAGTTAGAGTCATTTCAAATTCAAATTA
97899 TTTCAAGTTCAGA-TCATTT
1 TTTCAAGTT-AGAGTCATTT
97918 TGAATTTAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
32 42 0.95
33 2 0.05
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (32 bp):
TTTCAAGTTAGAGTCATTTCAAATTCAAATTA
Found at i:98043 original size:22 final size:25
Alignment explanation
Indices: 97994--98047 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
97984 TTTTTTTATC
97994 AAATTGAATTGAATTAAATTTAAATTT
1 AAATTGAATTGAATTAAATTT--ATTT
98021 AAATT-AATT-AATTAAATTT-TTT
1 AAATTGAATTGAATTAAATTTATTT
98043 AAATT
1 AAATT
98048 TAAATTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 8 0.30
25 10 0.37
26 4 0.15
27 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (25 bp):
AAATTGAATTGAATTAAATTTATTT
Found at i:102669 original size:20 final size:21
Alignment explanation
Indices: 102632--102670 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
102622 ACAAAAGTCT
*
102632 TAAAAAGAAATAAAATGAAAA
1 TAAAAACAAATAAAATGAAAA
*
102653 TAAAAACAAA-AATATGAA
1 TAAAAACAAATAAAATGAA
102671 TTTTTATGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (21 bp):
TAAAAACAAATAAAATGAAAA
Found at i:102910 original size:6 final size:6
Alignment explanation
Indices: 102901--102927 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
102891 TTATACCATC
102901 CATCTT CATCTT CATCTT CATCTT CAT
1 CATCTT CATCTT CATCTT CATCTT CAT
102928 TTTCTTTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.48
Consensus pattern (6 bp):
CATCTT
Found at i:104586 original size:17 final size:18
Alignment explanation
Indices: 104555--104588 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
104545 ATTTTCTTTT
*
104555 TATTTTTCATTAAAATTA
1 TATTTTTCATAAAAATTA
104573 TATTTTTC-TAAAAATT
1 TATTTTTCATAAAAATT
104589 GAGATCATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTTTCATAAAAATTA
Found at i:106659 original size:163 final size:161
Alignment explanation
Indices: 106475--106958 Score: 548
Period size: 164 Copynumber: 3.0 Consensus size: 161
106465 ATTCTTTTTA
* * * * * * *
106475 TTTTCAAATTACGGGGTTTTCTTCTCCAAAAATTTTTTTGGGAGGATTTTCATGGGTTTAAAATT
1 TTTTCAAA-TACGGAGTTTTCTTCTCCATAAATTTTTTTGGAAGGATTTTCTTGGTTTTTAATTT
*
106540 TTATAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTTAAAAAATTAATTTATTG
65 TTA-AAATTCATAAAATATTATTATTTAATTCATATTAAATCA-TTTTAAAAAATTAATTTATT-
106605 TCATGAGTTTTGAAATTTTTCCTTGAAA-TTC-TT
127 TCATGAGTTTTGAAATTTTTCCTTGAAATTTCGTT
* * * *
106638 TTTTCGAAATACGGAGTTTTCTAT-TTCGTAAA-TGTTTTCGAATGGATATTTCTTGGTTTTTAA
1 TTTTC-AAATACGGAGTTTTCT-TCTCCATAAATTTTTTTGGAA-GGAT-TTTCTTGGTTTTTAA
* *
106701 TTTTTAAAATTCATAAAATATTATAATTTAATTCATATTAAATCATTTTTAAAATATTAATTTAT
