Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 134 of 195
Found at i:22618500 original size:16 final size:16
Alignment explanation
Indices: 22618480--22618514 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
22618470 AAAATAAAAT
22618480 TAAAAAT-AAAAGAAA
1 TAAAAATCAAAAGAAA
22618495 TAAAAATCAAAAGAAA
1 TAAAAATCAAAAGAAA
22618511 TAAA
1 TAAA
22618515 TAAAATAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (16 bp):
TAAAAATCAAAAGAAA
Found at i:22618506 original size:21 final size:20
Alignment explanation
Indices: 22618471--22618519 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
22618461 AAAATATTGA
*
22618471 AAATAAAATTAAAAATAAAAG
1 AAATAAAAATAAAAA-AAAAG
* * *
22618492 AAATAAAAATCAAAAGAAAT
1 AAATAAAAATAAAAAAAAAG
22618512 AAATAAAA
1 AAATAAAA
22618520 TAAGGATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (20 bp):
AAATAAAAATAAAAAAAAAG
Found at i:22624803 original size:22 final size:22
Alignment explanation
Indices: 22624736--22624990 Score: 91
Period size: 22 Copynumber: 11.7 Consensus size: 22
22624726 TTATATCTAA
**
22624736 ATGTACATACTCC-AAAAGCACC
1 ATGTACATA-TCCTAAAAGCATT
* * *
22624758 ATGTACATGTTCTAAAATCATT
1 ATGTACATATCCTAAAAGCATT
*
22624780 ATGTACATATCCTAAAAGCTTT
1 ATGTACATATCCTAAAAGCATT
* * ** *
22624802 ATGCATATATTATCAAAAGTATT
1 ATGTACATATCCT-AAAAGCATT
*
22624825 ATGTACATA-CGC--CAA--ATT
1 ATGTACATATC-CTAAAAGCATT
* * *
22624843 A-GTTCTTTTAT-CTCAAAAGCAAT
1 ATGTAC--ATATCCT-AAAAGCATT
* * * *
22624866 ATGCACATATCTTAAAAACACT
1 ATGTACATATCCTAAAAGCATT
*
22624888 A-GATACATATCC-AAAAGCAAT
1 ATG-TACATATCCTAAAAGCATT
* * *
22624909 ATATACATATCCTAAAAGTAAT
1 ATGTACATATCCTAAAAGCATT
* * * *
22624931 GTATACATA-CCTTAAAAGAAAT
1 ATGTACATATCC-TAAAAGCATT
* * *
22624953 ATGTACATATTCTAAAAGAAAT
1 ATGTACATATCCTAAAAGCATT
22624975 ATGTACATATCCTAAA
1 ATGTACATATCCTAAA
22624991 TGAGTTGCTC
Statistics
Matches: 173, Mismatches: 42, Indels: 36
0.69 0.17 0.14
Matches are distributed among these distances:
17 3 0.02
18 5 0.03
19 2 0.01
20 2 0.01
21 24 0.14
22 116 0.67
23 19 0.11
24 2 0.01
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (22 bp):
ATGTACATATCCTAAAAGCATT
Found at i:22624982 original size:44 final size:44
Alignment explanation
Indices: 22624900--22624983 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
22624890 ATACATATCC
* * *
22624900 AAAAGCAATATATACATATCCTAAAAGTAATGTATACATACCTT
1 AAAAGAAATATATACATATCCTAAAAGAAATATATACATACCTT
* * *
22624944 AAAAGAAATATGTACATATTCTAAAAGAAATATGTACATA
1 AAAAGAAATATATACATATCCTAAAAGAAATATATACATA
22624984 TCCTAAATGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (44 bp):
AAAAGAAATATATACATATCCTAAAAGAAATATATACATACCTT
Found at i:22625131 original size:22 final size:22
Alignment explanation
Indices: 22625078--22625158 Score: 92
Period size: 22 Copynumber: 3.7 Consensus size: 22
22625068 TATAACTACC
* *
22625078 ATATACATATCCCAAAAGTATT
1 ATATACATATCCTAAAAGCATT
*
22625100 ATCTACATATCCTAAAAGCATT
1 ATATACATATCCTAAAAGCATT
* * * *
22625122 TTATATATATCCTATAACCATT
1 ATATACATATCCTAAAAGCATT
22625144 AT-TACATATCCTAAA
1 ATATACATATCCTAAA
22625159 TTAGTTCCTA
Statistics
Matches: 48, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
21 11 0.23
22 37 0.77
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (22 bp):
ATATACATATCCTAAAAGCATT
Found at i:22627316 original size:26 final size:26
Alignment explanation
Indices: 22627282--22627347 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
22627272 ACCTTGGTAA
* *
22627282 TTTACATTTTTATATAATTTTTTTGT
1 TTTATATTTTTATATAATTTATTTGT
*
22627308 TTTATATTTTT-TATCATTTATTTGT
1 TTTATATTTTTATATAATTTATTTGT
*
22627333 TATTTTATATTTTAT
1 T-TTATAT-TTTTAT
22627348 GGAAAAGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 13 0.39
26 15 0.45
27 4 0.12
28 1 0.03
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (26 bp):
TTTATATTTTTATATAATTTATTTGT
Found at i:22629843 original size:13 final size:13
Alignment explanation
Indices: 22629827--22629858 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
22629817 TTAAAAAAAT
22629827 TATAAAAAATAAA
1 TATAAAAAATAAA
22629840 TATAAAAAATAAA
1 TATAAAAAATAAA
22629853 TATAAA
1 TATAAA
22629859 TATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
TATAAAAAATAAA
Found at i:22629857 original size:6 final size:6
Alignment explanation
Indices: 22629835--22629876 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
22629825 ATTATAAAAA
* *
22629835 ATAAAT ATAAAAA ATAAAT ATAAAT ATAAAA ATAAAT ATAAA
1 ATAAAT AT-AAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAA
22629877 AATAGAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (6 bp):
ATAAAT
Found at i:22629867 original size:18 final size:19
Alignment explanation
Indices: 22629835--22629876 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
22629825 ATTATAAAAA
22629835 ATAAATATAAAAAATAAAT
1 ATAAATATAAAAAATAAAT
22629854 ATAAATAT-AAAAATAAAT
1 ATAAATATAAAAAATAAAT
22629872 ATAAA
1 ATAAA
22629877 AATAGAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
ATAAATATAAAAAATAAAT
Found at i:22629880 original size:12 final size:12
Alignment explanation
Indices: 22629818--22629876 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
22629808 ATAAAAATTT
*
22629818 TAAAAA-AATTA
1 TAAAAATAAATA
22629829 TAAAAAATAAATA
1 T-AAAAATAAATA
22629842 TAAAAAATAAATA
1 T-AAAAATAAATA
* *
22629855 TAAATATAAAAA
1 TAAAAATAAATA
*
22629867 TAAATATAAA
1 TAAAAATAAA
22629877 AATAGAAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
11 1 0.02
12 24 0.56
13 18 0.42
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
TAAAAATAAATA
Found at i:22630005 original size:12 final size:14
Alignment explanation
Indices: 22629968--22630022 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 14
22629958 AACTTAATTA
*
22629968 ATAT-AATACAAAT
1 ATATAAATATAAAT
22629981 ATATAAATATAAAT
1 ATATAAATATAAAT
22629995 ATA-AAAT-TAAAT
1 ATATAAATATAAAT
22630007 -TA-ATAATAT-AAT
1 ATATA-AATATAAAT
22630019 ATAT
1 ATAT
22630023 TTTATATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
11 3 0.08
12 11 0.31
13 11 0.31
14 11 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
ATATAAATATAAAT
Found at i:22631894 original size:16 final size:16
Alignment explanation
Indices: 22631856--22631913 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
22631846 AAGCACATTA
*
22631856 AAAAAATAAGATAAAAAT
1 AAAAAATAA-A-AAATAT
*
22631874 AAAAAAAAAAGAAATAT
1 AAAAAATAAA-AAATAT
*
22631891 AAAAAATATAAAATAT
1 AAAAAATAAAAAATAT
22631907 AAAAAAT
1 AAAAAAT
22631914 TGAGTAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
16 13 0.37
17 14 0.40
18 8 0.23
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAAAATAAAAAATAT
Found at i:22631897 original size:9 final size:9
Alignment explanation
Indices: 22631854--22631939 Score: 58
Period size: 9 Copynumber: 9.6 Consensus size: 9
22631844 CAAAGCACAT
22631854 TAAAAAA-A
1 TAAAAAATA
*
22631862 TAAGATAAAAA
1 TAA-A-AAATA
22631873 TAAAAAA-A
1 TAAAAAATA
22631881 -AAAGAAATA
1 TAAA-AAATA
22631890 TAAAAAATA
1 TAAAAAATA
22631899 T--AAAATA
1 TAAAAAATA
22631906 TAAAAAATTGA
1 TAAAAAA-T-A
22631917 GTAAAAAATA
1 -TAAAAAATA
*
22631927 AAAAAAAT-
1 TAAAAAATA
22631935 TAAAA
1 TAAAA
22631940 GTGCCCATAA
Statistics
Matches: 65, Mismatches: 2, Indels: 22
0.73 0.02 0.25
Matches are distributed among these distances:
7 10 0.15
8 11 0.17
9 22 0.34
10 9 0.14
11 6 0.09
12 7 0.11
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (9 bp):
TAAAAAATA
Found at i:22632471 original size:3 final size:3
Alignment explanation
Indices: 22632463--22632489 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22632453 GGTAATATGG
22632463 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
22632490 TTTTGTGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:22633431 original size:88 final size:88
Alignment explanation
Indices: 22633336--22633512 Score: 345
Period size: 88 Copynumber: 2.0 Consensus size: 88
22633326 AATGTATTTA
22633336 TATATATATGTTTAGGGTAAGATGGAAGATCCTATATCTACAACTAACTCGACGTTGATTTGAAA
1 TATATATATGTTTAGGGTAAGATGGAAGATCCTATATCTACAACTAACTCGACGTTGATTTGAAA
*
22633401 AAAATAAAGAATTTTCATTTGGT
66 AAAATAAAAAATTTTCATTTGGT
22633424 TATATATATGTTTAGGGTAAGATGGAAGATCCTATATCTACAACTAACTCGACGTTGATTTGAAA
1 TATATATATGTTTAGGGTAAGATGGAAGATCCTATATCTACAACTAACTCGACGTTGATTTGAAA
22633489 AAAATAAAAAATTTTCATTTGGT
66 AAAATAAAAAATTTTCATTTGGT
22633512 T
1 T
22633513 TTGATTTTTT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (88 bp):
TATATATATGTTTAGGGTAAGATGGAAGATCCTATATCTACAACTAACTCGACGTTGATTTGAAA
AAAATAAAAAATTTTCATTTGGT
Found at i:22634976 original size:25 final size:25
Alignment explanation
Indices: 22634948--22635001 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
22634938 ATATTATTTT
* *
22634948 TTATATTTTTA-AAATTATTTTTAAA
1 TTATATTATTATAAAGTA-TTTTAAA
*
22634973 TTATATTATTATATAGTATTTTAAA
1 TTATATTATTATAAAGTATTTTAAA
