Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009081.1 Hibiscus syriacus cultivar Beakdansim tig00112523_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: 1718667
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:6188 original size:30 final size:30
Alignment explanation
Indices: 6152--6211 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
6142 TCCAGCAATG
6152 ACGTTTGATAACTTCATAGAAAATGAGATT
1 ACGTTTGATAACTTCATAGAAAATGAGATT
*
6182 ACGTTTGATAACTTCATAGAACATGAGATT
1 ACGTTTGATAACTTCATAGAAAATGAGATT
6212 TAATTGCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (30 bp):
ACGTTTGATAACTTCATAGAAAATGAGATT
Found at i:7945 original size:15 final size:17
Alignment explanation
Indices: 7919--7950 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7909 TTTTTTGTAA
7919 TTCTAGAATAT-ATTTT
1 TTCTAGAATATAATTTT
7935 TTCTA-AATATAATTTT
1 TTCTAGAATATAATTTT
7951 GTTTTGCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (17 bp):
TTCTAGAATATAATTTT
Found at i:16300 original size:4 final size:4
Alignment explanation
Indices: 16293--16388 Score: 99
Period size: 4 Copynumber: 23.8 Consensus size: 4
16283 AAAATATATA
* *
16293 TATG TATG TATG TATG CATGCG TGTG TATG TATG TATG TATG TAT- TAATG
1 TATG TATG TATG TATG TAT--G TATG TATG TATG TATG TATG TATG T-ATG
* *
16343 TATG TATG TATG TAT- TAATG TATG TATG TGTG TA-G CATG TATG TAT
1 TATG TATG TATG TATG T-ATG TATG TATG TATG TATG TATG TATG TAT
16389 TCTGATTGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
3 4 0.05
4 69 0.90
5 2 0.03
6 2 0.03
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:24744 original size:41 final size:41
Alignment explanation
Indices: 24677--24873 Score: 252
Period size: 41 Copynumber: 4.8 Consensus size: 41
24667 CAAAATACTA
* * * *
24677 TACTTTAGTGGTGTTTGTATAAAAACGCCGCTAAAGA-ATCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACA-CG
* * *
24718 TAATGTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACACG
*
24759 TACTTTAGTGGCATTTTTATACAAACGCCGCTATAGACACG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACACG
* *
24800 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGACACG
1 TACTTTAGTGGCGTTTTTATA-CAAACGCCGCTATAGACACG
* *
24842 TACTTTTGTGGCGTTTTAATACCAAACGCCGC
1 TACTTTAGTGGCGTTTTTATA-CAAACGCCGC
24874 AATTGTCATA
Statistics
Matches: 140, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
41 88 0.63
42 52 0.37
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (41 bp):
TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACACG
Found at i:24895 original size:42 final size:42
Alignment explanation
Indices: 24718--24899 Score: 152
Period size: 42 Copynumber: 4.4 Consensus size: 42
24708 TAAAGAATCG
* * * * *
24718 TAATGTAGTGGCGTTTTTATA-CAAACGCCGCTATAGACTCG
1 TAATCTAGTGGCGTTTTAATACCAAACGCCGCAATAGACACA
* * * * * *
24759 TACTTTAGTGGCATTTTTATA-CAAACGCCGCTATAGACACG
1 TAATCTAGTGGCGTTTTAATACCAAACGCCGCAATAGACACA
* * * * *
24800 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGACACG
1 TAATCTAGTGGCGTTTTAATACCAAACGCCGCAATAGACACA
* * * * * *
24842 TACTTTTGTGGCGTTTTAATACCAAACGCCGCAATTGTCATA
1 TAATCTAGTGGCGTTTTAATACCAAACGCCGCAATAGACACA
24884 TAATCTAGTGGCGTTT
1 TAATCTAGTGGCGTTT
24900 ACGTAAAAAA
Statistics
Matches: 125, Mismatches: 15, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
41 55 0.44
42 70 0.56
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (42 bp):
TAATCTAGTGGCGTTTTAATACCAAACGCCGCAATAGACACA
Found at i:28685 original size:85 final size:85
Alignment explanation
Indices: 28489--28769 Score: 345
Period size: 85 Copynumber: 3.3 Consensus size: 85
28479 AAGGTAATTA
* *
28489 GCGGCGTTTATATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGT-TCAAAAAC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGT-TCT-AAAAAC
*
28553 GCCGTTATAGGTCTGACCTTTT
64 GCAGTTATAGGTCTGACCTTTT
* *
28575 GCAGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
28640 TAG-TATAGGTCTG-CTCTTTT
66 -AGTTATAGGTCTGAC-CTTTT
* * * * *
28660 GCGGCATTTGTATCAAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTTTTCTAGAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
* * ** * *
28725 CGCTATATATCATAACTTTTT
66 AGTTATAGGTC-TGACCTTTT
28746 GCGGCGTTTGT-TCCAAAAACGCCG
1 GCGGCGTTTGTATCCAAAAACGCCG
28770 TAATAGATAT
Statistics
Matches: 170, Mismatches: 19, Indels: 13
0.84 0.09 0.06
Matches are distributed among these distances:
84 2 0.01
85 100 0.59
86 67 0.39
87 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (85 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
AGTTATAGGTCTGACCTTTT
Found at i:28746 original size:128 final size:128
Alignment explanation
Indices: 28489--28767 Score: 350
Period size: 128 Copynumber: 2.2 Consensus size: 128
28479 AAGGTAATTA
* * * *
28489 GCGGCGTTTATATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGTTCAAAAACG
1 GCGGCGTTTGT-TCCAAAAACGCAGCTATAGGTCTGACTTTTTGCGGCATTTGTGATCAAAAACG
* * * *
28554 CCGTTATAGGTCTGACCTTTTGCAGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTT
65 CCGCTATAGATCTGACCTTTTGCAGCGTTTGTGTCCAAAAACGCCGCTATAGATCTAACCTTTT
*
28618 GCGGCGTTTGTTCTAAAAACGCTAG-TATAGGTCTG-CTCTTTTGCGGCATTTGT-ATCAAAAAA
1 GCGGCGTTTGTTCCAAAAACGC-AGCTATAGGTCTGACT-TTTTGCGGCATTTGTGATC-AAAAA
* * * * * *
28680 CGCCGCTATAGATCTGACCTTTTGCGGCGTTT-TTTCTAGAAACGCCGCTATATATCATAACTTT
63 CGCCGCTATAGATCTGACCTTTTGCAGCGTTTGTGTCCAAAAACGCCGCTATAGATC-TAACCTT
28744 TT
127 TT
28746 GCGGCGTTTGTTCCAAAAACGC
1 GCGGCGTTTGTTCCAAAAACGC
28768 CGTAATAGAT
Statistics
Matches: 130, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
127 23 0.18
128 96 0.74
129 11 0.08
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (128 bp):
GCGGCGTTTGTTCCAAAAACGCAGCTATAGGTCTGACTTTTTGCGGCATTTGTGATCAAAAACGC
CGCTATAGATCTGACCTTTTGCAGCGTTTGTGTCCAAAAACGCCGCTATAGATCTAACCTTTT
Found at i:28793 original size:43 final size:43
Alignment explanation
Indices: 28489--28769 Score: 329
Period size: 43 Copynumber: 6.6 Consensus size: 43
28479 AAGGTAATTA
* *
28489 GCGGCGTTTATATCCAAAAACGCCGCTATAGGTCTGACTTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTT
* * *
28532 GCGGCGTTTGTGTTCAAAAACGCCGTTATAGGTCTGACCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTT
* *
28575 GCAGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTT
* *
28618 GCGGCGTTTGT-TCTAAAAACGCTAG-TATAGGTCTG-CTCTTTT
1 GCGGCGTTTGTATCCAAAAACGC-CGCTATAGGTCTGAC-CTTTT
* * *
28660 GCGGCATTTGTATCAAAAAACGCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTT
* * * ** * *
28703 GCGGCGTTT-TTTCTAGAAACGCCGCTATATATCATAACTTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTC-TGACCTTTT
28746 GCGGCGTTTGT-TCCAAAAACGCCG
1 GCGGCGTTTGTATCCAAAAACGCCG
28770 TAATAGATAT
Statistics
Matches: 207, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.00
42 56 0.27
43 148 0.71
44 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (43 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTT
Found at i:31769 original size:50 final size:50
Alignment explanation
Indices: 31639--31776 Score: 226
Period size: 49 Copynumber: 2.8 Consensus size: 50
31629 CTTTCAAAAA
*
31639 ATATATA-TAAGCATTAATTTAATTTTAAAGTTTTGAATAGTATATATAT
1 ATATATATTAAGCATTAATTTAATTTTAAAGTTTTGAATAATATATATAT
*
31688 ACATAT-TTAAGCATTAATTTAATTTTAAAGTTTTGAATAATATATATAT
1 ATATATATTAAGCATTAATTTAATTTTAAAGTTTTGAATAATATATATAT
* *
31737 ATATATATTAAGCATTAATTTAATTTTTAAGTTTTAAATA
1 ATATATATTAAGCATTAATTTAATTTTAAAGTTTTGAATA
31777 GTAAGATATG
Statistics
Matches: 82, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
49 51 0.62
50 31 0.38
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.48
Consensus pattern (50 bp):
ATATATATTAAGCATTAATTTAATTTTAAAGTTTTGAATAATATATATAT
Found at i:37183 original size:31 final size:31
Alignment explanation
Indices: 37145--37238 Score: 154
Period size: 31 Copynumber: 3.0 Consensus size: 31
37135 CCCGAAGGAC
*
37145 CAGTCCATA-GATCCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
37176 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
37207 CAGTCCATATGTCCCGAAGAACATAGTTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
37238 C
1 C
37239 CCTCGACCCT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 59 0.98
32 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:38585 original size:12 final size:12
Alignment explanation
Indices: 38565--38601 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
38555 TCTCTCGTAC
38565 ATGAAGAAGAAG
1 ATGAAGAAGAAG
*
38577 ATGATGAAGAAG
1 ATGAAGAAGAAG
*
38589 ATGAAGATGAAG
1 ATGAAGAAGAAG
38601 A
1 A
38602 GAATATCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.32, T:0.14
Consensus pattern (12 bp):
ATGAAGAAGAAG
Found at i:38585 original size:15 final size:15
Alignment explanation
Indices: 38565--38601 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
38555 TCTCTCGTAC
*
38565 ATGAAGAAGAAGATG
1 ATGAAGAAGAAGAAG
*
38580 ATGAAGAAGATGAAG
1 ATGAAGAAGAAGAAG
38595 ATGAAGA
1 ATGAAGA
38602 GAATATCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.32, T:0.14
Consensus pattern (15 bp):
ATGAAGAAGAAGAAG
Found at i:40737 original size:24 final size:23
Alignment explanation
Indices: 40709--40754 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
40699 CAAACCATTT
40709 CATATAACA-TAATGCATACTTATA
1 CATATAACATTAAT--ATACTTATA
*
40733 CATATATCATTAATATACTTAT
1 CATATAACATTAATATACTTAT
40755 CAGTACTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 8 0.40
25 4 0.20
ACGTcount: A:0.43, C:0.15, G:0.02, T:0.39
Consensus pattern (23 bp):
CATATAACATTAATATACTTATA
Found at i:41075 original size:31 final size:31
Alignment explanation
Indices: 41037--41099 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
41027 CCCGAAGGAC
*
41037 CAGTCCATA-GATCCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
41068 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
41099 C
1 C
41100 CCTCGACCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.17
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:42473 original size:3 final size:3
Alignment explanation
Indices: 42465--42490 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
42455 TCTCGTACAT
42465 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
42491 TGATGAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:44485 original size:13 final size:13
Alignment explanation
Indices: 44467--44501 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
44457 TGGTCACTAA
44467 AGTTTAATTTTTT
1 AGTTTAATTTTTT
44480 AGTTTAATTTTTT
1 AGTTTAATTTTTT
44493 AGTTTAATT
1 AGTTTAATT
44502 ACTTAACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (13 bp):
AGTTTAATTTTTT
Found at i:44745 original size:21 final size:20
Alignment explanation
Indices: 44721--44788 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
44711 ATTTACTTTG
