Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009232.1 Hibiscus syriacus cultivar Beakdansim tig00112840_pilon, whole genome shotgun sequence
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: 107547
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Found at i:13111 original size:14 final size:14
Alignment explanation
Indices: 13094--13130 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
13084 TGACACTCTA
13094 TCTCTCTCTAACTC
1 TCTCTCTCTAACTC
13108 TCTCTCTCTAACTC
1 TCTCTCTCTAACTC
13122 TCTCTCTCT
1 TCTCTCTCT
13131 CCATGAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.11, C:0.43, G:0.00, T:0.46
Consensus pattern (14 bp):
TCTCTCTCTAACTC
Found at i:13131 original size:16 final size:16
Alignment explanation
Indices: 13088--13131 Score: 65
Period size: 14 Copynumber: 2.9 Consensus size: 16
13078 CCTCTCTGAC
*
13088 ACTCTATCTCTCTCTA
1 ACTCTCTCTCTCTCTA
13104 A--CTCTCTCTCTCTA
1 ACTCTCTCTCTCTCTA
13118 ACTCTCTCTCTCTC
1 ACTCTCTCTCTCTC
13132 CATGAATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 13 0.52
16 12 0.48
ACGTcount: A:0.14, C:0.43, G:0.00, T:0.43
Consensus pattern (16 bp):
ACTCTCTCTCTCTCTA
Found at i:18466 original size:30 final size:30
Alignment explanation
Indices: 18423--18504 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
18413 GGGACCTCAT
* * *
18423 TCCCCTTTTTGACATCTGTATGGGATAAAC
1 TCCCCGTTCTGACATCTGCATGGGATAAAC
*
18453 TCCCCGTTCTGACATCTGCATGGGATAAAT
1 TCCCCGTTCTGACATCTGCATGGGATAAAC
* *
18483 TTCCCGTACTGACATCTGCATG
1 TCCCCGTTCTGACATCTGCATG
18505 AGATTATATC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (30 bp):
TCCCCGTTCTGACATCTGCATGGGATAAAC
Found at i:19953 original size:21 final size:21
Alignment explanation
Indices: 19898--20044 Score: 106
Period size: 21 Copynumber: 7.0 Consensus size: 21
19888 CGTTGCGATT
19898 TTGGACTATCGCAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
*
19917 TTGGAATAAAATCGCAACGCGAAC
1 TTGGACT---ATCGCAACGCGAAC
* *
19941 TTCGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
** *
19960 TTGGAAAAATCGCAACGAGAAC
1 TTGG-ACTATCGCAACGCGAAC
* * *
19982 TTCGACTATCGCAA-ACGAAA
1 TTGGACTATCGCAACGCGAAC
*
20002 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
20025 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAACGCGAA
20045 TTAAATCGCA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
19 13 0.14
20 16 0.17
21 27 0.28
22 20 0.21
23 10 0.10
24 10 0.10
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:19964 original size:43 final size:43
Alignment explanation
Indices: 19901--20038 Score: 210
Period size: 43 Copynumber: 3.3 Consensus size: 43
19891 TGCGATTTTG
*
19901 GACTATCGCAACGAACTTGGAATAAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAAATTGGAATAAAATCGCAACGCGAACTTC
* *
19944 GACTATCGCAACGAATTTGG-A-AAAATCGCAACGAGAACTTC
1 GACTATCGCAACGAAATTGGAATAAAATCGCAACGCGAACTTC
*
19985 GACTATCGCAAACGAAATTGGAAT-AAATCGCAACGCGAACTTG
1 GACTATCGC-AACGAAATTGGAATAAAATCGCAACGCGAACTTC
20028 GACTATCGCAA
1 GACTATCGCAA
20039 TGCGAATTAA
Statistics
Matches: 87, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
41 28 0.32
42 13 0.15
43 46 0.53
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (43 bp):
GACTATCGCAACGAAATTGGAATAAAATCGCAACGCGAACTTC
Found at i:22734 original size:195 final size:192
Alignment explanation
Indices: 22361--22747 Score: 715
Period size: 195 Copynumber: 2.0 Consensus size: 192
22351 GCAAATTGGT
22361 ACGAAAGAAAACAATTTGTACCCTTTTTCCACACAGAAAAAGCACAGTTTTTGCTTAGATTATTT
1 ACGAAAGAAAACAATTTGTACCCTTTTTCCACACAGAAAAAGCACAGTTTTTGCTTAGATTATTT
22426 GTTAATAATCATCTGACATTTATTTCCATATATATATATACACACACAAAATAGGTTCATCATTA
66 GTTAATAATCATCTGACATTTATTTCCATATATATATATACACACACAAAATAGGTTCATCATTA
22491 CATGTATATCATTTGCTTTACTTCTTCCATATGCAATTGACGATGTAACCTTA-AATATTCC
131 CATGTATATCATTTGCTTTACTTCTTCCATATGCAATTGACGATGTAACCTTATAATATTCC
22552 ACGAAAGAAAACAATTTGTACCCTTTTTCCACACAG-AAAAGCACAGTTTTTGCTTAGATTATTT
1 ACGAAAGAAAACAATTTGTACCCTTTTTCCACACAGAAAAAGCACAGTTTTTGCTTAGATTA-TT
22616 TGTTAATAAATCATCTGACATTTATTTCCATATATATATATATACACACACAAAATAGGTTCATC
65 TGTTAAT-AATCATCTGACATTTATTTCC--ATATATATATATACACACACAAAATAGGTTCATC
22681 ATGTACATGTATATCATTTGCTTTACTTCTTCCATATGCAATTGACGATGTAACCTTATAATATT
127 AT-TACATGTATATCATTTGCTTTACTTCTTCCATATGCAATTGACGATGTAACCTTATAATATT
22746 CC
191 CC
22748 CTGGATAAAT
Statistics
Matches: 190, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
190 25 0.13
191 45 0.24
192 21 0.11
194 36 0.19
195 55 0.29
196 8 0.04
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.37
Consensus pattern (192 bp):
ACGAAAGAAAACAATTTGTACCCTTTTTCCACACAGAAAAAGCACAGTTTTTGCTTAGATTATTT
GTTAATAATCATCTGACATTTATTTCCATATATATATATACACACACAAAATAGGTTCATCATTA
CATGTATATCATTTGCTTTACTTCTTCCATATGCAATTGACGATGTAACCTTATAATATTCC
Found at i:24524 original size:20 final size:20
Alignment explanation
Indices: 24499--24592 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
24489 AATTGGGAAA
*
24499 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
24519 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
24540 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
24560 TTCGCAACGCGATACTAACT
1 ATCGCAACGCGATACTTACT
*
24580 TTCGCAACGCGAT
1 ATCGCAACGCGAT
24593 TTACATAATC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.71
21 12 0.19
22 3 0.05
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:24541 original size:41 final size:41
Alignment explanation
Indices: 24496--24573 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
24486 GCGAATTGGG
* * *
24496 AAAATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAC
*
24537 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATA
24574 CTAACTTTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAC
Found at i:24808 original size:22 final size:22
Alignment explanation
Indices: 24780--24823 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
24770 CACTCTCTCA
24780 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
24802 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
24824 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:26389 original size:17 final size:18
Alignment explanation
Indices: 26353--26396 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
26343 TCCACTTCGG
*
26353 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
26371 GAGCTATCACC-CACCCA
1 GAGCCATCACCTCACCCA
26388 GAGCCATCA
1 GAGCCATCA
26397 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.27, C:0.45, G:0.16, T:0.11