22634998 TTAT
1 TTAT
22635002 TATATTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (25 bp):
TTATATTATTATAAAGTATTTTAAA
Found at i:22634979 original size:13 final size:13
Alignment explanation
Indices: 22634948--22635001 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 13
22634938 ATATTATTTT
22634948 TTATATTTTTAAA
1 TTATATTTTTAAA
*
22634961 AT-TATTTTTAAA
1 TTATATTTTTAAA
* *
22634973 TTATATTATTATA
1 TTATATTTTTAAA
22634986 -TAGTA-TTTTAAA
1 TTA-TATTTTTAAA
22634998 TTAT
1 TTAT
22635002 TATATTTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
12 19 0.59
13 13 0.41
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TTATATTTTTAAA
Found at i:22634995 original size:37 final size:36
Alignment explanation
Indices: 22634907--22635002 Score: 90
Period size: 37 Copynumber: 2.6 Consensus size: 36
22634897 TACGTTAAAT
* *
22634907 TTATATATATTTTT-TATTAAAATTTTAATTCATATTA
1 TTATATATATTTTTAAATT--ATTTTTAATTCATATTA
* *
22634944 TTTTTTATATTTTTAAAATTATTTTTAAATT-ATATTA
1 TTATATATATTTTT-AAATTATTTTT-AATTCATATTA
22634981 TTATATAGTA-TTTTAAATTATT
1 TTATATA-TATTTTTAAATTATT
22635003 ATATTTATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
36 8 0.16
37 32 0.65
38 6 0.12
39 3 0.06
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (36 bp):
TTATATATATTTTTAAATTATTTTTAATTCATATTA
Found at i:22635030 original size:3 final size:3
Alignment explanation
Indices: 22635022--22635064 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
22635012 TTCATGTAAC
22635022 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
22635065 GCAGAAAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22643440 original size:13 final size:13
Alignment explanation
Indices: 22643422--22643446 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22643412 ACTTATTTTG
22643422 TTTTTATATATTA
1 TTTTTATATATTA
22643435 TTTTTATATATT
1 TTTTTATATATT
22643447 TAAATAAATT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTATATATTA
Found at i:22644732 original size:21 final size:20
Alignment explanation
Indices: 22644708--22644748 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22644698 GCAAAAGTCA
*
22644708 TAAACCAAAATATAAAAAATT
1 TAAACCAAAA-AAAAAAAATT
*
22644729 TAAACTAAAAAAAAAAAATT
1 TAAACCAAAAAAAAAAAATT
22644749 CAAAACTGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (20 bp):
TAAACCAAAAAAAAAAAATT
Found at i:22646604 original size:27 final size:27
Alignment explanation
Indices: 22646573--22646628 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
22646563 CTTTTAATGT
22646573 TTACTATTTCAATATTCTAATTGAACA
1 TTACTATTTCAATATTCTAATTGAACA
*
22646600 TTACTATTTCTATATTCTAATTGAACA
1 TTACTATTTCAATATTCTAATTGAACA
22646627 TT
1 TT
22646629 GTATATGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.04, T:0.48
Consensus pattern (27 bp):
TTACTATTTCAATATTCTAATTGAACA
Found at i:22648409 original size:34 final size:34
Alignment explanation
Indices: 22648366--22648438 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
22648356 GTTTTATGGC
*
22648366 CTTT-TAAGCTTTATTTTTAATGCTTTATGTTAG
1 CTTTATAAGCTTGATTTTTAATGCTTTATGTTAG
* *
22648399 CTTTATAAGCTTGGTTTTTCATGCTTTATGTTAG
1 CTTTATAAGCTTGATTTTTAATGCTTTATGTTAG
22648433 CTTTAT
1 CTTTAT
22648439 TTTATGGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 4 0.11
34 32 0.89
ACGTcount: A:0.19, C:0.11, G:0.14, T:0.56
Consensus pattern (34 bp):
CTTTATAAGCTTGATTTTTAATGCTTTATGTTAG
Found at i:22649404 original size:38 final size:39
Alignment explanation
Indices: 22649356--22649430 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
22649346 AGGTAGCTCA
22649356 TTTAGGTTTTACAACA-CCTTAGGTCTTAGGTCAGTTCC
1 TTTAGGTTTTACAACATCCTTAGGTCTTAGGTCAGTTCC
* **
22649394 TTTAGTTTTTACAACATTTTTAGGTCTTAGGTCAGTT
1 TTTAGGTTTTACAACATCCTTAGGTCTTAGGTCAGTT
22649431 TCTTAGAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 15 0.45
39 18 0.55
ACGTcount: A:0.21, C:0.16, G:0.17, T:0.45
Consensus pattern (39 bp):
TTTAGGTTTTACAACATCCTTAGGTCTTAGGTCAGTTCC
Found at i:22650166 original size:17 final size:17
Alignment explanation
Indices: 22650144--22650189 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
22650134 TGTAGCTTTA
22650144 TATTTTTAGTAACCTAC
1 TATTTTTAGTAACCTAC
* *
22650161 TATTTTTGGTAA-CTAT
1 TATTTTTAGTAACCTAC
*
22650177 TAGTTTTAGTAAC
1 TATTTTTAGTAAC
22650190 TATCTTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (17 bp):
TATTTTTAGTAACCTAC
Found at i:22653029 original size:18 final size:18
Alignment explanation
Indices: 22653006--22653350 Score: 109
Period size: 17 Copynumber: 19.9 Consensus size: 18
22652996 TTTGAAATTA
*
22653006 AAAGATTCGCAAGGTTTC
1 AAAGATTCGCAAGATTTC
*
22653024 AAAGATTCGCAAGATTTT
1 AAAGATTCGCAAGATTTC
** *
22653042 AAAGATTCATAAGAATTC
1 AAAGATTCGCAAGATTTC
* * *
22653060 AATGGTTCGTAAGATTTC
1 AAAGATTCGCAAGATTTC
*
22653078 AAAGATTCGAAAGAATTT-
1 AAAGATTCGCAAG-ATTTC
* * * *
22653096 GATGCTTTGCAAGGA-TT-
1 AAAGATTCGCAA-GATTTC
* *
22653113 AAAGATTTGCAAGAATTC
1 AAAGATTCGCAAGATTTC
* * ** *
22653131 AAAGTTTTGCTTGATTTG
1 AAAGATTCGCAAGATTTC
*
22653149 AAA-ATTTGCAAGATTTTC
1 AAAGATTCGCAAGA-TTTC
* *
22653167 --AGATGCGTAAGATTT-
1 AAAGATTCGCAAGATTTC
**
22653182 TTAGATTCGCAAGATTTTC
1 AAAGATTCGCAAGA-TTTC
*
22653201 -AAG-TTCGTAAGATTT-
1 AAAGATTCGCAAGATTTC
***
22653216 AAAGATTTATAAGATTTTC
1 AAAGATTCGCAAGA-TTTC
* * *
22653235 --AGATTGGTAAGAATT-
1 AAAGATTCGCAAGATTTC
**
22653250 AAAGATTCATAAGATTTTC
1 AAAGATTCGCAAGA-TTTC
22653269 --AGATTCGCAAGATTT-
1 AAAGATTCGCAAGATTTC
* * *
22653284 AAGGATTAGGAAGATTT-
1 AAAGATTCGCAAGATTTC
* *
22653301 TAA-ATTCACAAGATTT-
1 AAAGATTCGCAAGATTTC
* **
22653317 GAAGATTCGTGAGATTT-
1 AAAGATTCGCAAGATTTC
*
22653334 AAAGATTTGCAAGATTT
1 AAAGATTCGCAAGATTT
22653351 TTAGATTTAT
Statistics
Matches: 243, Mismatches: 63, Indels: 43
0.70 0.18 0.12
Matches are distributed among these distances:
16 29 0.12
17 118 0.49
18 91 0.37
19 5 0.02
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (18 bp):
AAAGATTCGCAAGATTTC
Found at i:22653048 original size:36 final size:36
Alignment explanation
Indices: 22653006--22653134 Score: 100
Period size: 36 Copynumber: 3.6 Consensus size: 36
22652996 TTTGAAATTA
** *
22653006 AAAGATTCGCAAGGTTTCAAAGATTCGCAAGATTTT
1 AAAGATTCGCAAGAATTCAAAGATTCGCAAGATTTC
** * * *
22653042 AAAGATTCATAAGAATTCAATGGTTCGTAAGATTTC
1 AAAGATTCGCAAGAATTCAAAGATTCGCAAGATTTC
* ** * * *
22653078 AAAGATTCGAAAGAATTTGATGCTTTGCAAGGA-TT-
1 AAAGATTCGCAAGAATTCAAAGATTCGCAA-GATTTC
*
22653113 AAAGATTTGCAAGAATTCAAAG
1 AAAGATTCGCAAGAATTCAAAG
22653135 TTTTGCTTGA
Statistics
Matches: 72, Mismatches: 20, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
35 17 0.24
36 53 0.74
37 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (36 bp):
AAAGATTCGCAAGAATTCAAAGATTCGCAAGATTTC
Found at i:22653123 original size:17 final size:18
Alignment explanation
Indices: 22653001--22653140 Score: 66
Period size: 18 Copynumber: 7.8 Consensus size: 18
22652991 TGTATTTTGA
* *
22653001 AATTAAAAGATTCGCAAG
1 AATTCAAAGATTTGCAAG
** *
22653019 GTTTCAAAGATTCGCAAG
1 AATTCAAAGATTTGCAAG
* * ***
22653037 ATTTTAAAGATTCATAAG
1 AATTCAAAGATTTGCAAG
* * * *
22653055 AATTCAATGGTTCGTAAG
1 AATTCAAAGATTTGCAAG
* * *
22653073 ATTTCAAAGATTCGAAAG
1 AATTCAAAGATTTGCAAG
** * *
22653091 AATTTGATGCTTTGCAAG
1 AATTCAAAGATTTGCAAG
*
22653109 GATT-AAAGATTTGCAAG
1 AATTCAAAGATTTGCAAG
*
22653126 AATTCAAAGTTTTGC
1 AATTCAAAGATTTGC
22653141 TTGATTTGAA
Statistics
Matches: 92, Mismatches: 29, Indels: 2
0.75 0.24 0.02
Matches are distributed among these distances:
17 13 0.14
18 79 0.86
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.32
Consensus pattern (18 bp):
AATTCAAAGATTTGCAAG
Found at i:22653178 original size:17 final size:17
Alignment explanation
Indices: 22653158--22653435 Score: 130
Period size: 17 Copynumber: 16.4 Consensus size: 17
22653148 GAAAATTTGC
*
22653158 AAGATTTTCAGATGCGT
1 AAGATTTTCAGATTCGT
* *
22653175 AAGATTTTTAGATTCGC
1 AAGATTTTCAGATTCGT
22653192 AAGATTTTCA-AGTTCGT
1 AAGATTTTCAGA-TTCGT
** **
22653209 AAGATTTAAAGATTTAT
1 AAGATTTTCAGATTCGT
*
22653226 AAGATTTTCAGATTGGT
1 AAGATTTTCAGATTCGT
* ** *
22653243 AAGAATTAAAGATTCAT
1 AAGATTTTCAGATTCGT
*
22653260 AAGATTTTCAGATTCGC
1 AAGATTTTCAGATTCGT
* * *
22653277 AAGA-TTTAAGGATTAGG
1 AAGATTTTCA-GATTCGT
* **
22653294 AAGATTTT-AAATTCAC
1 AAGATTTTCAGATTCGT
**
22653310 AAGATTTGAAGATTCGT
1 AAGATTTTCAGATTCGT
* ** * *
22653327 GAGATTTAAAGATTTGC
1 AAGATTTTCAGATTCGT
* **
22653344 AAGATTTTTAGATTTAT
1 AAGATTTTCAGATTCGT
* ** * **
22653361 AAGAATTGAACATTCAC
1 AAGATTTTCAGATTCGT
*
22653378 AAGATTTTCAGATTTGT
1 AAGATTTTCAGATTCGT
** * * *
22653395 AAGATTTGAAGACTAGA
1 AAGATTTTCAGATTCGT
* *
22653412 AAGATTTTCAAATTTGT
1 AAGATTTTCAGATTCGT
22653429 AAGATTT
1 AAGATTT
22653436 GAAGGTTTGT
Statistics
Matches: 189, Mismatches: 67, Indels: 10
0.71 0.25 0.04
Matches are distributed among these distances:
16 15 0.08
17 170 0.90
18 4 0.02