44721 ATAAAACAATACTTTAGATAT
1 ATAAAA-AATACTTTAGATAT
*
44742 AT-AAAAATA-TTTA-ATTT
1 ATAAAAAATACTTTAGATAT
*
44759 GATAAAGAAATACTTTAGATAC
1 -ATAAA-AAATACTTTAGATAT
44781 ATAAAAAA
1 ATAAAAAA
44789 ATAATATAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
17 3 0.08
18 6 0.15
19 6 0.15
20 11 0.28
21 11 0.28
22 2 0.05
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (20 bp):
ATAAAAAATACTTTAGATAT
Found at i:44754 original size:39 final size:39
Alignment explanation
Indices: 44710--44787 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
44700 TAACATTAAG
* *
44710 TATTTACTTTGATAAA-ACAATACTTTAGATATATAAAAA
1 TATTTAATTTGATAAAGA-AATACTTTAGATACATAAAAA
44749 TATTTAATTTGATAAAGAAATACTTTAGATACATAAAAA
1 TATTTAATTTGATAAAGAAATACTTTAGATACATAAAAA
44788 AATAATATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 35 0.97
40 1 0.03
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.37
Consensus pattern (39 bp):
TATTTAATTTGATAAAGAAATACTTTAGATACATAAAAA
Found at i:44763 original size:18 final size:19
Alignment explanation
Indices: 44710--44764 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 19
44700 TAACATTAAG
*
44710 TATTTACTTTGATAAAACAA
1 TATTTAATTTGAT-AAACAA
*
44730 TACTTTAGATAT-ATAAA-AA
1 TA-TTTA-ATTTGATAAACAA
44749 TATTTAATTTGATAAA
1 TATTTAATTTGATAAA
44765 GAAATACTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
17 3 0.10
18 9 0.31
19 4 0.14
20 5 0.17
21 6 0.21
22 2 0.07
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (19 bp):
TATTTAATTTGATAAACAA
Found at i:44790 original size:21 final size:19
Alignment explanation
Indices: 44721--44791 Score: 56
Period size: 21 Copynumber: 3.6 Consensus size: 19
44711 ATTTACTTTG
*
44721 ATAAAACAATACTTTAGAT
1 ATAAAAAAATACTTTAGAT
*
44740 ATATAAAAATA-TTTA-ATTT
1 ATAAAAAAATACTTTAGA--T
*
44759 GATAAAGAAATACTTTAGAT
1 -ATAAAAAAATACTTTAGAT
44779 ACATAAAAAAATA
1 --ATAAAAAAATA
44792 ATATAGTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
17 1 0.03
18 4 0.10
19 10 0.25
20 10 0.25
21 14 0.35
22 1 0.03
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (19 bp):
ATAAAAAAATACTTTAGAT
Found at i:46462 original size:22 final size:26
Alignment explanation
Indices: 46428--46482 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
46418 TTAATTTATT
46428 AATTTAA-ACT-AAA-T-ATTTTTAA
1 AATTTAATACTAAAAGTGATTTTTAA
*
46450 AATTTAATA-TAAAAGTGATTTTTTA
1 AATTTAATACTAAAAGTGATTTTTAA
46475 AATTTAAT
1 AATTTAAT
46483 TTATTATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 8 0.29
23 4 0.14
24 1 0.04
25 15 0.54
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (26 bp):
AATTTAATACTAAAAGTGATTTTTAA
Found at i:48060 original size:222 final size:222
Alignment explanation
Indices: 47795--48905 Score: 1464
Period size: 222 Copynumber: 5.1 Consensus size: 222
47785 AAGAGGTGTC
* * * *
47795 GTCGATGGAGAAATCGGTAAAAGATAAGTTGGAGGAAGTTGGATTGAAAGAGAAAGAATTGAACA
1 GTCGATGGAGAAATTGGTAAAAGATAAGTTGGAGGAAGTTGGATTGAAGGAGAAAGAATTGGAGA
*
47860 TATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTCGAAAGAGAAGAGTTTCGAAAAG
66 AATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTCGAAAGAGAAGAGTTTCGAAAAG
* * * * * *
47925 CGGTTTATGGAGTTTGAGTTGGAAGAAAAGGCTTTGAAAGAGCGTATTCAAGATCTAGAGTTTAG
131 CGATTTATGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGCGTCTTCGAGATCTTGAATTTAG
47990 TGTGAAACAACGTGAGGATGAGGTTAA
196 TGTGAAACAACGTGAGGATGAGGTTAA
* *
48017 GTCGATGGAGAAATTGGTAAAAGATAAGTTGGATGAAGTTGGATTGAAGGAGAAAGATTTGGAGA
1 GTCGATGGAGAAATTGGTAAAAGATAAGTTGGAGGAAGTTGGATTGAAGGAGAAAGAATTGGAGA
* * * *
48082 GATGCTTGAGAGAGTATGAATCGAAAGAAGAGCAATTCGGGTCAAAAGAGAAGAGTTTC-AAGAA
66 AATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTCGAAAGAGAAGAGTTTCGAA-AA
* *
48146 GCAATTTATGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGCGTCTTCGAGATCTTGAGTTTA
130 GCGATTTATGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGCGTCTTCGAGATCTTGAATTTA
48211 GTGTGAAACAACGTGAGGATGAGGTTAA
195 GTGTGAAACAACGTGAGGATGAGGTTAA
* * * *
48239 GTCGGTTGAGAAATTGGCAGAAGATAAGTTGGAGGAAGTTGGATTGAA-G-GAAA-AA-T---G-
1 GTCGATGGAGAAATTGGTAAAAGATAAGTTGGAGGAAGTTGGATTGAAGGAGAAAGAATTGGAGA
** * * * * *
48296 CTTGC-T--G-GAGTACGAGTTGAAAGAAGAGCAATTC-AGACTGAGAGAGAAGAGTTTCGACAA
66 AATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTC-GAAAGAGAAGAGTTTCGAAAA
* * * * * *
48356 GCGATTTACGGAGTATGAGTTGGAAGAAAAAGCTTCCAAAGAGCGTCTTCAAGGTCTTGAATTTA
130 GCGATTTATGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGCGTCTTCGAGATCTTGAATTTA
* * * *
48421 GTCTGATACAATGTGAGGATAAGGTTAA
195 GTGTGAAACAACGTGAGGATGAGGTTAA
* * * * *
48449 GTGGGTTGAGAAATTGCTAAAAGATAAGTTGGAGGAAGTTGGATTGAAGGAGAAAGACTTGGAGA
1 GTCGATGGAGAAATTGGTAAAAGATAAGTTGGAGGAAGTTGGATTGAAGGAGAAAGAATTGGAGA
* * * *
48514 AATGCTTGAGAGAGTGTGAGTTGAAAGAAGAGCAATTCGAGCTC-AAAGAGAAGATTTTCGAGAA
66 AATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCG-GGTCGAAAGAGAAGAGTTTCGAAAA
** * *
48578 GCGATTTATGGAGTTTGAGTTGGAAGAAAAAACTTCCAAGGAGCGTCTTCGAGATCTTGAATTTA
130 GCGATTTATGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGCGTCTTCGAGATCTTGAATTTA
* * * *
48643 GCGTGACACAATG-GCAGAATGAGGTTAA
195 GTGTGAAACAACGTG-AGGATGAGGTTAA
* * * *
48671 GTCAATGGAGGAATTGGTGAAAGATAAGTTGGAGGAAGTTGGATTGAAGGAGAAAGACTTGGAGA
1 GTCGATGGAGAAATTGGTAAAAGATAAGTTGGAGGAAGTTGGATTGAAGGAGAAAGAATTGGAGA
* *
48736 AAAGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGG-CTGAAAGAGAAGAGTTTCGAGAA
66 AATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTC-GAAAGAGAAGAGTTTCGAAAA
*
48800 GCGATTTATGGAGTTTGAGTTGAAAGAAAAGGCTTCGAAAGAGCGTCTTCGAGATCTTGAATTTA
130 GCGATTTATGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGCGTCTTCGAGATCTTGAATTTA
*
48865 GTTTGAAACAACGTGAGGATGAGGTTAA
195 GTGTGAAACAACGTGAGGATGAGGTTAA
*
48893 GTCGAAGGAGAAA
1 GTCGATGGAGAAA
48906 GATCTGGAGA
Statistics
Matches: 774, Mismatches: 94, Indels: 42
0.85 0.10 0.05
Matches are distributed among these distances:
209 2 0.00
210 165 0.21
211 3 0.00
212 4 0.01
213 2 0.00
214 4 0.01
215 1 0.00
217 1 0.00
218 4 0.01
219 2 0.00
220 5 0.01
221 6 0.01
222 573 0.74
223 1 0.00
224 1 0.00
ACGTcount: A:0.36, C:0.08, G:0.32, T:0.24
Consensus pattern (222 bp):
GTCGATGGAGAAATTGGTAAAAGATAAGTTGGAGGAAGTTGGATTGAAGGAGAAAGAATTGGAGA
AATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTCGAAAGAGAAGAGTTTCGAAAAG
CGATTTATGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGCGTCTTCGAGATCTTGAATTTAG
TGTGAAACAACGTGAGGATGAGGTTAA
Found at i:48472 original size:432 final size:433
Alignment explanation
Indices: 47799--48905 Score: 1427
Period size: 432 Copynumber: 2.5 Consensus size: 433
47789 GGTGTCGTCG
*
47799 ATGGAGAAATCGGTA-AAAGATAAGTTGGAGGAAGTTGGATTGAAAGAGAAAGAATTGAACATAT
1 ATGGAGAAATTGG-AGAAAGATAAGTTGGAGGAAGTTGGATTG-AAG-GAAA-AATTG--C-T-T
* *
47863 GCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTCGAAAGAGAAGAGTTTCGAAAAGCGG
58 GC-T--GAGAGTATGAGTTGAAAGAAGAGCAATTCGGCT-GAAAGAGAAGAGTTTCGAAAAGCGA
* * * * *
47928 TTTATGGAGTTTGAGTTGGAAGAAAAGGCTTTGAAAGAGCGTATTCAAGATCTAGAGTTTAGTGT
119 TTTATGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGCGTCTTCAAGATCTTGAATTTAGTCT
* *
47993 GAAACAACGTGAGGATGAGGTTAAGTCGATGGAGAAATTGGTAAAAGATAAGTTGGATGAAGTTG
184 GAAACAACGTGAGGATGAGGTTAAGTCGATGGAGAAATTGCTAAAAGATAAGTTGGAGGAAGTTG
* *
48058 GATTGAAGGAGAAAGATTTGGAGAGATGCTTGAGAGAGTATGAATCGAAAGAAGAGCAATTCG-G
249 GATTGAAGGAGAAAGACTTGGAGAAATGCTTGAGAGAGTATGAATCGAAAGAAGAGCAATTCGAG
* ** *
48122 GTCAAAAGAGAAGAGTTTCAAGAAGCAATTTATGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAG
314 CTC-AAAGAGAAGAGTTTCAAGAAGCAATTTATGGAGTTTGAGTTGGAAGAAAAAACTTCCAAAG
* * * *
48187 AGCGTCTTCGAGATCTTGAGTTTAGTGTGAAACAACGTG-AGGATGAGGTTAAGTCG
378 AGCGTCTTCGAGATCTTGAATTTAGCGTGAAACAACG-GCAGAATGAGGTTAAGTCA
* *
48243 GTTGAGAAATTGGCAG-AAGATAAGTTGGAGGAAGTTGGATTGAAGGAAAAA-TGCTTGCTG-GA
1 ATGGAGAAATTGG-AGAAAGATAAGTTGGAGGAAGTTGGATTGAAGGAAAAATTGCTTGCTGAGA
* * * * *
48305 GTACGAGTTGAAAGAAGAGCAATTCAGACTGAGAGAGAAGAGTTTCGACAAGCGATTTACGGAGT
65 GTATGAGTTGAAAGAAGAGCAATTC-GGCTGAAAGAGAAGAGTTTCGAAAAGCGATTTATGGAGT
* * * * * *
48370 ATGAGTTGGAAGAAAAAGCTTCCAAAGAGCGTCTTCAAGGTCTTGAATTTAGTCTGATACAATGT
129 TTGAGTTGGAAGAAAAGGCTTCGAAAGAGCGTCTTCAAGATCTTGAATTTAGTCTGAAACAACGT
* * * *
48435 GAGGATAAGGTTAAGTGGGTTGAGAAATTGCTAAAAGATAAGTTGGAGGAAGTTGGATTGAAGGA
194 GAGGATGAGGTTAAGTCGATGGAGAAATTGCTAAAAGATAAGTTGGAGGAAGTTGGATTGAAGGA
* * *
48500 GAAAGACTTGGAGAAATGCTTGAGAGAGTGTGAGTTGAAAGAAGAGCAATTCGAGCTCAAAGAGA
259 GAAAGACTTGGAGAAATGCTTGAGAGAGTATGAATCGAAAGAAGAGCAATTCGAGCTCAAAGAGA
* * * *
48565 AGATTTTCGAGAAGCGATTTATGGAGTTTGAGTTGGAAGAAAAAACTTCCAAGGAGCGTCTTCGA
324 AGAGTTTCAAGAAGCAATTTATGGAGTTTGAGTTGGAAGAAAAAACTTCCAAAGAGCGTCTTCGA
* *
48630 GATCTTGAATTTAGCGTGACACAATGGCAGAATGAGGTTAAGTCA
389 GATCTTGAATTTAGCGTGAAACAACGGCAGAATGAGGTTAAGTCA
* *
48675 ATGGAGGAATTGGTGAAAGATAAGTTGGAGGAAGTTGGATTGAAGGAGAAAGACTTGGAGAAAAG
1 ATGGAGAAATTGGAGAAAGATAAGTTGGAGGAAGTTGGATTGAAGGA-AAA-A-TT--------G
* *
48740 CTTG-AGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGCTGAAAGAGAAGAGTTTCGAGAAGCGA
55 CTTGCTGAGAGTATGAGTTGAAAGAAGAGCAATTC-GGCTGAAAGAGAAGAGTTTCGAAAAGCGA
* * *
48804 TTTATGGAGTTTGAGTTGAAAGAAAAGGCTTCGAAAGAGCGTCTTCGAGATCTTGAATTTAGTTT
119 TTTATGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGCGTCTTCAAGATCTTGAATTTAGTCT
*
48869 GAAACAACGTGAGGATGAGGTTAAGTCGAAGGAGAAA
184 GAAACAACGTGAGGATGAGGTTAAGTCGATGGAGAAA
48906 GATCTGGAGA
Statistics
Matches: 573, Mismatches: 72, Indels: 36
0.84 0.11 0.05
Matches are distributed among these distances:
431 2 0.00
432 361 0.63
433 9 0.02
434 1 0.00
435 1 0.00
436 4 0.01
437 1 0.00
438 1 0.00
440 2 0.00
441 2 0.00
442 4 0.01
443 4 0.01
444 181 0.32
ACGTcount: A:0.36, C:0.08, G:0.32, T:0.24
Consensus pattern (433 bp):
ATGGAGAAATTGGAGAAAGATAAGTTGGAGGAAGTTGGATTGAAGGAAAAATTGCTTGCTGAGAG
TATGAGTTGAAAGAAGAGCAATTCGGCTGAAAGAGAAGAGTTTCGAAAAGCGATTTATGGAGTTT
GAGTTGGAAGAAAAGGCTTCGAAAGAGCGTCTTCAAGATCTTGAATTTAGTCTGAAACAACGTGA
GGATGAGGTTAAGTCGATGGAGAAATTGCTAAAAGATAAGTTGGAGGAAGTTGGATTGAAGGAGA
AAGACTTGGAGAAATGCTTGAGAGAGTATGAATCGAAAGAAGAGCAATTCGAGCTCAAAGAGAAG
AGTTTCAAGAAGCAATTTATGGAGTTTGAGTTGGAAGAAAAAACTTCCAAAGAGCGTCTTCGAGA
TCTTGAATTTAGCGTGAAACAACGGCAGAATGAGGTTAAGTCA
Found at i:49036 original size:180 final size:180
Alignment explanation
Indices: 48716--49040 Score: 433
Period size: 180 Copynumber: 1.8 Consensus size: 180
48706 AAGTTGGATT
* *
48716 GAAGGAGAAAGACTTGGAGAAAAGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGCTGA
1 GAAGGAGAAAGACTTGGAGAAAAGCTTGAGAGAGTATGAGTTGAAAGAAGAGAAATTCGGGATGA
** * * **
48781 AAGAGAAGAGTTTCGAGAAGCGATTTATGGAGTTTGAGTTGAAAGAAAAGGCTTCGAAAGAGCGT
66 AAGAGAAGAGTTTCGAGAAAAGATTTAAGGAGTTTGAGTTGAAAGAAAAGGCTTCGAAAGAACAA
*
48846 CTTCGAGATCTTGAATTTAGTTTGAAACAACGTGAGGATGAGGTTAAGTC
131 CTGCGAGATCTTGAATTTAGTTTGAAACAACGTGAGGATGAGGTTAAGTC