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:26961 original size:19 final size:19
Alignment explanation
Indices: 26869--26970 Score: 79
Period size: 19 Copynumber: 5.6 Consensus size: 19
26859 AGTTTTACTT
* **
26869 TCGCAACACGAAATGACTA
1 TCGCAACGCGAAATGAAAA
***
26888 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
26908 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
26927 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
26941 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
26960 TCGCAATGCGA
1 TCGCAACGCGA
26971 TTTGTGTTTC
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
14 10 0.15
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 35 0.51
20 17 0.25
ACGTcount: A:0.41, C:0.24, G:0.22, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:27019 original size:18 final size:18
Alignment explanation
Indices: 26996--27038 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
26986 GCGATTTTGT
26996 CGTTGCGCTTTCATTTCG
1 CGTTGCGCTTTCATTTCG
27014 CGTTGCGCTTTCATTTCG
1 CGTTGCGCTTTCATTTCG
27032 CGTTGCG
1 CGTTGCG
27039 ATTTTGTCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.05, C:0.28, G:0.26, T:0.42
Consensus pattern (18 bp):
CGTTGCGCTTTCATTTCG
Found at i:27080 original size:19 final size:19
Alignment explanation
Indices: 27058--27112 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
27048 TTGCGATTTT
*
27058 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
* * *
27077 CATTTCTGTGTTGCAATAGT
1 CATTTC-GCGTTGCGATAGC
27097 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
27113 TTTAAGTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:29134 original size:37 final size:37
Alignment explanation
Indices: 29084--29234 Score: 171
Period size: 37 Copynumber: 4.3 Consensus size: 37
29074 AAAACAGACT
* *
29084 ATCGCAACGCGAAATGGAAATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAA-GAAAATCGCAATGCGAAATGAAA
* *
29121 ATCGCAATTCGAAATGAAAATCGCAATGTG-AATGAAA
1 ATCGCAATGCGAAA-GAAAATCGCAATGCGAAATGAAA
29158 ATCGCAA--CG--AGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAAGAAAATCGCAATGCGAAATGAAA
29191 ATCGCAATGCGAAAGAAAATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAAGAAAATCGCAATGCGAAATGAAA
29223 ATCGCAATGCGA
1 ATCGCAATGCGA
29235 TTTTCATTTC
Statistics
Matches: 103, Mismatches: 5, Indels: 17
0.82 0.04 0.14
Matches are distributed among these distances:
32 30 0.29
33 16 0.16
35 6 0.06
36 4 0.04
37 47 0.46
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (37 bp):
ATCGCAATGCGAAAGAAAATCGCAATGCGAAATGAAA
Found at i:29171 original size:14 final size:16
Alignment explanation
Indices: 29136--29234 Score: 89
Period size: 14 Copynumber: 5.9 Consensus size: 16
29126 AATTCGAAAT
*
29136 GAAAATCGCAATGTGAA
1 GAAAATCGCAA-GCGAA
29153 TGAAAATCGCAA-CG-A
1 -GAAAATCGCAAGCGAA
29168 GAAAATCGCAATGCGAAA
1 GAAAATCGCAA-GCG-AA
29186 TGAAAATCGCAATGCGAAA
1 -GAAAATCGCAA-GCG-AA
29205 GAAAATCGCAA-CG-A
1 GAAAATCGCAAGCGAA
29219 GAAAATCGCAATGCGA
1 GAAAATCGCAA-GCGA
29235 TTTTCATTTC
Statistics
Matches: 72, Mismatches: 1, Indels: 17
0.80 0.01 0.19
Matches are distributed among these distances:
14 23 0.32
15 1 0.01
16 7 0.10
18 23 0.32
19 18 0.25
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.13
Consensus pattern (16 bp):
GAAAATCGCAAGCGAA
Found at i:29253 original size:51 final size:51
Alignment explanation
Indices: 29119--29234 Score: 205
Period size: 51 Copynumber: 2.3 Consensus size: 51
29109 ATGCGAAATG
* * *
29119 AAATCGCAATTCGAAATGAAAATCGCAATGTGAATGAAAATCGCAACGAGA
1 AAATCGCAATGCGAAATGAAAATCGCAATGCGAAAGAAAATCGCAACGAGA
29170 AAATCGCAATGCGAAATGAAAATCGCAATGCGAAAGAAAATCGCAACGAGA
1 AAATCGCAATGCGAAATGAAAATCGCAATGCGAAAGAAAATCGCAACGAGA
29221 AAATCGCAATGCGA
1 AAATCGCAATGCGA
29235 TTTTCATTTC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (51 bp):
AAATCGCAATGCGAAATGAAAATCGCAATGCGAAAGAAAATCGCAACGAGA
Found at i:29310 original size:20 final size:20
Alignment explanation
Indices: 29253--29310 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
29243 TCGCATTGCG
* *
29253 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
29273 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
29293 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
29311 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:30362 original size:24 final size:24
Alignment explanation
Indices: 30335--30388 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
30325 GTATTCGAAA
* *
30335 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
30359 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
30383 TTTGAT
1 TTTGAT
30389 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:30580 original size:12 final size:12
Alignment explanation
Indices: 30563--30587 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30553 ATATAATCCT
30563 GAAGAAGAAAAA
1 GAAGAAGAAAAA
30575 GAAGAAGAAAAA
1 GAAGAAGAAAAA
30587 G
1 G
30588 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:32908 original size:19 final size:19
Alignment explanation
Indices: 32852--32981 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
32842 GAAAATTACT
32852 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
32871 ATTGCAA--CG--A-G-AG
1 ATCGCAATGCGAAATGAAA
32884 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
32903 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
32917 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
32936 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
32950 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
32969 ATCGCAACGCGAA
1 ATCGCAATGCGAA
32982 TTTAATTTCG
Statistics
Matches: 80, Mismatches: 15, Indels: 32
0.63 0.12 0.25
Matches are distributed among these distances:
13 7 0.09
14 18 0.22
15 5 0.06
16 4 0.05
17 7 0.09
18 3 0.04
19 36 0.45
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:32927 original size:33 final size:33
Alignment explanation
Indices: 32853--32984 Score: 173
Period size: 33 Copynumber: 4.0 Consensus size: 33
32843 AAAATTACTA
* *
32853 TCGCAATGCGAAATGAAAATTGCAACGAGAGA--
1 TCGCAATGCGAAATGAAAATCGCAACGCGA-ATT
*
32885 TCGCAATGCGAAATGAAAATCGCAACGCTAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
*
32918 TCGCAATGCGAAATGAAAATCGCAACGAGGGAA--
1 TCGCAATGCGAAATGAAAATCGCAAC--GCGAATT
32951 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
32984 T
1 T
32985 AATTTCGCGT
Statistics
Matches: 88, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
31 5 0.06
32 27 0.31
33 53 0.60
35 3 0.03