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (17 bp):
AAGATTTTCAGATTCGT
Found at i:22653222 original size:8 final size:9
Alignment explanation
Indices: 22653208--22653266 Score: 52
Period size: 8 Copynumber: 6.9 Consensus size: 9
22653198 TTCAAGTTCG
22653208 TAAGATTTA
1 TAAGATTTA
22653217 -AAGATTTA
1 TAAGATTTA
22653225 TAAGATTT-
1 TAAGATTTA
* **
22653233 TCAGATTGG
1 TAAGATTTA
*
22653242 TAAGAATTA
1 TAAGATTTA
*
22653251 -AAGATTCA
1 TAAGATTTA
22653259 TAAGATTT
1 TAAGATTT
22653267 TCAGATTCGC
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
8 20 0.53
9 18 0.47
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.39
Consensus pattern (9 bp):
TAAGATTTA
Found at i:22653236 original size:68 final size:68
Alignment explanation
Indices: 22653158--22653290 Score: 171
Period size: 68 Copynumber: 2.0 Consensus size: 68
22653148 GAAAATTTGC
* ** * *
22653158 AAGATTTTCAGA-TGCGTAAGATTTTTAGATTCGCAAGATTTTCA-AGTTCGTAAGATTTAAAGA
1 AAGATTTTCAGATTG-GTAAGAATTAAAGATTCACAAGATTTTCAGA-TTCGCAAGATTTAAAGA
22653221 TTTAT
64 TTTAT
* *
22653226 AAGATTTTCAGATTGGTAAGAATTAAAGATTCATAAGATTTTCAGATTCGCAAGATTTAAGGATT
1 AAGATTTTCAGATTGGTAAGAATTAAAGATTCACAAGATTTTCAGATTCGCAAGATTTAAAGATT
22653291 AGGAAGATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
68 53 0.95
69 3 0.05
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (68 bp):
AAGATTTTCAGATTGGTAAGAATTAAAGATTCACAAGATTTTCAGATTCGCAAGATTTAAAGATT
TAT
Found at i:22653323 original size:50 final size:51
Alignment explanation
Indices: 22653254--22653384 Score: 138
Period size: 50 Copynumber: 2.6 Consensus size: 51
22653244 AGAATTAAAG
** * *
22653254 ATTCATAAGATTTTCAGATTCGCAAGATTTAAGGATTAGGAAGA-TTTTAA
1 ATTCATAAGATTTGAAGATTCGCAAGATTTAAAGATTAGCAAGATTTTTAA
* ** * *
22653304 ATTCACAAGATTTGAAGATTCGTGAGATTTAAAGATTTGCAAGATTTTTAG
1 ATTCATAAGATTTGAAGATTCGCAAGATTTAAAGATTAGCAAGATTTTTAA
* * * *
22653355 ATTTATAAGAATTGAACATTCACAAGATTT
1 ATTCATAAGATTTGAAGATTCGCAAGATTT
22653385 TCAGATTTGT
Statistics
Matches: 64, Mismatches: 16, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
50 36 0.56
51 28 0.44
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (51 bp):
ATTCATAAGATTTGAAGATTCGCAAGATTTAAAGATTAGCAAGATTTTTAA
Found at i:22653400 original size:68 final size:68
Alignment explanation
Indices: 22653304--22653438 Score: 162
Period size: 68 Copynumber: 2.0 Consensus size: 68
22653294 AAGATTTTAA
* * * * * *
22653304 ATTCACAAGATTTGAAGATTCGTGAGATTTAAAGATTTGCAAGATTTTTAGATTTATAAGAATTG
1 ATTCACAAGATTTGAAGATTCGTAAGATTTAAAGACTAGAAAGATTTTCAAATTTATAAGAATTG
22653369 AAC
66 AAC
** * * * *
22653372 ATTCACAAGATTTTCAGATTTGTAAGATTTGAAGACTAGAAAGATTTTCAAATTTGTAAGATTTG
1 ATTCACAAGATTTGAAGATTCGTAAGATTTAAAGACTAGAAAGATTTTCAAATTTATAAGAATTG
22653437 AA
66 AA
22653439 GGTTTGTGAG
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (68 bp):
ATTCACAAGATTTGAAGATTCGTAAGATTTAAAGACTAGAAAGATTTTCAAATTTATAAGAATTG
AAC
Found at i:22653459 original size:34 final size:34
Alignment explanation
Indices: 22653389--22653471 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 34
22653379 AGATTTTCAG
**
22653389 ATTTGTAAGATTTGAAGACTAGAAAGATTTTCAA
1 ATTTGTAAGATTTGAAGACTAGAAAGATTTAAAA
** * **
22653423 ATTTGTAAGATTTGAAGGTTTGTGAGATTTAAAA
1 ATTTGTAAGATTTGAAGACTAGAAAGATTTAAAA
**
22653457 ATTCATAAGATTTGA
1 ATTTGTAAGATTTGA
22653472 TGATTTGCAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.39
Consensus pattern (34 bp):
ATTTGTAAGATTTGAAGACTAGAAAGATTTAAAA
Found at i:22654304 original size:18 final size:18
Alignment explanation
Indices: 22654281--22654366 Score: 82
Period size: 18 Copynumber: 4.8 Consensus size: 18
22654271 TTTGAAATTA
* *
22654281 AAAGATTTGTAAGGTTTC
1 AAAGATTCGTAAGATTTC
*
22654299 AAAGATTCGTAAGATTTT
1 AAAGATTCGTAAGATTTC
** *
22654317 AAAGATTCACAAGAATTC
1 AAAGATTCGTAAGATTTC
* *
22654335 AATGGTTCGTAAGATTTC
1 AAAGATTCGTAAGATTTC
* *
22654353 GAAGATTCGAAAGA
1 AAAGATTCGTAAGA
22654367 GTTTGATGGT
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 52 1.00
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (18 bp):
AAAGATTCGTAAGATTTC
Found at i:22654398 original size:17 final size:18
Alignment explanation
Indices: 22654376--22654415 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
22654366 AGTTTGATGG
*
22654376 TTTGCAAGGATT-AAAGA
1 TTTGCAAGAATTCAAAGA
*
22654393 TTTGCAAGAATTCAAAGT
1 TTTGCAAGAATTCAAAGA
22654411 TTTGC
1 TTTGC
22654416 TTGATTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (18 bp):
TTTGCAAGAATTCAAAGA
Found at i:22654438 original size:17 final size:17
Alignment explanation
Indices: 22654376--22654439 Score: 51
Period size: 17 Copynumber: 3.7 Consensus size: 17
22654366 AGTTTGATGG
22654376 TTTGCAAGGA-TTAAAGA
1 TTTGCAA-GATTTAAAGA
* *
22654393 TTTGCAAGAATTCAAAGT
1 TTTGCAAG-ATTTAAAGA
**
22654411 TTTGCTTGATTTGAAAG-
1 TTTGCAAGATTT-AAAGA
22654428 TTTGCAAGATTT
1 TTTGCAAGATTT
22654440 TCAAATGCGC
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
16 1 0.03
17 21 0.57
18 15 0.41
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (17 bp):
TTTGCAAGATTTAAAGA
Found at i:22654517 original size:17 final size:17
Alignment explanation
Indices: 22654432--22654524 Score: 80
Period size: 17 Copynumber: 5.5 Consensus size: 17
22654422 TGAAAGTTTG
* * *
22654432 CAAGATTTTCAAATGCG
1 CAAGATTTTCAGATTCA
*
22654449 CAAGATTTTTAGATTCA
1 CAAGATTTTCAGATTCA
*
22654466 TAAGATTTTCA-AGTTCA
1 CAAGATTTTCAGA-TTCA
** **
22654483 TTAGATTTGAAGATTCA
1 CAAGATTTTCAGATTCA
22654500 CAAGATTTTCAGATTCA
1 CAAGATTTTCAGATTCA
*
22654517 CAAAATTT
1 CAAGATTT
22654525 GAGGATTAGG
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
16 1 0.02
17 58 0.97
18 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (17 bp):
CAAGATTTTCAGATTCA
Found at i:22654525 original size:34 final size:33
Alignment explanation
Indices: 22654432--22654564 Score: 106
Period size: 34 Copynumber: 3.9 Consensus size: 33
22654422 TGAAAGTTTG
* * **
22654432 CAAGATTTTCAAATGCGCAAGATTTTTAGATTCA
1 CAAGATTTTC-AATTCACAAGATTTGAAGATTCA
* **
22654466 TAAGATTTTCAAGTTCATTAGATTTGAAGATTCA
1 CAAGATTTTCAA-TTCACAAGATTTGAAGATTCA
* *
22654500 CAAGATTTTCAGATTCACAAAATTTGAGGATT-A
1 CAAGATTTTCA-ATTCACAAGATTTGAAGATTCA
* * * *
22654533 GGAAGATTTTAAATTCGCAAGCTTTGAAGATT
1 -CAAGATTTTCAATTCACAAGATTTGAAGATT
22654565 TGTGAGATTT
Statistics
Matches: 78, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
33 19 0.24
34 58 0.74
35 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (33 bp):
CAAGATTTTCAATTCACAAGATTTGAAGATTCA
Found at i:22654638 original size:17 final size:17
Alignment explanation
Indices: 22654535--22654741 Score: 107
Period size: 17 Copynumber: 12.2 Consensus size: 17
22654525 GAGGATTAGG
* *
22654535 AAGATTTTAA-ATTCGC
1 AAGATTTTAAGATTTGT
* *
22654551 AAGCTTTGAAGATTTGT
1 AAGATTTTAAGATTTGT
* * *
22654568 GAGATTTAAAGATTTGC
1 AAGATTTTAAGATTTGT
*
22654585 AAGACTTTT-AGATTTAT
1 AAGA-TTTTAAGATTTGT
* * * **
22654602 AAGAATTGAACATTCAT
1 AAGATTTTAAGATTTGT
*
22654619 AAGATTTTCAGATTTGT
1 AAGATTTTAAGATTTGT
* * * *
22654636 AAGATTTGAAGACTAGC
1 AAGATTTTAAGATTTGT
*
22654653 AAGATTTTCAA-ATTTAT
1 AAGATTTT-AAGATTTGT
* *
22654670 AAGATTTAAAGGTTTGT
1 AAGATTTTAAGATTTGT
* * * **
22654687 GAGATTTAAAAATTCAT
1 AAGATTTTAAGATTTGT
*
22654704 AAGATTTGAAGATTTG-
1 AAGATTTTAAGATTTGT
*
22654720 AAGATTTGTAAGATTTGA
1 AAGATTT-TAAGATTTGT
22654738 AAGA
1 AAGA
22654742 ATTAAAAGCT
Statistics
Matches: 138, Mismatches: 46, Indels: 12
0.70 0.23 0.06
Matches are distributed among these distances:
16 19 0.14
17 110 0.80
18 9 0.07
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.38
Consensus pattern (17 bp):
AAGATTTTAAGATTTGT
Found at i:22654717 original size:8 final size:8
Alignment explanation
Indices: 22654704--22654738 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
22654694 AAAAATTCAT
22654704 AAGATTTG
1 AAGATTTG
22654712 AAGATTTG
1 AAGATTTG
22654720 AAGATTTG
1 AAGATTTG
22654728 TAAGATTTG
1 -AAGATTTG
22654737 AA
1 AA
22654739 AGAATTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (8 bp):
AAGATTTG
Found at i:22655096 original size:45 final size:45
Alignment explanation
Indices: 22654980--22655144 Score: 134
Period size: 45 Copynumber: 3.6 Consensus size: 45
22654970 ATTCATAGAT
* * * **
22654980 TTTAGAGATTCACA-CCCAAAATTCAAAGATTTTCATTCTAAAAC
1 TTTAGAGATTCACATCCGAAATTTCAAAGATTCTCATTAAAAAAC
* * * ** * *
22655024 TTTAGGGATTCATATCTGTGATGTCAAATATTCTCATTAAAAAAC
1 TTTAGAGATTCACATCCGAAATTTCAAAGATTCTCATTAAAAAAC
* *
22655069 TTTAGAAATTCACATCCGAAATTTCAAAGATTCTTATTTGAAAAAAAC
1 TTTAGAGATTCACATCCGAAATTTCAAAGATTCTCA-TT--AAAAAAC
* * **
22655117 TTTAGAGGTTCACTTCAAAAATTTCAAA
1 TTTAGAGATTCACATCCGAAATTTCAAA
22655145 CTTTACATTC
Statistics
Matches: 91, Mismatches: 26, Indels: 4
0.75 0.21 0.03
Matches are distributed among these distances:
44 12 0.13
45 47 0.52
46 2 0.02
48 30 0.33
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (45 bp):