* * * *
48896 GAAGGAGAAAGA-TCTGGAGAAATGCTTGCGGGAGTATGAGTTGAAAGAAGAGAAATTTGGGATG
1 GAAGGAGAAAGACT-TGGAGAAAAGCTTGAGAGAGTATGAGTTGAAAGAAGAGAAATTCGGGATG
* * * *
48960 AAAGATATGAGTTTCGAGAAAAG-TTTCAAGGAGTTTGAGTTTAAAGAAAAGGCTGT-TAAAGAA
65 AAAGAGAAGAGTTTCGAGAAAAGATTT-AAGGAGTTTGAGTTGAAAGAAAAGGCT-TCGAAAGAA
49023 CAAC-GCAGAGATCTTGAA
128 CAACTGC-GAGATCTTGAA
49041 ATTAATGTAA
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
179 5 0.04
180 118 0.95
181 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.31, T:0.23
Consensus pattern (180 bp):
GAAGGAGAAAGACTTGGAGAAAAGCTTGAGAGAGTATGAGTTGAAAGAAGAGAAATTCGGGATGA
AAGAGAAGAGTTTCGAGAAAAGATTTAAGGAGTTTGAGTTGAAAGAAAAGGCTTCGAAAGAACAA
CTGCGAGATCTTGAATTTAGTTTGAAACAACGTGAGGATGAGGTTAAGTC
Found at i:64431 original size:13 final size:13
Alignment explanation
Indices: 64409--64438 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
64399 CTTTGATGTC
*
64409 TTTTTGTTTTTAA
1 TTTTTATTTTTAA
64422 TTTTTATTTTTAA
1 TTTTTATTTTTAA
64435 TTTT
1 TTTT
64439 AAAATATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (13 bp):
TTTTTATTTTTAA
Found at i:65924 original size:11 final size:11
Alignment explanation
Indices: 65908--65932 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
65898 ATTTACATAG
65908 CAAATGAAATT
1 CAAATGAAATT
65919 CAAATGAAATT
1 CAAATGAAATT
65930 CAA
1 CAA
65933 GTTTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.12, G:0.08, T:0.24
Consensus pattern (11 bp):
CAAATGAAATT
Found at i:73438 original size:76 final size:75
Alignment explanation
Indices: 73324--73486 Score: 317
Period size: 76 Copynumber: 2.2 Consensus size: 75
73314 GTTTAGGGTA
73324 TTTTATATTACAAAGGATCCTCAACTTTACTTTCCCATATAATATATATAAATATATAGAGAAGT
1 TTTTATATTACAAAGGATCCTCAACTTTACTTTCCCATATAATATATATAAATATATAGAGAAGT
73389 TAGGGTACAC
66 TAGGGTACAC
73399 TTTTATATTACAAAGGATCCCTCAACTTTACTTTCCCATATAATATATATAAATATATAGAGAAG
1 TTTTATATTACAAAGGAT-CCTCAACTTTACTTTCCCATATAATATATATAAATATATAGAGAAG
73464 TTAGGGTACAC
65 TTAGGGTACAC
73475 TTTTATATTACA
1 TTTTATATTACA
73487 TAAAATTAAT
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 18 0.21
76 69 0.79
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (75 bp):
TTTTATATTACAAAGGATCCTCAACTTTACTTTCCCATATAATATATATAAATATATAGAGAAGT
TAGGGTACAC
Found at i:73547 original size:23 final size:23
Alignment explanation
Indices: 73521--73581 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
73511 TTTATAGTCA
73521 TTAAATTTAAGTAAAGAAATTAT
1 TTAAATTTAAGTAAAGAAATTAT
73544 TTAAATTTAAGTAAAGAAATTAT
1 TTAAATTTAAGTAAAGAAATTAT
*
73567 TTAAATTTAATTAAA
1 TTAAATTTAAGTAAA
73582 ATTTATAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (23 bp):
TTAAATTTAAGTAAAGAAATTAT
Found at i:74357 original size:12 final size:12
Alignment explanation
Indices: 74340--74365 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
74330 CGTCAATAAG
74340 AAATATAAAATC
1 AAATATAAAATC
74352 AAATATAAAATC
1 AAATATAAAATC
74364 AA
1 AA
74366 TAAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATATAAAATC
Found at i:74366 original size:30 final size:30
Alignment explanation
Indices: 74310--74375 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
74300 ATGGATAGAT
**
74310 AAATAAAATAATCAAATTAACGTCAATAAG
1 AAATAAAATAATCAAATTAAAATCAATAAG
*
74340 AAATATAA-AATCAAATATAAAATCAAT-A-
1 AAATAAAATAATCAAAT-TAAAATCAATAAG
74368 AAATAAAA
1 AAATAAAA
74376 GACGTGCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 7 0.23
29 9 0.29
30 15 0.48
ACGTcount: A:0.67, C:0.08, G:0.03, T:0.23
Consensus pattern (30 bp):
AAATAAAATAATCAAATTAAAATCAATAAG
Found at i:75597 original size:20 final size:20
Alignment explanation
Indices: 75554--75625 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
75544 TTCTCGAGCC
* * * *
75554 TTCTATGATGTTCTAGAACC
1 TTCTATAATATTCCAGAACA
*
75574 TTCTATAATATTCCAGAGCA
1 TTCTATAATATTCCAGAACA
* *
75594 TTCTATACTATTCCATAACA
1 TTCTATAATATTCCAGAACA
*
75614 TTCTAAAATATT
1 TTCTATAATATT
75626 TTAAGATGTT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.40
Consensus pattern (20 bp):
TTCTATAATATTCCAGAACA
Found at i:77237 original size:4 final size:5
Alignment explanation
Indices: 77205--77240 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
77195 TGCAAAAAAA
*
77205 TATTC TATTT TATTT TATTT TATTT TA-TT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TA
77241 CTATATCCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (5 bp):
TATTT
Found at i:77659 original size:24 final size:25
Alignment explanation
Indices: 77632--77688 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 25
77622 AACTTACATT
*
77632 AAAAAGTTTGAA-TAC-TTTTGACA
1 AAAAAATTTGAAGTACTTTTTGACA
77655 AAAAATATTTGAAGTACTTATTTTGACA
1 AAAAA-ATTTGAAGTAC-T-TTTTGACA
77683 AAAAAA
1 AAAAAA
77689 AAAATTAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 5 0.18
24 6 0.21
25 3 0.11
27 1 0.04
28 13 0.46
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (25 bp):
AAAAAATTTGAAGTACTTTTTGACA
Found at i:77731 original size:29 final size:29
Alignment explanation
Indices: 77647--77738 Score: 80
Period size: 35 Copynumber: 3.0 Consensus size: 29
77637 GTTTGAATAC
*
77647 TTTTGA-CAAAAAATA-TTTGAAGTACTTA
1 TTTTGACCAAAAAATACTTT-AGGTACTTA
* *
77675 TTTTGACAAAAAAAAAAATTAACCTTAGGTACTTA
1 TTTTGAC----CAAAAAA-T-ACTTTAGGTACTTA
77710 TTTTGACCAAAAAATACTTTAGGTACTTA
1 TTTTGACCAAAAAATACTTTAGGTACTTA
77739 AATGAAAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
28 6 0.12
29 13 0.25
30 1 0.02
31 6 0.12
33 6 0.12
34 1 0.02
35 16 0.31
36 2 0.04
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (29 bp):
TTTTGACCAAAAAATACTTTAGGTACTTA
Found at i:82238 original size:2 final size:2
Alignment explanation
Indices: 82233--82258 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
82223 TTTTTAATCA
82233 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
82259 TGCTTAACCC
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:82803 original size:3 final size:3
Alignment explanation
Indices: 82795--82819 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
82785 ATGAGAATAG
82795 GTT GTT GTT GTT GTT GTT GTT GTT G
1 GTT GTT GTT GTT GTT GTT GTT GTT G
82820 ATAAATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (3 bp):
GTT
Found at i:84154 original size:2 final size:2
Alignment explanation
Indices: 84147--84191 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
84137 TAGTTCAATG
84147 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
84189 TA T
1 TA T
84192 GGGTAAAGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:85241 original size:14 final size:14
Alignment explanation
Indices: 85222--85249 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
85212 CGCTGGGCAT
85222 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
85236 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
85250 GAGCATTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.43, G:0.29, T:0.07
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:85262 original size:20 final size:21
Alignment explanation
Indices: 85237--85293 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 21
85227 GCCATCCGAC
*
85237 CGAGGCCATCCGAGAGC-ATT
1 CGAGGCCATCCGAGAGCTATG
85257 CGAGGCCATCCGACCGAGCTATG
1 CGAGGCCATCCGA--GAGCTATG
*
85280 CGAGGGCATCCGAG
1 CGAGGCCATCCGAG
85294 GGCAACCGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 13 0.41
21 1 0.03
22 4 0.12
23 14 0.44
ACGTcount: A:0.23, C:0.32, G:0.33, T:0.12
Consensus pattern (21 bp):
CGAGGCCATCCGAGAGCTATG
Found at i:85295 original size:10 final size:10
Alignment explanation
Indices: 85216--85328 Score: 55
Period size: 10 Copynumber: 10.3 Consensus size: 10
85206 CCAACACGCT
85216 GGGCATCCGA
1 GGGCATCCGA
*
85226 GGCCATCCGA
1 GGGCATCCGA
85236 CCGAGGCCATCCGA
1 --G-GG-CATCCGA
* *
85250 GAGCATTCGA
1 GGGCATCCGA
*
85260 GGCCATCCGA
1 GGGCATCCGA
* *
85270 CCGAGCTATGCGA
1 --GGGC-ATCCGA
85283 GGGCATCCGA
1 GGGCATCCGA
*
85293 GGGCAACCGA
1 GGGCATCCGA
*
85303 GCGAGCTATGCGA
1 G-G-GC-ATCCGA
*
85316 GGGAATCCGA
1 GGGCATCCGA
85326 GGG
1 GGG
85329 AAGCTGAGCG
Statistics
Matches: 76, Mismatches: 17, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
10 45 0.59
11 6 0.08
12 7 0.09
13 11 0.14
14 7 0.09
ACGTcount: A:0.23, C:0.30, G:0.36, T:0.11
Consensus pattern (10 bp):
GGGCATCCGA
Found at i:85308 original size:33 final size:33
Alignment explanation
Indices: 85216--85327 Score: 143
Period size: 33 Copynumber: 3.4 Consensus size: 33
85206 CCAACACGCT
* *
85216 GGGCATCCGAGGCCATCCGACCGAGGCCATCCGA
1 GGGCATCCGAGGCCATCCGACCGA-GCTATGCGA
* *
85250 GAGCATTCGAGGCCATCCGACCGAGCTATGCGA
1 GGGCATCCGAGGCCATCCGACCGAGCTATGCGA
* * *
85283 GGGCATCCGAGGGCAACCGAGCGAGCTATGCGA
1 GGGCATCCGAGGCCATCCGACCGAGCTATGCGA
*
85316 GGGAATCCGAGG
1 GGGCATCCGAGG
85328 GAAGCTGAGC
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
33 46 0.68
34 22 0.32
ACGTcount: A:0.23, C:0.30, G:0.36, T:0.11
Consensus pattern (33 bp):
GGGCATCCGAGGCCATCCGACCGAGCTATGCGA
Found at i:85471 original size:29 final size:29
Alignment explanation
Indices: 85429--85485 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
85419 GAGCAAGGGT
*
85429 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGACGACCTACA
*
85458 AGGTTGCCCGGAGTGCATGACGACCTAC
1 AGGTCGCCCGGAGTGCATGACGACCTAC
85486 GGCCAACACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.21, C:0.30, G:0.33, T:0.16
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGACGACCTACA
Found at i:92403 original size:28 final size:28
Alignment explanation
Indices: 92359--92430 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
92349 TTTTTTAGGA
* *
92359 TTAGGGTTTAAGTTTTAAGTTGT-AGGGT
1 TTAGGGTTTAAGATTTAAGGTGTGA-GGT
* * *
92387 TTAGGGTTTAAAATTTATGGTGTGAGTT
1 TTAGGGTTTAAGATTTAAGGTGTGAGGT
92415 TTAGGGTTTAAGATTT
1 TTAGGGTTTAAGATTT
92431 TGAGGGTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 36 0.97
29 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (28 bp):
TTAGGGTTTAAGATTTAAGGTGTGAGGT
Found at i:92438 original size:16 final size:15
Alignment explanation
Indices: 92386--92442 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 15
92376 AGTTGTAGGG
*
92386 TTTAGGGTTTAA-AA
1 TTTAGGGTTTAAGAT
* * *
92400 TTTATGGTGTGAG-T
1 TTTAGGGTTTAAGAT
92414 TTTAGGGTTTAAGAT
1 TTTAGGGTTTAAGAT
92429 TTTGAGGGTTTAAG
1 TTT-AGGGTTTAAG
92443 GTAAGGTGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
14 19 0.58
15 4 0.12
16 10 0.30
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (15 bp):
TTTAGGGTTTAAGAT
Found at i:92628 original size:2 final size:2
Alignment explanation
Indices: 92621--92645 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
92611 TATTCCCCAT
92621 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