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGCGAATT
Found at i:32977 original size:66 final size:65
Alignment explanation
Indices: 32853--32984 Score: 228
Period size: 66 Copynumber: 2.0 Consensus size: 65
32843 AAAATTACTA
* *
32853 TCGCAATGCGAAATGAAAATTGCAACGAGAGATCGCAATGCGAAATGAAAATCGCAACGCTAATT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGATCGCAATGCGAAATGAAAATCGCAACGCGAATT
*
32918 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAG-ATCGCAATGCGAAATGAAAATCGCAACGCGAAT
32983 T
65 T
32984 T
1 T
32985 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
65 29 0.46
66 34 0.54
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (65 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGATCGCAATGCGAAATGAAAATCGCAACGCGAATT
Found at i:33166 original size:14 final size:14
Alignment explanation
Indices: 33143--33176 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
33133 TCAATTAAAC
33143 AATCAACTTTTACA
1 AATCAACTTTTACA
*
33157 AATCACCTTTTACA
1 AATCAACTTTTACA
33171 AATCAA
1 AATCAA
33177 TTAAACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (14 bp):
AATCAACTTTTACA
Found at i:34615 original size:42 final size:42
Alignment explanation
Indices: 34569--34652 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
34559 CGATGACAGT
* *
34569 GGCCTCTTAAACGGTGGGAAG-GGACTCTCGAGGAATGATAGG
1 GGCCTCTTAAACGATAGG-AGTGGACTCTCGAGGAATGATAGG
* * *
34611 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTAAACGATAGGAGTGGACTCTCGAGGAATGATAGG
34653 CGAGTCGGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 2 0.06
42 34 0.94
ACGTcount: A:0.25, C:0.17, G:0.37, T:0.21
Consensus pattern (42 bp):
GGCCTCTTAAACGATAGGAGTGGACTCTCGAGGAATGATAGG
Found at i:36675 original size:20 final size:20
Alignment explanation
Indices: 36650--36687 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36640 TCTTTTGGTT
36650 GAAATGAAAATCGCAACGCG
1 GAAATGAAAATCGCAACGCG
**
36670 GAAATGACTATCGCAACG
1 GAAATGAAAATCGCAACG
36688 AGAGAATCGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (20 bp):
GAAATGAAAATCGCAACGCG
Found at i:36747 original size:19 final size:19
Alignment explanation
Indices: 36650--36814 Score: 170
Period size: 19 Copynumber: 9.1 Consensus size: 19
36640 TCTTTTGGTT
36650 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
36669 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
36687 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
36703 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
36721 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
36736 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
36756 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
36775 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
36794 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
36813 GA
1 GA
36815 TTTTGGTTTC
Statistics
Matches: 123, Mismatches: 11, Indels: 23
0.78 0.07 0.15
Matches are distributed among these distances:
14 19 0.15
15 3 0.02
16 2 0.02
17 1 0.01
18 4 0.03
19 61 0.50
20 33 0.27
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:36768 original size:39 final size:38
Alignment explanation
Indices: 36650--36814 Score: 170
Period size: 33 Copynumber: 4.6 Consensus size: 38
36640 TCTTTTGGTT
**
36650 GAAATGAAAATCGCAACGCGGAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC-GAAATGAAAATCGCAACGC
* ** *
36687 G--A-GAGAATCGCAACGCGAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
*
36721 ---A-GACAATCGCAACGCGAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAA-CGC
36756 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
*
36794 GAAATGAAAATCGCAATGCGA
1 GAAATGAAAATCGCAACGCGA
36815 TTTTGGTTTC
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
33 42 0.37
34 15 0.13
35 2 0.02
37 1 0.01
38 24 0.21
39 29 0.26
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.12
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:36843 original size:19 final size:19
Alignment explanation
Indices: 36810--36876 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
36800 AAAATCGCAA
**
36810 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
36829 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
36848 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
36868 TGCGATTTT
1 TGCGATTTT
36877 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.10, C:0.16, G:0.25, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:37418 original size:20 final size:20
Alignment explanation
Indices: 37393--37444 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
37383 CGCTATGTAA
*
37393 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTAAGT
37413 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGAAAGTAAGT
*
37433 ATCTCGTTGCGA
1 ATCGCGTTGCGA
37445 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTAAGT
Found at i:37471 original size:16 final size:16
Alignment explanation
Indices: 37450--37483 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
37440 TGCGATTTTG
37450 TATTATCGCAATGCGA
1 TATTATCGCAATGCGA
*
37466 TATTATCGCATTGCGA
1 TATTATCGCAATGCGA
37482 TA
1 TA
37484 GTAAGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (16 bp):
TATTATCGCAATGCGA
Found at i:37494 original size:20 final size:19
Alignment explanation
Indices: 37393--37502 Score: 73
Period size: 20 Copynumber: 5.7 Consensus size: 19
37383 CGCTATGTAA
* *
37393 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGT-AGT
* *
37413 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGT-AGT
* * * *
37433 ATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGA--TAGTAGT
*
37454 ATCGCAATGCGATA-T--T
1 ATCGCATTGCGATAGTAGT
37470 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGT-AGT
37490 ATCGCATTGCGAT
1 ATCGCATTGCGAT
37503 TTTCCCAATT
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
16 14 0.19
17 1 0.01
18 1 0.01
19 1 0.01
20 44 0.59
21 11 0.15
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (19 bp):
ATCGCATTGCGATAGTAGT
Found at i:37520 original size:21 final size:21
Alignment explanation
Indices: 37491--37583 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
37481 ATAGTAAGTA
37491 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
37512 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
37532 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
37553 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
37573 TCGCATTGCGA
1 TCGCATTGCGA
37584 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:37522 original size:57 final size:59