TTTAGAGATTCACATCCGAAATTTCAAAGATTCTCATTAAAAAAC
Found at i:22664431 original size:7 final size:7
Alignment explanation
Indices: 22664408--22664515 Score: 82
Period size: 7 Copynumber: 15.4 Consensus size: 7
22664398 TTTGGGTTGA
22664408 TTTAGGG
1 TTTAGGG
*
22664415 TCTA-GG
1 TTTAGGG
22664421 -TTAGGG
1 TTTAGGG
22664427 TTTAGGG
1 TTTAGGG
*
22664434 TTTTAAGG
1 -TTTAGGG
22664442 TTTAGGG
1 TTTAGGG
*
22664449 -TTAGAG
1 TTTAGGG
22664455 -TTAGGG
1 TTTAGGG
22664461 TTTAGGG
1 TTTAGGG
*
22664468 TTT-GAAG
1 TTTAG-GG
*
22664475 TTTAAGG
1 TTTAGGG
22664482 TTTAGGG
1 TTTAGGG
22664489 TTTCATGGG
1 TTT-A-GGG
*
22664498 ATTTGGGG
1 -TTTAGGG
22664506 TTTAGGG
1 TTTAGGG
22664513 TTT
1 TTT
22664516 GATGAAACTT
Statistics
Matches: 80, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
5 2 0.03
6 15 0.19
7 47 0.59
8 10 0.12
9 3 0.04
10 3 0.04
ACGTcount: A:0.18, C:0.02, G:0.38, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:22664448 original size:34 final size:32
Alignment explanation
Indices: 22664408--22664483 Score: 107
Period size: 34 Copynumber: 2.3 Consensus size: 32
22664398 TTTGGGTTGA
*
22664408 TTTAGGGTCTAGGTTAGGGTTTAGGGTTTTAAGG
1 TTTAGGGT-TAGGTTAGGGTTTAGGGTTTGAA-G
22664442 TTTAGGGTTAGAGTTAGGGTTTAGGGTTTGAAG
1 TTTAGGGTTAG-GTTAGGGTTTAGGGTTTGAAG
*
22664475 TTTAAGGTT
1 TTTAGGGTT
22664484 TAGGGTTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
33 12 0.31
34 27 0.69
ACGTcount: A:0.20, C:0.01, G:0.37, T:0.42
Consensus pattern (32 bp):
TTTAGGGTTAGGTTAGGGTTTAGGGTTTGAAG
Found at i:22664527 original size:24 final size:24
Alignment explanation
Indices: 22664480--22664528 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
22664470 TGAAGTTTAA
** *
22664480 GGTTTAGGGTTTCATGGGATTTGG
1 GGTTTAGGGTTTCATGAAACTTGG
*
22664504 GGTTTAGGGTTTGATGAAACTTGG
1 GGTTTAGGGTTTCATGAAACTTGG
22664528 G
1 G
22664529 TATAAAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.16, C:0.04, G:0.41, T:0.39
Consensus pattern (24 bp):
GGTTTAGGGTTTCATGAAACTTGG
Found at i:22667487 original size:50 final size:49
Alignment explanation
Indices: 22667200--22667590 Score: 230
Period size: 49 Copynumber: 7.9 Consensus size: 49
22667190 AGTTAACTTT
* * * *
22667200 TTTTAAAAAATATATCT-AAAAAATGG-CTCTTATTAACAT-GGCAAGGAA
1 TTTTAAAAAATCTATTTGAAAAAA-GGTTTC-TATTAACATAGGCAATGAA
* * * * * * * *
22667248 CTTTTAAAAAATATGTCT-AGAAATGCTTT-TATTAATATAGGCAAGGAA
1 -TTTTAAAAAATCTATTTGAAAAAAGGTTTCTATTAACATAGGCAATGAA
** * *
22667296 TTTTTAAAAAATCTATTTGGAAAAGGGGGTTTGTATTAACATAGGTAATGAA
1 -TTTTAAAAAATCTATTT-GAAAA-AAGGTTTCTATTAACATAGGCAATGAA
* * * *
22667348 TTTTAAAAAATTTATTTGAAAAATGGCTCCTATTAACATAGGCAATGAA
1 TTTTAAAAAATCTATTTGAAAAAAGGTTTCTATTAACATAGGCAATGAA
* * * * * *
22667397 TTTTAAAAAATTTGTCT-AAAAAAGG-TTCTTATTCATATAGGCAATAAA
1 TTTTAAAAAATCTATTTGAAAAAAGGTTTC-TATTAACATAGGCAATGAA
* *
22667445 CTTTAAAAAATCTGTTTGGAAAAAAGGTTTCTATTAACATAGGCAATGAA
1 TTTTAAAAAATCTATTT-GAAAAAAGGTTTCTATTAACATAGGCAATGAA
* * ** * *
22667495 CCTTTTTAAAAAAATCTATATG-GAAAAGGGCTCTTATTAATATA-GCAACGAA
1 ---TTTT-AAAAAATCTATTTGAAAAAAGGTTTC-TATTAACATAGGCAATGAA
* * *
22667547 TTTTAAAAAAATTTGTCTG--AAAAGGCTTT-TATTAACATAGGCAA
1 TTTT-AAAAAATCTATTTGAAAAAAGG-TTTCTATTAACATAGGCAA
22667591 CAAACTTCAA
Statistics
Matches: 274, Mismatches: 51, Indels: 35
0.76 0.14 0.10
Matches are distributed among these distances:
47 19 0.07
48 71 0.26
49 74 0.27
50 32 0.12
51 23 0.08
52 31 0.11
53 13 0.05
54 11 0.04
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.34
Consensus pattern (49 bp):
TTTTAAAAAATCTATTTGAAAAAAGGTTTCTATTAACATAGGCAATGAA
Found at i:22667570 original size:150 final size:147
Alignment explanation
Indices: 22667145--22667605 Score: 489
Period size: 148 Copynumber: 3.1 Consensus size: 147
22667135 ATAGGTAGAT
* * * * * *
22667145 AACTTT-AAAAATCAGTTTTGAAAACGGGTTTCTATCAACATAGGCAGTTAACTTTTTTTAAAAA
1 AACTTTAAAAAATCTGTTTGGAAAAAGGGTTTCTATTAACATAGGCAATGAAC--TTTTTAAAAA
* * * * * * *
22667209 ATATATCTAAAAAATGGCTCTTATTAACATGGCAAGGAACTTTTAAAAAATATGTCTAGAAATGC
64 ATATATATGAAAAATGGCTCTTATTAACATAGCAACGAA-TTTTAAAAAATTTGTCTAGAAAAGG
*
22667274 TTTTATTAATATAGGCAAGGA
128 TTTTATTAATATAGGCAA-CA
** * * * *
22667295 ATTTTTAAAAAATCTATTTGGAAAAGGGGGTTTGTATTAACATAGGTAATGAA--TTTTAAAAAA
1 AACTTTAAAAAATCTGTTTGGAAAA-AGGGTTTCTATTAACATAGGCAATGAACTTTTTAAAAAA
* * * * *
22667358 TTTATTTGAAAAATGGCTCCTATTAACATAGGCAATGAATTTTAAAAAATTTGTCTAAAAAAGGT
65 TATATATGAAAAATGGCTCTTATTAACATA-GCAACGAATTTTAAAAAATTTGTCTAGAAAAGGT
* *
22667423 TCTTATTCATATAGGCAATA
129 T-TTATTAATATAGGCAACA
*
22667443 AACTTTAAAAAATCTGTTTGGAAAAAAGGTTTCTATTAACATAGGCAATGAACCTTTTTAAAAAA
1 AACTTTAAAAAATCTGTTTGGAAAAAGGGTTTCTATTAACATAGGCAATGAA-CTTTTT-AAAAA
* * * *
22667508 ATCTATATGGAAAAGGGCTCTTATTAATATAGCAACGAATTTTAAAAAAATTTGTCT-GAAAAGG
64 ATATATATGAAAAATGGCTCTTATTAACATAGCAACGAATTTT-AAAAAATTTGTCTAGAAAAGG
*
22667572 CTTTTATTAACATAGGCAACA
128 -TTTTATTAATATAGGCAACA
*
22667593 AACTTCAAAAAAT
1 AACTTTAAAAAAT
22667606 TTGGAAAAGC
Statistics
Matches: 259, Mismatches: 42, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
147 23 0.09
148 81 0.31
149 22 0.08
150 52 0.20
151 60 0.23
152 21 0.08
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (147 bp):
AACTTTAAAAAATCTGTTTGGAAAAAGGGTTTCTATTAACATAGGCAATGAACTTTTTAAAAAAT
ATATATGAAAAATGGCTCTTATTAACATAGCAACGAATTTTAAAAAATTTGTCTAGAAAAGGTTT
TATTAATATAGGCAACA
Found at i:22667591 original size:48 final size:49
Alignment explanation
Indices: 22667200--22667608 Score: 269
Period size: 48 Copynumber: 8.3 Consensus size: 49
22667190 AGTTAACTTT
* * ** * * *
22667200 TTTTAAAAAATATATCTAAAAAATGGCTCTTATTAACAT-GGCAAGGAA
1 TTTTAAAAAATTTGTCTGGAAAAGGGCTTTTATTAACATAGGCAATGAA
* * * * *
22667248 CTTTTAAAAAATATGTCTAG-AAA-TGCTTTTATTAATATAGGCAAGGAA
1 -TTTTAAAAAATTTGTCTGGAAAAGGGCTTTTATTAACATAGGCAATGAA
* * * * *
22667296 TTTTTAAAAAATCTATTTGGAAAAGGGGGTTTGTATTAACATAGGTAATGAA
1 -TTTTAAAAAATTTGTCTGGAAAA-GGGCTTT-TATTAACATAGGCAATGAA
* * * * **
22667348 TTTTAAAAAATTTATTTGAAAAATGGCTCCTATTAACATAGGCAATGAA
1 TTTTAAAAAATTTGTCTGGAAAAGGGCTTTTATTAACATAGGCAATGAA
* * * * *
22667397 TTTTAAAAAATTTGTCT-AAAAAAGG-TTCTTATTCATATAGGCAATAAA
1 TTTTAAAAAATTTGTCTGGAAAAGGGCTT-TTATTAACATAGGCAATGAA
* * * *
22667445 CTTTAAAAAATCTGTTTGGAAAAAAGG-TTTCTATTAACATAGGCAATGAA
1 TTTTAAAAAATTTGTCTGG-AAAAGGGCTTT-TATTAACATAGGCAATGAA
* * * * * *
22667495 CCTTTTTAAAAAAATCTATATGGAAAAGGGCTCTTATTAATATA-GCAACGAA
1 ---TTTT-AAAAAATTTGTCTGGAAAAGGGCTTTTATTAACATAGGCAATGAA
**
22667547 TTTTAAAAAAATTTGTCT-GAAAA-GGCTTTTATTAACATAGGCAACAAA
1 TTTT-AAAAAATTTGTCTGGAAAAGGGCTTTTATTAACATAGGCAATGAA
* *
22667595 CTTCAAAAAATTTG
1 TTTTAAAAAATTTG
22667609 GAAAAGCTAA
Statistics
Matches: 293, Mismatches: 52, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
47 37 0.13
48 78 0.27
49 69 0.24
50 28 0.10
51 25 0.09
52 23 0.08
53 18 0.06
54 15 0.05
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.34
Consensus pattern (49 bp):
TTTTAAAAAATTTGTCTGGAAAAGGGCTTTTATTAACATAGGCAATGAA
Found at i:22668149 original size:29 final size:27
Alignment explanation
Indices: 22668116--22668186 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 27
22668106 TCCTTTATTC
* *
22668116 TCATCATTCATCCTTTTTGTTTTTCTCA
1 TCATCATTCATCCTTTATGTTTCT-TCA
*
22668144 TACATCAATCATCCTTTATGTTTCTTCA
1 T-CATCATTCATCCTTTATGTTTCTTCA
22668172 TCATCATT-ATCCTTT
1 TCATCATTCATCCTTT
22668187 GTTTAGCCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 7 0.18
27 6 0.16
28 5 0.13
29 20 0.53
ACGTcount: A:0.20, C:0.25, G:0.03, T:0.52
Consensus pattern (27 bp):
TCATCATTCATCCTTTATGTTTCTTCA
Found at i:22668562 original size:15 final size:15
Alignment explanation
Indices: 22668538--22668570 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
22668528 GCTTTGAGTA
22668538 ATGCTAACTCATTGG
1 ATGCTAACTCATTGG
*
22668553 ATGCTGACTCATTGG
1 ATGCTAACTCATTGG
22668568 ATG
1 ATG
22668571 AAAATCTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (15 bp):
ATGCTAACTCATTGG
Found at i:22671332 original size:15 final size:15
Alignment explanation
Indices: 22671312--22671341 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22671302 TGGCTGGATT
22671312 CAATTTGAGTTGATA
1 CAATTTGAGTTGATA
22671327 CAATTTGAGTTGATA
1 CAATTTGAGTTGATA
22671342 TTGTGGAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (15 bp):
CAATTTGAGTTGATA
Found at i:22671591 original size:44 final size:44
Alignment explanation
Indices: 22671528--22671614 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
22671518 TTTATAATAG
22671528 AATGTTCCCTACATTGTCATGAAAGTTATCTTCTCCATATCTTC
1 AATGTTCCCTACATTGTCATGAAAGTTATCTTCTCCATATCTTC
* * *
22671572 AATGTTTCTTACATTGTCATGAAAGTTATTTTCTCCATATCTT
1 AATGTTCCCTACATTGTCATGAAAGTTATCTTCTCCATATCTT
22671615 TCTTTGCCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.45
Consensus pattern (44 bp):
AATGTTCCCTACATTGTCATGAAAGTTATCTTCTCCATATCTTC
Found at i:22679455 original size:25 final size:25
Alignment explanation