62 TTTTTAAAATTCATAAAATATTATTATTTAATTCATATTAAATCA-TTTTAAAAAATTAATTTA-
106766 TTTCATGAGTTTTTG-AATTTTTCCTTGAAATTTCGTT
125 TTTCATGAG-TTTTGAAATTTTTCCTTGAAATTTCGTT
* * * * * * * * *
106803 TTTTAAAAAATGAATTTTTCTACTCCATAAATGTTTTCGAAAGGATTTTTCTTGGTTTTTAATTT
1 TTTTCAAATACGGAGTTTTCTTCTCCATAAATTTTTTTGGAAGGA-TTTTCTTGGTTTTTAATTT
* * *
106868 TTAAAATTCATAAAATATTA-TAGTTTATTTCATATTAAATCATATTTGAAAAATTAATTCATCT
65 TTAAAATTCATAAAATATTATTA-TTTAATTCATATTAAATCAT-TTTAAAAAATTAATTTAT-T
*
106932 TCATGAGTTTTTAAATTTTTCCTTGAA
127 TCATGAGTTTTGAAATTTTTCCTTGAA
106959 TTTTTTCTGA
Statistics
Matches: 272, Mismatches: 34, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
162 7 0.03
163 109 0.40
164 144 0.53
165 12 0.04
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.49
Consensus pattern (161 bp):
TTTTCAAATACGGAGTTTTCTTCTCCATAAATTTTTTTGGAAGGATTTTCTTGGTTTTTAATTTT
TAAAATTCATAAAATATTATTATTTAATTCATATTAAATCATTTTAAAAAATTAATTTATTTCAT
GAGTTTTGAAATTTTTCCTTGAAATTTCGTT
Found at i:106883 original size:164 final size:162
Alignment explanation
Indices: 106538--107000 Score: 585
Period size: 164 Copynumber: 2.8 Consensus size: 162
106528 GGGTTTAAAA
* * *
106538 TTTTATAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTTAAAAAATTAATTTAT
1 TTTTA-AAATTCATAAAATATTATAATTTAATTCATATTAAATCA-TTTTTAAAAATTAATTTAT
* * * * * * *
106603 TGTCATGAG-TTTTGAAATTTTTCCTTGAAATTCTTTTTTCGAAATACGGAGTTTTCTATTTCGT
64 TTTCATGAGTTTTTG-AATTTTTCCTTGAAATTCTTTTTTCAAAAAACGAAGTTTTCTACTCCAT
*
106667 AAATGTTTTCGAATGGATATTTCTTGGTTTTTAAT
128 AAATGTTTTCGAAAGGATATTTCTTGGTTTTTAAT
106702 TTTTAAAATTCATAAAATATTATAATTTAATTCATATTAAATCATTTTTAAAATATTAATTTATT
1 TTTTAAAATTCATAAAATATTATAATTTAATTCATATTAAATCATTTTTAAAA-ATTAATTTATT
* *
106767 TTCATGAGTTTTTGAATTTTTCCTTGAAATTTCGTTTTTT-AAAAAATGAATTTTTCTACTCCAT
65 TTCATGAGTTTTTGAATTTTTCCTTGAAA-TTC-TTTTTTCAAAAAACGAAGTTTTCTACTCCAT
*
106831 AAATGTTTTCGAAAGGATTTTTCTTGGTTTTTAAT
128 AAATGTTTTCGAAAGGATATTTCTTGGTTTTTAAT
* * * * *
106866 TTTTAAAATTCATAAAATATTATAGTTTATTTCATATTAAATCATATTTGAAAAATTAATTCATC
1 TTTTAAAATTCATAAAATATTATAATTTAATTCATATTAAATCAT-TTTTAAAAATTAATTTATT
* * * ** * *
106931 TTCATGAGTTTTTAAATTTTTCCTTG-AATT-TTTTCTGAAAAATTG-AGTTTTCTATTCCACAA
65 TTCATGAGTTTTTGAATTTTTCCTTGAAATTCTTTTTTCAAAAAACGAAGTTTTCTACTCCATAA
*
106993 AAGTTTTC
130 ATGTTTTC
107001 AAGGGGTTTT
Statistics
Matches: 267, Mismatches: 26, Indels: 16
0.86 0.08 0.05
Matches are distributed among these distances:
160 26 0.10
161 7 0.03
162 10 0.04
163 72 0.27
164 139 0.52
165 13 0.05
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (162 bp):
TTTTAAAATTCATAAAATATTATAATTTAATTCATATTAAATCATTTTTAAAAATTAATTTATTT
TCATGAGTTTTTGAATTTTTCCTTGAAATTCTTTTTTCAAAAAACGAAGTTTTCTACTCCATAAA