Alignment explanation
Indices: 37412--37543 Score: 135
Period size: 57 Copynumber: 2.2 Consensus size: 59
37402 CGAAAGTCAG
* * * * ** *
37412 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTGTATTATCGCAATGCGA-TA-T
1 TATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCAATATCGCAATGCGATTACT
**
37469 TATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGATTTACT
1 TATCGCATTGCGATAGTAAGTATCGCATTGCGATTTT-CCAATATCGCAATGCGA-TTACT
37529 TATTCGCATTGCGAT
1 TA-TCGCATTGCGAT
37544 TTTCCCAATT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
57 42 0.69
58 2 0.03
59 2 0.03
60 3 0.05
61 12 0.20
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (59 bp):
TATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCAATATCGCAATGCGATTACT
Found at i:37536 original size:41 final size:41
Alignment explanation
Indices: 37491--37583 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
37481 ATAGTAAGTA
37491 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
37532 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
37573 TCGCATTGCGA
1 TCGCATTGCGA
37584 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:47283 original size:27 final size:26
Alignment explanation
Indices: 47209--47290 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
47199 ACTATATCAT
*
47209 TATATT-AATATTAAATAA-AAATAA
1 TATATTCATTATTAAATAATAAATAA
47233 TAGTATTCATTATT-AATAATTAAATAA
1 TA-TATTCATTATTAAATAA-TAAATAA
*
47260 TAT-TTCTTTTATTAAATTAATAAATAA
1 TATATTC-ATTATTAAA-TAATAAATAA
47287 TATA
1 TATA
47291 ACTTTATTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
24 2 0.04
25 12 0.25
26 11 0.23
27 20 0.42
28 3 0.06
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (26 bp):
TATATTCATTATTAAATAATAAATAA
Found at i:47820 original size:448 final size:451
Alignment explanation
Indices: 46934--47831 Score: 1730
Period size: 449 Copynumber: 2.0 Consensus size: 451
46924 ATTTTCTGAA
* *
46934 AAAATGTTTTAGGGTGTTTGAGAGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTTTTT
1 AAAACGTTTTAGGGTGTTTGAGAGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTTTTA
46999 AAAAATATTTATTATAAATATCAAATATAATAAAAGATATTATTTATTATAAAAAGTTAATATTA
66 AAAAATATTTATTATAAATATCAAATATAATAAAAGATATTATTTATTATAAAAAGTTAATATTA
47064 TTATTTTTAAAATATTATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTG
131 TTATTTTTAAAATATTATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTG
*
47129 AAATAAAAATATTATATTATGTTTTTAAAATTATTAATAAACACATTTGAAGTATTTTTATTAAA
196 AAATAAAAATATTATATTATGTTTTTAAAATGATTAATAAACACATTTGAAGTATTTTTATTAAA
47194 ATATTACTATATCATTATATTAATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATA
261 ATATTACTATATCATTATATTAATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATA
*
47259 ATATTTCTTTTATTAAATTAATAAATAATATAACTTTATTTTTATTTTATTATATATTACTAAAA
326 ATATTTCTTTTATGAAATTAATAAATAATATAACTTTATTTTTATTTTATTATATATTACTAAAA
47324 ATAAAAATATAATATCATATATTATTATAATATAACTGAATATATTA-T-TAATATTAAAT
391 ATAAAAATATAATATCATATATTATTATAATATAACTGAATATATTATTATAATATTAAAT
47383 AAAACGTTTTAGGGTGTTTGAGAGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTTTTA
1 AAAACGTTTTAGGGTGTTTGAGAGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTTTTA
47448 AAAAATATTTATTATAAATATCAAATATAATAAAAGATATTATTTATTATAAAAAGTTAATATTA
66 AAAAATATTTATTATAAATATCAAATATAATAAAAGATATTATTTATTATAAAAAGTTAATATTA
47513 TTATTTTTAAAATATTATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTG
131 TTATTTTTAAAATATTATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTG
47578 AAATAAAAATATTATATTATGTTTTT-AAATGATTAATAAACACATTTGAAGTATTTTTATTAAA
196 AAATAAAAATATTATATTATGTTTTTAAAATGATTAATAAACACATTTGAAGTATTTTTATTAAA
47642 ATATTACTATATCATTATATTAATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATA
261 ATATTACTATATCATTATATTAATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATA
47707 ATATTTCTTTTATGAAATTAATAAATAATATAACTTTATTTTTATTTTATTATATATTACTAAAA
326 ATATTTCTTTTATGAAATTAATAAATAATATAACTTTATTTTTATTTTATTATATATTACTAAAA
*
47772 ATAAAAATATAATATCATATATTATTATAATATAACTGAATGTATTATTATAATATTAAA
391 ATAAAAATATAATATCATATATTATTATAATATAACTGAATATATTATTATAATATTAAA
47832 AATATTACTT
Statistics
Matches: 442, Mismatches: 5, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
448 212 0.48
449 220 0.50
450 10 0.02
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.46
Consensus pattern (451 bp):
AAAACGTTTTAGGGTGTTTGAGAGATGTTGTGTAAACTATTTTTTGTTAGTTGATAGTTTTTTTA
AAAAATATTTATTATAAATATCAAATATAATAAAAGATATTATTTATTATAAAAAGTTAATATTA
TTATTTTTAAAATATTATTTCTATAAATTTATAAATAAAAATATTAAAACTAATATATTCTATTG
AAATAAAAATATTATATTATGTTTTTAAAATGATTAATAAACACATTTGAAGTATTTTTATTAAA
ATATTACTATATCATTATATTAATATTAAATAAAAATAATAGTATTCATTATTAATAATTAAATA
ATATTTCTTTTATGAAATTAATAAATAATATAACTTTATTTTTATTTTATTATATATTACTAAAA
ATAAAAATATAATATCATATATTATTATAATATAACTGAATATATTATTATAATATTAAAT
Found at i:62455 original size:25 final size:25
Alignment explanation
Indices: 62421--62471 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
62411 ATTCAATCGG
62421 ACGAGCCCTCAAAGTTGATCATAAT
1 ACGAGCCCTCAAAGTTGATCATAAT
62446 ACGAGCCCTCAAAGTTGATCATAAT
1 ACGAGCCCTCAAAGTTGATCATAAT
62471 A
1 A
62472 TCAGCTATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.24
Consensus pattern (25 bp):
ACGAGCCCTCAAAGTTGATCATAAT
Found at i:63699 original size:17 final size:18
Alignment explanation
Indices: 63679--63712 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
63669 AAGAAAATAT
63679 AATAA-ATAAGTAAAAAC
1 AATAACATAAGTAAAAAC
63696 AATAACATAAGTAAAAA
1 AATAACATAAGTAAAAA
63713 TAAATTATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.18
Consensus pattern (18 bp):
AATAACATAAGTAAAAAC
Found at i:64990 original size:22 final size:22
Alignment explanation
Indices: 64965--65007 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
64955 GGTTGGCGGC
*
64965 TGGAGCTGGAAAGCCAAACGGT
1 TGGAACTGGAAAGCCAAACGGT
*
64987 TGGAACTGGAAGGCCAAACGG
1 TGGAACTGGAAAGCCAAACGG
65008 CTGAGTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.37, T:0.12
Consensus pattern (22 bp):
TGGAACTGGAAAGCCAAACGGT
Found at i:65660 original size:43 final size:44
Alignment explanation
Indices: 65587--65803 Score: 134
Period size: 43 Copynumber: 4.8 Consensus size: 44
65577 ATAACTAGGT
* * * * *
65587 TCCTACGTAATGAGGACGACTGATTATCTAAGGT-TGACACGGC
1 TCCTACGTGATGAGGAGGTCTGGTCATCTAAGGTATGACACGGC
* * *
65630 TCCTACGTGATGAGGAGGTCTGGTCGTCTAAGGGTAGATGACATGGT
1 TCCTACGTGATGAGGAGGTCTGGTCATCTAA-GGT--ATGACACGGC
* * * ** * * * * *