Indices: 22679426--22679505 Score: 106
Period size: 25 Copynumber: 3.2 Consensus size: 25
22679416 AATATATAAT
*
22679426 AAATGACATAATTTAAATATGCATG
1 AAATGACATAATTAAAATATGCATG
* * *
22679451 GAATGGCATAATTAAAATATGAATG
1 AAATGACATAATTAAAATATGCATG
* *
22679476 AAATGACATACTTAAAATATGCATA
1 AAATGACATAATTAAAATATGCATG
22679501 AAATG
1 AAATG
22679506 TAAAACACAC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (25 bp):
AAATGACATAATTAAAATATGCATG
Found at i:22680711 original size:13 final size:13
Alignment explanation
Indices: 22680678--22680717 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
22680668 ATTGGGTCTA
*
22680678 GGTTAGGGTTTAG
1 GGTTAAGGTTTAG
22680691 GGTTTTAAGGTTTAG
1 GG--TTAAGGTTTAG
22680706 GGTTAAGGTTTA
1 GGTTAAGGTTTA
22680718 TGTATGGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 12 0.50
15 12 0.50
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (13 bp):
GGTTAAGGTTTAG
Found at i:22685387 original size:32 final size:32
Alignment explanation
Indices: 22685346--22685425 Score: 142
Period size: 32 Copynumber: 2.5 Consensus size: 32
22685336 ATTAGATTAG
*
22685346 GATTTTATTTTCCTTCTTGCTAAACAACTTTA
1 GATTTTATTTTCCTTCTTGCCAAACAACTTTA
22685378 GATTTTATTTTCCTTCTTGCCAAACAACTTTA
1 GATTTTATTTTCCTTCTTGCCAAACAACTTTA
22685410 GATTTTAATTTTCCTT
1 GATTTT-ATTTTCCTT
22685426 ATTGAATTTG
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 37 0.80
33 9 0.20
ACGTcount: A:0.24, C:0.19, G:0.06, T:0.51
Consensus pattern (32 bp):
GATTTTATTTTCCTTCTTGCCAAACAACTTTA
Found at i:22689011 original size:4 final size:4
Alignment explanation
Indices: 22688996--22689061 Score: 61
Period size: 4 Copynumber: 17.0 Consensus size: 4
22688986 GAGTAGGAAA
*
22688996 AAAT AAAT --AT AAAT AAAT -AAT AAAT AACAAT AATT ATAAT -AAT -AAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -A-AAT AAAT A-AAT AAAT AAAT
22689042 AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT
22689062 CATGAAACTT
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
2 2 0.04
3 9 0.17
4 35 0.66
5 4 0.08
6 3 0.06
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (4 bp):
AAAT
Found at i:22689036 original size:19 final size:20
Alignment explanation
Indices: 22688997--22689059 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 20
22688987 AGTAGGAAAA
22688997 AATAAAT-ATAAAT-AA-AT
1 AATAAATAATAAATAAATAT
* *
22689014 AATAAATAA-CAATAATTAT
1 AATAAATAATAAATAAATAT
22689033 AAT-AATAATAAATAAATA-
1 AATAAATAATAAATAAATAT
22689051 AATAAATAA
1 AATAAATAA
22689060 ATCATGAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 10 0.27
18 10 0.27
19 17 0.46
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AATAAATAATAAATAAATAT
Found at i:22689764 original size:31 final size:32
Alignment explanation
Indices: 22689729--22689789 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
22689719 AAGCTTGTTA
*
22689729 TTGC-TTCAGTAAAAGAGTTGATGGAAATTTG
1 TTGCTTTCAGTAAAAGAGTTGATGAAAATTTG
22689760 TTGCTTTCAGTAAAAGAGTTGATGAAAATT
1 TTGCTTTCAGTAAAAGAGTTGATGAAAATT
22689790 GTATACTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 4 0.14
32 24 0.86
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (32 bp):
TTGCTTTCAGTAAAAGAGTTGATGAAAATTTG
Found at i:22689967 original size:20 final size:20
Alignment explanation
Indices: 22689933--22689973 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22689923 AGCTTAAATT
** *
22689933 ATGAAAAAATTAACAATAAG
1 ATGAAAAAAAAAACAAAAAG
22689953 ATGAAAAAAAAAACAAAAAG
1 ATGAAAAAAAAAACAAAAAG
22689973 A
1 A
22689974 CTAAACTCAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.73, C:0.05, G:0.10, T:0.12
Consensus pattern (20 bp):
ATGAAAAAAAAAACAAAAAG
Found at i:22691814 original size:43 final size:43
Alignment explanation
Indices: 22691737--22691818 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
22691727 AAGAACTAAT
* *
22691737 AAAAACAACCTAAATGTTACACCAGTAAATAAGGAACCAATAA
1 AAAAACAACCTAAATGTTACACCAGCAAAGAAGGAACCAATAA
* **
22691780 AAAAACAACCTAAGTGTTACACTGGCAAAGAAGGAACCA
1 AAAAACAACCTAAATGTTACACCAGCAAAGAAGGAACCA
22691819 TTTCTTGTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.52, C:0.20, G:0.13, T:0.15
Consensus pattern (43 bp):
AAAAACAACCTAAATGTTACACCAGCAAAGAAGGAACCAATAA
Found at i:22695869 original size:23 final size:23
Alignment explanation
Indices: 22695843--22695889 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
22695833 GTTTTATCTG
22695843 TTAGGTTTTTCTTTATTTCTTGA
1 TTAGGTTTTTCTTTATTTCTTGA
22695866 TTAGGTTTTTCTTTATTTCTTGA
1 TTAGGTTTTTCTTTATTTCTTGA
22695889 T
1 T
22695890 GCTTGTCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.13, C:0.09, G:0.13, T:0.66
Consensus pattern (23 bp):
TTAGGTTTTTCTTTATTTCTTGA
Found at i:22696552 original size:278 final size:278
Alignment explanation
Indices: 22696053--22696606 Score: 1002
Period size: 278 Copynumber: 2.0 Consensus size: 278
22696043 TTGTAATACC
*
22696053 AGGTCCAAAAGCATGACCTGTTATTTTTGGCCCCCAAATGATTAACTGTTTAGCCTTTTTGGTCT
1 AGGTCCAAAAGCATGACCTGTTATTTTTGGCCCCCAAATGATTAACTGTTTAGCCTTTTTGGACT
22696118 TTTGCTTCTATTACTTCACCATAAATTATTATCAACTTTTAGATTACGAGATTTTCTAGACAGTC
66 TTTGCTTCTATTACTTCACCATAAATTATTATCAACTTTTAGATTACGAGATTTTCTAGACAGTC
*
22696183 TGAACTAGAGAAAATATTTTTATAATCTGTCAAATGTAGCTTCTGGGTGGTAAGTTAGTTATAAA
131 TGAACTAGAGAAAATATCTTTATAATCTGTCAAATGTAGCTTCTGGGTGGTAAGTTAGTTATAAA
22696248 GCAGTGAAGCTCCTTATTCATGGAGATTTGTCTAACTGCTCCGCACTTGAAGTATTTTGTATATA
196 GCAGTGAAGCTCCTTATTCATGGAGATTTGTCTAACTGCTCCGCACTTGAAGTATTTTGTATATA
22696313 AAGCAGAAAAATGAATGA
261 AAGCAGAAAAATGAATGA
*
22696331 AGGTCCAAAAGCATGACCTGTTATTTTTGGGCCCCAAATGATTAACTGTTTAGCCTTTTTGGACT
1 AGGTCCAAAAGCATGACCTGTTATTTTTGGCCCCCAAATGATTAACTGTTTAGCCTTTTTGGACT
* * * *
22696396 TTTGCTTCTATTACTTCAGCATAAATTTTTATCAACTTTTAGATTTCGAGATTTTCTAGACTGTC
66 TTTGCTTCTATTACTTCACCATAAATTATTATCAACTTTTAGATTACGAGATTTTCTAGACAGTC
22696461 TGAACTAGAGAAAATATCTTTATAATCTGTCAAATGTAGCATT-TGGGTGGTAAGTTAGTTATAA
131 TGAACTAGAGAAAATATCTTTATAATCTGTCAAATGTAGC-TTCTGGGTGGTAAGTTAGTTATAA
* * *
22696525 AGCAGTGAAGCTCCTTATTCGTGGAGATTTGTCTAACTGCTCTGTACTTGAAGTATTTTGTATAT
195 AGCAGTGAAGCTCCTTATTCATGGAGATTTGTCTAACTGCTCCGCACTTGAAGTATTTTGTATAT
22696590 AAAGCAGAAAAATGAAT
260 AAAGCAGAAAAATGAAT
22696607 TTAGAGTGAT
Statistics
Matches: 265, Mismatches: 10, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
278 263 0.99
279 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (278 bp):
AGGTCCAAAAGCATGACCTGTTATTTTTGGCCCCCAAATGATTAACTGTTTAGCCTTTTTGGACT
TTTGCTTCTATTACTTCACCATAAATTATTATCAACTTTTAGATTACGAGATTTTCTAGACAGTC
TGAACTAGAGAAAATATCTTTATAATCTGTCAAATGTAGCTTCTGGGTGGTAAGTTAGTTATAAA
GCAGTGAAGCTCCTTATTCATGGAGATTTGTCTAACTGCTCCGCACTTGAAGTATTTTGTATATA
AAGCAGAAAAATGAATGA
Found at i:22697790 original size:2 final size:2
Alignment explanation
Indices: 22697783--22697807 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22697773 TTTTGTATCA
22697783 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
22697808 CACGAGATTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22701936 original size:21 final size:20
Alignment explanation
Indices: 22701911--22702024 Score: 63
Period size: 21 Copynumber: 5.5 Consensus size: 20
22701901 AATATATAAT
22701911 CATGCAATTAACAGTGCAAAA
1 CATGCAATTAACA-TGCAAAA
* * * *
22701932 CATGCCATTAA-ATATCTAAT
1 CATGCAATTAACAT-GCAAAA
*
22701952 CATACAATTAACAAT-CTAAAA
1 CATGCAATTAAC-ATGC-AAAA
* * * *
22701973 CATGCAAATAA-ATATCTAAT
1 CATGCAATTAACAT-GCAAAA
*
22701993 CATGCAATTAACAATGTAAAA
1 CATGCAATTAAC-ATGCAAAA
22702014 CATGCAATTAA
1 CATGCAATTAA
22702025 ATATATGATC
Statistics
Matches: 68, Mismatches: 17, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
19 3 0.04
20 26 0.38
21 35 0.51
22 4 0.06
ACGTcount: A:0.49, C:0.18, G:0.07, T:0.26
Consensus pattern (20 bp):
CATGCAATTAACATGCAAAA
Found at i:22701942 original size:41 final size:41
Alignment explanation
Indices: 22701888--22702332 Score: 457
Period size: 41 Copynumber: 11.0 Consensus size: 41
22701878 TCATGCAAAT
* * **
22701888 AAACATGCTATTAAATATATAATCATGCAATTAACAGTGCA
1 AAACATGCAATTAAATATATAATCATGCAATTAACAATATA
* * * *
22701929 AAACATGCCATTAAATATCTAATCATACAATTAACAATCTA
1 AAACATGCAATTAAATATATAATCATGCAATTAACAATATA
* * *
22701970 AAACATGCAAATAAATATCTAATCATGCAATTAACAATGTA
1 AAACATGCAATTAAATATATAATCATGCAATTAACAATATA
*
22702011 AAACATGCAATTAAATATATGATCATGCAATTAA-ATATATA
1 AAACATGCAATTAAATATATAATCATGCAATTAACA-ATATA
* *
22702052 AATCATGCAATTAACA-ATATAAATCATGCAAAT-A-AATATA
1 AAACATGCAATTAA-ATATAT-AATCATGCAATTAACAATATA
* * * * *
22702092 TTATCATGCAATTAACA-A-A-AA-AATGCAATTAATAATACA
1 -AAACATGCAATTAA-ATATATAATCATGCAATTAACAATATA
* * *
22702131 AAACATACAAATAAATATATTATCATGCAATTAACAATATA
1 AAACATGCAATTAAATATATAATCATGCAATTAACAATATA
* *
22702172 AAACATGCAAATAAATATATTATCATGCAATTAACAATATA
1 AAACATGCAATTAAATATATAATCATGCAATTAACAATATA
* * *
22702213 AAATATGCAATTAAATACATAACCATGCAATTAAC---A-A