TGTTTTCGAAAGGATATTTCTTGGTTTTTAAT
Found at i:110035 original size:20 final size:20
Alignment explanation
Indices: 110010--110080 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
110000 ATTTTACCCA
110010 GATGTATC-AGTGCATTATTC
1 GATGTATCGA-TGCATTATTC
110030 GATGTATCGATGCATTATTC
1 GATGTATCGATGCATTATTC
* **
110050 AATGTATCGATATATTATTC
1 GATGTATCGATGCATTATTC
* *
110070 AATATATCGAT
1 GATGTATCGAT
110081 ACATGCAGGC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
20 45 0.98
21 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (20 bp):
GATGTATCGATGCATTATTC
Found at i:110036 original size:50 final size:51
Alignment explanation
Indices: 109907--110045 Score: 165
Period size: 51 Copynumber: 2.7 Consensus size: 51
109897 TAAAATTGTT
* * * *
109907 CAAATGTATCGATACATTATTTACTGTATCGATACATTCTGGTTTTTTACC
1 CAAATGTATCAATACATTATTCATTGTATCGATACATTCTGGTATTTTACC
* *
109958 TAAATGTATCAATACATTCTTCATTGTATCGATACATTCTGG-ATTTTACC
1 CAAATGTATCAATACATTATTCATTGTATCGATACATTCTGGTATTTTACC
* * * *
110008 CAGATGTATCAGTGCATTATTCGA-TGTATCGATGCATT
1 CAAATGTATCAATACATTATTC-ATTGTATCGATACATT
110046 ATTCAATGTA
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
50 37 0.49
51 38 0.51
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (51 bp):
CAAATGTATCAATACATTATTCATTGTATCGATACATTCTGGTATTTTACC
Found at i:110081 original size:20 final size:20
Alignment explanation
Indices: 110022--110084 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
110012 TGTATCAGTG
* *
110022 CATTATTCGATGTATCGATG
1 CATTATTCAATGTATCGATA
110042 CATTATTCAATGTATCGATA
1 CATTATTCAATGTATCGATA
* *
110062 TATTATTCAATATATCGATA
1 CATTATTCAATGTATCGATA
110082 CAT
1 CAT
110085 GCAGGCAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.41
Consensus pattern (20 bp):
CATTATTCAATGTATCGATA
Found at i:114853 original size:48 final size:48
Alignment explanation
Indices: 114772--114949 Score: 225
Period size: 48 Copynumber: 3.8 Consensus size: 48
114762 AGAGGGGTGC
** * *
114772 CAATGTGCCAATTCAAGGCCAACGACATCGAGCTAAGGGAAAAATGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAATGGA
* * * *
114820 CAATATGTTGATTCAAGGCTAGCGACATTGAGCTAAAGG--AAATGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAATGGA
* **
114866 CAATGTACTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAGGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAATGGA
* *
114914 TAATGTGCTGATTCAAGGCCAGTGACATTGAGCTAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA
114950 TAAAGGTGCC
Statistics
Matches: 110, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
46 41 0.37
48 69 0.63
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAATGGA
Found at i:115303 original size:111 final size:112