92646 CAGTATTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93081 original size:15 final size:15
Alignment explanation
Indices: 93061--93091 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
93051 TCACCATCAA
*
93061 ACAAAAAACACAGTG
1 ACAAAAAACAAAGTG
93076 ACAAAAAACAAAGTG
1 ACAAAAAACAAAGTG
93091 A
1 A
93092 AGAAATGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.16, G:0.13, T:0.06
Consensus pattern (15 bp):
ACAAAAAACAAAGTG
Found at i:94534 original size:26 final size:26
Alignment explanation
Indices: 94498--94553 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
94488 TGATAGTTGA
*
94498 GATATAATAGTCGTTTGAGATTTTGG
1 GATATAATAGTCGTTTGAGATTTTAG
94524 GATATAATAGTCGTTTGAGATTTTAG
1 GATATAATAGTCGTTTGAGATTTTAG
94550 GATA
1 GATA
94554 GATTTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.04, G:0.25, T:0.41
Consensus pattern (26 bp):
GATATAATAGTCGTTTGAGATTTTAG
Found at i:95010 original size:34 final size:35
Alignment explanation
Indices: 94954--95027 Score: 91
Period size: 34 Copynumber: 2.1 Consensus size: 35
94944 TTAAAGTATA
* *
94954 AAATATAAAATTCTAATCTTAAAGTC-ATAAATTTT
1 AAATATAAAATTCTAAACTTAAAGTCTA-AAATCTT
94989 AAATAT-AAATT-TAAACTTTAAAGTCTAAAATCTT
1 AAATATAAAATTCTAAAC-TTAAAGTCTAAAATCTT
95023 AAATA
1 AAATA
95028 CCAACTTACA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
33 4 0.11
34 24 0.69
35 7 0.20
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (35 bp):
AAATATAAAATTCTAAACTTAAAGTCTAAAATCTT
Found at i:95488 original size:12 final size:12
Alignment explanation
Indices: 95471--95495 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95461 GGTTGTACAT
95471 TGTGTGTGTATA
1 TGTGTGTGTATA
95483 TGTGTGTGTATA
1 TGTGTGTGTATA
95495 T
1 T
95496 ATATATTTAT
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:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (12 bp):
TGTGTGTGTATA
Found at i:95551 original size:32 final size:32
Alignment explanation
Indices: 95515--95579 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
95505 TGAGTTAAGA
95515 TCTACTTACACCTAATATAAAACTTTTAGTTT
1 TCTACTTACACCTAATATAAAACTTTTAGTTT
*
95547 TCTACTTACACCTAATATAAAATTTTTAGTTT
1 TCTACTTACACCTAATATAAAACTTTTAGTTT
95579 T
1 T
95580 ACATATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.17, G:0.03, T:0.46
Consensus pattern (32 bp):
TCTACTTACACCTAATATAAAACTTTTAGTTT
Found at i:97143 original size:21 final size:21
Alignment explanation
Indices: 97099--97143 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
97089 ACTTAATATG
* *
97099 TTTAGTACCTAAATTATCAGT
1 TTTAATACCTAAATTATCAAT
* *
97120 TTTAATACCTAAATTTTTAAT
1 TTTAATACCTAAATTATCAAT
97141 TTT
1 TTT
97144 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.51
Consensus pattern (21 bp):
TTTAATACCTAAATTATCAAT
Found at i:99159 original size:48 final size:48
Alignment explanation
Indices: 99088--99192 Score: 201
Period size: 48 Copynumber: 2.2 Consensus size: 48
99078 GTTTTAATTG
*
99088 AATTAATTGCTCGAATCAAGTTAATTTAGTTAAACCGTCGGCTATCAA
1 AATTAATTCCTCGAATCAAGTTAATTTAGTTAAACCGTCGGCTATCAA
99136 AATTAATTCCTCGAATCAAGTTAATTTAGTTAAACCGTCGGCTATCAA
1 AATTAATTCCTCGAATCAAGTTAATTTAGTTAAACCGTCGGCTATCAA
99184 AATTAATTC
1 AATTAATTC
99193 GATTGGAGAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (48 bp):
AATTAATTCCTCGAATCAAGTTAATTTAGTTAAACCGTCGGCTATCAA
Found at i:105127 original size:15 final size:16
Alignment explanation
Indices: 105107--105136 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
105097 ATTTCCTTAT
105107 TTTTCT-TAAATATTG
1 TTTTCTATAAATATTG
105122 TTTTCTATAAATATT
1 TTTTCTATAAATATT
105137 TATCACATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (16 bp):
TTTTCTATAAATATTG
Found at i:105669 original size:17 final size:17
Alignment explanation
Indices: 105647--105685 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
105637 TGAATCAAAT
105647 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
105664 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
105681 -AATTA
1 TAATTA
105686 ATTATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:110368 original size:17 final size:18
Alignment explanation
Indices: 110323--110368 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
110313 GTTTAGGAGT
*
110323 GAATTAGAATTTGTGAAG
1 GAATTAGAATCTGTGAAG
*
110341 GAATT-GAAATCTGT-CAG
1 GAATTAG-AATCTGTGAAG
110358 GAATTAGAATC
1 GAATTAGAATC
110369 AAATTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (18 bp):
GAATTAGAATCTGTGAAG
Found at i:111037 original size:21 final size:21
Alignment explanation
Indices: 111013--111056 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
111003 GTTTCACCCG
111013 ACCCGAATATATGAATTAGAA
1 ACCCGAATATATGAATTAGAA
111034 ACCCGAATATATGAATTAGAA
1 ACCCGAATATATGAATTAGAA
111055 AC
1 AC
111057 TCAACCCGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.23
Consensus pattern (21 bp):
ACCCGAATATATGAATTAGAA
Found at i:125416 original size:20 final size:20
Alignment explanation
Indices: 125391--125434 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
125381 TTTATCCGGA
* **
125391 AAAAATCTGGTCTGGGGTTT
1 AAAAATCCGGTCTAAGGTTT
125411 AAAAATCCGGTCTAAGGTTT
1 AAAAATCCGGTCTAAGGTTT
125431 AAAA
1 AAAA
125435 CTTGGATGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (20 bp):
AAAAATCCGGTCTAAGGTTT
Found at i:126279 original size:38 final size:39
Alignment explanation
Indices: 126239--126321 Score: 112
Period size: 44 Copynumber: 2.0 Consensus size: 39
126229 AATCTGTCAG
*
126239 GAATTGGAATCCAGTTCCATATTCTGTTTGGTTCGCAGGAAA
1 GAATTGGAATCCAATTCCATATTCTGTTTGGTTCGCA-G--A
126281 TTGAATTGGAATCCAATTCCATATTCTGTTTGGTTCGCAGA
1 --GAATTGGAATCCAATTCCATATTCTGTTTGGTTCGCAGA
126322 CATGTCAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
41 1 0.03
43 1 0.03
44 36 0.95
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (39 bp):
GAATTGGAATCCAATTCCATATTCTGTTTGGTTCGCAGA
Found at i:127051 original size:267 final size:255
Alignment explanation
Indices: 126613--127232 Score: 782
Period size: 262 Copynumber: 2.4 Consensus size: 255
126603 TCCATCCGAG
** * * *
126613 ACCCGACCAAACCAAAATAAAGTTTCACCCGACCTGACCAGAATATATGAATTAG-AA---ACCC
1 ACCCGACCCGACCAAAATAAAGTTTCACCCAACCCGACCCGAATATATGAATTAGAAACCGACCC
*
126674 GACCTGAAATAATAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGGAAAAAAAAACA
66 GACCTGAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATT-G-AAAAAAAACA
*
126739 TATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAAAATTATATATTTTTT
129 TATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGT--AAAATTATATA--TATT
* *
126804 GGGTCGGGTCGGGTCGGGTATTTTTCACCCTAAACTCGA-CTC-A-ACCCGAATATCACACTTAA
190 ---T----TCGGGTCGAGTATTTTTCACCCTAAACCCGAGCTCAACACCCGAATATCACACTTAA
*
126866 AAAAACCG
248 AAAAACCA
*
126874 ACTCGACCCGACCAAAATAAAGTTTCACCCAACCCGACCCGAATATATGAATTAGAAATCCGACC
1 ACCCGACCCGACCAAAATAAAGTTTCACCCAACCCGACCCGAATATATGAATTAGAAA-CCGACC
*
126939 CGACCTGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATT-TAAAAA
65 CGACCT-----GAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAA
*
127003 AA-TTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATT
125 AACATATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATT
127067 TTCGGGTCGAGTATTTTTCACCCTAAACCCGAGCTCAACCCGACCCGAATATCACACTTAAAAAA
190 TTCGGGTCGAGTATTTTTCACCCTAAACCCGAGCTCAA--C-ACCCGAATATCACACTTAAAAAA
*
127132 ACTA
252 ACCA
* *
127136 ACCCGACCCGACCAAAATAAAGTTTCACCCTACCCGATCCGAATATATGAATTAGAAACCTGA--
1 ACCCGACCCGACCAAAATAAAGTTTCACCCAACCCGACCCGAATATATGAATTAGAAACC-GACC
127199 C--CC-GAAATAATAAAAAAAATATTTTTATTCAATA
65 CGACCTGAAATAAT-AAAAAAATATTTTTATTCAATA
127233 TATGAATAAG
Statistics
Matches: 324, Mismatches: 17, Indels: 44
0.84 0.04 0.11
Matches are distributed among these distances:
252 8 0.02
253 22 0.07
256 29 0.09
257 3 0.01
258 3 0.01
260 2 0.01
261 51 0.16
262 84 0.26
263 3 0.01
265 11 0.03
266 9 0.03
267 46 0.14
268 7 0.02
271 46 0.14
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (255 bp):
ACCCGACCCGACCAAAATAAAGTTTCACCCAACCCGACCCGAATATATGAATTAGAAACCGACCC
GACCTGAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAAACATA
TATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGG
TCGAGTATTTTTCACCCTAAACCCGAGCTCAACACCCGAATATCACACTTAAAAAAACCA
Found at i:128887 original size:146 final size:146
Alignment explanation
Indices: 128682--128970 Score: 524
Period size: 146 Copynumber: 2.0 Consensus size: 146
128672 ACGCCCAACA
* *
128682 GCCAAGCTTTTAACCCTCTGTACGCCCTGCATGTCATAGCTGGGAGATTCCTGCCCGACGACCAA
1 GCCAAGCTTTTAACCCTCTGCACGCCCTGCATGTCATAGCTGGGAGATTCATGCCCGACGACCAA
128747 GCTTTAACCCTTTGCTCCCTCATGCATGCGTTACATCCATAGAGCGGGACGTGCAGAAATATCAC
66 GCTTTAACCCTTTGCTCCCTCATGCATGCGTTACATCCATAGAGCGGGACGTGCAGAAATATCAC
128812 ATGGCCATACAAGACG
131 ATGGCCATACAAGACG
*
128828 GCCAAGCTTTTAACCCTCTGCACGCCCTGCATGTCATAGTTGGGAGATTCATGCCCGACGACCAA
1 GCCAAGCTTTTAACCCTCTGCACGCCCTGCATGTCATAGCTGGGAGATTCATGCCCGACGACCAA
* *
128893 GCTTTAACCGTTTGCTCCCTCATGCATGCGTTGCATCCATAGAGCGGGACGTGCAGAAATATCAC
66 GCTTTAACCCTTTGCTCCCTCATGCATGCGTTACATCCATAGAGCGGGACGTGCAGAAATATCAC
*
128958 ATGGCCATGCAAG
131 ATGGCCATACAAG
128971 GAGACAAGGT
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
146 137 1.00
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (146 bp):
GCCAAGCTTTTAACCCTCTGCACGCCCTGCATGTCATAGCTGGGAGATTCATGCCCGACGACCAA
GCTTTAACCCTTTGCTCCCTCATGCATGCGTTACATCCATAGAGCGGGACGTGCAGAAATATCAC
ATGGCCATACAAGACG
Found at i:132255 original size:21 final size:21
Alignment explanation
Indices: 132231--132272 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
132221 TAAAATAAAT
132231 AAATAAATATTTAATTT-ATAC
1 AAATAAAT-TTTAATTTGATAC
* *
132252 AAATTACTTTTAATTTGATAC
1 AAATAAATTTTAATTTGATAC
132273 TATTAATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (21 bp):
AAATAAATTTTAATTTGATAC
Found at i:133728 original size:2 final size:2
Alignment explanation
Indices: 133721--133769 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
133711 TAGGATTGAC
133721 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
133763 AT AT AT A
1 AT AT AT A
133770 AATTGAATAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:142851 original size:43 final size:43
Alignment explanation
Indices: 142735--142900 Score: 110
Period size: 44 Copynumber: 3.8 Consensus size: 43
142725 AAAAATTAGG
* * * *
142735 GTCTCAATTGTAAAGGTAGAAAGTGATG-TTGAAAAAACTTAGGT
1 GTCTCAATTATAAAGGTAGAAAGTGA-GATTAAAAAAAC-TACGA
* ** * *
142779 GTCTCACTTAT-AATCTAAAAAGTTAAGATTAAAAGAAAC-ACGA
1 GTCTCAATTATAAAGGTAGAAAG-TGAGATTAAAA-AAACTACGA
142822 GTCTCAATTATAAAGGTAGAAAGTGAGATTGAAAAAAACTA--A
1 GTCTCAATTATAAAGGTAGAAAGTGAGATT-AAAAAAACTACGA
* * *
142864 TTTCCTCAATTATTAAA-GTAAAAAGTGGGATTAAAAA
1 -GT-CTCAATTA-TAAAGGTAGAAAGTGAGATTAAAAA