1 AAACATGCAATTAAATATATAATCATGCAATTAACAATATA
* * *
22702250 AAACGTGCAATTAAATATATTATCATACAATTAACAATATA
1 AAACATGCAATTAAATATATAATCATGCAATTAACAATATA
* *
22702291 AAACATGCAAATAAATATATTATCATGCAATTAA-ATATATA
1 AAACATGCAATTAAATATATAATCATGCAATTAACA-ATATA
22702332 A
1 A
22702333 TAATACAAAT
Statistics
Matches: 345, Mismatches: 44, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
37 38 0.11
38 15 0.04
39 6 0.02
40 10 0.03
41 265 0.77
42 11 0.03
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.29
Consensus pattern (41 bp):
AAACATGCAATTAAATATATAATCATGCAATTAACAATATA
Found at i:22702023 original size:62 final size:62
Alignment explanation
Indices: 22701970--22702361 Score: 248
Period size: 61 Copynumber: 6.5 Consensus size: 62
22701960 TAACAATCTA
* *
22701970 AAACATGCAAATAAATATCT-AATCATGCAATTAACAATGTAAAACATGCAATTAAATATAT
1 AAACATGCAAATAAATATATAAATCATGCAATTAACAATATAAAACATGCAATTAAATATAT
* * * * *
22702031 GATCATGCAATTAAATATATAAATCATGCAATTAACAATATAAATCATGCAAATAAATATAT
1 AAACATGCAAATAAATATATAAATCATGCAATTAACAATATAAAACATGCAATTAAATATAT
* * * * * * *
22702093 TATCATGCAATTAACA-A-A-AAA--ATGCAATTAATAATACAAAACATACAAATAAATATAT
1 AAACATGCAAATAA-ATATATAAATCATGCAATTAACAATATAAAACATGCAATTAAATATAT
* * * * * * *
22702151 TATCATGCAATTAACA-ATATAAAACATGCAAAT-A-AATATATTATCATGCAATTAACA-ATAT
1 AAACATGCAAATAA-ATATATAAATCATGCAATTAACAATATA-AAACATGCAATTAA-ATATAT
* * * * *
22702212 AAAATATGCAATTAAATACAT-AACCATGCAATTAAC---A-AAAACGTGCAATTAAATATAT
1 -AAACATGCAAATAAATATATAAATCATGCAATTAACAATATAAAACATGCAATTAAATATAT
* * * * * * * *
22702270 TATCATACAATTAACA-ATATAAAACATGCAAAT-A-AATATATTATCATGCAATTAAATATAT
1 AAACATGCAAATAA-ATATATAAATCATGCAATTAACAATATA-AAACATGCAATTAAATATAT
*
22702331 AATA-ATACAAAT-AATAATATAAATCATGCAA
1 AA-ACATGCAAATAAAT-ATATAAATCATGCAA
22702362 ATAAACATTC
Statistics
Matches: 267, Mismatches: 41, Indels: 46
0.75 0.12 0.13
Matches are distributed among these distances:
57 15 0.06
58 76 0.28
59 4 0.01
60 14 0.05
61 82 0.31
62 75 0.28
63 1 0.00
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (62 bp):
AAACATGCAAATAAATATATAAATCATGCAATTAACAATATAAAACATGCAATTAAATATAT
Found at i:22702142 original size:58 final size:61
Alignment explanation
Indices: 22701993--22702361 Score: 307
Period size: 62 Copynumber: 6.1 Consensus size: 61
22701983 AATATCTAAT
* * *
22701993 CATGCAATTAACAATGTAAAACATGCAATTAAATATATGATCATGCAATTAA-ATATATAAA
1 CATGCAATTAACAATATAAAACATGCAAATAAATATATTATCATGCAATTAACA-ATATAAA
*
22702054 TCATGCAATTAACAATATAAATCATGCAAATAAATATATTATCATGCAATTAACAA-A-AAA
1 -CATGCAATTAACAATATAAAACATGCAAATAAATATATTATCATGCAATTAACAATATAAA
* * *
22702114 -ATGCAATTAATAATACAAAACATACAAATAAATATATTATCATGCAATTAACAATATAAAA
1 CATGCAATTAACAATATAAAACATGCAAATAAATATATTATCATGCAATTAACAATAT-AAA
* * * * ** * *
22702175 CATGCAAAT-A-AATATATTATCATGCAATTAACAATATAAAAT-ATGCAATTAA-ATACATAAC
1 CATGCAATTAACAATATA-AAACATGCAAAT-A-AATATATTATCATGCAATTAACA-ATATAAA
* * *
22702236 CATGCAATTAAC---A-AAAACGTGCAATTAAATATATTATCATACAATTAACAATATAAAA
1 CATGCAATTAACAATATAAAACATGCAAATAAATATATTATCATGCAATTAACAATAT-AAA
* * * * * * * * *
22702294 CATGCAAAT-A-AATATATTATCATGCAATTAAATATATAATAATACAAATAATAATATAAA
1 CATGCAATTAACAATATA-AAACATGCAAATAAATATATTATCATGCAATTAACAATATAAA
22702354 TCATGCAA
1 -CATGCAA
22702362 ATAAACATTC
Statistics
Matches: 252, Mismatches: 35, Indels: 41
0.77 0.11 0.12
Matches are distributed among these distances:
56 8 0.03
57 14 0.06
58 70 0.28
59 3 0.01
60 13 0.05
61 64 0.25
62 71 0.28
63 9 0.04
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (61 bp):
CATGCAATTAACAATATAAAACATGCAAATAAATATATTATCATGCAATTAACAATATAAA
Found at i:22702167 original size:27 final size:27
Alignment explanation
Indices: 22702080--22702173 Score: 82
Period size: 27 Copynumber: 3.3 Consensus size: 27
22702070 ATAAATCATG
22702080 CAAATAAATATATTATCATGCAATTAA
1 CAAATAAATATATTATCATGCAATTAA
* * * **
22702107 CAAAAAAATGCA-ATTAATAATACAAAACATA
1 CAAATAAAT--ATATT-ATCATGC-AATTA-A
22702138 CAAATAAATATATTATCATGCAATTAA
1 CAAATAAATATATTATCATGCAATTAA
22702165 CAATATAAA
1 CAA-ATAAA
22702174 ACATGCAAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 13
0.68 0.14 0.18
Matches are distributed among these distances:
27 12 0.24
28 11 0.22
29 12 0.24
30 6 0.12
31 9 0.18
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (27 bp):
CAAATAAATATATTATCATGCAATTAA
Found at i:22702434 original size:20 final size:20
Alignment explanation
Indices: 22702409--22702462 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
22702399 ATCACGCAAA
*
22702409 TAAATAAATTGATAACCATG
1 TAAATAAATTAATAACCATG
*
22702429 TAAATAAATTAATAATCATG
1 TAAATAAATTAATAACCATG
* * *
22702449 CAAACATATTAATA
1 TAAATAAATTAATA
22702463 GTTATGAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.31
Consensus pattern (20 bp):
TAAATAAATTAATAACCATG
Found at i:22702538 original size:32 final size:33
Alignment explanation
Indices: 22702490--22702553 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
22702480 ATAAATCACA
* *
22702490 CAAATATATTAATCATGTAAACAAAATATTAGG
1 CAAATAAATTAATCATGCAAACAAAATATTAGG
* *
22702523 CAAATAAATT-ATCATGCAAATATAATATTAG
1 CAAATAAATTAATCATGCAAACAAAATATTAG
22702554 TCATGCAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 18 0.67
33 9 0.33
ACGTcount: A:0.52, C:0.09, G:0.08, T:0.31
Consensus pattern (33 bp):
CAAATAAATTAATCATGCAAACAAAATATTAGG
Found at i:22702559 original size:20 final size:18
Alignment explanation
Indices: 22702526--22702563 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
22702516 TATTAGGCAA
22702526 ATAAATTATCATGCAAAT
1 ATAAATTATCATGCAAAT
22702544 ATAATATTAGTCATGCAAAT
1 ATAA-ATTA-TCATGCAAAT
22702564 TCATGCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (18 bp):
ATAAATTATCATGCAAAT
Found at i:22703535 original size:43 final size:43
Alignment explanation
Indices: 22703488--22703795 Score: 270
Period size: 42 Copynumber: 7.2 Consensus size: 43
22703478 TTTTTTTGGA
*
22703488 AAAATGCTCCCCCACAACTGAGGCTTTTAAACTTTTAAAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTAAAAAAT
* * * *
22703531 AAAATGTTCTCCAACAACTGAGGCTTTGAAACTTTT-GAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTAAAAAAT
* * * * *
22703573 AAAATACTCCACCACAATTGAGGCTTTGGAA-TTTT-GAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTAAAAAAT
* ** *
22703614 AAAATGGTCCCTTACAACTGAGGCATTGAAACTTTTGAAAAATAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTT----AA-AAAAT
* *
22703662 AAAATGCTCCCTCACAACTGAGGCATTGAAACTTTTAAAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTAAAAAAT
*** * * * *
22703705 AAAA--CTCTTTGCATAACTAAAGCTTTGAAACTTTTGAAAAAT
1 AAAATGCTC-CCCCACAACTGAGGCTTTGAAACTTTTAAAAAAT
* * **
22703747 AAAATGCT-CCTCACAACTGAGGCTTTGGAAC-TTGGAAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTAAAAAAT
22703788 AAAATGCT
1 AAAATGCT
22703796 TTACAACAAC
Statistics
Matches: 216, Mismatches: 39, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
41 53 0.25
42 79 0.37
43 41 0.19
44 4 0.02
48 39 0.18
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (43 bp):
AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTAAAAAAT
Found at i:22703635 original size:83 final size:86
Alignment explanation
Indices: 22703488--22703793 Score: 279
Period size: 83 Copynumber: 3.6 Consensus size: 86
22703478 TTTTTTTGGA
* * * *
22703488 AAAATGCTCCCCCACAACTGAGGCTTTTAAACTTTTAAAAAATAAAATGTTCTCCAACAACTGAG
1 AAAATACTCCACCACAACTGAGGCTTTGAAACTTTTAAAAAATAAAATGGTCTCCAACAACTGAG
*
22703553 GCTTTGAAACTTTTG-AAAAT
66 GCATTGAAACTTTTGAAAAAT
* * * *
22703573 AAAATACTCCACCACAATTGAGGCTTTGGAA-TTTT-GAAAATAAAATGGTC-CCTTACAACTGA
1 AAAATACTCCACCACAACTGAGGCTTTGAAACTTTTAAAAAATAAAATGGTCTCC-AACAACTGA
22703635 GGCATTGAAACTTTTGAAAAAT
65 GGCATTGAAACTTTTGAAAAAT
* * * * *
22703657 AAAATAAAATGCTCC-CTCACAACTGAGGCATTGAAACTTTTAAAAAATAAAACT-CTTTGC-AT
1 AAAAT---A--CTCCAC-CACAACTGAGGCTTTGAAACTTTTAAAAAATAAAA-TGGTCTCCAAC
* * *
22703719 AACTAAAGCTTTGAAACTTTTGAAAAAT
59 AACTGAGGCATTGAAACTTTTGAAAAAT
* * * **
22703747 AAAATGCTCC-TCACAACTGAGGCTTTGGAAC-TTGGAAAAATAAAATG
1 AAAATACTCCACCACAACTGAGGCTTTGAAACTTTTAAAAAATAAAATG
22703794 CTTTACAACA
Statistics
Matches: 182, Mismatches: 26, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
82 3 0.02
83 48 0.26
84 32 0.18
85 30 0.16
87 1 0.01
88 1 0.01
89 20 0.11
90 35 0.19
91 10 0.05
92 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (86 bp):
AAAATACTCCACCACAACTGAGGCTTTGAAACTTTTAAAAAATAAAATGGTCTCCAACAACTGAG
GCATTGAAACTTTTGAAAAAT
Found at i:22703661 original size:48 final size:48
Alignment explanation
Indices: 22703609--22703708 Score: 173
Period size: 48 Copynumber: 2.1 Consensus size: 48
22703599 TGGAATTTTG
* * *
22703609 AAAATAAAATGGTCCCTTACAACTGAGGCATTGAAACTTTTGAAAAAT
1 AAAATAAAATGCTCCCTCACAACTGAGGCATTGAAACTTTTAAAAAAT
22703657 AAAATAAAATGCTCCCTCACAACTGAGGCATTGAAACTTTTAAAAAAT
1 AAAATAAAATGCTCCCTCACAACTGAGGCATTGAAACTTTTAAAAAAT
22703705 AAAA
1 AAAA