65677 TCATACATGATGAAGAACTTTGGCCATCTTTAGGAAGGGTGATAACTCGGT
1 TCCTACGTGATGAGGAGGTCTGGTCATC--T---AA-GGT-ATGACACGGC
*
65728 TCCTACGTGATGAGGACGG-CTGGTTATCTAAGGT-TGACACGGC
1 TCCTACGTGATGAGGA-GGTCTGGTCATCTAAGGTATGACACGGC
*
65771 TCCTACGTGATGAGGAGGTCTGGTCGTCTAAGG
1 TCCTACGTGATGAGGAGGTCTGGTCATCTAAGG
65804 GTAGATGACA
Statistics
Matches: 131, Mismatches: 32, Indels: 22
0.71 0.17 0.12
Matches are distributed among these distances:
42 2 0.02
43 59 0.45
44 3 0.02
45 3 0.02
46 2 0.02
47 27 0.21
49 2 0.02
51 27 0.21
52 6 0.05
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (44 bp):
TCCTACGTGATGAGGAGGTCTGGTCATCTAAGGTATGACACGGC
Found at i:65688 original size:47 final size:46
Alignment explanation
Indices: 65637--65830 Score: 137
Period size: 47 Copynumber: 4.1 Consensus size: 46
65627 GGCTCCTACG
*
65637 TGATGAGGAGGTCTGGTCGTCTAAGGGTAGATGACATGGTTCATACA
1 TGATGAGGAGGTCTGGTCATCTAAGGGT-GATGACATGGTTCATACA
* ** * * * * *
65684 TGATGAAGAACTTTGGCCATCTTTAGGAAGGGTGATAAC-TCGGTTCCTACG
1 TGATGAGGAGGTCTGGTCATC--T---AAGGGTGATGACAT-GGTTCATACA
* * * * *
65735 TGATGAGGACGG-CTGGTTATCTAA-GGT--TGACACGGCTCCTACG
1 TGATGAGGA-GGTCTGGTCATCTAAGGGTGATGACATGGTTCATACA
*
65778 TGATGAGGAGGTCTGGTCGTCTAAGGGTAGATGACATGGTTCATACA
1 TGATGAGGAGGTCTGGTCATCTAAGGGT-GATGACATGGTTCATACA
65825 TGATGA
1 TGATGA
65831 AGAACTCTGG
Statistics
Matches: 110, Mismatches: 24, Indels: 26
0.69 0.15 0.16
Matches are distributed among these distances:
42 2 0.02
43 31 0.28
44 3 0.03
45 3 0.03
46 2 0.02
47 33 0.30
49 2 0.02
50 1 0.01
51 27 0.25
52 6 0.05
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (46 bp):
TGATGAGGAGGTCTGGTCATCTAAGGGTGATGACATGGTTCATACA
Found at i:65972 original size:141 final size:141
Alignment explanation
Indices: 65554--65936 Score: 635
Period size: 141 Copynumber: 2.7 Consensus size: 141
65544 GATGAAAAGT
* * * * * * *
65554 TCTGGTCATCTTTAAGAATGGTGATAACTAGGTTCCTACGTAATGAGGACGACTGATTATCTAAG
1 TCTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAG
65619 GTTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGTCTAAGGGTAGATGACATGGTTCATACA
66 GTTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGTCTAAGGGTAGATGACATGGTTCATACA
65684 TGATGAAGAAC
131 TGATGAAGAAC
*
65695 TTTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAG
1 TCTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAG
65760 GTTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGTCTAAGGGTAGATGACATGGTTCATACA
66 GTTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGTCTAAGGGTAGATGACATGGTTCATACA
65825 TGATGAAGAAC
131 TGATGAAGAAC
65836 TCTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAGGACGGCTGGTTATCCTAA
1 TCTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAGGACGGCTGGTTAT-CTAA
* * *
65901 TGTTGACAC-TCTCCTACGTG-TCGAGGAGATCTGGTC
65 GGTTGACACGGCTCCTACGTGAT-GAGGAGGTCTGGTC
65937 AGTTGATGTT
Statistics
Matches: 228, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
140 1 0.00
141 215 0.94
142 12 0.05
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (141 bp):
TCTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAG
GTTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGTCTAAGGGTAGATGACATGGTTCATACA
TGATGAAGAAC
Found at i:77661 original size:13 final size:14
Alignment explanation
Indices: 77634--77660 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77624 CCAAGCTGTC
77634 ATAACCATTTTTTT
1 ATAACCATTTTTTT
77648 ATAACCATTTTTT
1 ATAACCATTTTTT
77661 AGGTAAAAAA
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:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (14 bp):
ATAACCATTTTTTT
Found at i:78629 original size:2 final size:2
Alignment explanation
Indices: 78622--78651 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
78612 CTATTAACCA
*
78622 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78652 TTCCTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:78717 original size:17 final size:18
Alignment explanation
Indices: 78697--78730 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
78687 AAGAAAATAT
78697 AATAA-ATAAGTAAAAAC
1 AATAACATAAGTAAAAAC
78714 AATAACATAAGTAAAAA
1 AATAACATAAGTAAAAA
78731 ATAAATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.18
Consensus pattern (18 bp):
AATAACATAAGTAAAAAC
Found at i:79948 original size:22 final size:22
Alignment explanation
Indices: 79923--79972 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
79913 GAAAGGTTGG
*
79923 CGGCTGGAGCTGGAAAGCCAAA
1 CGGCTGGAACTGGAAAGCCAAA
*
79945 CGGCTGGAACTGGAAGGCCAAA
1 CGGCTGGAACTGGAAAGCCAAA
79967 CGGCTG
1 CGGCTG
79973 AGTTGATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.28, C:0.24, G:0.38, T:0.10
Consensus pattern (22 bp):
CGGCTGGAACTGGAAAGCCAAA
Found at i:87571 original size:40 final size:40
Alignment explanation
Indices: 87509--87732 Score: 157
Period size: 41 Copynumber: 5.5 Consensus size: 40
87499 ATACTATAGC
*
87509 GGCATTTTTATAAAAACGCCGCTAAATAATGTTCTTTAGT
1 GGCATTTTTATACAAACGCCGCTAAATAATGTTCTTTAGT
* * * * **
87549 GGCGTTTTTGTACAAACACCGCTATAGTACGA-G-TCTTTACC
1 GGCATTTTTATACAAACGCCGCTA-AATA--ATGTTCTTTAGT
* * * * * * * *
87590 GGCTTTTTTGTACAAACGCCGCTATAGACTCATTCTATAGC
1 GGCATTTTTATACAAACGCCGCTAAATAAT-GTTCTTTAGT
* * * *
87631 GGCGTTTTTACAGAAACACCGCTAAATAAT-TTACTTTAGT
1 GGCATTTTTATACAAACGCCGCTAAATAATGTT-CTTTAGT
* * **
87671 GGCATTTTTATACAAACGCCGCTAAAGACTGTAATTTAGT
1 GGCATTTTTATACAAACGCCGCTAAATAATGTTCTTTAGT
*
87711 GGCATTTTTAGAACAAACGCCG
1 GGCATTTTTA-TACAAACGCCG
87733 TACAAATGAA
Statistics
Matches: 140, Mismatches: 35, Indels: 17
0.73 0.18 0.09
Matches are distributed among these distances:
39 2 0.01
40 66 0.47
41 70 0.50
42 1 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (40 bp):
GGCATTTTTATACAAACGCCGCTAAATAATGTTCTTTAGT
Found at i:87639 original size:41 final size:41
Alignment explanation
Indices: 87463--87700 Score: 151
Period size: 41 Copynumber: 5.8 Consensus size: 41
87453 GCGACATTTG
* * * *
87463 TAGCGGCGTTTCTAGAACAAACGCCGGTAAAGACTCATACTA
1 TAGCGGCGTTT-TTGTACAAACGCCGCTAAAGACTCATTCTA
* * * * * * *
87505 TAGCGGCATTTTTATAAAAACGCCGCTAAATAAT-GTTCTT
1 TAGCGGCGTTTTTGTACAAACGCCGCTAAAGACTCATTCTA
* * * * * *
87545 TAGTGGCGTTTTTGTACAAACACCGCTATAGTAC-GAGTCTT
1 TAGCGGCGTTTTTGTACAAACGCCGCTAAAG-ACTCATTCTA
* * *
87586 TACCGGCTTTTTTGTACAAACGCCGCTATAGACTCATTCTA
1 TAGCGGCGTTTTTGTACAAACGCCGCTAAAGACTCATTCTA
** * * * * *
87627 TAGCGGCGTTTTTACAGAAACACCGCTAAATAAT--TTACTT
1 TAGCGGCGTTTTTGTACAAACGCCGCTAAAGACTCATT-CTA
* * *
87667 TAGTGGCATTTTTATACAAACGCCGCTAAAGACT
1 TAGCGGCGTTTTTGTACAAACGCCGCTAAAGACT