142901 TTAGGGACCT
Statistics
Matches: 96, Mismatches: 17, Indels: 19
0.73 0.13 0.14
Matches are distributed among these distances:
42 1 0.01
43 37 0.39
44 50 0.52
45 8 0.08
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.28
Consensus pattern (43 bp):
GTCTCAATTATAAAGGTAGAAAGTGAGATTAAAAAAACTACGA
Found at i:143028 original size:42 final size:42
Alignment explanation
Indices: 142912--143033 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 42
142902 TAGGGACCTT
* * * *
142912 AATTATAAATTTAGAAAGTGAGATTGAATAAACTTAAGGGTCTC
1 AATTATAAATATA-AAAG-AAGATTGAAAAAAATTAAGGGTCTC
* * *
142956 AAATATAAAATAAAAAAATAAGATT-AAAAAAATTAAGGGTCTC
1 AATTAT-AAAT-ATAAAAGAAGATTGAAAAAAATTAAGGGTCTC
142999 AATTATAAATATAAAAGAAGATTGAAAAAAATTAA
1 AATTATAAATATAAAAGAAGATTGAAAAAAATTAA
143034 AGACTTCAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
41 11 0.17
42 15 0.23
43 21 0.32
44 10 0.15
45 7 0.11
46 1 0.02
ACGTcount: A:0.57, C:0.04, G:0.12, T:0.27
Consensus pattern (42 bp):
AATTATAAATATAAAAGAAGATTGAAAAAAATTAAGGGTCTC
Found at i:143043 original size:42 final size:41
Alignment explanation
Indices: 142970--143119 Score: 106
Period size: 42 Copynumber: 3.5 Consensus size: 41
142960 ATAAAATAAA
* **
142970 AAAATAAGATTAAAAAAATT-AAGGGTCTCAATTATAAATAT
1 AAAAGAAGATTAAAAAAATTAAAGACT-TCAATTATAAATAT
* **
143011 AAAAGAAGATTGAAAAAAATTAAAGACTTCAATAATAACGAT
1 AAAAGAAGATT-AAAAAAATTAAAGACTTCAATTATAAATAT
* * * * *
143053 GAAAAGTGAGATTAAAAAAA-AAATTAGAACCTCAATTATAAGGTAA
1 -AAAAG-AAGATTAAAAAAATTAA--AG-ACTTCAATTATAA-ATAT
*
143099 AAAATAAGATTAAAAAAATTA
1 AAAAGAAGATTAAAAAAATTA
143120 GGAGTCCAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
41 10 0.12
42 22 0.26
43 16 0.19
44 19 0.23
45 16 0.19
46 1 0.01
ACGTcount: A:0.59, C:0.05, G:0.11, T:0.24
Consensus pattern (41 bp):
AAAAGAAGATTAAAAAAATTAAAGACTTCAATTATAAATAT
Found at i:143088 original size:45 final size:45
Alignment explanation
Indices: 142968--143116 Score: 114
Period size: 44 Copynumber: 3.4 Consensus size: 45
142958 ATATAAAATA
* ** *
142968 AAAAAATAAGATT---AAAAAAATTAAGGGTCTCAATTATAA-AT
1 AAAAAATAAGATTAAAAAAAAAATTAAAGACCTCAATAATAAGAT
* * * *
143009 ATAAAAGAAGATT--GAAAAAAATTAAAGACTTCAATAATAACGAT
1 AAAAAATAAGATTAAAAAAAAAATTAAAGACCTCAATAATAA-GAT
* * * * * *
143053 GAAAAGTGAGATTAAAAAAAAAATTAGA-ACCTCAATTATAAGGT
1 AAAAAATAAGATTAAAAAAAAAATTAAAGACCTCAATAATAAGAT
143097 AAAAAATAAGATTAAAAAAA
1 AAAAAATAAGATTAAAAAAA
143117 TTAGGAGTCC
Statistics
Matches: 83, Mismatches: 20, Indels: 7
0.75 0.18 0.06
Matches are distributed among these distances:
41 11 0.13
42 21 0.25
44 29 0.35
45 11 0.13
46 11 0.13
ACGTcount: A:0.60, C:0.05, G:0.11, T:0.23
Consensus pattern (45 bp):
AAAAAATAAGATTAAAAAAAAAATTAAAGACCTCAATAATAAGAT
Found at i:147228 original size:27 final size:27
Alignment explanation
Indices: 147190--147244 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
147180 TAAATATAAA
147190 TGAGTTCAGATATTGGACTGTAAGTTC
1 TGAGTTCAGATATTGGACTGTAAGTTC
*
147217 TGAGTTTAGATATTGGACTGTAAGTTC
1 TGAGTTCAGATATTGGACTGTAAGTTC
147244 T
1 T
147245 TAATTTCATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.40
Consensus pattern (27 bp):
TGAGTTCAGATATTGGACTGTAAGTTC
Found at i:160102 original size:237 final size:233
Alignment explanation
Indices: 159698--160655 Score: 1128
Period size: 237 Copynumber: 4.1 Consensus size: 233
159688 ACCAGTCTTG
* * * *
159698 CCATATTCAACATTACCACCACCGAATCCCATTTGGTTACCTCTGAATCTGGTTGAACCACTGGT
1 CCATATCCAACATTACCACCACCGAATCCCATTTGGTTACCTCCGAATCCGGCTGAACCACTGGT
* * * * * * * *
159763 AGCAAAACTATCACCGCCAGTGCCACCGGCGGCAGCATTGAACCCACCATCATACTTGTTTGGAG
66 -GGAAAACTATCACCACCAATGTCACCAGCAGCAGCATTGAACCCACCATCGTACTTGTTTGGAC
* * *
159828 CAGATTGATCA-AAGTTGCTTCCATAGCTACTACCAGTGCCATACTTGTTACCACCACCATAGCT
130 CAGATTGATCAGAA-TTGCTTCCATAGCTACCACCAGTACCATACTTGTTACCACCACCATAACT
* *
159892 TCCTTGGCCTCCATAACCACTACCATCGCCGCCAATGTTA
194 TCCTTGGCCTCCATAACCACTACCACCGCCACCAATGTTA
* * *
159932 CCATATCCAACATTACCACCATCGAATCCCATTTGGGTACCTCCGAATCCGGCTGAACCACTAGT
1 CCATATCCAACATTACCACCACCGAATCCCATTTGGTTACCTCCGAATCCGGCTGAACCACTGGT
* * * ** * *
159997 GGAAAATTTATCCCCACCAATATCACTGGCAGCAGCATTGAGATTCCCACCATCGTACTGGTTTA
66 GGAAAA-CTATCACCACCAATGTCACCAGCAGCAGCATTGA-A--CCCACCATCGTACTTGTTTG
* *
160062 GACCAGATTGATCAGAATTGCTTCCATAGCTACCACCAGTGCCATAGTTGTTACCACCACCATAA
127 GACCAGATTGATCAGAATTGCTTCCATAGCTACCACCAGTACCATACTTGTTACCACCACCATAA
* * * * *
160127 GTTCCTTGGCCTCCATAACCACTACCACCACCACCAGTCTTC
192 CTTCCTTGGCCTCCATAACCACTACCACCGCCACCAATGTTA
* * * ** *
160169 CCATATCCAACATTAACGCCACCG-ATCCCATTTGGTTACCTCCAAATCCAACTAAACCACTGGT
1 CCATATCCAACATTACCACCACCGAATCCCATTTGGTTACCTCCGAATCCGGCTGAACCACTGGT
* * *
160233 GGAAAAACTATCACCACCAATGTCGCCAGCGGGAGCATTGAACCCACCATCGTACTTGTTTGGAC
66 GG-AAAACTATCACCACCAATGTCACCAGCAGCAGCATTGAACCCACCATCGTACTTGTTTGGAC
* * ** * * * * ** *
160298 CAGATTGAACAGAGTTGCTTCTGTAGCTAACAGCAGCACCATTCTTGTTGTCACCAGCATAACTT
130 CAGATTGATCAGAATTGCTTCCATAGCTACCACCAGTACCATACTTGTTACCACCACCATAACTT
* * * *
160363 CCTTGGCCACCATAACCACTATCAACGCTACCAATGTTA
195 CCTTGGCCTCCATAACCACTACCACCGCCACCAATGTTA
*
160402 CCATATCCAACATTACCGCCACCGAATCCCATTTGGTTACCTCCGAATCCGGCTGAACCACTGGT
1 CCATATCCAACATTACCACCACCGAATCCCATTTGGTTACCTCCGAATCCGGCTGAACCACTGGT
** * * *
160467 GGCAAAACTATCACCACTTATTTTACCAGCAGCAGCATTGAAATCCCCACCATCGTAGTTGTTTG
66 GG-AAAACTATCACCACCAATGTCACCAGCAGCAGCATTG-AA--CCCACCATCGTACTTGTTTG
* * * * *
160532 GACCAGATTGACCCGAACTGCTTCCATAGCTACCACCAGTACCATAGTTGTTACCACCGCCATAA
127 GACCAGATTGATCAGAATTGCTTCCATAGCTACCACCAGTACCATACTTGTTACCACCACCATAA
* * * * * *
160597 CTTCCTTGTCCCCCATAGCCACTATCACCCCCACCAGTGTTA
192 CTTCCTTGGCCTCCATAACCACTACCACCGCCACCAATGTTA
160639 CCATATCCAACATTACC
1 CCATATCCAACATTACC
160656 TCCATAACTT
Statistics
Matches: 607, Mismatches: 107, Indels: 17
0.83 0.15 0.02
Matches are distributed among these distances:
233 131 0.22
234 152 0.25
235 4 0.01
236 62 0.10
237 256 0.42
238 2 0.00
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (233 bp):
CCATATCCAACATTACCACCACCGAATCCCATTTGGTTACCTCCGAATCCGGCTGAACCACTGGT
GGAAAACTATCACCACCAATGTCACCAGCAGCAGCATTGAACCCACCATCGTACTTGTTTGGACC
AGATTGATCAGAATTGCTTCCATAGCTACCACCAGTACCATACTTGTTACCACCACCATAACTTC
CTTGGCCTCCATAACCACTACCACCGCCACCAATGTTA
Found at i:160279 original size:470 final size:471
Alignment explanation
Indices: 159680--160653 Score: 1288
Period size: 470 Copynumber: 2.1 Consensus size: 471
159670 TCCTTGGCCT
* * * * **
159680 CCACAACCACCAGTCTTGCCATATTCAACATTACCACCACCGAATCCCATTTGGTTACCTCTGAA
1 CCACCACCACCAGTCTTACCATATCCAACATTAACACCACCGAATCCCATTTGGTTACCTCCAAA
**** * * * * *
159745 TCTGGTTGAACCACTGGTAGCAAAACTATCACCGCCAGTGCCACCGGCGGCAGCATTGAACCCAC
66 TCCAACTAAACCACTGGTAGAAAAACTATCACCACCAATGCCACCAGCGGCAGCATTGAACCCAC
* * **
159810 CATCATACTTGTTTGGAGCAGATTGATCAAAGTTGCTTCCATAGCT-ACTACCAGTGCCATACTT
131 CATCATACTTGTTTGGACCAGATTGAACAAAGTTGCTTCCATAGCTAAC-ACCAGCACCATACTT
* * * *
159874 GTTACCACCACCATAGCTTCCTTGGCCTCCATAACCACTACCATCGCCGCCAATGTTACCATATC
195 GTTACCACCACCATAACTTCCTTGGCCACCATAACCACTACCAACGCCACCAATGTTACCATATC
*
159939 CAACATTACCACCATCGAATCCCATTTGGGTACCTCCGAATCCGGCTGAACCACTAGTGG-AAAA
260 CAACATTACCACCACCGAATCCCATTTGGGTACCTCCGAATCCGGCTGAACCACTAGTGGCAAAA
* * ** * *
160003 TTTATCCCCACCAATATCACTGGCAGCAGCATTGAGATTCCCACCATCGTACTGGTTTAGACCAG
325 -CTATCACCACCAATATCACCAGCAGCAGCATTGAAATCCCCACCATCGTACTGGTTTAGACCAG
* * * *
160068 ATTGATCAGAATTGCTTCCATAGCTACCACCAGTGCCATAGTTGTTACCACCACCATAAGTTCCT
389 ATTGACCAGAACTGCTTCCATAGCTACCACCAGTACCATAGTTGTTACCACCACCATAACTTCCT
*
160133 TGGCCTCCATAACCACTA
454 TGGCCCCCATAACCACTA
* *
160151 CCACCACCACCAGTCTTCCCATATCCAACATTAACGCCACCG-ATCCCATTTGGTTACCTCCAAA
1 CCACCACCACCAGTCTTACCATATCCAACATTAACACCACCGAATCCCATTTGGTTACCTCCAAA
* * * *
160215 TCCAACTAAACCACTGGTGGAAAAACTATCACCACCAATGTCGCCAGCGGGAGCATTGAACCCAC
66 TCCAACTAAACCACTGGTAGAAAAACTATCACCACCAATGCCACCAGCGGCAGCATTGAACCCAC
* * ** * *
160280 CATCGTACTTGTTTGGACCAGATTGAACAGAGTTGCTTCTGTAGCTAACAGCAGCACCATTCTTG
131 CATCATACTTGTTTGGACCAGATTGAACAAAGTTGCTTCCATAGCTAACACCAGCACCATACTTG
** * * *
160345 TTGTCACCAGCATAACTTCCTTGGCCACCATAACCACTATCAACGCTACCAATGTTACCATATCC
196 TTACCACCACCATAACTTCCTTGGCCACCATAACCACTACCAACGCCACCAATGTTACCATATCC
* * *
160410 AACATTACCGCCACCGAATCCCATTTGGTTACCTCCGAATCCGGCTGAACCACTGGTGGCAAAAC
261 AACATTACCACCACCGAATCCCATTTGGGTACCTCCGAATCCGGCTGAACCACTAGTGGCAAAAC
** * * * * *
160475 TATCACCACTTATTTTACCAGCAGCAGCATTGAAATCCCCACCATCGTAGTTGTTTGGACCAGAT
326 TATCACCACCAATATCACCAGCAGCAGCATTGAAATCCCCACCATCGTACTGGTTTAGACCAGAT
* *
160540 TGACCCGAACTGCTTCCATAGCTACCACCAGTACCATAGTTGTTACCACCGCCATAACTTCCTTG
391 TGACCAGAACTGCTTCCATAGCTACCACCAGTACCATAGTTGTTACCACCACCATAACTTCCTTG
* *
160605 TCCCCCATAGCCACTA
456 GCCCCCATAACCACTA
* * *
160621 TCACCCCCACCAGTGTTACCATATCCAACATTA
1 CCACCACCACCAGTCTTACCATATCCAACATTA
160654 CCTCCATAAC
Statistics
Matches: 432, Mismatches: 69, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
470 389 0.90
471 43 0.10
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (471 bp):
CCACCACCACCAGTCTTACCATATCCAACATTAACACCACCGAATCCCATTTGGTTACCTCCAAA
TCCAACTAAACCACTGGTAGAAAAACTATCACCACCAATGCCACCAGCGGCAGCATTGAACCCAC
CATCATACTTGTTTGGACCAGATTGAACAAAGTTGCTTCCATAGCTAACACCAGCACCATACTTG
TTACCACCACCATAACTTCCTTGGCCACCATAACCACTACCAACGCCACCAATGTTACCATATCC
AACATTACCACCACCGAATCCCATTTGGGTACCTCCGAATCCGGCTGAACCACTAGTGGCAAAAC
TATCACCACCAATATCACCAGCAGCAGCATTGAAATCCCCACCATCGTACTGGTTTAGACCAGAT
TGACCAGAACTGCTTCCATAGCTACCACCAGTACCATAGTTGTTACCACCACCATAACTTCCTTG
GCCCCCATAACCACTA
Found at i:161373 original size:21 final size:21
Alignment explanation
Indices: 161347--161386 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
161337 TATAATGTAA
* *
161347 ATTTCAGAATAATTAAATTAG
1 ATTTCAAAATAAATAAATTAG
161368 ATTTCAAAATAAATAAATT
1 ATTTCAAAATAAATAAATT
161387 TAATTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (21 bp):
ATTTCAAAATAAATAAATTAG
Found at i:163623 original size:47 final size:47
Alignment explanation
Indices: 163570--163664 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
163560 GATCGTTACA
*
163570 GTGTTGGTGTGACAATTCATAATATTGATATGTCAGTTTACTGTGCT
1 GTGTTGGTGTGACAATTCATAATATTGATATGTCAGTTTACGGTGCT
*
163617 GTGTTGGTGTGACAGTTCATAATATTGATATGTCAGTTTACGGTGCT
1 GTGTTGGTGTGACAATTCATAATATTGATATGTCAGTTTACGGTGCT
163664 G
1 G
163665 CATGATAATC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.22, C:0.11, G:0.26, T:0.41
Consensus pattern (47 bp):
GTGTTGGTGTGACAATTCATAATATTGATATGTCAGTTTACGGTGCT
Found at i:166840 original size:103 final size:101
Alignment explanation
Indices: 166650--166853 Score: 390
Period size: 103 Copynumber: 2.0 Consensus size: 101
166640 TATCATAGTT
166650 AAGTTTTAAACAAATTTAAGGACAGCTGAGAAAGGGGAAATAAAGGATGATTTTTGTAATTAAAC