22703709 CTCTTTGCAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (48 bp):
AAAATAAAATGCTCCCTCACAACTGAGGCATTGAAACTTTTAAAAAAT
Found at i:22704184 original size:22 final size:22
Alignment explanation
Indices: 22704159--22704209 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
22704149 AACATGTATG
*
22704159 ATGCATGGGATTAATATAATGA
1 ATGCATGGGATGAATATAATGA
* *
22704181 ATGCAAT-GTATGCATATAATGA
1 ATGC-ATGGGATGAATATAATGA
22704203 ATGCATG
1 ATGCATG
22704210 AGCCAATGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 2 0.08
22 20 0.83
23 2 0.08
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGCATGGGATGAATATAATGA
Found at i:22705748 original size:17 final size:18
Alignment explanation
Indices: 22705714--22705751 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
22705704 ATCAATTCTT
* *
22705714 TTTTTTCTTTTCTTCACA
1 TTTTTTCTATTCTGCACA
22705732 TTTTTTCTATT-TGCACA
1 TTTTTTCTATTCTGCACA
22705749 TTT
1 TTT
22705752 CATCTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTTTCTATTCTGCACA
Found at i:22712291 original size:41 final size:41
Alignment explanation
Indices: 22712247--22712639 Score: 404
Period size: 41 Copynumber: 9.6 Consensus size: 41
22712237 GCAAATAGAT
* * * **
22712247 ATGCAATTAAATATACAATCATCCAATTAACAATGTAAATT
1 ATGCAATTAAATATATAATCATGCAATTAACAATATAAAAC
* * **
22712288 ATGCCATTAAATATCTAATCATGCAATTAACAACGTAAAAC
1 ATGCAATTAAATATATAATCATGCAATTAACAATATAAAAC
* * *
22712329 ATGCAAATAAATATATGATCATGCAATTAA-ATATATAAACC
1 ATGCAATTAAATATATAATCATGCAATTAACA-ATATAAAAC
* * * *
22712370 ATGCAATTAAAAATATAAATCATGCAATTAACAGTGTAAATC
1 ATGCAATTAAATATAT-AATCATGCAATTAACAATATAAAAC
* * *
22712412 ATGCACTTAAATATATAATGATGCAATTAACAATATAAATC
1 ATGCAATTAAATATATAATCATGCAATTAACAATATAAAAC
* *
22712453 ATGCAAATAAATATATTATCATGCAATTAACAATATAAAAC
1 ATGCAATTAAATATATAATCATGCAATTAACAATATAAAAC
* *
22712494 ATGCAAATAAATATATTATCATGCAATTAAC-A-A-AAAAC
1 ATGCAATTAAATATATAATCATGCAATTAACAATATAAAAC
* * **
22712532 ATGCAATTAAATATATTATCATACAATTAACAATATTTAAC
1 ATGCAATTAAATATATAATCATGCAATTAACAATATAAAAC
* * *
22712573 ATGCAAATAAATATATTATCATGTAATTAA-ATATATAAAA-
1 ATGCAATTAAATATATAATCATGCAATTAACA-ATATAAAAC
* *
22712613 ATACAAATAAGA-ATATAAATCATGCAA
1 ATGCAATTAA-ATATAT-AATCATGCAA
22712640 ATAAACATGC
Statistics
Matches: 301, Mismatches: 42, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
38 34 0.11
39 2 0.01
40 17 0.06
41 214 0.71
42 33 0.11
43 1 0.00
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.30
Consensus pattern (41 bp):
ATGCAATTAAATATATAATCATGCAATTAACAATATAAAAC
Found at i:22712402 original size:124 final size:123
Alignment explanation
Indices: 22712255--22712639 Score: 485
Period size: 124 Copynumber: 3.1 Consensus size: 123
22712245 ATATGCAATT
* * *
22712255 AAATATACAATCATCCAATTAACAATGTAAATTATGCCATTAAATATCTAATCATGCAATTAACA
1 AAATATA-AATCATGCAATTAACAATGTAAATCATGCCATTAAATATATAATCATGCAATTAACA
** * *
22712320 ACGTAAAACATGCAAATAAATATATGATCATGCAATTAAATATATAAACCATGCAATTAA
65 ATATAAAACATGCAAATAAATATATTATCATGCAATTAAATATATAAA-CATGCAAATAA
* *
22712380 AAATATAAATCATGCAATTAACAGTGTAAATCATG-CACTTAAATATATAATGATGCAATTAACA
1 AAATATAAATCATGCAATTAACAATGTAAATCATGCCA-TTAAATATATAATCATGCAATTAACA
*
22712444 ATATAAATCATGCAAATAAATATATTATCATGCAATTAACA-ATATAAAACATGCAAATAA
65 ATATAAAACATGCAAATAAATATATTATCATGCAATTAA-ATATAT-AAACATGCAAATAA
* * * * * *
22712504 ATATAT-TATCATGCAATTAACAA---AAAACATGCAATTAAATATATTATCATACAATTAACAA
1 AAATATAAATCATGCAATTAACAATGTAAATCATGCCATTAAATATATAATCATGCAATTAACAA
** * * *
22712565 TATTTAACATGCAAATAAATATATTATCATGTAATTAAATATATAAAAATACAAATAA
66 TATAAAACATGCAAATAAATATATTATCATGCAATTAAATATATAAACATGCAAATAA
*
22712623 GAATATAAATCATGCAA
1 AAATATAAATCATGCAA
22712640 ATAAACATGC
Statistics
Matches: 227, Mismatches: 27, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
119 17 0.07
120 78 0.34
121 1 0.00
123 17 0.07
124 103 0.45
125 11 0.05
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (123 bp):
AAATATAAATCATGCAATTAACAATGTAAATCATGCCATTAAATATATAATCATGCAATTAACAA
TATAAAACATGCAAATAAATATATTATCATGCAATTAAATATATAAACATGCAAATAA
Found at i:22712466 original size:165 final size:161
Alignment explanation
Indices: 22712247--22712563 Score: 438
Period size: 165 Copynumber: 1.9 Consensus size: 161
22712237 GCAAATAGAT
* * * * *
22712247 ATGCAATTAAATATACAATCATCCAATTAACAATGTAAATTATGCCATTAAATATCTAATCATGC
1 ATGCAATTAAATATACAATCATCCAATTAACAATATAAATCATGCAAATAAATATATAATCATGC
*
22712312 AATTAACAACGTAAAACATGCAAATAAATATATGATCATGCAATTAA-ATATATAAACCATGCAA
66 AATTAACAACATAAAACATGCAAATAAATATATGATCATGCAATTAACA-A-A-AAA-CATGCAA
*
22712376 TTAAAAATATAAATCATGCAATTAACAGTGTAAATC
127 TTAAAAATAT-AATCATACAATTAACAGTGTAAATC
* * * * *
22712412 ATGCACTTAAATATATAATGATGCAATTAACAATATAAATCATGCAAATAAATATATTATCATGC
1 ATGCAATTAAATATACAATCATCCAATTAACAATATAAATCATGCAAATAAATATATAATCATGC
* *
22712477 AATTAACAATATAAAACATGCAAATAAATATATTATCATGCAATTAACAAAAAACATGCAATTAA
66 AATTAACAACATAAAACATGCAAATAAATATATGATCATGCAATTAACAAAAAACATGCAATTAA
* *
22712542 ATATATTATCATACAATTAACA
131 AAATATAATCATACAATTAACA
22712564 ATATTTAACA
Statistics
Matches: 135, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
161 14 0.10
162 16 0.12
163 3 0.02
164 1 0.01
165 100 0.74
166 1 0.01
ACGTcount: A:0.50, C:0.14, G:0.06, T:0.30
Consensus pattern (161 bp):
ATGCAATTAAATATACAATCATCCAATTAACAATATAAATCATGCAAATAAATATATAATCATGC
AATTAACAACATAAAACATGCAAATAAATATATGATCATGCAATTAACAAAAAACATGCAATTAA
AAATATAATCATACAATTAACAGTGTAAATC
Found at i:22712673 original size:120 final size:120
Alignment explanation
Indices: 22712303--22712691 Score: 324
Period size: 120 Copynumber: 3.2 Consensus size: 120
22712293 ATTAAATATC
** * *
22712303 TAATCATGCAATTAACAACGTAAAACATGCAAATAAATATATGATCATGCAATTAA-ATATATAA
1 TAATCATGCAATTAACAATATAAATCATGCAAATAAATATATTATCATGCAATTAACA-ATATAA
* * * * * *
22712367 ACCATGCAATTAAAAATATAAATCATGCAATTAACAGTGTAAATCATGCACTT-AA-AT-AT-A
65 AACATACAAATAAATATAT-AATCATGCAA-CAA-A----AAA-CATGCAATTAAATATAATAA
*
22712427 TAATGATGCAATTAACAATATAAATCATGCAAATAAATATATTATCATGCAATTAACAATATAAA
1 TAATCATGCAATTAACAATATAAATCATGCAAATAAATATATTATCATGCAATTAACAATATAAA
* *
22712492 ACATGCAAATAAATATATTATCATGCAATTAACAAAAAACATGCAATTAAATAT-AT--
66 ACATACAAATAAATATATAATCATGC----AACAAAAAACATGCAATTAAATATAATAA
* * *
22712548 T-ATCATACAATTAACAATATTTAA-CATGCAAATAAATATATTATCATGTAATTAA-ATATATA
1 TAATCATGCAATTAACAATA-TAAATCATGCAAATAAATATATTATCATGCAATTAACA-ATATA
*
22712610 AAA-ATACAAATAAGA-ATATAAATCATGC-A-AATAAACATGCAATTAAATATATAATAA
64 AAACATACAAATAA-ATATAT-AATCATGCAACAAAAAACATGCAATT-AA-ATATAATAA
*
22712667 TAATCATGCAATCACACAA-ATAAAT
1 TAATCATGCAATTA-ACAATATAAAT
22712692 AAATTGATAA
Statistics
Matches: 225, Mismatches: 21, Indels: 42
0.78 0.07 0.15
Matches are distributed among these distances:
114 14 0.06
115 3 0.01
116 4 0.02
117 2 0.01
119 18 0.08
120 81 0.36
121 13 0.06
122 4 0.02
123 7 0.03
124 73 0.32
125 2 0.01
126 2 0.01
127 2 0.01
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (120 bp):
TAATCATGCAATTAACAATATAAATCATGCAAATAAATATATTATCATGCAATTAACAATATAAA
ACATACAAATAAATATATAATCATGCAACAAAAAACATGCAATTAAATATAATAA
Found at i:22712713 original size:20 final size:20
Alignment explanation
Indices: 22712688--22712780 Score: 87
Period size: 20 Copynumber: 4.6 Consensus size: 20
22712678 TCACACAAAT
*
22712688 AAATAAATTGATAATCATGC
1 AAATAAATTAATAATCATGC
*
22712708 AAATAAATTAATAATTATGC
1 AAATAAATTAATAATCATGC
* * * *
22712728 AAACATATTAATAGTCATGT
1 AAATAAATTAATAATCATGC
* * *
22712748 AGATATATTAATAAATCATAC
1 AAATAAATTAAT-AATCATGC
*
22712769 AAATATATTAAT
1 AAATAAATTAAT
22712781 CATGTAAATA
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
20 43 0.73
21 16 0.27
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.34
Consensus pattern (20 bp):
AAATAAATTAATAATCATGC
Found at i:22712746 original size:40 final size:41
Alignment explanation
Indices: 22712702--22712780 Score: 97
Period size: 41 Copynumber: 2.0 Consensus size: 41
22712692 AAATTGATAA
* *
22712702 TCATGCAAATAAATTAAT-AATTATGCAAACATATTAATAG
1 TCATGCAAATAAATTAATAAATCATACAAACATATTAATAG
* * * *
22712742 TCATGTAGATATATTAATAAATCATACAAATATATTAAT
1 TCATGCAAATAAATTAATAAATCATACAAACATATTAAT
22712781 CATGTAAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
40 15 0.47
41 17 0.53
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.35
Consensus pattern (41 bp):
TCATGCAAATAAATTAATAAATCATACAAACATATTAATAG
Found at i:22712819 original size:16 final size:16
Alignment explanation
Indices: 22712762--22712822 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
22712752 ATATTAATAA
* *
22712762 ATCATACAAATATATT
1 ATCATGCAAATAAATT
* *
22712778 AATCATGTAAATAAAAT
1 -ATCATGCAAATAAATT
*
22712795 A-CAAGGCAAATAAATT
1 ATC-ATGCAAATAAATT
22712811 ATCATGCAAATA
1 ATCATGCAAATA
22712823 TAATAGAAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
15 1 0.03
16 20 0.59
17 13 0.38
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.28
