Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008042.1 Hibiscus syriacus cultivar Beakdansim tig00110529_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: 188401
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:502 original size:122 final size:127
Alignment explanation
Indices: 343--580 Score: 398
Period size: 128 Copynumber: 1.9 Consensus size: 127
333 TTAATTTTTC
*
343 TATTATTAATATATTTTTCCCTCTCTCTCATATTTAGC-TAT-TATATATGGAATTAATATTA-T
1 TATTATTAATATATTTTTCCCCCTCTCTCATATTTAGCTTATATATATATGGAATTAATATTATT
405 ATAT-TTTTTTATTAATTTTA-CTTATACGCTATTATTTTACATTTTTTAATTTTTCTATTAT
66 ATATGTTTTTTATTAATTTTACCTTATACGCTA-TATTTTACATTTTTTAATTTTTCTATTAT
466 TATTATT-ATATATTTTTCCCCCTCTCTCATATTTAGCTATTATATATATATGGAATTAATATTA
1 TATTATTAATATATTTTTCCCCCTCTCTCATATTTAGC--TTATATATATATGGAATTAATATTA
530 TTATATGTTTTTTATTAATTTTACCTTATACGCTATATTTTACATTTTTTA
64 TTATATGTTTTTTATTAATTTTACCTTATACGCTATATTTTACATTTTTTA
581 TATACATATG
Statistics
Matches: 107, Mismatches: 1, Indels: 9
0.91 0.01 0.08
Matches are distributed among these distances:
122 29 0.27
123 7 0.07
125 3 0.03
126 20 0.19
127 5 0.05
128 32 0.30
129 11 0.10
ACGTcount: A:0.29, C:0.11, G:0.04, T:0.56
Consensus pattern (127 bp):
TATTATTAATATATTTTTCCCCCTCTCTCATATTTAGCTTATATATATATGGAATTAATATTATT
ATATGTTTTTTATTAATTTTACCTTATACGCTATATTTTACATTTTTTAATTTTTCTATTAT
Found at i:682 original size:39 final size:40
Alignment explanation
Indices: 638--713 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 40
628 TTATTTCACC
* * *
638 TTTATTATGTTTTATTTAT-TTATTT-TTTTTTCTTTCCGT
1 TTTATTAGGTCTTATTT-TCTTATTTCTTTATTCTTTCCGT
*
677 TTTATTGGGTCTTATTTTCTTATTTCTTTATTCTTTC
1 TTTATTAGGTCTTATTTTCTTATTTCTTTATTCTTTC
714 AATTTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
38 1 0.03
39 20 0.65
40 10 0.32
ACGTcount: A:0.12, C:0.11, G:0.07, T:0.71
Consensus pattern (40 bp):
TTTATTAGGTCTTATTTTCTTATTTCTTTATTCTTTCCGT
Found at i:12235 original size:105 final size:105
Alignment explanation
Indices: 12053--13143 Score: 1855
Period size: 105 Copynumber: 10.4 Consensus size: 105
12043 AGGTTTTACC
* *
12053 CAGAGCCAATTTTAACTTCACAACGAAAGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
12118 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCACTTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
12158 CAGAGCCAATTCCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
12223 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCACTTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
12263 CAGAGCCAATTCCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
12328 ACGAAGGGACCG-TGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
12367 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
12432 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
12472 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
12537 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTC-AATTT
* *
12578 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCGCG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
* *
12643 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATCT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
12683 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCATG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
* *
12748 ACGAAGGGACCGCTGCTTGTCAAC-AACAACTTTC-CAATCT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-A-TTTCTCAATTT
*
12788 CAGAGCCAATTCCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
12853 ACGAAGGGACCGCTGGTTGCCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
12893 CAGAGCCAATTTCAACTTCACAACGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
12958 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* ***
12998 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTATAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
** ***
13063 ACGAAGGGACCGCTGACTGTCAACCGTCGATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTT
* *
13104 CAGAGCCAATTTCAACTTCACAGCGGAGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
13144 GGAACAATAT
Statistics
Matches: 942, Mismatches: 37, Indels: 13
0.95 0.04 0.01
Matches are distributed among these distances:
104 109 0.12
105 674 0.72
106 159 0.17
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:15152 original size:126 final size:123
Alignment explanation
Indices: 14964--15201 Score: 401
Period size: 126 Copynumber: 1.9 Consensus size: 123
14954 ATTTAATTTC
14964 TATTATTATTATATATTTTTCCCTCTCTCTCATATTTAGCTATTATATATATATGGAATTAATAT
1 TATTATTATTATATATTTTTCCCTCTCTCTCATATTTAGCTATTATATATATATGGAATT-A-A-
15029 TATTATATGTTTTTTTATTAATTTTACCTTATACGCTATTA-TTTACATTTTTAATTTTTCTAT
63 TATTATATG--TTTTTATTAA-TTTACCTTATACGCTATTATTTTACATTTTTAATTTTTCTAT
15092 TATTATTATTATATATTTTTCCC-C-CTCTCATATTTAGCTATTATATATATATGGAATTAATAT
1 TATTATTATTATATATTTTTCCCTCTCTCTCATATTTAGCTATTATATATATATGGAATTAATAT
15155 TATATGTTTTTATTAATTTACCTTATACGCTATTATTTTACATTTTT
66 TATATGTTTTTATTAATTTACCTTATACGCTATTATTTTACATTTTT
15202 TATATACATA
Statistics
Matches: 109, Mismatches: 0, Indels: 9
0.92 0.00 0.08
Matches are distributed among these distances:
120 19 0.17
121 21 0.19
123 9 0.08
124 1 0.01
125 1 0.01
126 34 0.31
127 1 0.01
128 23 0.21
ACGTcount: A:0.29, C:0.11, G:0.04, T:0.56
Consensus pattern (123 bp):
TATTATTATTATATATTTTTCCCTCTCTCTCATATTTAGCTATTATATATATATGGAATTAATAT
TATATGTTTTTATTAATTTACCTTATACGCTATTATTTTACATTTTTAATTTTTCTAT
Found at i:29340 original size:12 final size:11
Alignment explanation
Indices: 29286--29379 Score: 57
Period size: 11 Copynumber: 8.6 Consensus size: 11
29276 TGTTCTTGAA
29286 ATTTTTAATTT
1 ATTTTTAATTT
*
29297 -TTTTATTATTT
1 ATTTT-TAATTT
** *
29308 ATTGATAATAT
1 ATTTTTAATTT
29319 ATTTTTAATTT
1 ATTTTTAATTT
*
29330 ATTTTTAAATT
1 ATTTTTAATTT
* * *
29341 -TTATAAATTA
1 ATTTTTAATTT
**
29351 ATTTTTAATAA
1 ATTTTTAATTT
*
29362 ATTTTAAATTT
1 ATTTTTAATTT
*
29373 AATTTTA
1 ATTTTTA
29380 TATAGATGGG
Statistics
Matches: 59, Mismatches: 21, Indels: 6
0.69 0.24 0.07
Matches are distributed among these distances:
10 10 0.17
11 47 0.80
12 2 0.03
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (11 bp):
ATTTTTAATTT
Found at i:39726 original size:14 final size:14
Alignment explanation
Indices: 39707--39765 Score: 73
Period size: 14 Copynumber: 4.1 Consensus size: 14
39697 GTAATTGGTT
*
39707 TTCTGGAAATTGAA
1 TTCTGGAAAATGAA
39721 TTCTGGAAAATGAA
1 TTCTGGAAAATGAA
**
39735 TTACTGGAATTTGAA
1 TT-CTGGAAAATGAA
*
39750 ATCTGGAAAATGAA
1 TTCTGGAAAATGAA
39764 TT
1 TT
39766 ACATTTTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
14 26 0.70
15 11 0.30
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (14 bp):
TTCTGGAAAATGAA
Found at i:39754 original size:29 final size:29
Alignment explanation
Indices: 39709--39767 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
39699 AATTGGTTTT
*
39709 CTGGAAATTGAATTCTGGAAAATGAATTA
1 CTGGAAATTGAAATCTGGAAAATGAATTA
*
39738 CTGGAATTTGAAATCTGGAAAATGAATTA
1 CTGGAAATTGAAATCTGGAAAATGAATTA
39767 C
1 C
39768 ATTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (29 bp):
CTGGAAATTGAAATCTGGAAAATGAATTA
Found at i:40157 original size:23 final size:22
Alignment explanation
Indices: 40109--40176 Score: 55
Period size: 23 Copynumber: 3.0 Consensus size: 22
40099 CGTGTTAATT
**
40109 ATATTTTAAAATATTAATTAGT
1 ATATTTTAAAATATTAATTAAA
* *
40131 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAA-ATATTAATTAAA
* *
40154 ATATTATTAGATTATTATATTAA
1 ATATT-TTAAAATATTA-ATTAA
40177 TATTAAAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
22 10 0.29
23 16 0.46
24 9 0.26
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (22 bp):
ATATTTTAAAATATTAATTAAA
Found at i:40297 original size:31 final size:30
Alignment explanation
Indices: 40262--40374 Score: 86
Period size: 31 Copynumber: 3.7 Consensus size: 30
40252 AATTTTATTA
40262 ATAATTTATTATATATTATTAAAATAAAAAT
1 ATAATTTATTATA-ATTATTAAAATAAAAAT
* * * * *
40293 ATAATATCTTAT-ATTATTATAATATAATT
1 ATAATTTATTATAATTATTAAAATAAAAAT
* * *
40322 GATTATTTTATTATAA-TATTAAAATTATAAT
1 -A-TAATTTATTATAATTATTAAAATAAAAAT
* *
40353 ATTATATTATTATAAATATTAA
1 ATAAT-TTATTATAATTATTAA
40375 TAAATATATT
Statistics
Matches: 62, Mismatches: 15, Indels: 10
0.71 0.17 0.11
Matches are distributed among these distances:
29 16 0.26
30 11 0.18
31 34 0.55
32 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
ATAATTTATTATAATTATTAAAATAAAAAT
Found at i:40312 original size:8 final size:8
Alignment explanation
Indices: 40301--40366 Score: 50
Period size: 8 Copynumber: 8.6 Consensus size: 8