87701 GTAATTTAGT
Statistics
Matches: 147, Mismatches: 45, Indels: 10
0.73 0.22 0.05
Matches are distributed among these distances:
39 2 0.01
40 58 0.39
41 77 0.52
42 10 0.07
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (41 bp):
TAGCGGCGTTTTTGTACAAACGCCGCTAAAGACTCATTCTA
Found at i:87719 original size:122 final size:122
Alignment explanation
Indices: 87466--87732 Score: 315
Period size: 122 Copynumber: 2.2 Consensus size: 122
87456 ACATTTGTAG
* * * *
87466 CGGCGTTTCTAGAACAAACGCCGGTAAAGACTCATACTATAGCGGCATTTTTATAAAAACGCCGC
1 CGGC-TTTTTAGAACAAACGCCGCTAAAGACTCATACTATAGCGGCATTTTTACAAAAACACCGC
* * * *
87531 TAAATAATGTTCTTTAGTGGCGTTTTTGTACAAACACCGCTATAGTACGAGTCTTTAC
65 TAAATAATGTTCTTTAGTGGCATTTTTATACAAACACCGCTAAAGTACGAGTATTTAC
* * * * * *
87589 CGGCTTTTTTGTACAAACGCCGCTATAGACTCATTCTATAGCGGCGTTTTTACAGAAACACCGCT
1 CGGCTTTTTAGAACAAACGCCGCTAAAGACTCATACTATAGCGGCATTTTTACAAAAACACCGCT
* * *
87654 AAATAAT-TTACTTTAGTGGCATTTTTATACAAACGCCGCTAAAG-AC-TGTAATTTAG
66 AAATAATGTT-CTTTAGTGGCATTTTTATACAAACACCGCTAAAGTACGAGT-ATTTAC
*
87710 TGGCATTTTTAGAACAAACGCCG
1 CGGC-TTTTTAGAACAAACGCCG
87733 TACAAATGAA
Statistics
Matches: 121, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
120 2 0.02
121 11 0.09
122 104 0.86
123 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (122 bp):
CGGCTTTTTAGAACAAACGCCGCTAAAGACTCATACTATAGCGGCATTTTTACAAAAACACCGCT
AAATAATGTTCTTTAGTGGCATTTTTATACAAACACCGCTAAAGTACGAGTATTTAC
Found at i:90620 original size:21 final size:21
Alignment explanation
Indices: 90594--90652 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
90584 TGATTTATTA
*
90594 TTATGGATTTCAATTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
90615 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
90636 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
90653 ATTGGAAACC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.20, C:0.05, G:0.20, T:0.54
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:90849 original size:43 final size:43
Alignment explanation
Indices: 90764--90860 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
90754 GAGGTAATTA
* *
90764 GCGGCGTTTGTATCTTAAAACGCCGCTATAGATATGACCTTTT
1 GCGGCGTTTGTATCTAAAAACGCCGCTATAGACATGACCTTTT
* *
90807 GCGGCGTTTGT-TCTAAAAAACGCCGCTATATACCA-GATCTTTT
1 GCGGCGTTTGTATCT-AAAAACGCCGCTATAGA-CATGACCTTTT
*
90850 ACGGCGTTTGT
1 GCGGCGTTTGT
90861 GGGAAAAACG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 3 0.06
43 43 0.91
44 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (43 bp):
GCGGCGTTTGTATCTAAAAACGCCGCTATAGACATGACCTTTT
Found at i:91054 original size:43 final size:43
Alignment explanation
Indices: 90800--91073 Score: 334
Period size: 43 Copynumber: 6.4 Consensus size: 43
90790 TATAGATATG
* ** * * *
90800 ACCTTTTGCGGCGTTTGTTCTAAAAAACGCCGCTATATA-CCAG
1 ACCTATTGCGGCGTTTGTT-GGAAAAACGCCGCTAAATATCAAC
* * * * *
90843 ATCTTTTACGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAAC
1 ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAAC
* * *
90886 ACCTATTACGGCGTTTGTAGGAAAAACGCCGCTAAATCTCAAC
1 ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAAC
*
90929 ACCTATTGCGGCGTTTGTTGGAAAAACGCAGCTAAATATCAAC
1 ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAAC
*
90972 ACCTATTGCGGCGTTTATTGGAAAAACGCCGCTAAATATCAAC
1 ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAAC
* * * ***
91015 ACCTATTGCGGCGTTTGTTGGACAAACGTCGCTATATATCGTT
1 ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAAC
91058 ACCTATTGCGGCGTTT
1 ACCTATTGCGGCGTTT
91074 TTTGTTACCA
Statistics
Matches: 205, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
42 15 0.07
43 190 0.93
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (43 bp):
ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAAC
Found at i:92560 original size:60 final size:60
Alignment explanation
Indices: 92435--92563 Score: 154
Period size: 60 Copynumber: 2.1 Consensus size: 60
92425 TATATATATT
* * *
92435 AGGATGAATTTGGAAGATTCAAAAGTTTATAGACTAATTTAAAAGGAGAGTCATAGTTTG
1 AGGATGAAATCGGAAGATTCAAAAGTTTATAGACTAATTTAAAAGGAGAGTCATAATTTG
* * * * *
92495 GGGATGAAATCGGAATATTCAAAAGTTTATGGACTAATTTAAAA-TA-ATGTTTATAATTTG
1 AGGATGAAATCGGAAGATTCAAAAGTTTATAGACTAATTTAAAAGGAGA-G-TCATAATTTG
92555 AGGATGAAA
1 AGGATGAAA
92564 ATAAAACATT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
58 1 0.02
59 2 0.03
60 55 0.95
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.33
Consensus pattern (60 bp):
AGGATGAAATCGGAAGATTCAAAAGTTTATAGACTAATTTAAAAGGAGAGTCATAATTTG
Found at i:92575 original size:60 final size:60
Alignment explanation
Indices: 92451--92582 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 60
92441 AATTTGGAAG
* * ** *
92451 ATTCAAAAGTTTATAGACTAATTTAAAAGGAGAGTCATAGTTTGGGGATGAAATCGGAAT
1 ATTCAAAAGTTTATAGACTAATTTAAAAGGAGAGTCATAATTTGAGGATGAAATCAAAAC
* * *
92511 ATTCAAAAGTTTATGGACTAATTTAAAA-TA-ATGTTTATAATTTGAGGATGAAAAT-AAAAC
1 ATTCAAAAGTTTATAGACTAATTTAAAAGGAGA-G-TCATAATTTGAGGATG-AAATCAAAAC
92571 ATTCAAAAGTTT
1 ATTCAAAAGTTT
92583 GAGGATAAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
58 1 0.02
59 2 0.03
60 54 0.89
61 4 0.07
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.33
Consensus pattern (60 bp):
ATTCAAAAGTTTATAGACTAATTTAAAAGGAGAGTCATAATTTGAGGATGAAATCAAAAC
Found at i:95052 original size:43 final size:43
Alignment explanation
Indices: 94999--95119 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 43
94989 CTTGACAATA
* *
94999 AAACGCCGCAAAAGATCATGTTATGTAGCGGCGTTTTTCTACC
1 AAACGGCGCAAAAGATCATGTTATATAGCGGCGTTTTTCTACC
* * * *
95042 AAACGGCGCAAAATG-TCATGTTATATAGAGTCGCTTTTCTGCC
1 AAACGGCGCAAAA-GATCATGTTATATAGCGGCGTTTTTCTACC
* *
95085 AAA-TGCCCAAAA-AGTCATGTTATATAGCGGCGTTT
1 AAACGGCGCAAAAGA-TCATGTTATATAGCGGCGTTT
95120 ATATTGACAA
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
42 25 0.39
43 38 0.59
44 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (43 bp):
AAACGGCGCAAAAGATCATGTTATATAGCGGCGTTTTTCTACC
Found at i:98086 original size:147 final size:146
Alignment explanation
Indices: 97659--98051 Score: 572
Period size: 146 Copynumber: 2.7 Consensus size: 146
97649 TCAGATTCTC
* * * *
97659 GCCGGAGATCGGGATCTCCGATCAACATTCCGAACGGTCAAATGTTGCGGAAGGCCATCACGAAC
1 GCCGGTGATCGGAATCTCCGATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAAC
* * * *
97724 AATATATTGAAATATCAGGACGATCAGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGGG
66 AACATATTGAAAAATCAGGACGATCGGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGGA
97789 CGGTTTTTAGCCTCTT
131 CGGTTTTTAGCCTCTT
* * ** *
97805 TCCGGTGATCGGAATATTTGATCAATATTCCGAACGGTCAAAAGTTGAGGAAGGCCATCACGAAC
1 GCCGGTGATCGGAATCTCCGATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAAC
97870 AACATATTGAAAAATCAGGACGATCGGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGGA
66 AACATATTGAAAAATCAGGACGATCGGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGGA
97935 CGGTTTTTAGCCTCTT
131 CGGTTTTTAGCCTCTT
* * * * *
97951 GCCGGGTGATCGGAATCTGCGATCAATATTCCGAACGGTGAAAAGTTGCGCG-ATGCCAACACAA
1 GCC-GGTGATCGGAATCTCCGATCAATATTCCGAACGGTCAAAAGTTGCG-GAAGGCCATCACGA
* * *
98015 ACAACCTGTTGAAAAATCAGGACCATCGGACGGTGGA
64 ACAACATATTGAAAAATCAGGACGATCGGACGGTGGA
98052 TGACGGCAGA
Statistics
Matches: 220, Mismatches: 25, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
146 135 0.61
147 84 0.38
148 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (146 bp):
GCCGGTGATCGGAATCTCCGATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAAC
AACATATTGAAAAATCAGGACGATCGGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGGA
CGGTTTTTAGCCTCTT
Found at i:100473 original size:46 final size:47
Alignment explanation
Indices: 100366--100482 Score: 182
Period size: 47 Copynumber: 2.5 Consensus size: 47
100356 TAAATGTATA
100366 CGAACTAGAAATCATGCGGTTAGGTTTATTTTATCAAACAAAGCATG
1 CGAACTAGAAATCATGCGGTTAGGTTTATTTTATCAAACAAAGCATG
* *
100413 CGAACTAGAAATCATGCGGTTAGGTTTATTTTCTCGAAC-AAGCATG
1 CGAACTAGAAATCATGCGGTTAGGTTTATTTTATCAAACAAAGCATG
* **
100459 CGAATTAGTTATCATGCGGTTAGG
1 CGAACTAGAAATCATGCGGTTAGG
100483 ACTTTTTGTG
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
46 28 0.43
47 37 0.57
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (47 bp):
CGAACTAGAAATCATGCGGTTAGGTTTATTTTATCAAACAAAGCATG
Found at i:101242 original size:6 final size:6
Alignment explanation
Indices: 101231--101273 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
101221 ATTAACACCT
101231 TTTGCA TTTGCA TTTGGCA TTTGCA TTTGCA TTTGCA -TTGCA T
1 TTTGCA TTTGCA TTT-GCA TTTGCA TTTGCA TTTGCA TTTGCA T
101274 GTATTTGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.14
6 24 0.69
7 6 0.17
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.49
Consensus pattern (6 bp):
TTTGCA
Found at i:101255 original size:19 final size:18
Alignment explanation
Indices: 101231--101273 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
101221 ATTAACACCT
101231 TTTGCATTTGCATTTGGCA
1 TTTGCATTTGCATTT-GCA
101250 TTTGCATTTGCATTTGCA
1 TTTGCATTTGCATTTGCA
101268 -TTGCAT
1 TTTGCAT
101274 GTATTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.25
18 3 0.12
19 15 0.62
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.49
Consensus pattern (18 bp):
TTTGCATTTGCATTTGCA
Found at i:104167 original size:125 final size:125
Alignment explanation
Indices: 103945--104453 Score: 765
Period size: 125 Copynumber: 4.1 Consensus size: 125
103935 AAGTTGTGAT
103945 ATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGCATGAA
1 ATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGCATGAA
* **
104010 GAATGAGCCTTAGAATTTGAGGTGATGGGGCATTTTGAAGGCCTATACCAGTATAAGATA
66 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
*
104070 ATGTTGGCGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGCATGAA
1 ATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGCATGAA
* *
104135 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTGTAAGATG
66 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
* * *
104195 AGGTTGGGGCATGACTGAACCCACATCATGTTAAGATGAAAAGATTCAGACCAAGGAGGCATGAA
1 ATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGCATGAA
*
104260 GAATGAGCCTTACAATTTGAGGTGATTGGGCATTTTGAAGGCCCCGTACCAGTATAAGATA
66 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGG-CCCGTACCAGTATAAGATA
* * * * *
104321 ATGTTTGGGCATGACTGAACCCACATCATGTCGAGATGACAAGA---AGACCAAGAAGGAATTG-
1 ATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGCA-TGA
* * *** * *
104382 AGAATGAGCCTTACAAGTTGAGGTGTTGGAATATTTTGAAGGCCCGTATCAATATAAGATA
65 AGAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
*
104443 ATGTTGTGGCA
1 ATGTTGGGGCA
104454 CAAGTGACGT
Statistics
Matches: 352, Mismatches: 30, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
122 26 0.07
123 48 0.14
124 2 0.01
125 220 0.62
126 56 0.16
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.24
Consensus pattern (125 bp):
ATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGCATGAA
GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
Found at i:105666 original size:36 final size:36
Alignment explanation
Indices: 105624--105700 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
105614 AGCAAAGTCA
* * * * *
105624 ATCTTAAGCCTTCACTAAAGAGTAGTGAAGCAAACC
1 ATCTTAAGCATGCACCAAAGAATAATGAAGCAAACC
*
105660 GTCTTAAGCATGCACCAAAGAATAATGAAGCAAACC
1 ATCTTAAGCATGCACCAAAGAATAATGAAGCAAACC
105696 ATCTT
1 ATCTT
105701 GTGTCTTCAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (36 bp):
ATCTTAAGCATGCACCAAAGAATAATGAAGCAAACC
Found at i:106255 original size:54 final size:54
Alignment explanation
Indices: 106115--107067 Score: 1221
Period size: 54 Copynumber: 17.9 Consensus size: 54
106105 AGTGAAGCAA
* * * *
106115 AAGAAGATTTTCGAGTTCCATACTCCCTAGAGAAAAAAGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * *
106169 AAG-A-TTGTTCGAGTTTCATACTCCCT-GAAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTG
* * ** * * *
106221 AAGAAGAGGTACGAGTTTTATACTCCTTAAAGAAAGAGGGAGCGAACCAGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * *
106275 AAGAAGATGTCCGAGTTCTATACTCCCTAGAGAAAGAGGAAGCGAGCCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* *
106329 AAGAAAATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCATTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
*
106383 AAGAAGATGTACGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * *
106437 AAGAAGATGTCTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
*
106491 AAGAAGATGTCCGAGTTCCATACTCCATAGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
106545 AAGAAGATGT-CGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* *
106598 AAGAAGAT-TTCGAGTTCCATAGTTCATACTTCCTAAAGAAAGAGGGAGCGAACCCG--TG
1 AAGAAGATGTCCGAGTTCCATA---C-T-C--CCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * * *
106656 -TGAAGATATCCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
106709 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* *
106763 AAG-AGATGTCCGAGTTCCACACTCCCTAGAGAAAAAGGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * *
106816 AAGAAGATTTCTGAGTTCCATACTTCCTAGAGAAAGAGGGAGCGAACCCG--TG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * * **
106868 -TG-AGATAT-CGAGTTCCATACTCCTTA-AGAAAGAATGAGCGAA-CCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
*
106917 AAG-AGATGT-TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * * *
106969 AAGAAGATTTTCGAGTTCCATACTTCCTAGAGAAAGAGGGAGTGAACCCG--T-
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * * *
107020 AAGAAGATTATTCGAGTTCTATACTGCCT-GAAGAAAGAGGGAGCGAAC
1 AAGAAGA-TGTCCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAAC
107068 GATGTTGAAG
Statistics
Matches: 798, Mismatches: 75, Indels: 54
0.86 0.08 0.06
Matches are distributed among these distances:
47 3 0.00
48 14 0.02
49 17 0.02
50 27 0.03
51 47 0.06
52 92 0.12
53 122 0.15
54 429 0.54
55 1 0.00
56 1 0.00
57 7 0.01
58 14 0.02
60 24 0.03
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.21
Consensus pattern (54 bp):
AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
Found at i:107095 original size:52 final size:53
Alignment explanation
Indices: 107022--107412 Score: 486
Period size: 52 Copynumber: 7.4 Consensus size: 53
107012 GAACCCGTAA
* *
107022 GAAGATTATTCGAGT-TCTATACTGC-CTGAAGAAAGAGGGAGCGA-ACGA-TGTT
1 GAAGATTGTTCGAGTCT-TATACT-CTCTGAAG-AATAGGGAGCGACACGATTGTT
* *
107074 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGTAGACACGACTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAG-AATAGGGAG-CGACACGATTGTT
107129 GAAGATTGTTCGAGTCTTATACTCT-TGAAGAATAGGGAGCGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAATAGGGAGCGACACGATTGTT
107181 GAAGATTGTTCGAGTCTTATACTCTCTGAATGAATA--GAGC-ACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAA-GAATAGGGAGCGACACGATTGTT
* * * *
107232 GAAGATTGTTTGAGTCTTATACT-TCTGAAGGAATAGGGAG-AAAACGGTTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAA-GAATAGGGAGCGACACGATTGTT
*
107284 GAAGGTTGTTCGAGTCTTATACTCTCTGAAGAATA-GG-GCAGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAATAGGGAGC-GACACGATTGTT
* *
107336 GAAGATTGTTCGAGTCTTATACTCTTTGAAGGAATAAGGAGCGGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAA-GAATAGGGAGC-GACACGATTGTT
107391 GAAGA-TGTTCGAGT-TCTATACT
1 GAAGATTGTTCGAGTCT-TATACT
107413 TCCTAAAGAA
Statistics
Matches: 305, Mismatches: 17, Indels: 32
0.86 0.05 0.09
Matches are distributed among these distances:
50 12 0.04
51 36 0.12
52 150 0.49
53 28 0.09
54 31 0.10
55 48 0.16
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (53 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAATAGGGAGCGACACGATTGTT
Found at i:107283 original size:103 final size:102
Alignment explanation
Indices: 107022--107412 Score: 454
Period size: 103 Copynumber: 3.7 Consensus size: 102
107012 GAACCCGTAA
* * * *
107022 GAAGATTATTCGAGT-TCTATACTGCCTGAAGAAAGAGGGAGCGA-ACGA-TGTTGAAGATTGTT
1 GAAGATTGTTCGAGTCT-TATACT-TCTGAAGGAATAGGGAG-GACACGATTGTTGAAGATTGTT
* *
107084 CGAGTCTTATACTCTCTGAAGAAATAGGGAGTAGACACGACTGTT
63 CGAGTCTTATACTCTCTGAAG-AATA--GAG--CACACGATTGTT
107129 GAAGATTGTTCGAGTCTTATAC-TCTTGAA-GAATAGGGAGCGACACGATTGTTGAAGATTGTTC
1 GAAGATTGTTCGAGTCTTATACTTC-TGAAGGAATAGGGAG-GACACGATTGTTGAAGATTGTTC
107192 GAGTCTTATACTCTCTGAATGAATAGAGCACACGATTGTT
64 GAGTCTTATACTCTCTGAA-GAATAGAGCACACGATTGTT
* * * * *
107232 GAAGATTGTTTGAGTCTTATACTTCTGAAGGAATAGGGAGAAAACGGTTGTTGAAGGTTGTTCGA
1 GAAGATTGTTCGAGTCTTATACTTCTGAAGGAATAGGGAGGACACGATTGTTGAAGATTGTTCGA
*
107297 GTCTTATACTCTCTGAAGAATAGGGCAGACACGATTGTT
66 GTCTTATACTCTCTGAAGAATAGAGC--ACACGATTGTT
* *
107336 GAAGATTGTTCGAGTCTTATACTCTTTGAAGGAATAAGGAGCGGACACGATTGTTGAAGA-TGTT
1 GAAGATTGTTCGAGTCTTATACT-TCTGAAGGAAT-AGG-GAGGACACGATTGTTGAAGATTGTT
107400 CGAGT-TCTATACT
63 CGAGTCT-TATACT
107413 TCCTAAAGAA
Statistics
Matches: 252, Mismatches: 19, Indels: 27
0.85 0.06 0.09
Matches are distributed among these distances:
102 8 0.03
103 73 0.29
104 45 0.18
105 26 0.10
106 26 0.10
107 72 0.29
108 2 0.01
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (102 bp):
GAAGATTGTTCGAGTCTTATACTTCTGAAGGAATAGGGAGGACACGATTGTTGAAGATTGTTCGA
GTCTTATACTCTCTGAAGAATAGAGCACACGATTGTT
Found at i:107328 original size:155 final size:159
Alignment explanation
Indices: 107022--107430 Score: 527
Period size: 155 Copynumber: 2.6 Consensus size: 159
107012 GAACCCGTAA
* * * *
107022 GAAGATTATTCGAGT-TCTATACTGC-CTGAAGAAAGAGGGAGCGA-ACGA-TGTTGAAGATTGT
1 GAAGATTGTTCGAGTCT-TATACT-CTCTGAAGGAATAAGGAGCGACACGATTGTTGAAGATTGT
*
107083 TCGAGTCTTATACTCTCTGAAGAAATAGGGAGTAGACACGACTGTTGAAGATTGTTCGAGTCTTA
64 TCGAGTCTTATACT-TCTGAAGAAATAGGGAGTAGAAACGACTGTTGAAGATTGTTCGAGTCTTA
107148 TACTCTTGAAGAATAGGGAGCGACACGATTGTT
128 TACTCTTGAAGAATAGGGA-CGACACGATTGTT
* *
107181 GAAGATTGTTCGAGTCTTATACTCTCTGAATGAAT-A-GAGC-ACACGATTGTTGAAGATTGTTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAAGGAGCGACACGATTGTTGAAGATTGTTC
* ** *
107243 GAGTCTTATACTTCTGAAGGAATAGGGAG-A-AAACGGTTGTTGAAGGTTGTTCGAGTCTTATAC
66 GAGTCTTATACTTCTGAAGAAATAGGGAGTAGAAACGACTGTTGAAGATTGTTCGAGTCTTATAC
107306 TCTCTGAAGAATAGGG-CAGACACGATTGTT
131 TCT-TGAAGAATAGGGAC-GACACGATTGTT
*
107336 GAAGATTGTTCGAGTCTTATACTCTTTGAAGGAATAAGGAGCGGACACGATTGTTGAAGA-TGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAAGGAGC-GACACGATTGTTGAAGATTGTT
* *
107400 CGAGT-TCTATACTTCCTAAAGAAAGAGGGAG
65 CGAGTCT-TATACTT-CTGAAGAAATAGGGAG
107431 CGAACCCGAT
Statistics
Matches: 221, Mismatches: 17, Indels: 24
0.84 0.06 0.09
Matches are distributed among these distances:
154 1 0.00
155 77 0.35
156 15 0.07
157 29 0.13
158 42 0.19
159 56 0.25
160 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (159 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAAGGAGCGACACGATTGTTGAAGATTGTTC
GAGTCTTATACTTCTGAAGAAATAGGGAGTAGAAACGACTGTTGAAGATTGTTCGAGTCTTATAC
TCTTGAAGAATAGGGACGACACGATTGTT
Found at i:107519 original size:52 final size:55
Alignment explanation
Indices: 107391--107521 Score: 155
Period size: 52 Copynumber: 2.5 Consensus size: 55
107381 CACGATTGTT
* ***
107391 GAAGA-TGTTCGAGTTCTATACTTCCTAAAGAAAGAGGGAGCGAACCCGATTTCA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGAAGGCA
* *
107445 GAAGATT-TGCGACTTCTATACTCCCTAAAG-AA-AGGGAGCGAACCCGAAGGCA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGAAGGCA
* *
107497 TAAGATTGTTCGAGTTC-CTACTCCC
1 GAAGATTGTTCGAGTTCTATACTCCC
107522 AATCTTCATC
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
52 30 0.46
53 9 0.14
54 25 0.38
55 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (55 bp):
GAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGAAGGCA
Done.