Alignment explanation
Indices: 115061--116074 Score: 726
Period size: 111 Copynumber: 8.5 Consensus size: 112
115051 TTTTTAAAAA
* *
115061 AAAATGGTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTATGGGCTTTGAA
1 AAAA-GGTGCCACTGAC-T-TGTGGGCTTTGAAAAG-G-TGCCACCGACT--TGTGGGCTTTG-A
* * * *
115126 AAGAGTTACCACTTG-CTTGTGGGCTTTGAAA-GAGTGCTACTGACTTGTGGGCTTTG
58 AAG-GATGCCAC-TGACTTGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTG
** * * ***
115182 AATTGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCAACTGACTTGTGGAAATTGAAAGGATGC
1 AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACCGACTTGTGGGCTTTGAAAGGATGC
* *
115247 CACTGACTCGTGGGCTTTG-AAGGATGCCACTAACTCGTGGGCTTTG
66 CACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTG
* ** * ** *
115293 AAAAGCTGCCACTGACGCGTGGGCTTTGAAAAGCTGCCACTAACTTGTGGGCTTGGAAAGGATGC
1 AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACCGACTTGTGGGCTTTGAAAGGATGC
* *
115358 CACTGACTTGT-GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
66 CACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTG
* * * * *
115404 -TAAGATGCCATTGACTTGTGGGTTTTGAAATGGGTTGCCACCCGACTTGTGTGGGCTTTGAAAT
1 AAAAGGTGCCACTGACTTGTGGGCTTTGAAA-AGG-TGCCA-CCGAC-T-TGTGGGCTTTG-AA-
* *
115468 AGGTTGCCACTGACTTGTGTGGGCTTTGAAGTAGGTTGCCACTAACTTGTGTGGGCTTTG
59 AGGATGCCACTGAC-T-TGTGGGCTTTGAA--AGGATGCCACTAAC-T-TGTGGGCTTTG
* ** * * * **
115528 AAATGGGTTGCCACCAACTTGTGTGGGCTTTGACATGAGTTACCACCGACGCGTGGGCTTTGAAA
1 AAA-AGG-TGCCACTGAC-T-TGTGGGCTTTGA-A-AAGGTGCCACCGACTTGTGGGCTTTGAAA
* * * *
115593 AGTTGCCACTAACTTGTGGGCTTGGAAAGGATGCCACTAACTTGTGGGCTTTG
60 GGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTG
* * *
115646 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAAATGGGTT
1 AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACCGACTTGTGGGCTTTGAAA--GGAT
* * * * **
115711 GCCACCGACTTGTGTGAGCTTTAAAATAGGTTACCACCGACTTGTGTGGTCTTTG
64 GCCACTGACTTGTG-G-GCTTT-GAA-AGGATGCCACTAACTTGTG-GG-CTTTG
** * **
115766 AAATAGGTTGCCACCAACTTGTGTAGGCTTTGAAACGAGTTGCCACCGACTTGTGTGGGCTTTCC
1 AAA-AGG-TGCCACTGACTTGTG--GGCTTTGAAA--AGGTGCCACCGAC-T-TGTGGGCTTTGA
* ** * *
115831 AATGACTTGCCACCAACTTGTGTGGGCTTTAAAATAGGTTGCCA-TCAACTTGTGTGGGCTTTG
58 AAGGA--TGCCACTGAC-T-TGTGGGCTTT-GAA-AGGATGCCACT-AAC-T-TGTGGGCTTTG
* * * * *
115894 ACATAGGTTGCCACTAACTTGTTTGGGCTTTGAAATGAGTTGCCATCGACTTGTGTGGGCTTTCA
1 A-AAAGG-TGCCACTGACTTG--TGGGCTTTGAAA--AGGTGCCACCGAC-T-TGTGGGCTTTGA
* * *
115959 AAGGATGCCACTGACTTTTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
58 AAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTG
* * * * *
116014 AAAAGATGCCACCGACTTGTGGGCTTTGAAATGGGTTGCCACCGGCTTATGGGCTTTGAAA
1 AAAAGGTGCCACTGACTTGTGGGCTTTGAAA-AGG-TGCCACCGACTTGTGGGCTTTGAAA