40291 ATATAATATC
40301 TTATATTA
1 TTATATTA
*
40309 TTATAATA
1 TTATATTA
40317 -TA-ATTGA
1 TTATATT-A
*
40324 TTATTTTA
1 TTATATTA
*
40332 TTATAATA
1 TTATATTA
*
40340 TTA-A-AA
1 TTATATTA
*
40346 TTATAATA
1 TTATATTA
40354 TTATATTA
1 TTATATTA
40362 TTATA
1 TTATA
40367 AATATTAATA
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
6 6 0.13
7 5 0.11
8 32 0.71
9 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (8 bp):
TTATATTA
Found at i:40382 original size:16 final size:16
Alignment explanation
Indices: 40331--40382 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 16
40321 TGATTATTTT
40331 ATTAT-AATATTAA-A
1 ATTATAAATATTAATA
*
40345 ATTAT-AATATTATATT
1 ATTATAAATATTA-ATA
40361 ATTATAAATATTAATA
1 ATTATAAATATTAATA
*
40377 AATATA
1 ATTATA
40383 TTTTAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 12 0.38
15 1 0.03
16 12 0.38
17 7 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTATAAATATTAATA
Found at i:40382 original size:24 final size:23
Alignment explanation
Indices: 40355--40446 Score: 73
Period size: 24 Copynumber: 3.8 Consensus size: 23
40345 ATTATAATAT
40355 TATATTATTATAAATATTAATAAA
1 TATATT-TTATAAATATTAATAAA
* *
40379 TATATTTTA-AATATTTTAATAAT
1 TATATTTTATAA-ATATTAATAAA
40402 TAATATTTTGATTAAA-ATTATATTAAA
1 T-ATATTTT-A-TAAATATTA-A-TAAA
*
40429 -ATATTTTATTAATATTAA
1 TATATTTTATAAATATTAA
40447 ATTCATAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
22 2 0.04
23 17 0.31
24 18 0.33
25 11 0.20
26 2 0.04
27 5 0.09
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (23 bp):
TATATTTTATAAATATTAATAAA
Found at i:40662 original size:42 final size:42
Alignment explanation
Indices: 40614--40693 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
40604 ACCAAACACC
* *
40614 GGAAAACATTTTTCGGAAAACGAATTACGTGAAACAAACATG
1 GGAAAACATTTTCCGAAAAACGAATTACGTGAAACAAACATG
*
40656 GGAAAACATTTTCCGAAAAATGAATTACGTGAAACAAA
1 GGAAAACATTTTCCGAAAAACGAATTACGTGAAACAAA
40694 TACATAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.21
Consensus pattern (42 bp):
GGAAAACATTTTCCGAAAAACGAATTACGTGAAACAAACATG
Found at i:41558 original size:20 final size:20
Alignment explanation
Indices: 41514--41814 Score: 205
Period size: 20 Copynumber: 14.9 Consensus size: 20
41504 AATGACCAAC
41514 AAAATCGCAACGCGATATC--
1 AAAATCGCAACGCGAT-TCAG
*
41533 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
* **
41553 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTCAG
41573 AAAATCGCAACG-G--TCAAAAG
1 AAAATCGCAACGCGATTC---AG
41593 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* * **
41615 AGAATCGCAATGCGAGCCA-
1 AAAATCGCAACGCGATTCAG
*
41634 AAGAATCGCAATGCGATTCCA-
1 AA-AATCGCAACGCGATT-CAG
* *
41655 AGAATCGCAATGCGATCTTC-G
1 AAAATCGCAACGCGA--TTCAG
*
41676 AAGAATCGCAATGCGATTCA-
1 AA-AATCGCAACGCGATTCAG
*
41696 AAGAATCGCAACGCGATTGAG
1 AA-AATCGCAACGCGATTCAG
41717 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
41737 ATAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCAG
41757 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
41777 AGAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCAG
*
41797 AAAATCGCAATGCGATTC
1 AAAATCGCAACGCGATTC
41815 CAAGAATCGC
Statistics
Matches: 231, Mismatches: 27, Indels: 47
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.01
19 21 0.09
20 165 0.71
21 12 0.05
22 28 0.12
23 1 0.00
25 1 0.00
26 1 0.00
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTCAG
Found at i:41644 original size:62 final size:62
Alignment explanation
Indices: 41575--41751 Score: 170
Period size: 62 Copynumber: 2.9 Consensus size: 62
41565 TTGAAAAGAA
41575 AATCGCAACGGTCAAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCAAAG
1 AATCGCAACGGTCAAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCAAAG
* * * * **
41637 AATCGCAATGCGATTC-CAAG--AATCGCAATGCGATCTTCGAAGAATCGCAATGCGATTCAAAG
1 AATCGCAA--CG-GTCAAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCAAAG
** * *
41699 AATCGCAAC-G-CGATTGAGAAAATCGCAACGCGA--TTCCAATAATCGCAACGCGA
1 AATCGCAACGGTC-A-AAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGA
41752 TTGAGAAAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 18
0.75 0.10 0.14
Matches are distributed among these distances:
57 1 0.01
60 20 0.21
62 66 0.70
64 5 0.05
65 2 0.02
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (62 bp):
AATCGCAACGGTCAAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCAAAG
Found at i:41665 original size:40 final size:40
Alignment explanation
Indices: 41514--41826 Score: 323
Period size: 40 Copynumber: 7.8 Consensus size: 40
41504 AATGACCAAC
*
41514 AAAATCGCAACGCGATAT-CAA-AATCGCAACGCGATTTAG
1 AAAATCGCAACGCGAT-TCCAAGAATCGCAACGCGATTGAG
* **** **
41553 AAAATCGCAACGTTGAAAAGAA-AATCGCAACG-G-TCAAAAG
1 AAAATCGCAACG-CGATTCCAAGAATCGCAACGCGAT--TGAG
* ***
41593 AAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCA-
1 AAAATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTGAG
* * **
41634 AAGAATCGCAATGCGATTCCAAGAATCGCAATGCGATCTTCG
1 AA-AATCGCAACGCGATTCCAAGAATCGCAACGCGAT-TGAG
* *
41676 AAGAATCGCAATGCGATTCAAAGAATCGCAACGCGATTGAG
1 AA-AATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAG
*
41717 AAAATCGCAACGCGATTCCAATAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAG
41757 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAG
*
41797 AAAATCGCAATGCGATTCCAAGAATCGCAA
1 AAAATCGCAACGCGATTCCAAGAATCGCAA
41827 AACGGCAAAA
Statistics
Matches: 233, Mismatches: 29, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.00
39 15 0.06
40 151 0.65
41 8 0.03
42 57 0.24
43 1 0.00
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (40 bp):
AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAG
Found at i:41822 original size:20 final size:20
Alignment explanation
Indices: 41595--41826 Score: 229
Period size: 20 Copynumber: 11.4 Consensus size: 20
41585 GTCAAAAGAA
41595 AATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGA--TTCCAAG
* *
41617 AATCGCAATGCGA-GCCAAAG
1 AATCGCAACGCGATTCC-AAG
*
41637 AATCGCAATGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
* *
41657 AATCGCAATGCGATCTTCGAAG
1 AATCGCAACGCGA--TTCCAAG
* *
41679 AATCGCAATGCGATTCAAAG
1 AATCGCAACGCGATTCCAAG
* *
41699 AATCGCAACGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
*
41719 AATCGCAACGCGATTCCAAT
1 AATCGCAACGCGATTCCAAG
* *
41739 AATCGCAACGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
41759 AATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
* *
41779 AATCGCAACGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
*
41799 AATCGCAATGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
41819 AATCGCAA
1 AATCGCAA
41827 AACGGCAAAA
Statistics
Matches: 181, Mismatches: 19, Indels: 22
0.82 0.09 0.10
Matches are distributed among these distances:
19 5 0.03
20 140 0.77
21 5 0.03
22 31 0.17
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (20 bp):
AATCGCAACGCGATTCCAAG
Found at i:42718 original size:6 final size:6
Alignment explanation
Indices: 42709--42757 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
42699 CCGTCTCGTC
42709 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
42757 T
1 T
42758 AATACGTGTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:42893 original size:20 final size:20
Alignment explanation
Indices: 42868--42997 Score: 129
Period size: 20 Copynumber: 6.4 Consensus size: 20
42858 TTTTGCCGTT
42868 TTGCGATTCTTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
** *
42888 TTGCGATT-TTCTCAATCGCA
1 TTGCGATTCTT-GGAATCGCG
* *
42908 TTGCGATTCCTGGAATAGCG
1 TTGCGATTCTTGGAATCGCG
**
42928 TTGCGATT-TTCTCAATCGCG
1 TTGCGATTCTT-GGAATCGCG
* *
42948 TTGCGATTCTTTGAATCGCA
1 TTGCGATTCTTGGAATCGCG
42968 TTGCGATTCTTGGAAGATCGCG
1 TTGCGATTCTTGG-A-ATCGCG
42990 TTGCGATT
1 TTGCGATT
42998 TTCTTTTGAC
Statistics
Matches: 88, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.03
20 68 0.77
21 4 0.05
22 13 0.15
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.37
Consensus pattern (20 bp):
TTGCGATTCTTGGAATCGCG
Found at i:42915 original size:40 final size:40
Alignment explanation
Indices: 42868--42975 Score: 171
Period size: 40 Copynumber: 2.7 Consensus size: 40
42858 TTTTGCCGTT
42868 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
1 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
* * *
42908 TTGCGATTCCTGGAATAGCGTTGCGATTTTCTCAATCGCG
1 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
* *
42948 TTGCGATTCTTTGAATCGCATTGCGATT
1 TTGCGATTCTTGGAATCGCGTTGCGATT
42976 CTTGGAAGAT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (40 bp):
TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
Found at i:42965 original size:60 final size:62
Alignment explanation
Indices: 42881--43001 Score: 185
Period size: 60 Copynumber: 2.0 Consensus size: 62
42871 CGATTCTTGG
42881 AATCGCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGG-A-ATAGCGTTGCGATTTTCTC
1 AATCGCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGGAAGATAGCGTTGCGATTTTCTC
* * *
42941 AATCGCGTTGCGATTCTT-TGAATCGCATTGCGATTCTTGGAAGATCGCGTTGCGATTTTCT
1 AATCGCGTTGCGATT-TTCTCAATCGCATTGCGATTCCTGGAAGATAGCGTTGCGATTTTCT
43002 TTTGACCGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
60 35 0.64
61 3 0.05
62 17 0.31
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.37
Consensus pattern (62 bp):
AATCGCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGGAAGATAGCGTTGCGATTTTCTC
Found at i:43053 original size:20 final size:19
Alignment explanation
Indices: 42881--43059 Score: 112
Period size: 20 Copynumber: 8.9 Consensus size: 19
42871 CGATTCTTGG
42881 AATCGCGTTGCGATTTTCT
1 AATCGCGTTGCGATTTTCT
* *
42900 CAATCGCATTGCGA-TTCCT
1 -AATCGCGTTGCGATTTTCT
*
42919 GGAATAGCGTTGCGATTTTCT
1 --AATCGCGTTGCGATTTTCT
42940 CAATCGCGTTGCGATTCTT-T
1 -AATCGCGTTGCGATT-TTCT
* **
42960 GAATCGCATTGCGATTCTTGGA
1 -AATCGCGTTGCGATT-TT-CT
42982 AGATCGCGTTGCGATTTTCT
1 A-ATCGCGTTGCGATTTTCT
* *
43002 -TTTGACCGTTGCGATTTTCT
1 AATCG--CGTTGCGATTTTCT
** * *
43022 TTTCAACATTGCGATTTTCT
1 AATC-GCGTTGCGATTTTCT
43042 AAATCGCGTTGCGATTTT
1 -AATCGCGTTGCGATTTT
43060 TGTTTCGCAT
Statistics
Matches: 125, Mismatches: 23, Indels: 22
0.74 0.14 0.13
Matches are distributed among these distances:
18 2 0.02
19 4 0.03
20 93 0.74
21 13 0.10
22 13 0.10
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (19 bp):
AATCGCGTTGCGATTTTCT
Found at i:44564 original size:15 final size:15
Alignment explanation
Indices: 44522--44564 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
44512 GGTATTTAGT
*
44522 GGGCGGCCGGATGTG
1 GGGCGGACGGATGTG
* *
44537 GGGCAGACAGATGTG
1 GGGCGGACGGATGTG
*
44552 GGGCGGGCGGATG
1 GGGCGGACGGATG
44565 CGGGTAAGGT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.14, C:0.16, G:0.58, T:0.12
Consensus pattern (15 bp):
GGGCGGACGGATGTG
Found at i:50821 original size:23 final size:24
Alignment explanation
Indices: 50774--50864 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
50764 TCTTATTTGA
* * *
50774 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
50798 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATCTGATACTTGACCTGG
*
50821 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
50845 ATTCTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
50865 TTGAATTATG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 21 0.36
24 37 0.64
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACCTGG
Found at i:50834 original size:47 final size:48
Alignment explanation
Indices: 50774--50864 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
50764 TCTTATTTGA
* * *
50774 ATTCTGTTATGATACCTGACCTGGATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGACATGG
*
50821 ATTCTGATCTGATACATGACCTGGATTCTGATATGATACTTGAC
1 ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGAC
50865 TTGAATTATG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 34 0.87
48 5 0.13
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (48 bp):
ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGACATGG
Found at i:57301 original size:18 final size:19
Alignment explanation
Indices: 57278--57319 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
57268 CGGTAATCCT
*
57278 ATTCC-CTAGTAATCTTAC
1 ATTCCACTAATAATCTTAC
57296 ATTCCCACTAATAATCTTAC
1 ATT-CCACTAATAATCTTAC
57316 ATTC
1 ATTC
57320 TGTTAACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 3 0.14
20 15 0.71
ACGTcount: A:0.31, C:0.29, G:0.02, T:0.38
Consensus pattern (19 bp):
ATTCCACTAATAATCTTAC
Found at i:58727 original size:30 final size:33
Alignment explanation
Indices: 58666--58727 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
58656 TATAAATTAA
*
58666 ATTTATAAAAATATATAATATTATAATATAAAT
1 ATTTATAAAAATAAATAATATTATAATATAAAT
*
58699 ATTTA-AAAAATAAATTAT-TTAT-ATATAAA
1 ATTTATAAAAATAAATAATATTATAATATAAA
58728 AGGATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 7 0.26
31 4 0.15
32 11 0.41
33 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (33 bp):
ATTTATAAAAATAAATAATATTATAATATAAAT
Found at i:72553 original size:33 final size:34
Alignment explanation
Indices: 72489--72598 Score: 161
Period size: 34 Copynumber: 3.3 Consensus size: 34
72479 AAAACAGTTG
*
72489 CATTTTCGAGCAATTGAGACTTGTTTCAGAGATA
1 CATTTTCGAGCAATTGAGACTCGTTTCAGAGATA
*
72523 CATGTTT-GAGCAATTGAGA-TCGTTTCAGAGATG
1 CAT-TTTCGAGCAATTGAGACTCGTTTCAGAGATA
* *
72556 CGTTTTCGAGCAATTGAGACTCGTTTCAGAGATG
1 CATTTTCGAGCAATTGAGACTCGTTTCAGAGATA
72590 CATTTTCGA
1 CATTTTCGA
72599 CCAAATTTAA
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
32 3 0.04
33 26 0.38
34 37 0.54
35 3 0.04
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (34 bp):
CATTTTCGAGCAATTGAGACTCGTTTCAGAGATA
Found at i:74834 original size:19 final size:21
Alignment explanation
Indices: 74800--74845 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
74790 ATTAAATCTC
74800 TATTTTATTGAATAAAAATAA
1 TATTTTATTGAATAAAAATAA
* *
74821 TATTTT-TT-AATAAATATAT
1 TATTTTATTGAATAAAAATAA
74840 TATTTT
1 TATTTT
74846 GGGCCAGGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 15 0.65
20 2 0.09
21 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TATTTTATTGAATAAAAATAA
Found at i:75782 original size:23 final size:21
Alignment explanation
Indices: 75740--75783 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
75730 TTATGGGTTG
*
75740 TGTGCATCGATGCATCTTGAA
1 TGTGCATCGATGCATATTGAA
*
75761 TGTGTATCGATGCAAATATTGAA
1 TGTGCATCGATGC--ATATTGAA
75784 CATCGAATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.34
Consensus pattern (21 bp):
TGTGCATCGATGCATATTGAA
Found at i:75807 original size:18 final size:20
Alignment explanation
Indices: 75784--75831 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
75774 AAATATTGAA
75784 CATCGAATGC-CAA-TAGTG
1 CATCGAATGCACAAGTAGTG
*
75802 CATCG-ATGCATAAGTAGTG
1 CATCGAATGCACAAGTAGTG
75821 CATCG-ATGCAC
1 CATCGAATGCAC
75832 CCGTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 4 0.15
18 7 0.27
19 15 0.58
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (20 bp):
CATCGAATGCACAAGTAGTG
Found at i:77470 original size:23 final size:23
Alignment explanation
Indices: 77440--77489 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
77430 TTTATATGGA
77440 ACTTCGGTGCAATTCTACGCGGC
1 ACTTCGGTGCAATTCTACGCGGC
*
77463 ACTTCGGTGCAATTCTACGTGGC
1 ACTTCGGTGCAATTCTACGCGGC
77486 ACTT
1 ACTT
77490 AGGTACATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.18, C:0.28, G:0.24, T:0.30
Consensus pattern (23 bp):
ACTTCGGTGCAATTCTACGCGGC
Found at i:77504 original size:23 final size:23
Alignment explanation
Indices: 77440--77504 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 23
77430 TTTATATGGA
* * *
77440 ACTTCGGTGCAATTCTACGCGGC
1 ACTTAGGTACAATTATACGCGGC
* * * *
77463 ACTTCGGTGCAATTCTACGTGGC
1 ACTTAGGTACAATTATACGCGGC
*
77486 ACTTAGGTACATTTATACG
1 ACTTAGGTACAATTATACG
77505 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.31
Consensus pattern (23 bp):
ACTTAGGTACAATTATACGCGGC
Found at i:79565 original size:16 final size:17
Alignment explanation
Indices: 79544--79576 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
79534 ATAAGGAATA
*
79544 AATAAAGGAAT-AATGG
1 AATAAAGAAATGAATGG
79560 AATAAAGAAATGAATGG
1 AATAAAGAAATGAATGG
79577 GATTGAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.24, T:0.18
Consensus pattern (17 bp):
AATAAAGAAATGAATGG
Found at i:79574 original size:20 final size:19
Alignment explanation
Indices: 79534--79574 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
79524 TGATTTGTTT
*
79534 ATAAGGAATAAATAAAGGA
1 ATAAGGAATAAAGAAAGGA
*
79553 ATAATGGAATAAAGAAATGA
1 ATAA-GGAATAAAGAAAGGA
79573 AT
1 AT
79575 GGGATTGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.61, C:0.00, G:0.20, T:0.20
Consensus pattern (19 bp):
ATAAGGAATAAAGAAAGGA
Found at i:83908 original size:31 final size:30
Alignment explanation
Indices: 83824--83914 Score: 105
Period size: 30 Copynumber: 3.0 Consensus size: 30
83814 CCCGAATGAC
*
83824 CTATCCATATGTTCCG-AAGAACATAGGTAA
1 CTATCCATATGTCCCGAAAG-ACATAGGTAA
*
83854 CTATCCATATGTCCCGAAGGACATAGGTAAA
1 CTATCCATATGTCCCGAAAGACATAGGT-AA