1 AAGTTTTAAACAAATTTAAGGACAGCTGAGAAAGGGGAAATAAAGGATGATTTTTGTAATTAAAC
166715 CTTTGATTCTGGACCTTAGAATTGTGGACCAGGTAA
66 CTTTGATTCTGGACCTTAGAATTGTGGACCAGGTAA
166751 AAGTTTTAAAACAAAATTTAAGGACAGCTGAGAAAGGGGAAATAAAGGATGATTTTTGTAATTAA
1 AAGTTTT-AAAC-AAATTTAAGGACAGCTGAGAAAGGGGAAATAAAGGATGATTTTTGTAATTAA
166816 ACCTTTGATTCTGGACCTTAGAATTGTGGACCAGGTAA
64 ACCTTTGATTCTGGACCTTAGAATTGTGGACCAGGTAA
166854 TTCACAAGTG
Statistics
Matches: 101, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
101 7 0.07
102 4 0.04
103 90 0.89
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (101 bp):
AAGTTTTAAACAAATTTAAGGACAGCTGAGAAAGGGGAAATAAAGGATGATTTTTGTAATTAAAC
CTTTGATTCTGGACCTTAGAATTGTGGACCAGGTAA
Found at i:174323 original size:41 final size:44
Alignment explanation
Indices: 174254--174337 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 44
174244 TTTTTAAATA
* *
174254 TAGTGATCGAAATAGAAGAGAAAAGATAG-TTGAGTGATGAATT
1 TAGTGACCAAAATAGAAGAGAAAAGATAGTTTGAGTGATGAATT
174297 TAGTGACCAAAATA-AA-AGAAAAGATAGTTTGAGTGATGAAT
1 TAGTGACCAAAATAGAAGAGAAAAGATAGTTTGAGTGATGAAT
174338 GGTGTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 11 0.29
42 15 0.39
43 12 0.32
ACGTcount: A:0.46, C:0.04, G:0.25, T:0.25
Consensus pattern (44 bp):
TAGTGACCAAAATAGAAGAGAAAAGATAGTTTGAGTGATGAATT
Found at i:175206 original size:16 final size:16
Alignment explanation
Indices: 175182--175212 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
175172 CTTGGTGAGC
175182 TTAACGAGCAACGAGA
1 TTAACGAGCAACGAGA
*
175198 TTAATGAGCAACGAG
1 TTAACGAGCAACGAG
175213 TCGAGTAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (16 bp):
TTAACGAGCAACGAGA
Found at i:176050 original size:195 final size:196
Alignment explanation
Indices: 175718--176108 Score: 759
Period size: 195 Copynumber: 2.0 Consensus size: 196
175708 AGAGAAATTG
175718 GTATAGCTACATCTAATTACCTCAGGTAAATATATCCTGAGATGGTTGAGCAAGATATATGTACT
1 GTATAGCTACATCTAATTACCTCAGGTAAATATATCCTGAGATGGTTGAGCAAGATATATGTACT
175783 TTAGGTTTCTCGCCTGCAATTTCGAAGCGAATGTTCTGAAAACCATCATGGCTCTCTACAGCTTC
66 TTAGGTTTCTCGCCTGCAATTTCGAAGCGAATGTTCTGAAAACCATCATGGCTCTCTACAGCTTC
175848 AAGCACTGGAACATCCTCT-TAGTTAACCAATCAAACCTTTTCAGGTTCTAGTGATGACTGGACA
131 AAGCACTGGAACATCCTCTCTAGTTAACCAATCAAACCTTTTCAGGTTCTAGTGATGACTGGACA
175912 A
196 A
175913 GTATAGCTACATCTAATTACCTCAGGTAAATATATCCTGAGATGGTTGAGCAAGAATATATGTAC
1 GTATAGCTACATCTAATTACCTCAGGTAAATATATCCTGAGATGGTTGAGCAAG-ATATATGTAC
175978 TTTAGGTTTCTCGCCTGCAATTTCGAAGCGAATGTTCTG-AAACCATCATGGCTCTCTACAGCTT
65 TTTAGGTTTCTCGCCTGCAATTTCGAAGCGAATGTTCTGAAAACCATCATGGCTCTCTACAGCTT
176042 CAAGCACTGGAACATCCTCTCTAGTTAACCAATCAAACCTTTTCAGGTTCTAGTGATGACTGGAC
130 CAAGCACTGGAACATCCTCTCTAGTTAACCAATCAAACCTTTTCAGGTTCTAGTGATGACTGGAC
176107 AA
195 AA
176109 CAAAAGTAAC
Statistics
Matches: 194, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
195 99 0.51
196 95 0.49
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (196 bp):
GTATAGCTACATCTAATTACCTCAGGTAAATATATCCTGAGATGGTTGAGCAAGATATATGTACT
TTAGGTTTCTCGCCTGCAATTTCGAAGCGAATGTTCTGAAAACCATCATGGCTCTCTACAGCTTC
AAGCACTGGAACATCCTCTCTAGTTAACCAATCAAACCTTTTCAGGTTCTAGTGATGACTGGACA
A
Found at i:180962 original size:29 final size:29
Alignment explanation
Indices: 180926--181014 Score: 142
Period size: 29 Copynumber: 3.0 Consensus size: 29
180916 AATCATTTTG
*
180926 ATTGTTTTAGCTTCTACTTGCTCTGGTAC
1 ATTGTTTTAGTTTCTACTTGCTCTGGTAC
* *
180955 ATTTTTTTAATTTCTACTTGCTCTGGTAC
1 ATTGTTTTAGTTTCTACTTGCTCTGGTAC
180984 AATTGTTTTAGTTTCTACTTGCTCTGGTAC
1 -ATTGTTTTAGTTTCTACTTGCTCTGGTAC
181014 A
1 A
181015 ACAATTTTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
29 27 0.50
30 27 0.50
ACGTcount: A:0.17, C:0.18, G:0.15, T:0.51
Consensus pattern (29 bp):
ATTGTTTTAGTTTCTACTTGCTCTGGTAC
Found at i:180999 original size:30 final size:30
Alignment explanation
Indices: 180926--181015 Score: 146
Period size: 30 Copynumber: 3.0 Consensus size: 30
180916 AATCATTTTG
*
180926 ATTGTTTTAGCTTCTACTTGCTCTGGTAC-
1 ATTGTTTTAGTTTCTACTTGCTCTGGTACA
* *
180955 ATTTTTTTAATTTCTACTTGCTCTGGTACA
1 ATTGTTTTAGTTTCTACTTGCTCTGGTACA
180985 ATTGTTTTAGTTTCTACTTGCTCTGGTACA
1 ATTGTTTTAGTTTCTACTTGCTCTGGTACA
181015 A
1 A
181016 CAATTTTTGT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
29 26 0.47
30 29 0.53
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (30 bp):
ATTGTTTTAGTTTCTACTTGCTCTGGTACA
Found at i:181262 original size:16 final size:16
Alignment explanation
Indices: 181241--181277 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
181231 CTATAATCAA
181241 GGGCATCAGTCTTTCC
1 GGGCATCAGTCTTTCC
181257 GGGCATCAGTCTTTCC
1 GGGCATCAGTCTTTCC
*
181273 AGGCA
1 GGGCA
181278 AGGCAGAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.27
Consensus pattern (16 bp):
GGGCATCAGTCTTTCC
Found at i:187517 original size:102 final size:104
Alignment explanation
Indices: 187390--187596 Score: 400
Period size: 103 Copynumber: 2.0 Consensus size: 104
187380 TTGTATAAAA
187390 TAAATTTAATATATTATTTTCTAAAATTGAGGAATGAGCTATTCGATCAACTTTAGCTACTA-AC
1 TAAATTTAATATATTATTTTCTAAAATTGAGGAATGAGCTATTCGATCAACTTTAGCTACTATAC
187454 CATGCTGATCTGAGTTGGGGTAGCGAGTTTGATTTTTTT
66 CATGCTGATCTGAGTTGGGGTAGCGAGTTTGATTTTTTT
187493 TAAATTTAATAT-TTATTTTCTAAAATTGAGGAATGAGCTATTCGATCAACTTTAGCTACTATAC
1 TAAATTTAATATATTATTTTCTAAAATTGAGGAATGAGCTATTCGATCAACTTTAGCTACTATAC
187557 CATGCTGATCTGAGTTGGGGTAGCGAGTTTGATTTTTTT
66 CATGCTGATCTGAGTTGGGGTAGCGAGTTTGATTTTTTT
187596 T
1 T
187597 CCTTTCAAAT
Statistics
Matches: 103, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
102 49 0.48
103 54 0.52
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.42
Consensus pattern (104 bp):
TAAATTTAATATATTATTTTCTAAAATTGAGGAATGAGCTATTCGATCAACTTTAGCTACTATAC
CATGCTGATCTGAGTTGGGGTAGCGAGTTTGATTTTTTT
Found at i:188185 original size:58 final size:55
Alignment explanation
Indices: 188123--188238 Score: 151
Period size: 58 Copynumber: 2.1 Consensus size: 55
188113 ATCAAAAGTT
* * *
188123 TAGGGATTAATTAAGAATTAAGATAGTAGTCTGGGGATAAATTTGGAATATTTAAAAG
1 TAGGGATTAATTAAGAACTAAGATAATAGTCTGGGGATAAA--TAGAATA-TTAAAAG
* * *
188181 TAGGGATTAATTTAGAACTAGGATAATAGTTTGGGGATAAATAGAATATTAAAAG
1 TAGGGATTAATTAAGAACTAAGATAATAGTCTGGGGATAAATAGAATATTAAAAG
188236 TAG
1 TAG
188239 AGACCAATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
55 10 0.19
56 6 0.12
58 36 0.69
ACGTcount: A:0.42, C:0.02, G:0.24, T:0.32
Consensus pattern (55 bp):
TAGGGATTAATTAAGAACTAAGATAATAGTCTGGGGATAAATAGAATATTAAAAG
Found at i:190859 original size:25 final size:25
Alignment explanation
Indices: 190831--190881 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
190821 TCTGATGATC
190831 AAGTGAAACCTTTGCATGTCATATT
1 AAGTGAAACCTTTGCATGTCATATT
190856 AAGTGAAACCTTTGCATGTCATATT
1 AAGTGAAACCTTTGCATGTCATATT
190881 A
1 A
190882 CTTTGATTCT
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:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (25 bp):
AAGTGAAACCTTTGCATGTCATATT
Found at i:195997 original size:14 final size:14
Alignment explanation
Indices: 195954--196001 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
195944 TAATCGAAAC
195954 TTCAAATTATTAAT
1 TTCAAATTATTAAT
** * *
195968 TTTTAATTTTTTAT
1 TTCAAATTATTAAT
195982 TTCAAATTATTAAT
1 TTCAAATTATTAAT
195996 TT-AAAT
1 TTCAAAT
196002 GTTCAAATTA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
13 4 0.15
14 22 0.85
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (14 bp):
TTCAAATTATTAAT
Found at i:196938 original size:56 final size:54
Alignment explanation
Indices: 196852--197123 Score: 381
Period size: 56 Copynumber: 5.0 Consensus size: 54
196842 GGAATTTTCC
196852 TTTT-AATTTAACTTAAAAACAAGTGTTCTCATTACATTTTTATTTTAAATGTTTAT
1 TTTTAAATTTAACTTAAAAA-AA-TGTTCTCATTACA-TTTTATTTTAAATGTTTAT
* **
196908 TTTTAAATTTAACTTAAAATAAATGTTCTCATTGCATTTTTATTACAAATGTTTAT
1 TTTTAAATTTAACTTAAAA-AAATGTTCTCATTACA-TTTTATTTTAAATGTTTAT
* *
196964 TTTTTAATTTAACTTAAAAATAAATGTTCTCATTACATTTTATTTTAAAT-ATT-T
1 TTTTAAATTTAACTT-AAAA-AAATGTTCTCATTACATTTTATTTTAAATGTTTAT
197018 TTTTAAATTTAACTTAAAAAAATGTTCTCATTACATTTTATTTTAAATGTTTA-
1 TTTTAAATTTAACTTAAAAAAATGTTCTCATTACATTTTATTTTAAATGTTTAT
* *
197071 TTTTAAATTTAACTTAAAAATAATGTTTTCATTACATTTTATTTTACATGTTT
1 TTTTAAATTTAACTTAAAAA-AATGTTCTCATTACATTTTATTTTAAATGTTT
197124 TTTAAATGTG
Statistics
Matches: 198, Mismatches: 12, Indels: 14
0.88 0.05 0.06
Matches are distributed among these distances:
52 29 0.15
53 26 0.13
54 45 0.23
55 2 0.01
56 59 0.30
57 36 0.18
58 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (54 bp):
TTTTAAATTTAACTTAAAAAAATGTTCTCATTACATTTTATTTTAAATGTTTAT
Found at i:197040 original size:113 final size:106
Alignment explanation
Indices: 196852--197130 Score: 398
Period size: 113 Copynumber: 2.6 Consensus size: 106
196842 GGAATTTTCC
* *
196852 TTTTAATTTAACTTAAAAACAAGTGTTCTCATTACATTTTTATTTTAAATGTTTATTTTTAAATT
1 TTTTAATTTAACTTAAAAATAAATGTTCTCATTACA-TTTTATTTTAAA--TTT-TTTTTAAATT
*
196917 TAACTTAAAATAAATGTTCTCATTGCATTTTTATTACAAATGTTTATT
62 TAACTTAAAA-AAATGTTCTCATTACA-TTTTATTACAAATGTTTA-T
196965 TTTTAATTTAACTTAAAAATAAATGTTCTCATTACATTTTATTTTAAATATTTTTTTAAATTTAA
1 TTTTAATTTAACTTAAAAATAAATGTTCTCATTACATTTTATTTTAAAT-TTTTTTTAAATTTAA
**
197030 CTTAAAAAAATGTTCTCATTACATTTTATTTTAAATGTTTAT
65 CTTAAAAAAATGTTCTCATTACATTTTATTACAAATGTTTAT
* * * *
197072 TTTAAATTTAACTTAAAAAT-AATGTTTTCATTACATTTTATTTTACATGTTTTTTAAAT
1 TTTTAATTTAACTTAAAAATAAATGTTCTCATTACATTTTATTTTAAATTTTTTTTAAAT
197131 GTGATATCAA
Statistics
Matches: 156, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
105 10 0.06
106 26 0.17
107 20 0.13
108 16 0.10
109 15 0.10
110 21 0.13
111 2 0.01
112 12 0.08
113 34 0.22
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (106 bp):
TTTTAATTTAACTTAAAAATAAATGTTCTCATTACATTTTATTTTAAATTTTTTTTAAATTTAAC
TTAAAAAAATGTTCTCATTACATTTTATTACAAATGTTTAT
Found at i:197072 original size:13 final size:13
Alignment explanation
Indices: 197054--197078 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
197044 CTCATTACAT
197054 TTTATTTTAAATG
1 TTTATTTTAAATG
197067 TTTATTTTAAAT
1 TTTATTTTAAAT
197079 TTAACTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTATTTTAAATG
Found at i:199019 original size:12 final size:12
Alignment explanation
Indices: 199002--199027 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
198992 GTTGTCTAAG
199002 ATATACCTTAAC
1 ATATACCTTAAC
199014 ATATACCTTAAC
1 ATATACCTTAAC
199026 AT
1 AT
199028 GATGATTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (12 bp):
ATATACCTTAAC
Found at i:200377 original size:30 final size:29
Alignment explanation
Indices: 200343--200418 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
200333 TTTCGGCGAT
**
200343 TTTTTCGATATATTACCGGTGAACAGTATA
1 TTTTTCGATATAACACCGGT-AACAGTATA
* * *