116075 TGGGTTG
Statistics
Matches: 728, Mismatches: 113, Indels: 111
0.76 0.12 0.12
Matches are distributed among these distances:
110 31 0.04
111 111 0.15
112 49 0.07
113 8 0.01
114 47 0.06
115 14 0.02
116 43 0.06
117 19 0.03
118 57 0.08
119 10 0.01
120 53 0.07
121 5 0.01
122 47 0.06
123 5 0.01
124 42 0.06
125 4 0.01
126 32 0.04
127 8 0.01
128 110 0.15
129 21 0.03
130 12 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (112 bp):
AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACCGACTTGTGGGCTTTGAAAGGATGC
CACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTG
Found at i:115488 original size:32 final size:29
Alignment explanation
Indices: 115081--116074 Score: 704
Period size: 28 Copynumber: 33.5 Consensus size: 29
115071 CACTAACTTG
*
115081 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTGAAAAG-GTTGCCACTGACT
* *
115111 CGTATGGGCTTTGAAAAGAGTTACCACTTG-CT
1 --TGTGGGCTTTGAAAAG-GTTGCCAC-TGACT
*
115143 TGTGGGCTTTG-AAAGAG-TGCTACTGACT
1 TGTGGGCTTTGAAAAG-GTTGCCACTGACT
**
115171 TGTGGGCTTTGAATTGG-TGCCACTGACT
1 TGTGGGCTTTGAAAAGGTTGCCACTGACT
*
115199 TGTGGGCTTTGAAAAGG-TGCAACTGACT
1 TGTGGGCTTTGAAAAGGTTGCCACTGACT
*** *
115227 TGTGGAAATTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGTTGCCACTGACT
* * *
115255 CGTGGGCTTTG--AAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGTTGCCACTGACT
* * *
115282 CGTGGGCTTTGAAAA-GCTGCCACTGACG
1 TGTGGGCTTTGAAAAGGTTGCCACTGACT
* * *
115310 CGTGGGCTTTGAAAA-GCTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTTGCCACTGACT
* *
115338 TGTGGGC-TTGGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGTTGCCACTGACT
*
115366 TGT-GGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTTGCCACTGACT
* * *
115393 TGTGGGCTTTG-TAA-GATGCCATTGACT
1 TGTGGGCTTTGAAAAGGTTGCCACTGACT
* * *
115420 TGTGGGTTTTGAAATGGGTTGCCACCCGACTT
1 TGTGGGCTTTGAAA-AGGTTGCCA-CTGAC-T
115452 GTGTGGGCTTTGAAATAGGTTGCCACTGACTT
1 -TGTGGGCTTTGAAA-AGGTTGCCACTGAC-T
* *
115484 GTGTGGGCTTTGAAGTAGGTTGCCACTAACTT
1 -TGTGGGCTTTGAA-AAGGTTGCCACTGAC-T
* **
115516 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA-AGGTTGCCACTGAC-T
* * * * *
115548 GTGTGGGCTTTGACATGAGTTACCACCGACG
1 -TGTGGGCTTTGAAAAG-GTTGCCACTGACT
* *
115579 CGTGGGCTTTGAAAA-GTTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTTGCCACTGACT
* * *
115607 TGTGGGC-TTGGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGTTGCCACTGACT
*
115635 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTTGCCACTGACT
* *
115663 TGTGGGCTTTGAAAA-GATGCCACCGACT
1 TGTGGGCTTTGAAAAGGTTGCCACTGACT
* *
115691 TGTGGGCTTTGAAATGGGTTGCCACCGACT
1 TGTGGGCTTTGAAA-AGGTTGCCACTGACT
* * *
115721 TGTGTGAGCTTTAAAATAGGTTACCACCGACT