* * *
83885 CTGTCTATATGTCTCGAAAGACATA-GTAA
1 CTATCCATATGTCCCGAAAGACATAGGTAA
83914 C
1 C
83915 CCTCGACTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
29 3 0.06
30 25 0.47
31 25 0.47
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (30 bp):
CTATCCATATGTCCCGAAAGACATAGGTAA
Found at i:84625 original size:21 final size:21
Alignment explanation
Indices: 84594--84651 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
84584 AGGGTGTCAA
* *
84594 AGTGCAACCATGCACCCTTGC
1 AGTGCATCCATGCACCCCTGC
*
84615 AGTGCGTCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
*
84636 AGTGCATCCATACACC
1 AGTGCATCCATGCACC
84652 TGCCACTAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.40, G:0.19, T:0.19
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:89905 original size:31 final size:32
Alignment explanation
Indices: 89853--89961 Score: 96
Period size: 32 Copynumber: 3.3 Consensus size: 32
89843 TTCAGTGAGC
* * *
89853 TTAACGAACAACGAATCGAGCAACAAGTTTTT
1 TTAACGAGCAACGAGTCGAGCAACAAATTTTT
**
89885 TTAACGAGC-ACGAGTCGAGCAA-AAATTTAACGAGC
1 TTAACGAGCAACGAGTCGAGCAACAAATTT-----TT
*
89920 TTAACGAGCAACGAGTCGAGCAACAAAATTTT
1 TTAACGAGCAACGAGTCGAGCAACAAATTTTT
*
89952 TTAACAAGCA
1 TTAACGAGCA
89962 CGAATCAAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
30 5 0.08
31 12 0.20
32 17 0.28
35 9 0.15
36 13 0.21
37 5 0.08
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.21
Consensus pattern (32 bp):
TTAACGAGCAACGAGTCGAGCAACAAATTTTT
Found at i:93332 original size:25 final size:25
Alignment explanation
Indices: 93283--93334 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
93273 AAGGATATAA
93283 TAAATGAATAAATAAATAGATAATG
1 TAAATGAATAAATAAATAGATAATG
93308 TAAATGAATAAATAAATAGATAATG
1 TAAATGAATAAATAAATAGATAATG
93333 TA
1 TA
93335 TGTACTGAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.29
Consensus pattern (25 bp):
TAAATGAATAAATAAATAGATAATG
Found at i:99005 original size:36 final size:36
Alignment explanation
Indices: 98959--99100 Score: 207
Period size: 36 Copynumber: 4.0 Consensus size: 36
98949 ATGTGATACA
* * *
98959 TCCTTTCGTTCAACTTGAATCGGAAGTGTCGATGCT
1 TCCTTCCGTTCGACTTGAATCGGAAGTGTCGATGCC
98995 TCCTTCCGTTCGACTTGAATCGGAAGTG-CTGATGCC
1 TCCTTCCGTTCGACTTGAATCGGAAGTGTC-GATGCC
*
99031 TCCTTCAGTTCGACTTGAATC-GAAGTGTCGATGCC
1 TCCTTCCGTTCGACTTGAATCGGAAGTGTCGATGCC
* *
99066 TCCTTCCGTTTGACTTAAATCGGAAGTGTCGATGC
1 TCCTTCCGTTCGACTTGAATCGGAAGTGTCGATGC
99101 TTTCTTTCGT
Statistics
Matches: 96, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
35 31 0.32
36 65 0.68
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (36 bp):
TCCTTCCGTTCGACTTGAATCGGAAGTGTCGATGCC
Found at i:101845 original size:11 final size:11
Alignment explanation
Indices: 101829--101891 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
101819 AAAATTACAT
101829 TATTAAAAATA
1 TATTAAAAATA
101840 TATTAAAAATA
1 TATTAAAAATA
* * **
101851 CACTATTAATA
1 TATTAAAAATA
101862 -ATTATAAAAT-
1 TATTA-AAAATA
101872 T-TTAAAAATA
1 TATTAAAAATA
*
101882 TGTTAAAAAT
1 TATTAAAAAT
101892 TCTATAATAC
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 5 0.12
10 7 0.17
11 29 0.71
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:101846 original size:25 final size:24
Alignment explanation
Indices: 101817--101872 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
101807 TTTAGATTTT
*
101817 TTAAAATTACATTATTAAAAATATA
1 TTAAAATTACACTATTAAAAAT-TA
* *
101842 TTAAAAATACACTATTAATAATTA
1 TTAAAATTACACTATTAAAAATTA
101866 -TAAAATT
1 TTAAAATT
101873 TTAAAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 2 0.07
25 19 0.70
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (24 bp):
TTAAAATTACACTATTAAAAATTA
Found at i:106661 original size:21 final size:20
Alignment explanation
Indices: 106634--106731 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
106624 AATCAGTGTC
106634 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
106655 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
106675 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
106695 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
106716 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
106732 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.51
21 30 0.49
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:106684 original size:41 final size:41
Alignment explanation
Indices: 106575--106731 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
106565 AAATGACCAA
* **
106575 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
* ** * *
106614 CAGAATCGCAAATC-AGTGTCCAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTC
* * * **
106655 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTC
*
106696 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
106732 ACACATAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 17 0.20
41 53 0.61
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
Found at i:106741 original size:20 final size:20
Alignment explanation
Indices: 106718--106888 Score: 107
Period size: 20 Copynumber: 8.6 Consensus size: 20
106708 GCGAATATGA
106718 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
106738 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
106758 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
** *
106778 AAATCGCAACGCGTTTCCGT
1 AAATCGCAACGCGTAACCAT
* * *
106798 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
106818 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
* **
106838 AAATCGCAACGAG-AATCTGT
1 AAATCGCAACGCGTAA-CCAT
* *
106858 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
106878 AAATCGCAACG
1 AAATCGCAACG
106889 AGAATCTGTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 127 0.97
21 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:106783 original size:60 final size:58
Alignment explanation
Indices: 106698--106907 Score: 208
Period size: 60 Copynumber: 3.5 Consensus size: 58
106688 CGATTTTCCA
* ** * *
106698 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCGAAC-CGTAAATCGCAA-GCGTATCCGT
* ** *
106758 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTTTCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCG-AACCGTAAATCGCAA-GCGTATCCGT
* *
106818 AAATCGCAACGAT-AATCCGTAAATCGCAACGAGAATCTGTAAATCGCAA-CGATAATCCGT
1 AAATCGCAACG-TGAATCCGTAAATCGCAACGCGAA-CCGTAAATCGCAAGCG-T-ATCCGT
* * *
106878 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGTGAATCCGTAAATCGCAAC
106908 ACTGAAATTT
Statistics
Matches: 125, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
58 2 0.02
59 1 0.01
60 120 0.96
61 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (58 bp):
AAATCGCAACGTGAATCCGTAAATCGCAACGCGAACCGTAAATCGCAAGCGTATCCGT
Found at i:106889 original size:20 final size:20
Alignment explanation
Indices: 106752--106907 Score: 174
Period size: 20 Copynumber: 7.8 Consensus size: 20
106742 CGCAATGCGT
*
106752 ATCCGTAAATCGCAACG-TGT
1 ATCCGTAAATCGCAACGAT-A
*
106772 ATCCGTAAATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
* * *
106792 TTCCGTATATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
106812 ATCCGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
106832 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
*
106852 ATCTGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
106872 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
* *
106892 ATCTGTAAATCACAAC
1 ATCCGTAAATCGCAAC
106908 ACTGAAATTT
Statistics
Matches: 121, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
19 1 0.01
20 119 0.98
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (20 bp):
ATCCGTAAATCGCAACGATA
Found at i:106889 original size:40 final size:40
Alignment explanation
Indices: 106718--106907 Score: 208
Period size: 40 Copynumber: 4.8 Consensus size: 40
106708 GCGAATATGA
* *
106718 AAATCGCAACGCGAA-CACATAAATCGCAATGCG-T-ATCCGT
1 AAATCGCAACGAGAATC-CGTAAATCGCAA--CGATAATCCGT
* * * *
106758 AAATCGCAACGTGTATCCGTAAATCGCAACGCGT-TTCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACG-ATAATCCGT
* * *
106798 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
*
106838 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
106878 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCCGTAAATCGCAAC
106908 ACTGAAATTT
Statistics
Matches: 133, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 129 0.97
41 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (40 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
Found at i:107622 original size:24 final size:24
Alignment explanation