200373 TTTTTCGATATAACACCGGTCAGATTATA
1 TTTTTCGATATAACACCGGTAACAGTATA
*
200402 TTTTTCGATCTAACACC
1 TTTTTCGATATAACACC
200419 TTTAGCAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 22 0.55
30 18 0.45
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (29 bp):
TTTTTCGATATAACACCGGTAACAGTATA
Found at i:204818 original size:18 final size:18
Alignment explanation
Indices: 204795--204832 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
204785 AGGCGATGGT
*
204795 GGCATCATATATGGTTGC
1 GGCATCATATATGGCTGC
204813 GGCATCATATATGGCTGC
1 GGCATCATATATGGCTGC
204831 GG
1 GG
204833 TGGCTGCTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (18 bp):
GGCATCATATATGGCTGC
Found at i:206540 original size:105 final size:108
Alignment explanation
Indices: 206340--206554 Score: 348
Period size: 105 Copynumber: 2.0 Consensus size: 108
206330 ATTACAAAAA
* *
206340 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATT-AA-GAATCAACTAAATATTACTAATAATTTAAATAA
*
206405 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
64 AATTAAAACGTTAAAATGTTACCGTATCAGC-AAGTGTAGAGATAT
206451 TTAATTCTTAATCTAATAATCATGCATT-A-AAT-AACTAAATATTACTAATAATTTAAA-AAAA
1 TTAATTCTTAATCTAATAATCATGCATTAAGAATCAACTAAATATTACTAATAATTTAAATAAAA
206512 TTAAAACGTTAAAATGTTACCGTATCAGCAAGTGTAGAGATAT
66 TTAAAACGTTAAAATGTTACCGTATCAGCAAGTGTAGAGATAT
206555 ATGATTCCAT
Statistics
Matches: 101, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
104 13 0.13
105 32 0.32
106 24 0.24
107 3 0.03
109 1 0.01
111 28 0.28
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (108 bp):
TTAATTCTTAATCTAATAATCATGCATTAAGAATCAACTAAATATTACTAATAATTTAAATAAAA
TTAAAACGTTAAAATGTTACCGTATCAGCAAGTGTAGAGATAT
Found at i:206691 original size:12 final size:10
Alignment explanation
Indices: 206677--206717 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
206667 ACCTTAAATA
*
206677 GAGAGTATTT
1 GAGAGAATTT
206687 GAGAGAAATTT
1 GAGAG-AATTT
206698 -AGAGAATTT
1 GAGAGAATTT
206707 GAGAGAATTT
1 GAGAGAATTT
206717 G
1 G
206718 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:208284 original size:20 final size:20
Alignment explanation
Indices: 208261--208350 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
208251 ACATGTTCCA
208261 AAATCGCAACGCGAATATGT
1 AAATCGCAACGCGAATATGT
* **
208281 AAATCGTAACGATAATATGT
1 AAATCGCAACGCGAATATGT
*
208301 AAATCGCAACGCGAATATAT
1 AAATCGCAACGCGAATATGT
* *
208321 AAATCGCAACACGAATTTGT
1 AAATCGCAACGCGAATATGT
208341 AAATCGCAAC
1 AAATCGCAAC
208351 ACAGAAGTCA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (20 bp):
AAATCGCAACGCGAATATGT
Found at i:208399 original size:20 final size:19
Alignment explanation
Indices: 208301--208399 Score: 85
Period size: 20 Copynumber: 4.9 Consensus size: 19
208291 GATAATATGT
*
208301 AAATCGCAACGCGAATATAT-
1 AAATCGCAACACGAAT-T-TC
*
208321 AAATCGCAACACGAATTTGT
1 AAATCGCAACACGAATTT-C
*
208341 AAATCGCAACACAGAA-GTC
1 AAATCGCAACAC-GAATTTC
208360 AAATTCGCAACACGGAATTTC
1 AAA-TCGCAACAC-GAATTTC
*
208381 AAATTCGCAACGCGAATTT
1 AAA-TCGCAACACGAATTT
208400 ATTTTTCATA
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
18 1 0.01
19 4 0.06
20 46 0.68
21 17 0.25
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.21
Consensus pattern (19 bp):
AAATCGCAACACGAATTTC
Found at i:208502 original size:57 final size:57
Alignment explanation
Indices: 208431--208589 Score: 237
Period size: 57 Copynumber: 2.8 Consensus size: 57
208421 CTTTTCTGAT
* * * * *
208431 TTCGCAACGGTAATTACCGATATAGGTAAACAGTACAATCACAATGCGCTTTTTAAA
1 TTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGCGATTTTCAAA
*
208488 TTCGCAACGCTAATTACCGATATAGGTAAACAGTATTATCGCAATGCGATTTTCAAA
1 TTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGCGATTTTCAAA
* * *
208545 TTCGTAATGCTAATTACCGATATAGTTAAACAGTACTATCGCAAT
1 TTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAAT
208590 ATAAACAACA
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 92 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (57 bp):
TTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGCGATTTTCAAA
Found at i:209437 original size:20 final size:21
Alignment explanation
Indices: 209414--209462 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
209404 GGTAATTACC
*
209414 GTTGCGAAATCA-AAATTCTT
1 GTTGCGAAATCAGAAAATCTT
* *
209434 GTTGCG-ATTTAGAAAATCTT
1 GTTGCGAAATCAGAAAATCTT
209454 GTTGCGAAA
1 GTTGCGAAA
209463 AGGAAATTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.13
20 19 0.83
21 1 0.04
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (21 bp):
GTTGCGAAATCAGAAAATCTT
Found at i:209441 original size:57 final size:57
Alignment explanation
Indices: 209319--209428 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 57
209309 CGGAAATTCG
** * * * *
209319 CGTTGCGATAGTTGTGTTTACCTGTATCGGTAATTAGCGTTGCGAATTTAAAAATCA
1 CGTTGCGATAGTACTGTTTACCTATATCGGTAATTACCGTTGCGAAATCAAAAATCA
*
209376 CATTGCGATAGTACTGTTTACCTATATCGGTAATTACCGTTGCGAAATCAAAA
1 CGTTGCGATAGTACTGTTTACCTATATCGGTAATTACCGTTGCGAAATCAAAA
209429 TTCTTGTTGC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 46 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (57 bp):
CGTTGCGATAGTACTGTTTACCTATATCGGTAATTACCGTTGCGAAATCAAAAATCA
Found at i:209539 original size:20 final size:20
Alignment explanation
Indices: 209514--209563 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
209504 TGACTTCTGT
209514 GTTGCGATTTACATATT-TGC
1 GTTGCGATTTACATATTAT-C
*
209534 GTTGCGATTTGCATATTATC
1 GTTGCGATTTACATATTATC
*
209554 ATTGCGATTT
1 GTTGCGATTT
209564 TGGAACATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.46
Consensus pattern (20 bp):
GTTGCGATTTACATATTATC
Found at i:216300 original size:231 final size:232
Alignment explanation
Indices: 215897--216360 Score: 921
Period size: 231 Copynumber: 2.0 Consensus size: 232
215887 TTACATTTTT
215897 ATTTAAAAACCAATTGAAAAATTTTAATTTAATATATTTATTTTTCCATTAATTATATGTCGTAT
1 ATTTAAAAACCAATTGAAAAATTTTAATTTAATATATTTATTTTTCCATTAATTATATGTCGTAT
215962 AATGTAAAGATTACGAGTTGATTTAAGGATGAGACGTTAGATTCTTAAAGCAATGTTAGAAGTAG
66 AATGTAAAGATTACGAGTTGATTTAAGGATGAGACGTTAGATTCTTAAAGCAATGTTAGAAGTAG
216027 GAACGAGCAAAGATCAGAAGAAGGATTTGATTAACTTGAACTCGTTTGAGTATTATACTTCTTTA
131 GAACGAGCAAAGATCAGAAGAAGGATTTGATTAACTTGAACTCGTTTGAGTATTATACTTCTTTA
216092 TTCGTC-CTTGACTTAATTCGGATATAGAGAGGCATC
196 TTCGTCACTTGACTTAATTCGGATATAGAGAGGCATC
216128 ATTTAAAAACCAATTGAAAAATTTTAATTTAATATATTTATTTTTCCATTAATTATATGTCGTAT
1 ATTTAAAAACCAATTGAAAAATTTTAATTTAATATATTTATTTTTCCATTAATTATATGTCGTAT
216193 AATGTAAAGATTACGAGTTGATTTAAGGATGAGACGTTAGATTCTTAAAGCAATGTTAGAAGTAG
66 AATGTAAAGATTACGAGTTGATTTAAGGATGAGACGTTAGATTCTTAAAGCAATGTTAGAAGTAG
216258 GAACGAGCAAAGATCAGAAGAAGGATTTGATTAACTTGAACTCGTTTGAGTATTATACTTCTTTA
131 GAACGAGCAAAGATCAGAAGAAGGATTTGATTAACTTGAACTCGTTTGAGTATTATACTTCTTTA
216323 TTCGTCACTTGACTTAATTCGGATATAGAGAGGCATC
196 TTCGTCACTTGACTTAATTCGGATATAGAGAGGCATC
216360 A
1 A
216361 ATCGACCCAA
Statistics
Matches: 232, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
231 201 0.87
232 31 0.13
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (232 bp):
ATTTAAAAACCAATTGAAAAATTTTAATTTAATATATTTATTTTTCCATTAATTATATGTCGTAT
AATGTAAAGATTACGAGTTGATTTAAGGATGAGACGTTAGATTCTTAAAGCAATGTTAGAAGTAG
GAACGAGCAAAGATCAGAAGAAGGATTTGATTAACTTGAACTCGTTTGAGTATTATACTTCTTTA
TTCGTCACTTGACTTAATTCGGATATAGAGAGGCATC
Found at i:218347 original size:19 final size:20
Alignment explanation
Indices: 218323--218372 Score: 86
Period size: 19 Copynumber: 2.6 Consensus size: 20
218313 AACGCGATCC
218323 CCAGAATCGCAAATCAG-TT
1 CCAGAATCGCAAATCAGTTT
218342 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
218362 CCA-AATCGCAA
1 CCAGAATCGCAA
218373 CGCGATTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 25 0.83
20 5 0.17
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.20
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:218484 original size:20 final size:20
Alignment explanation
Indices: 218422--218615 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
218412 CGATTTTCCA
* ** *
218422 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
218442 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
218462 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
218482 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
218502 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
218522 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
218542 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
218562 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
218582 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
218603 AAATCGCAACGCG
1 AAATCGCAACGCG
218616 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:218506 original size:60 final size:60
Alignment explanation
Indices: 218422--218615 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
218412 CGATTTTCCA
* ** * *
218422 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
218482 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
218542 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
218603 AAATCGCAACGCG
1 AAATCGCAACGCG
218616 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:218779 original size:21 final size:22
Alignment explanation
Indices: 218755--218799 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
218745 CACTCTCGCG
218755 CGAAGAAATT-CG-CCCCATCTC
1 CGAAG-AATTCCGTCCCCATCTC
*
218776 CGAAGATTTCCGTCCCCATCTC
1 CGAAGAATTCCGTCCCCATCTC
218798 CG
1 CG
218800 GCGAAATCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 7 0.33
22 11 0.52
ACGTcount: A:0.22, C:0.40, G:0.16, T:0.22
Consensus pattern (22 bp):
CGAAGAATTCCGTCCCCATCTC
Found at i:219028 original size:32 final size:32
Alignment explanation
Indices: 218990--219055 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
218980 TTCACTTAGA
*
218990 TTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
219022 TTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTCATTTCGCGTTACGATTCTCTCGTTGCGAT
219054 TT
1 TT
219056 TCAAGTTAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.47
Consensus pattern (32 bp):
TTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:219198 original size:14 final size:14
Alignment explanation
Indices: 219179--219233 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
219169 AGAATGACTG
219179 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
219193 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
219212 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
219226 TCGCAACG
1 TCGCAACG
219234 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:219246 original size:33 final size:33
Alignment explanation
Indices: 219179--219249 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