1 TGTG-G-GCTTTGAAA-AGGTTGCCACTGACT
**
115753 TGTGTGGTCTTTGAAATAGGTTGCCACCAACT
1 TGTG-GG-CTTTGAAA-AGGTTGCCACTGACT
* *
115785 TGTGTAGGCTTTGAAACGAGTTGCCACCGACTT
1 TGTG--GGCTTTGAAAAG-GTTGCCACTGAC-T
** * * **
115818 GTGTGGGCTTTCCAATGACTTGCCACCAACTT
1 -TGTGGGCTTTGAAAAG-GTTGCCACTGAC-T
* *
115850 GTGTGGGCTTTAAAATAGGTTGCCA-TCAACTT
1 -TGTGGGCTTTGAAA-AGGTTGCCACT-GAC-T
* *
115882 GTGTGGGCTTTGACATAGGTTGCCACTAACT
1 -TGTGGGCTTTGA-AAAGGTTGCCACTGACT
*
115913 TGTTTGGGCTTTGAAATGAGTTGCCA-TCGACTT
1 TG--TGGGCTTTGAAAAG-GTTGCCACT-GAC-T
* *
115946 GTGTGGGCTTT-CAAAGGATGCCACTGACT
1 -TGTGGGCTTTGAAAAGGTTGCCACTGACT
* *
115975 TTTGGGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTTGCCACTGACT
* *
116003 TGTGGGCTTTGAAAA-GATGCCACCGACT
1 TGTGGGCTTTGAAAAGGTTGCCACTGACT
* * *
116031 TGTGGGCTTTGAAATGGGTTGCCACCGGCT
1 TGTGGGCTTTGAAA-AGGTTGCCACTGACT
*
116061 TATGGGCTTTGAAA
1 TGTGGGCTTTGAAA
116075 TGGGTTG
Statistics
Matches: 812, Mismatches: 105, Indels: 92
0.80 0.10 0.09
Matches are distributed among these distances:
27 88 0.11
28 292 0.36
29 20 0.02
30 79 0.10
31 15 0.02
32 282 0.35
33 30 0.04
34 6 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAGGTTGCCACTGACT
Found at i:115586 original size:30 final size:31
Alignment explanation
Indices: 115421--115934 Score: 148
Period size: 32 Copynumber: 16.6 Consensus size: 31
115411 CCATTGACTT
* * * * *
115421 GTGGGTTTTGAAATGGGTTGCCACCCGACTTGT
1 GTGGGCTTTGAAATGAGTTACCA-CCAAC-TGC
* ** *
115454 GTGGGCTTTGAAAT-AGGTTGCCACTGACTTGT
1 GTGGGCTTTGAAATGA-GTTACCACCAAC-TGC
* * * *
115486 GTGGGCTTTGAAGT-AGGTTGCCACTAACTTGT
1 GTGGGCTTTGAAATGA-GTTACCACCAAC-TGC
* * *
115518 GTGGGCTTTGAAATGGGTTGCCACCAACTTGT
1 GTGGGCTTTGAAATGAGTTACCACCAAC-TGC
* *
115550 GTGGGCTTTGACATGAGTTACCACCGAC-GC
1 GTGGGCTTTGAAATGAGTTACCACCAACTGC
* * *
115580 GTGGGCTTTGAAA--AGTTGCCACTAACT-T
1 GTGGGCTTTGAAATGAGTTACCACCAACTGC
* * * * *
115608 GTGGGCTTGGAAA-G-GATGCCACTAACT-T
1 GTGGGCTTTGAAATGAGTTACCACCAACTGC
* * ** *
115636 GTGGGCTTTGAAA-G-GGTGCCACTGACT-T
1 GTGGGCTTTGAAATGAGTTACCACCAACTGC
* * * *
115664 GTGGGCTTTGAAA--AGATGCCACCGACT-T
1 GTGGGCTTTGAAATGAGTTACCACCAACTGC
* * * *
115692 GTGGGCTTTGAAATGGGTTGCCACCGACTTGT
1 GTGGGCTTTGAAATGAGTTACCACCAAC-TGC
* * * *
115724 GTGAGCTTTAAAAT-AGGTTACCACCGACTTGT
1 GTGGGCTTTGAAATGA-GTTACCACCAAC-TGC
* * *
115756 GTGGTCTTTGAAAT-AGGTTGCCACCAACTTGT
1 GTGGGCTTTGAAATGA-GTTACCACCAAC-TGC
* * * * *
115788 GTAGGCTTTGAAACGAGTTGCCACCGACTTGT
1 GTGGGCTTTGAAATGAGTTACCACCAAC-TGC
** * * *
115820 GTGGGCTTTCCAATGACTTGCCACCAACTTGT
1 GTGGGCTTTGAAATGAGTTACCACCAAC-TGC
* * * *
115852 GTGGGCTTTAAAAT-AGGTTGCCATCAACTTGT
1 GTGGGCTTTGAAATGA-GTTACCACCAAC-TGC
* * * *
115884 GTGGGCTTTGACAT-AGGTTGCCACTAACTTGT