Indices: 107583--107629 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
107573 AAATTTGGTC
107583 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
107607 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
107630 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:107815 original size:12 final size:12
Alignment explanation
Indices: 107798--107822 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
107788 ATATAATCCT
107798 GAAGAAGAAAAA
1 GAAGAAGAAAAA
107810 GAAGAAGAAAAA
1 GAAGAAGAAAAA
107822 G
1 G
107823 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:110102 original size:19 final size:19
Alignment explanation
Indices: 110080--110333 Score: 325
Period size: 19 Copynumber: 14.4 Consensus size: 19
110070 CGGAAATTAC
*
110080 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
110099 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
110113 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
110133 AATCGCAA--CG--A-G--
1 AATCGCAATGCGAAATGAA
110145 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
110164 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
110183 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
110197 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
110216 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
110235 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
110254 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
110273 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
110292 AATCGCAA--CGAAA--AG
1 AATCGCAATGCGAAATGAA
110307 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
110326 AATCGCAA
1 AATCGCAA
110334 CGAGAGAATC
Statistics
Matches: 209, Mismatches: 4, Indels: 44
0.81 0.02 0.17
Matches are distributed among these distances:
12 8 0.04
14 26 0.12
15 11 0.05
16 4 0.02
17 15 0.07
18 2 0.01
19 130 0.62
20 13 0.06
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:110245 original size:38 final size:35
Alignment explanation
Indices: 110145--110355 Score: 288
Period size: 38 Copynumber: 5.9 Consensus size: 35
110135 TCGCAACGAG
110145 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CGAAA-GAAAATCGCAATGCGAAATGAA
110183 AATCGCAACG--AGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAAAGAAAATCGCAATGCGAAATGAA
110216 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CGAAA-GAAAATCGCAATGCGAAATGAA
110254 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CGAAA-GAAAATCGCAATGCGAAATGAA
*
110292 AATCGCAACGAAA-AGAATCGCAATGCGAAATGAA
1 AATCGCAACGAAAGAAAATCGCAATGCGAAATGAA
*
110326 AATCGCAACG--AGAGAATCGCAATGCGAAAT
1 AATCGCAACGAAAGAAAATCGCAATGCGAAAT
110356 TAAACGCATT
Statistics
Matches: 166, Mismatches: 1, Indels: 17
0.90 0.01 0.09
Matches are distributed among these distances:
32 1 0.01
33 48 0.29
34 31 0.19
35 2 0.01
36 7 0.04
37 1 0.01
38 76 0.46
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (35 bp):
AATCGCAACGAAAGAAAATCGCAATGCGAAATGAA
Found at i:110282 original size:109 final size:108
Alignment explanation
Indices: 110108--110369 Score: 375
Period size: 109 Copynumber: 2.5 Consensus size: 108
110098 AAATCCCAAC
110108 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA--CG--A-GAATCGCAATGCGAAATGAAAATC
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAATCGCAATGCGAAATGAAAATC
*
110168 GCAATGCGAAATGAAAATCGCAACGAGAA-AATCGCAATGCGAA
65 GCAATGCGAAATGAAAATCGCAACGAAAAGAATCGCAATGCGAA
110211 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAAT
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATG--AATCGCAATGCGAAATGAAAAT
110276 CGCAATGCGAAATGAAAATCGCAACGAAAAGAATCGCAATGCGAA
64 CGCAATGCGAAATGAAAATCGCAACGAAAAGAATCGCAATGCGAA
* * * *
110321 ATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATTAAACGCATTGCGA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAATCGCAATGCGA
110370 TTTTCATTTC
Statistics
Matches: 146, Mismatches: 5, Indels: 16
0.87 0.03 0.10
Matches are distributed among these distances:
102 16 0.11
103 27 0.18
104 2 0.01
105 18 0.12
106 2 0.01
107 1 0.01
108 2 0.01
109 51 0.35
110 27 0.18
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (108 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAATCGCAATGCGAAATGAAAATCG
CAATGCGAAATGAAAATCGCAACGAAAAGAATCGCAATGCGAA
Found at i:110468 original size:19 final size:19
Alignment explanation
Indices: 110360--110460 Score: 158
Period size: 19 Copynumber: 5.6 Consensus size: 19
110350 CGAAATTAAA
110360 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
110379 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
*
110398 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
110414 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
110431 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
110450 CGCATTGCGAT
1 CGCATTGCGAT
110461 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 10
0.86 0.02 0.11
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 55 0.73
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:110581 original size:14 final size:14
Alignment explanation
Indices: 110564--110600 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
110554 CATCAATTAC
110564 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
110578 ACAAATCATCTTTT
1 ACAAATCAACTTTT
110592 ACAAATCAA
1 ACAAATCAA
110601 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:112581 original size:14 final size:14
Alignment explanation
Indices: 112562--112618 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
112552 GCGAAATGAA
*
112562 AATCGCAACGACAG
1 AATCGCAACGAAAG
112576 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
112593 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
112609 AATCGCAACG
1 AATCGCAACG
112619 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:112589 original size:33 final size:33
Alignment explanation
Indices: 112543--112635 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
112533 GCGAAACCAA
*
112543 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
112576 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
112609 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
112636 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:112600 original size:19 final size:19
Alignment explanation
Indices: 112506--112640 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
112496 TAGTTTACTT
* *
112506 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
112526 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
112545 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
112564 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
112578 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
112597 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
112611 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
112630 TCGCAATGCGA
1 TCGCAACGCGA
112641 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:112658 original size:19 final size:19
Alignment explanation
Indices: 112636--112747 Score: 118
Period size: 19 Copynumber: 6.4 Consensus size: 19
112626 AAAATCGCAA
112636 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
112655 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
112669 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
112688 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
112702 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
112721 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
112740 TGCGATTT
1 TGCGATTT
112748 AACTTTCGTG
Statistics
Matches: 76, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
14 22 0.29
15 1 0.01
16 2 0.03
17 2 0.03
18 2 0.03
19 47 0.62
ACGTcount: A:0.07, C:0.18, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:112678 original size:33 final size:33
Alignment explanation
Indices: 112636--112727 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
112626 AAAATCGCAA
112636 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
112669 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
112702 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
112728 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:112754 original size:19 final size:18
Alignment explanation
Indices: 112666--112763 Score: 69
Period size: 19 Copynumber: 5.4 Consensus size: 18
112656 GCGATCTTGT
**
112666 CGTTGCGATTTTGGTTTCG
1 CGTTGCGA-TTTACTTTCG
*
112685 CGTTGCGA-TT-CTGT--
1 CGTTGCGATTTACTTTCG
*
112699 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTAC-TTTCG
**
112718 CGTTGCGATTTTGGTTTCG
1 CGTTGCGA-TTTACTTTCG
112737 CGTTGCGATTTAACTTTCG