219169 AGAATGACTG
***
219179 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
219212 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
219245 TCGCA
1 TCGCA
219250 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:219267 original size:19 final size:19
Alignment explanation
Indices: 219245--219342 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
219235 GAAACCAAAA
*
219245 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
219264 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
219278 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
219297 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
219311 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
219330 TCGCGTTGCGATT
1 TCGCGTTGCGATT
219343 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:219286 original size:14 final size:14
Alignment explanation
Indices: 219267--219356 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
219257 TTTCATTTCG
219267 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
219281 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
219300 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
219314 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
219331 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
219347 CGTTGCGATT
1 CGTTGCGATT
219357 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:219292 original size:33 final size:33
Alignment explanation
Indices: 219250--219364 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
219240 CAAAATCGCA
219250 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
219283 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
219316 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
219349 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
219365 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:221231 original size:104 final size:104
Alignment explanation
Indices: 221050--221243 Score: 372
Period size: 104 Copynumber: 1.9 Consensus size: 104
221040 GTAAATTTTA
221050 TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTGTCTTTGT
1 TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTGTCTTTGT
221115 TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGGTAATTTG
66 TTTGTCTTTTGG-TGAAAGTAAATTTGTTCGGGTAATTTG
221155 TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTATTGTCTTTGT
1 TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTGTCTTTGT
221219 TTTGTCTTTTGGTGAAAGTAAATTT
66 TTTGTCTTTTGGTGAAAGTAAATTT
221244 ATCCATTCAA
Statistics
Matches: 89, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
103 13 0.15
104 41 0.46
105 35 0.39
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.45
Consensus pattern (104 bp):
TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTGTCTTTGT
TTTGTCTTTTGGTGAAAGTAAATTTGTTCGGGTAATTTG
Found at i:221326 original size:19 final size:19
Alignment explanation
Indices: 221286--221414 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
221276 TAGTTTACTT
* *
221286 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
221306 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
221325 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
221344 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
221358 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
221377 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
221391 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
221410 TCGCA
1 TCGCA
221415 TTGCGATTTC
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:221365 original size:33 final size:32
Alignment explanation
Indices: 221322--221414 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
221312 CGCGAAACCA
**
221322 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
221354 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
221387 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
221415 TTGCGATTTC
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:221412 original size:52 final size:52
Alignment explanation
Indices: 221286--221414 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
221276 TAGTTTACTT
**
221286 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
221338 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
221391 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
221415 TTGCGATTTC
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:221450 original size:14 final size:14
Alignment explanation
Indices: 221431--221487 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
221421 TTTCATTTCG
221431 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
221445 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
221462 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
221478 CGTTGCGATT
1 CGTTGCGATT
221488 TTCATTTCGC
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:0.09, C:0.21, G:0.25, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:221462 original size:33 final size:33
Alignment explanation
Indices: 221415--221506 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
221405 CAAAATCGCA
*
221415 TTGCGA-TTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
221447 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
221480 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
221507 TTGGTTTCGC
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 6 0.10
33 52 0.90
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:221469 original size:19 final size:19
Alignment explanation
Indices: 221410--221542 Score: 126
Period size: 19 Copynumber: 7.6 Consensus size: 19
221400 GAAACCAAAA
*
221410 TCGCATTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
221428 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
221444 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
221461 TCGCGTTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
221477 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
221494 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
221513 TCGCGTTGCGATTTTAAGT
1 TCGCGTTGCGATTTTCATT
*
221532 TCGTGTTGCGA
1 TCGCGTTGCGA
221543 AAGTAAACTA
Statistics
Matches: 96, Mismatches: 9, Indels: 19
0.77 0.07 0.15
Matches are distributed among these distances:
14 16 0.17
16 11 0.11
17 11 0.11
18 10 0.10
19 48 0.50
ACGTcount: A:0.11, C:0.20, G:0.25, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:223377 original size:38 final size:38
Alignment explanation
Indices: 223334--223406 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
223324 TAATTGATTG
*
223334 TTTTTGATTGTTTAATTGATTTGTAAAAGTTGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
223372 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
223407 TGTAAAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:223393 original size:19 final size:19
Alignment explanation
Indices: 223330--223393 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
223320 AGTTTAATTG
223330 ATTG-TTTTTGATTGTTTA
1 ATTGATTTTTGATTGTTTA
* * ** *
223348 ATTGATTTGTAAAAG-TTG
1 ATTGATTTTTGATTGTTTA
*
223366 ATTCAATTTTTGATTGTTTA
1 ATT-GATTTTTGATTGTTTA
223386 ATTGATTT
1 ATTGATTT
223394 GTAAAAGATG
Statistics
Matches: 31, Mismatches: 12, Indels: 5
0.65 0.25 0.10
Matches are distributed among these distances:
18 9 0.29
19 17 0.55
20 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.16, T:0.58
Consensus pattern (19 bp):
ATTGATTTTTGATTGTTTA
Found at i:223407 original size:14 final size:14
Alignment explanation
Indices: 223388--223423 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
223378 ATTGTTTAAT
223388 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
223402 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
223416 TGATTTGT
1 TGATTTGT
223424 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:223545 original size:19 final size:19
Alignment explanation
Indices: 223529--223630 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
223519 AAAAATGACT
223529 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
223548 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
223567 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
223581 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
223600 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
223620 ATCGCAATGCG
1 ATCGCAATGCG
223631 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:223681 original size:19 final size:19
Alignment explanation
Indices: 223657--223969 Score: 346
Period size: 19 Copynumber: 17.4 Consensus size: 19
223647 GCGATTCTCG
223657 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
223676 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
223695 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
223709 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
223727 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
223746 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
223765 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
223784 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
223803 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
223817 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* * * *
223836 TTTCGCA-TTGCGATTCTCTCG
1 TTGCG-ATTTTC-ATT-TCGCA
223857 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
223876 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
223895 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
223909 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
223929 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
223943 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
223962 TTGCGATT
1 TTGCGATT
223970 GTATTTTCCG
Statistics
Matches: 251, Mismatches: 18, Indels: 50
0.79 0.06 0.16
Matches are distributed among these distances:
14 29 0.12
15 3 0.01
16 26 0.10
17 16 0.06
18 9 0.04
19 138 0.55
20 20 0.08
21 10 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:223822 original size:14 final size:13
Alignment explanation
Indices: 223795--223922 Score: 68
Period size: 14 Copynumber: 9.8 Consensus size: 13
223785 TGCGATTTTC
*
223795 ATTTCGCATTGCG
1 ATTTCTCATTGCG
*
223808 ATTCTCTCGTTGCG
1 ATT-TCTCATTGCG
*
223822 ATTT-TCATTTCG
1 ATTTCTCATTGCG
*
223834 CATTTCGCATTGCG
1 -ATTTCTCATTGCG
*
223848 ATTCTCTCGTTGCG
1 ATT-TCTCATTGCG
*
223862 ATTT-TCATTTCG
1 ATTTCTCATTGCG
* * *
223874 CATTGC-GATTTTC-
1 -ATTTCTCA-TTGCG
*
223887 ATTTCGCATTGCG
1 ATTTCTCATTGCG
*
223900 ATTCTCTCGTTGCG
1 ATT-TCTCATTGCG
223914 ATTT-TCATT
1 ATTTCTCATT
223923 TCCGCATTGC
Statistics
Matches: 87, Mismatches: 18, Indels: 21
0.69 0.14 0.17
Matches are distributed among these distances:
12 23 0.26
13 21 0.24
14 43 0.49
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.46
Consensus pattern (13 bp):
ATTTCTCATTGCG
Done.