1 GTGGGCTTTGAAATGA-GTTACCACCAAC-TGC
*
115916 TTGGGCTTTGAAATGAGTT
1 GTGGGCTTTGAAATGAGTT
115935 GCCATCGACT
Statistics
Matches: 412, Mismatches: 56, Indels: 27
0.83 0.11 0.05
Matches are distributed among these distances:
28 98 0.24
30 24 0.06
31 2 0.00
32 266 0.65
33 22 0.05
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (31 bp):
GTGGGCTTTGAAATGAGTTACCACCAACTGC
Found at i:115817 original size:96 final size:94
Alignment explanation
Indices: 115420--116056 Score: 585
Period size: 96 Copynumber: 6.9 Consensus size: 94
115410 GCCATTGACT
* *
115420 TGTGGGTTTTGAAATGGGTTGCCACCCGACTTGTGTGGGCTTTGAAATAGGTTGCCACTGACTTG
1 TGTGGGCTTTGAAA--GGTTGCCA-CCGACTTGTGTGGGCTTTGAAATAGGTTGCCACCGACTTG
* *
115485 TGTGGGCTTTGAAGTAGGTTGCCACTAACTTG
63 TGTGGGCTTTGAAATAGGTTGCCACCAACTTG
* * *
115517 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGACAT-GAGTTACCACCGAC--G
1 TGTGGGCTTTGAAA--GGTTGCCACCGACTTGTGTGGGCTTTGAAATAG-GTTGCCACCGACTTG
* *
115579 CGTGGGCTTTGAAA-A-GTTGCCACTAAC-T-
63 TGTGGGCTTTGAAATAGGTTGCCACCAACTTG
* * ** * *
115607 TGTGGGCTTGGAAAGGATGCCACTAAC-T-TGTGGGCTTTG-AA-AGGGTGCCACTGAC-T-TGT
1 TGTGGGCTTTGAAAGGTTGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGT
* *
115666 GGGCTTTGAAA-A-GATGCCACCGAC-T-
66 GGGCTTTGAAATAGGTTGCCACCAACTTG
* * *
115691 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGAGCTTTAAAATAGGTTACCACCGACTTGT
1 TGTGGGCTTTGAAA--GGTTGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACCGACTTGT
*
115756 GTGGTCTTTGAAATAGGTTGCCACCAACTTG
64 GTGGGCTTTGAAATAGGTTGCCACCAACTTG
* ** * *
115787 TGTAGGCTTTGAAACGAGTTGCCACCGACTTGTGTGGGCTTTCCAAT-GACTTGCCACCAACTTG
1 TGTGGGCTTTGAAA-G-GTTGCCACCGACTTGTGTGGGCTTTGAAATAG-GTTGCCACCGACTTG
* *
115851 TGTGGGCTTTAAAATAGGTTGCCATCAACTTG
63 TGTGGGCTTTGAAATAGGTTGCCACCAACTTG
** * *
115883 TGTGGGCTTTGACATAGGTTGCCACTAACTTGTTTGGGCTTTGAAAT-GAGTTGCCATCGACTTG
1 TGTGGGCTTTGA-A-AGGTTGCCACCGACTTGTGTGGGCTTTGAAATAG-GTTGCCACCGACTTG
* * **
115947 TGTGGGCTTT-CAA-AGGATGCCACTGACTT-
63 TGTGGGCTTTGAAATAGGTTGCCACCAACTTG
* * *
115976 T-TGGGCTTTGAAAGGGTGCCACTGAC-T-TGTGGGCTTTGAAA-A-GATGCCACCGAC-T-TGT
1 TGTGGGCTTTGAAAGGTTGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGT
*
116034 GGGCTTTGAAATGGGTTGCCACC
66 GGGCTTTGAAATAGGTTGCCACC
116057 GGCTTATGGG
Statistics
Matches: 454, Mismatches: 64, Indels: 55
0.79 0.11 0.10
Matches are distributed among these distances:
84 56 0.12
85 5 0.01
86 39 0.09
87 2 0.00
88 33 0.07
89 3 0.01
90 36 0.08
91 3 0.01
92 35 0.08
93 3 0.01
94 35 0.08
95 6 0.01
96 172 0.38
97 25 0.06
98 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (94 bp):
TGTGGGCTTTGAAAGGTTGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGT
GGGCTTTGAAATAGGTTGCCACCAACTTG
Done.