1 CGTTGCGATTT-ACTTTCG
*
112756 TGTTGCGA
1 CGTTGCGA
112764 AAGTAAACTA
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
14 8 0.12
15 2 0.03
16 3 0.05
17 4 0.06
18 3 0.05
19 41 0.64
20 3 0.05
ACGTcount: A:0.09, C:0.18, G:0.28, T:0.45
Consensus pattern (18 bp):
CGTTGCGATTTACTTTCG
Found at i:113137 original size:92 final size:93
Alignment explanation
Indices: 112811--113275 Score: 877
Period size: 92 Copynumber: 5.1 Consensus size: 93
112801 ATGGATTGCA
*
112811 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAAAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
112875 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
112903 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTT-AA-AATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
112966 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
112994 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
113059 TAGCAGAATTGGCAGCAACCGAAC-AAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
113086 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
113151 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
113179 TTACTTTCAACCAAAAGACAAAACAAAGACAAAT-CTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
113243 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
113271 TTACT
1 TTACT
113276 AAGCAATCTA
Statistics
Matches: 367, Mismatches: 2, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
91 88 0.24
92 162 0.44
93 117 0.32
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:114686 original size:169 final size:165
Alignment explanation
Indices: 114411--114744 Score: 632
Period size: 169 Copynumber: 2.0 Consensus size: 165
114401 ATTTCTTCAG
114411 GTCGACATGTAGGTTCGGCTTCTCCATTGACTCATCCGAAAAACCCGGGATAACCATATGGCGGC
1 GTCGACATGTAGGTTCGGCTTCTCCATTGACTCATCCGAAAAACCCGGGATAACCATATGGCGGC
114476 GATATGACGAGTGTACCGGCCTACATCATCGTGTCCGAATCGTAGACCAGTGATTAAGCAGAACT
66 GATATGACGAGTGTACCGGCCTACATCATCGTGTCCGAATCGTAGACCAGTGATTAAGCAGAACT
114541 CCTTCCGCCCAAAGCAAGTATACGCTGGTGGAAAA
131 CCTTCCGCCCAAAGCAAGTATACGCTGGTGGAAAA
114576 GTCGACATGTAGGTTCGGCTTCTCCATTGACTCATCCGGAAAAACCCGGGATAACCATGATGGGC
1 GTCGACATGTAGGTTCGGCTTCTCCATTGACTCATCC-GAAAAACCCGGGATAACCAT-AT-GGC
114641 GGGCGATATGACGAGTGTACCGGCCTACATCATCGTGTCCGAATCGTAGACCAGTGATTAAGCAG
63 -GGCGATATGACGAGTGTACCGGCCTACATCATCGTGTCCGAATCGTAGACCAGTGATTAAGCAG
114706 AACTCCTTCCGCCCAAAGCAAGTATACGCTGGTGGAAAA
127 AACTCCTTCCGCCCAAAGCAAGTATACGCTGGTGGAAAA
114745 TGAAACCATC
Statistics
Matches: 165, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
165 37 0.22
166 20 0.12
167 2 0.01
168 3 0.02
169 103 0.62
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.22
Consensus pattern (165 bp):
GTCGACATGTAGGTTCGGCTTCTCCATTGACTCATCCGAAAAACCCGGGATAACCATATGGCGGC
GATATGACGAGTGTACCGGCCTACATCATCGTGTCCGAATCGTAGACCAGTGATTAAGCAGAACT
CCTTCCGCCCAAAGCAAGTATACGCTGGTGGAAAA
Found at i:115123 original size:14 final size:14
Alignment explanation
Indices: 115104--115193 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
115094 TTGAAATGAA
115104 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
115118 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
115137 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
115151 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
115170 AATCGCAACGAGAG
1 AATCGCAACGAGAG
115184 AATCGCAACG
1 AATCGCAACG
115194 CGAAATAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:115141 original size:33 final size:33
Alignment explanation
Indices: 115096--115210 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
115086 TCTTTTGGTT
115096 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
115129 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
115162 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
115195 GAAATAAAAATCGCAA
1 GAAATGAAAATCGCAA
115211 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.47, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:115142 original size:19 final size:19
Alignment explanation
Indices: 115118--115215 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
115108 GCAACGAGAG
*
115118 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
115137 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
115151 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
115170 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
115184 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
*
115203 AATCGCAATGCGA
1 AATCGCAACGCGA
115216 TTTTGGTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.49
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:115246 original size:14 final size:14
Alignment explanation
Indices: 115227--115283 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
115217 TTTGGTTTCG
115227 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
115241 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
115260 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
115274 CGTTGCGATT
1 CGTTGCGATT
115284 GTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:115265 original size:19 final size:19
Alignment explanation
Indices: 115241--115329 Score: 80
Period size: 19 Copynumber: 4.9 Consensus size: 19
115231 GCGATTCTCT
115241 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
115260 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
115274 CGTTGCGATTGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*** *
115293 CGTTGCGACAGTCATTCTCT
1 CGTTGCGATTTTCATT-TCG
115313 CGTTGCGATTTTCATTT
1 CGTTGCGATTTTCATTT
115330 ATCTCGTTGC
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
14 10 0.18
16 2 0.04
17 3 0.05
19 25 0.45
20 15 0.27
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:115321 original size:39 final size:33
Alignment explanation
Indices: 115211--115329 Score: 157
Period size: 33 Copynumber: 3.4 Consensus size: 33
115201 AAAATCGCAA
**
115211 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
115244 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
115277 TGCGATTGTCATTTCGCGTTGCGACAGTCATTCTCTCGT
1 TGCGATTTTCATTTCGCGTT--G-C-G--ATTCTCTCGT
115316 TGCGATTTTCATTT
1 TGCGATTTTCATTT
115330 ATCTCGTTGC
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
33 50 0.66
35 1 0.01
36 1 0.01
37 1 0.01
39 23 0.30
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:115459 original size:31 final size:32
Alignment explanation
Indices: 115424--115491 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 32
115414 ACTAACTTGA
115424 AAATCGCAACGAGAGAATAGCAACGCG-AATG
1 AAATCGCAACGAGAGAATAGCAACGCGAAATG
* *
115455 AAATCGCAACGAGAGAATCGTAACGCGAAATG
1 AAATCGCAACGAGAGAATAGCAACGCGAAATG
115487 AAATC
1 AAATC
115492 TAAGTGAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 25 0.74
32 9 0.26
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.12
Consensus pattern (32 bp):
AAATCGCAACGAGAGAATAGCAACGCGAAATG
Found at i:115465 original size:17 final size:17
Alignment explanation
Indices: 115443--115491 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 17
115433 CGAGAGAATA
115443 GCAACGCGAATGAAATC
1 GCAACGCGAATGAAATC
*
115460 GCAACGAG-A-G-AATC
1 GCAACGCGAATGAAATC
*
115474 GTAACGCGAAATGAAATC
1 GCAACGCG-AATGAAATC
115492 TAAGTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 7
0.71 0.09 0.20
Matches are distributed among these distances:
14 10 0.40
15 1 0.04
16 2 0.08
17 8 0.32
18 4 0.16
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.12
Consensus pattern (17 bp):
GCAACGCGAATGAAATC
Found at i:115718 original size:22 final size:22
Alignment explanation
Indices: 115666--115720 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
115656 TGGTTGTGAG
**
115666 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
115688 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
115710 GGATTTCTTCG
1 GGATTTCTTCG
115721 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:115890 original size:20 final size:20
Alignment explanation
Indices: 115865--116055 Score: 185
Period size: 20 Copynumber: 9.7 Consensus size: 20
115855 CTTTAAATAT
115865 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
115885 CGCGTTGCGATTTA-GTATTA
1 CGCGTTGCGATTTACGGA-TA
* *
115905 -TCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATA
*
115924 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
115944 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
115964 C-CGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
115983 CACGTTGCGATTTTAC-GATA
1 CGCGTTGCGA-TTTACGGATA
* * *
116003 CGCATTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
116023 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
116043 CGCGTTGCGATTT
1 CGCGTTGCGATTT
116056 TGGAAAATCG
Statistics
Matches: 140, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
19 36 0.26
20 98 0.70
21 6 0.04
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:115918 original size:39 final size:38
Alignment explanation
Indices: 115867--116016 Score: 171
Period size: 39 Copynumber: 3.8 Consensus size: 38
115857 TTAAATATCG
* *
115867 CGTTGCGATTTACGGATACGCGTTGCGATTTA-GTATTA
1 CGTTGCGATTTACCGATACGCGTTGCGATTTACGGA-TA
*
115905 TCGTTGCGATTTACCGATACGCGTTGCGATATACGGATA
1 -CGTTGCGATTTACCGATACGCGTTGCGATTTACGGATA
*
115944 CGCATTGCGATTTACCCATAC-CGTTGCGATTTACGGATACA
1 CG--TTGCGATTTACCGATACGCGTTGCGATTTACGGAT--A
*
115985 CGTTGCGATTTTA-CGATACGCATTGCGATTTA
1 CGTTGCGA-TTTACCGATACGCGTTGCGATTTA
116017 TGTGTTCGCG
Statistics
Matches: 97, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
38 2 0.02
39 59 0.61
40 33 0.34
41 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (38 bp):
CGTTGCGATTTACCGATACGCGTTGCGATTTACGGATA
Found at i:115940 original size:59 final size:60
Alignment explanation
Indices: 115865--116055 Score: 219
Period size: 59 Copynumber: 3.2 Consensus size: 60
115855 CTTTAAATAT
* * *
115865 CGCGTTGCGATTTACGGATACGCGTTGCGATTTA-GTATTATCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTACGTATTACCGTTGCGATTTACAGATA
* ** *
115924 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCA-TACCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTACGTATTACCGTTGCGATTTACAGATA
* * * * * *
115983 CACGTTGCGATTTTAC-GATACGCATTGCGATTTATGTGTT-CGCGTTGCGATTTTCATATT
1 CGCGTTGCGA-TTTACGGATACGCATTGCGATTTACGTATTAC-CGTTGCGATTTACAGATA
116043 CGCGTTGCGATTT
1 CGCGTTGCGATTT
116056 TGGAAAATCG
Statistics
Matches: 111, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
59 82 0.74
60 29 0.26
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCATTGCGATTTACGTATTACCGTTGCGATTTACAGATA
Found at i:116072 original size:21 final size:20
Alignment explanation
Indices: 116022--116119 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
116012 ATTTATGTGT
* * * *
116022 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
116042 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
116063 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
116083 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
116104 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
116120 GAAACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:116114 original size:41 final size:41
Alignment explanation
Indices: 116022--116119 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 41
116012 ATTTATGTGT
* * *
116022 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
116063 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
116104 TCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTG
116120 GAAACTGATT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
40 2 0.04
41 42 0.91
42 2 0.04
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:120844 original size:15 final size:16
Alignment explanation
Indices: 120814--120849 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 16
120804 AGTCAACAGT
120814 GGTCAACGACGGTCAAC
1 GGTCAACGA-GGTCAAC
120831 GGTCAACG-GGTCAAC
1 GGTCAACGAGGTCAAC
120846 GGTC
1 GGTC
120850 GAGTCAACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.58
17 8 0.42
ACGTcount: A:0.25, C:0.28, G:0.33, T:0.14
Consensus pattern (16 bp):
GGTCAACGAGGTCAAC
Found at i:120890 original size:18 final size:18
Alignment explanation
Indices: 120831--120882 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
120821 GACGGTCAAC
*
120831 GGTCAACGGGTCAACGGTCG
1 GGTCAACGGGTC--GGGTCG
*
120851 AGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
120869 GGTCAACGGGTCGG
1 GGTCAACGGGTCGG
120883 TAACGGTCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 18 0.62
20 11 0.38
ACGTcount: A:0.17, C:0.23, G:0.44, T:0.15
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:125985 original size:15 final size:16
Alignment explanation
Indices: 125955--125988 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
125945 AGTCAACAGT
125955 GGTCAACGACGGTCAAC
1 GGTCAACGA-GGTCAAC
125972 GGTCAACG-GGTCAAC
1 GGTCAACGAGGTCAAC
125987 GG
1 GG
125989 GTCGAGTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.26, C:0.26, G:0.35, T:0.12
Consensus pattern (16 bp):
GGTCAACGAGGTCAAC
Found at i:125999 original size:13 final size:13
Alignment explanation
Indices: 125981--126005 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125971 CGGTCAACGG
125981 GTCAACGGGTCGA
1 GTCAACGGGTCGA
125994 GTCAACGGGTCG
1 GTCAACGGGTCG
126006 GGTCGGGTCA
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:0.20, C:0.24, G:0.40, T:0.16
Consensus pattern (13 bp):
GTCAACGGGTCGA
Found at i:126009 original size:18 final size:18
Alignment explanation
Indices: 125986--126026 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
125976 AACGGGTCAA
125986 CGGGTCGAGTCAACGGGT
1 CGGGTCGAGTCAACGGGT
*
126004 CGGGTCGGGTCAACGGGT
1 CGGGTCGAGTCAACGGGT
126022 CGGGT
1 CGGGT
126027 AAACGGGTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.22, G:0.49, T:0.17
Consensus pattern (18 bp):
CGGGTCGAGTCAACGGGT
Found at i:126016 original size:31 final size:31
Alignment explanation
Indices: 125978--126044 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
125968 CAACGGTCAA
*
125978 CGGGTCAACGGGTCGAGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGAGTAAACGGGTCGGGT
*
126009 CGGGTCAACGGGTCGGGTAAACGGGTCGGGT
1 CGGGTCAACGGGTCGAGTAAACGGGTCGGGT
126040 CGGGT
1 CGGGT
126045 TGTGACCGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.15, C:0.21, G:0.48, T:0.16
Consensus pattern (31 bp):
CGGGTCAACGGGTCGAGTAAACGGGTCGGGT
Found at i:126020 original size:13 final size:13
Alignment explanation
Indices: 126004--126040 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
125994 GTCAACGGGT
126004 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
*
126017 CGGGTCGGGTAAA
1 CGGGTCGGGTCAA
126030 CGGGTCGGGTC
1 CGGGTCGGGTC
126041 GGGTTGTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.14, C:0.22, G:0.49, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:127652 original size:51 final size:51
Alignment explanation
Indices: 127592--127694 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
127582 GTGTGCTTAT
127592 ATCTCCTCTTCATGACAGCCAGCTATGCTTATTACGAAAGGAAAAGGAAAG
1 ATCTCCTCTTCATGACAGCCAGCTATGCTTATTACGAAAGGAAAAGGAAAG
*
127643 ATCTCCTCTTCATGACTGCCAGCTATGCTTATTACGAAAGGAAAAGGAAAG
1 ATCTCCTCTTCATGACAGCCAGCTATGCTTATTACGAAAGGAAAAGGAAAG
127694 A
1 A
127695 CCTTCTAGAG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.24
Consensus pattern (51 bp):
ATCTCCTCTTCATGACAGCCAGCTATGCTTATTACGAAAGGAAAAGGAAAG
Found at i:137003 original size:16 final size:17
Alignment explanation
Indices: 136972--137012 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
136962 AAAGGTTAGT
*
136972 TGTATATGTATGTATGTA
1 TGTATA-GTATGTATGAA
136990 TGTATAGT-TGTATGAA
1 TGTATAGTATGTATGAA
137006 TGTATAG
1 TGTATAG
137013 GCTTATGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.64
17 2 0.09
18 6 0.27
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.46
Consensus pattern (17 bp):
TGTATAGTATGTATGAA
Found at i:139563 original size:21 final size:19
Alignment explanation
Indices: 139538--139582 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
139528 ATTCATCCAA
*
139538 TTTTTCATCTTTCTCTTTTCC
1 TTTTTCATC--TCTCTGTTCC
*
139559 TTTTTTATCTCTCTGTTCC
1 TTTTTCATCTCTCTGTTCC
139578 TTTTT
1 TTTTT
139583 ATAAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 14 0.64
21 8 0.36
ACGTcount: A:0.04, C:0.24, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTTCATCTCTCTGTTCC
Found at i:149871 original size:31 final size:31
Alignment explanation
Indices: 149836--149895 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
149826 ATAATCCCAA
* *
149836 AACATTTAGTCTATTTTCAATATGGTCCCTC
1 AACATTTAATCCATTTTCAATATGGTCCCTC
*
149867 AACATTTAATCCGTTTTCAATATGGTCCC
1 AACATTTAATCCATTTTCAATATGGTCCC
149896 CGACGTAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (31 bp):
AACATTTAATCCATTTTCAATATGGTCCCTC
Found at i:152095 original size:34 final size:34
Alignment explanation
Indices: 152016--152098 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
152006 TTTCATGCAT
* * * * *
152016 GATGACATAATATTATTGTCTGTACATTATACAT
1 GATGACATGATATTGTTGTCGGTAAATTATACAG
152050 GATGACATGATATTGTTGTCGGTAAATTATACAG
1 GATGACATGATATTGTTGTCGGTAAATTATACAG
*
152084 GATGACGTGATATTG
1 GATGACATGATATTG
152099 AACATGCTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (34 bp):
GATGACATGATATTGTTGTCGGTAAATTATACAG
Found at i:156745 original size:18 final size:18
Alignment explanation
Indices: 156722--156762 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
156712 TTATTATAAA
156722 ATAATATTTATTCAAAAG
1 ATAATATTTATTCAAAAG
156740 ATAATATTTATTCAAAAG
1 ATAATATTTATTCAAAAG
156758 ATAAT
1 ATAAT
156763 CATATGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (18 bp):
ATAATATTTATTCAAAAG
Found at i:160021 original size:7 final size:7
Alignment explanation
Indices: 160009--160045 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
159999 GTCAAAGAAA
160009 GTCAACG
1 GTCAACG
160016 GTCAACG
1 GTCAACG
160023 GTC-ACG
1 GTCAACG
160029 GTCAACG
1 GTCAACG
160036 GTCAACG
1 GTCAACG
160043 GTC
1 GTC
160046 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:160031 original size:13 final size:14
Alignment explanation
Indices: 160009--160045 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
159999 GTCAAAGAAA
160009 GTCAACGGTCAACG
1 GTCAACGGTCAACG
160023 GTC-ACGGTCAACG
1 GTCAACGGTCAACG
160036 GTCAACGGTC
1 GTCAACGGTC
160046 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:160057 original size:17 final size:17
Alignment explanation
Indices: 160035--160075 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
160025 CACGGTCAAC
* *
160035 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCAGGTCG
160052 GGTCAACAGTCAGGTCG
1 GGTCAACAGTCAGGTCG
160069 GGTCAAC
1 GGTCAAC
160076 CCGGTTCAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.20, C:0.24, G:0.39, T:0.17
Consensus pattern (17 bp):
GGTCAACAGTCAGGTCG
Found at i:160089 original size:10 final size:10
Alignment explanation
Indices: 160076--160128 Score: 74
Period size: 10 Copynumber: 5.5 Consensus size: 10
160066 TCGGGTCAAC
160076 CCGGTTCAGA
1 CCGGTTCAGA
*
160086 CCGG-TCAAA
1 CCGGTTCAGA
160095 CCGGTTCAGA
1 CCGGTTCAGA
*
160105 CCGG-TCAAA
1 CCGGTTCAGA
160114 CCGGTTCAGA
1 CCGGTTCAGA
160124 CCGGT
1 CCGGT
160129 CAAACCTGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
9 16 0.43
10 21 0.57
ACGTcount: A:0.23, C:0.32, G:0.28, T:0.17
Consensus pattern (10 bp):
CCGGTTCAGA
Found at i:160093 original size:19 final size:19
Alignment explanation
Indices: 160069--160158 Score: 135
Period size: 19 Copynumber: 4.7 Consensus size: 19
160059 AGTCAGGTCG
*
160069 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
160088 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
160107 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
* * *
160126 GGTCAAACCTGTTCAAAACT
1 GGTCAAACCGGTTC-AGACC
160146 GGTCAAACCGGTT
1 GGTCAAACCGGTT
160159 TTCTAGCAGC
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
19 50 0.77
20 15 0.23
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:160141 original size:10 final size:9
Alignment explanation
Indices: 160069--160157 Score: 79
Period size: 9 Copynumber: 9.3 Consensus size: 9
160059 AGTCAGGTCG
*
160069 GGTCAACCC
1 GGTCAAACC
*
160078 GGTTCAGACC
1 GG-TCAAACC
160088 GGTCAAACC
1 GGTCAAACC
*
160097 GGTTCAGACC
1 GG-TCAAACC
160107 GGTCAAACC
1 GGTCAAACC
*
160116 GGTTCAGACC
1 GG-TCAAACC
160126 GGTCAAACC
1 GGTCAAACC
* *
160135 TGTTCAAAACT
1 -GGTC-AAACC
160146 GGTCAAACC
1 GGTCAAACC
160155 GGT
1 GGT
160158 TTTCTAGCAG
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
9 31 0.48
10 29 0.45
11 4 0.06
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (9 bp):
GGTCAAACC
Found at i:167332 original size:6 final size:7
Alignment explanation
Indices: 167310--167339 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
167300 GTCAAAGAAA
167310 GTCAACG
1 GTCAACG
167317 GTCAACG
1 GTCAACG
167324 GTC-ACG
1 GTCAACG
167330 GTCAACG
1 GTCAACG
167337 GTC
1 GTC
167340 GGTCGGATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:167332 original size:13 final size:13
Alignment explanation
Indices: 167314--167339 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
167304 AAGAAAGTCA
167314 ACGGTCAACGGTC
1 ACGGTCAACGGTC
167327 ACGGTCAACGGTC
1 ACGGTCAACGGTC
167340 GGTCGGATCA
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:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
ACGGTCAACGGTC
Found at i:167383 original size:17 final size:16
Alignment explanation
Indices: 167328--167385 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 16
167318 TCAACGGTCA
*
167328 CGGTCAACGGTC-GGT
1 CGGTCAACAGTCGGGT
167343 CGGATCAACAGTCGGGT
1 CGG-TCAACAGTCGGGT
167360 CGGGTCAACAGTCGGGT
1 C-GGTCAACAGTCGGGT
167377 CGAGTCAAC
1 CG-GTCAAC
167386 CCGGTTCAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
15 3 0.08
16 9 0.24
17 24 0.63
18 2 0.05
ACGTcount: A:0.21, C:0.26, G:0.36, T:0.17
Consensus pattern (16 bp):
CGGTCAACAGTCGGGT
Found at i:167408 original size:19 final size:19
Alignment explanation
Indices: 167380--167429 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
167370 GTCGGGTCGA
* * *
167380 GTCAACCCGGTTCAGACCG
1 GTCAAACCGGTTCAAAACG
167399 GTCAAACCGGTTCAAAACG
1 GTCAAACCGGTTCAAAACG
*
167418 GTCAAACTGGTT
1 GTCAAACCGGTT
167430 TTCCAGCAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (19 bp):
GTCAAACCGGTTCAAAACG
Found at i:179315 original size:16 final size:16
Alignment explanation
Indices: 179276--179316 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
179266 ATTATTGTTT
179276 TTAATTAATAATTTAA
1 TTAATTAATAATTTAA
**
179292 TTTTTTAATAATTTAA
1 TTAATTAATAATTTAA
179308 TTAATTAAT
1 TTAATTAAT
179317 TTGAGTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAATTAATAATTTAA
Found at i:179332 original size:28 final size:28
Alignment explanation
Indices: 179275--179333 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
179265 TATTATTGTT
* *
179275 TTTAATTAATAATTTAATTTTTTAATAA
1 TTTAATTAATAATTTAAGTTTATAATAA
*
179303 TTTAATTAATTAATTTGAGTTTATAA-AA
1 TTTAATTAA-TAATTTAAGTTTATAATAA
179331 TTT
1 TTT
179334 TAACTTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (28 bp):
TTTAATTAATAATTTAAGTTTATAATAA
Found at i:179335 original size:29 final size:30
Alignment explanation
Indices: 179274--179350 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 30
179264 TTATTATTGT
* * *
179274 TTTTAATTAA-TAATTTAATTTTTTAATAA
1 TTTTAATTAATTAATTTGAGTTTATAATAA
179303 -TTTAATTAATTAATTTGAGTTTATAA-AA
1 TTTTAATTAATTAATTTGAGTTTATAATAA
* *
179331 TTTTAACTTATTTAAATTGA
1 TTTTAA-TTAATTAATTTGA
179351 ATATATTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 11 0.28
29 18 0.45
30 11 0.28
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (30 bp):
TTTTAATTAATTAATTTGAGTTTATAATAA
Found at i:179441 original size:2 final size:2
Alignment explanation
Indices: 179434--179459 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
179424 ATTTCTAATA
179434 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
179460 TCATGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:180091 original size:25 final size:26
Alignment explanation
Indices: 180029--180091 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 26
180019 TTTTTAATTT
*
180029 TCATTTATTTAAAATTTACATATTTAA
1 TCATTTATTT-AAATTTACAAATTTAA
**
180056 TC-TTTCCTTAAATTTA-AAATTTAAA
1 TCATTTATTTAAATTTACAAATTT-AA
180081 TCATTT-TTTAA
1 TCATTTATTTAA
180092 TATAAAGAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
24 5 0.17
25 15 0.50
26 8 0.27
27 2 0.07
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (26 bp):
TCATTTATTTAAATTTACAAATTTAA
Found at i:185743 original size:34 final size:33
Alignment explanation
Indices: 185695--185761 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
185685 GTGAAGACCG
* *
185695 TCAATAATGTAAAAAGGTGTTGATTGATATGCTA
1 TCAATAATGCAAAAAGGTGTCGATT-ATATGCTA
185729 TCAATAATGCAAAAAGGTGTCGATTATATGCTA
1 TCAATAATGCAAAAAGGTGTCGATTATATGCTA
185762 CATCAACATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 8 0.26
34 23 0.74
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (33 bp):
TCAATAATGCAAAAAGGTGTCGATTATATGCTA
Found at i:187690 original size:23 final size:23
Alignment explanation
Indices: 187654--187717 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
187644 CAACTCATAT
*
187654 AAATGCACCGAAGTGCCACGTAG
1 AAATACACCGAAGTGCCACGTAG
* * *
187677 AATTACACCTAAGTGCCGCGTAG
1 AAATACACCGAAGTGCCACGTAG
*
187700 AAATGCACCGAAGTGCCA
1 AAATACACCGAAGTGCCA
187718 TAAGATGTCC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.34, C:0.27, G:0.23, T:0.16
Consensus pattern (23 bp):
AAATACACCGAAGTGCCACGTAG
Done.