Consensus pattern (16 bp):
ATCATGCAAATAAATT
Found at i:22713492 original size:20 final size:21
Alignment explanation
Indices: 22713467--22713513 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
22713457 GACTCTTTTG
22713467 ACTAAAAAAATAAAAAT-TAA
1 ACTAAAAAAATAAAAATATAA
*
22713487 ACTAAAAAAATATAAATATAA
1 ACTAAAAAAATAAAAATATAA
22713508 A-TAAAA
1 ACTAAAA
22713514 TTTATGGCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.21
Consensus pattern (21 bp):
ACTAAAAAAATAAAAATATAA
Found at i:22714375 original size:30 final size:29
Alignment explanation
Indices: 22714329--22714435 Score: 81
Period size: 30 Copynumber: 3.5 Consensus size: 29
22714319 TCTTTAGAGG
* *
22714329 AGTTTTGGTAGAATTAGGACTCTTTTGGAA
1 AGTTTTGGTTGGATTAGGA-TCTTTTGGAA
** *
22714359 AGTTTTGGTTGGATTA-GATTCTTAAGGTAG
1 AGTTTTGGTTGGATTAGGA-TCTTTTGG-AA
* **
22714389 AGTTTTGGTTGGATTAAGGATTTTTTTAATA
1 AGTTTTGGTTGGATT-AGGATCTTTTGGA-A
22714420 GAGTTTTGGTTGGATT
1 -AGTTTTGGTTGGATT
22714436 GTCTAGGCTA
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
29 8 0.13
30 31 0.52
31 4 0.07
32 17 0.28
ACGTcount: A:0.23, C:0.03, G:0.28, T:0.46
Consensus pattern (29 bp):
AGTTTTGGTTGGATTAGGATCTTTTGGAA
Found at i:22715177 original size:23 final size:24
Alignment explanation
Indices: 22715129--22715174 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
22715119 TTTTGTAAGG
22715129 ATTTTTATTTGAAAAAGATTTTTT
1 ATTTTTATTTGAAAAAGATTTTTT
*
22715153 ATTTTTA-TTG-AAAGGATTTTTT
1 ATTTTTATTTGAAAAAGATTTTTT
22715175 TATATATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.52
23 3 0.14
24 7 0.33
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (24 bp):
ATTTTTATTTGAAAAAGATTTTTT
Found at i:22715353 original size:10 final size:8
Alignment explanation
Indices: 22715338--22715416 Score: 54
Period size: 8 Copynumber: 9.2 Consensus size: 8
22715328 AAAGACTAGT
22715338 AAAATAAA
1 AAAATAAA
22715346 ACAGAATAAA
1 A-A-AATAAA
22715356 AAAATAAA
1 AAAATAAA
22715364 AAAA-AACA
1 AAAATAA-A
* *
22715372 AAATTTAA
1 AAAATAAA
*
22715380 AATATGAAA
1 AAAAT-AAA
22715389 ATAAATAAA
1 A-AAATAAA
22715398 AAGCAA-AAA
1 AA--AATAAA
22715407 AAAATAAA
1 AAAATAAA
22715415 AA
1 AA
22715417 TGGAAAAAGG
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
7 4 0.07
8 25 0.45
9 15 0.27
10 12 0.21
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.14
Consensus pattern (8 bp):
AAAATAAA
Found at i:22715415 original size:34 final size:33
Alignment explanation
Indices: 22715353--22715424 Score: 78
Period size: 34 Copynumber: 2.2 Consensus size: 33
22715343 AAAACAGAAT
*
22715353 AAAAAAATAAAAAAAAACAAAATTTAAAATAT-G
1 AAAAAAATAAAAAAAAACAAAATATAAAA-ATGG
22715386 AAAATAAATAAAAAGCAAAA-AAAA-ATAAAAATGG
1 AAAA-AAATAAAAA--AAAACAAAATATAAAAATGG
22715420 AAAAA
1 AAAAA
22715425 GGGAACCTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
33 7 0.21
34 19 0.56
35 4 0.12
36 4 0.12
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.14
Consensus pattern (33 bp):
AAAAAAATAAAAAAAAACAAAATATAAAAATGG
Found at i:22715912 original size:20 final size:20
Alignment explanation
Indices: 22715874--22715912 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22715864 AACTTTCCAA
*
22715874 AAACCTAAACTTAATCCCAG
1 AAACCTAAACTTAAGCCCAG
22715894 AAACCTAAA-TCTAAGCCCA
1 AAACCTAAACT-TAAGCCCA
22715913 AAATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.46, C:0.31, G:0.05, T:0.18
Consensus pattern (20 bp):
AAACCTAAACTTAAGCCCAG
Found at i:22716303 original size:9 final size:9
Alignment explanation
Indices: 22716272--22716305 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
22716262 AATTCTCACC
22716272 AAAATAAAA
1 AAAATAAAA
22716281 AAAA-AAAA
1 AAAATAAAA
22716289 AGAAATAAAA
1 A-AAATAAAA
22716299 AAAATAA
1 AAAATAA
22716306 TAACAACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 5 0.22
9 13 0.57
10 5 0.22
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (9 bp):
AAAATAAAA
Found at i:22716334 original size:3 final size:3
Alignment explanation
Indices: 22716328--22716361 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
22716318 CAACAACAAC
* *
22716328 AAT AAT AAT AAT AAT AAT AAC AAT AAT GAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
22716362 TTATACTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:22717124 original size:239 final size:237
Alignment explanation
Indices: 22716764--22717369 Score: 663
Period size: 239 Copynumber: 2.5 Consensus size: 237
22716754 TCATGAGTAA
* * * * *
22716764 AAAATGAAGTGACCAGGA-CCAAGTCGAGGTAAAAAATAAATGACCGAA-ATAAAACCACAAGTC
1 AAAATGAAGTGACTAGGATCGAA-TCGAGGTAAAAAATAAATGA-CTAAGATGAAACCACGAGTC
* * * *
22716827 ATAAGAAATGATTTGAACTGAGCCAAGATTAGGTGATCGAGACGAAATCACGAGTAAAAAATGAA
64 ATAAGAAATGATCTGAACTGAGCCAAGATCAGGTGATCGAGATGAAACCACGAGTAAAAAATGAA
* ** ** *
22716892 GTGACTAGGATTGAGTTGAGGTCGAAAATAAATGACCAGGG-TGAAACCATAAATCATAAGAAAT
129 GTGACTAGGA-CGAGTCAAGGT-GAAAATAAATGA-CAGGGACAAAACCACAAATCATAAGAAAT
* *
22716956 GATATAGACT-GAGCCAAGATCAGGTGACTGGG-CTGAAATCACAAGTT
191 GATATAGACTAG-GCCAAGATCAGGTGACTGGGAC-AAAACCACAAGTT
*
22717003 AAAATGAAGTGACTAGGATCGAATCGAGGTAAAAAATAAATGACTAAGATGAAACCATGAGTCAT
1 AAAATGAAGTGACTAGGATCGAATCGAGGTAAAAAATAAATGACTAAGATGAAACCACGAGTCAT
* * * **
22717068 AAGAAATAATCTGGACTAAGCCAAGATCAGGTGAAT-GAGATGAAACCATAAGTAAAAAATGAAG
66 AAGAAATGATCTGAACTGAGCCAAGATCAGGTG-ATCGAGATGAAACCACGAGTAAAAAATGAAG
* * * * * * * *
22717132 CGACTAGGACGAGTCAATGTTAAAATAAATGACTGGGACAAAATCACGAGTCATAAGAAATGATC
130 TGACTAGGACGAGTCAAGGTGAAAATAAATGACAGGGACAAAACCACAAATCATAAGAAATGATA
* ** *
22717197 TGGACTAGGCCAAGATTTGGTGACTGGGACAAAACCACGAGTT
195 TAGACTAGGCCAAGATCAGGTGACTGGGACAAAACCACAAGTT
** * * * * *
22717240 AAAATGAAACGA-TCAAGATTGAGTCGAGGTAAAAAATAAA-GA-TCGAGACGAAACCACGAGTC
1 AAAATGAAGTGACT-AGGATCGAATCGAGGTAAAAAATAAATGACT-AAGATGAAACCACGAGTC
*
22717302 ATAAGAAATGATCTGAACTGAGCCAAGATCAGGTGATCGGGATGAAACCACGAGTCAAAAAATGA
64 ATAAGAAATGATCTGAACTGAGCCAAGATCAGGTGATCGAGATGAAACCACGAGT-AAAAAATGA
22717367 AGT
128 AGT
22717370 TCATGATTTC
Statistics
Matches: 307, Mismatches: 50, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
235 3 0.01
236 68 0.22
237 108 0.35
238 12 0.04
239 111 0.36
240 5 0.02
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.18
Consensus pattern (237 bp):
AAAATGAAGTGACTAGGATCGAATCGAGGTAAAAAATAAATGACTAAGATGAAACCACGAGTCAT
AAGAAATGATCTGAACTGAGCCAAGATCAGGTGATCGAGATGAAACCACGAGTAAAAAATGAAGT
GACTAGGACGAGTCAAGGTGAAAATAAATGACAGGGACAAAACCACAAATCATAAGAAATGATAT
AGACTAGGCCAAGATCAGGTGACTGGGACAAAACCACAAGTT
Found at i:22717192 original size:118 final size:120
Alignment explanation
Indices: 22716676--22717369 Score: 602
Period size: 120 Copynumber: 5.8 Consensus size: 120
22716666 GTCAAGATTG
* * * * * *
22716676 AAAATAAATGACTGAGATGAAAA-CATGAGTTATAAGAAATAATTTGGATTGAGCCAAGATCTGG
1 AAAATAAATGACTGAGAT-AAAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAGG
*** * * * * *
22716740 TGACCAAGATGAAATCATGAGTAAAAAATGAAGTGACCAGGACCAAGTCGAGGTAA
65 TGAATGAGATGAAACCACGAGTAAAAAATGAAGTGACTAGGATCGAGTCGAGGTAA
* * * * * *
22716796 AAAATAAATGACCGAAATAAAACCACAAGTCATAAGAAATGATTTGAACTGAGCCAAGATTAGGT
1 AAAATAAATGACTGAGATAAAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAGGT
* * * * **
22716861 G-ATCGAGACGAAATCACGAGTAAAAAATGAAGTGACTAGGATTGAGTTGAGGTCG
66 GAAT-GAGATGAAACCACGAGTAAAAAATGAAGTGACTAGGATCGAGTCGAGGTAA
* * * ** * * *
22716916 AAAATAAATGAC-CAGGGTGAAACCATAAATCATAAGAAATGATATAGACTGAGCCAAGATCAGG
1 AAAATAAATGACTGA-GATAAAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAGG
* * * * * * *
22716980 TGACTGGGCTGAAATCACAAGT-TAAAATGAAGTGACTAGGATCGAATCGAGGTAA
65 TGAATGAGATGAAACCACGAGTAAAAAATGAAGTGACTAGGATCGAGTCGAGGTAA
* * * * *
22717035 AAAATAAATGACTAAGATGAAACCATGAGTCATAAGAAATAATCTGGACTAAGCCAAGATCAGGT
1 AAAATAAATGACTGAGATAAAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAGGT
** * * * *
22717100 GAATGAGATGAAACCATAAGTAAAAAATGAAGCGACTAGGA-CGAGTCAATGT-T
66 GAATGAGATGAAACCACGAGTAAAAAATGAAGTGACTAGGATCGAGTCGAGGTAA
* * * **
22717153 AAAATAAATGACTGGGACAAAATCACGAGTCATAAGAAATGATCTGGACT-AGGCCAAGATTTGG
1 AAAATAAATGACTGAGATAAAACCACGAGTCATAAGAAATGATCTGGACTGA-GCCAAGATCAGG
* * ** * ** * *
22717217 TGACTGGGACAAAACCACGAGT-TAAAATGAAACGA-TCAAGATTGAGTCGAGGTAA
65 TGAATGAGATGAAACCACGAGTAAAAAATGAAGTGACT-AGGATCGAGTCGAGGTAA
** *
22717272 AAAATAAA-GA-TCGAGACGAAACCACGAGTCATAAGAAATGATCTGAACTGAGCCAAGATCAGG
1 AAAATAAATGACT-GAGATAAAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAGG
*
22717335 TG-ATCGGGATGAAACCACGAGTCAAAAAATGAAGT
65 TGAAT-GAGATGAAACCACGAGT-AAAAAATGAAGT
22717370 TCATGATTTC
Statistics
Matches: 463, Mismatches: 96, Indels: 30
0.79 0.16 0.05
Matches are distributed among these distances:
116 1 0.00
117 17 0.04
118 139 0.30
119 120 0.26
120 185 0.40
121 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.19
Consensus pattern (120 bp):
AAAATAAATGACTGAGATAAAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAGGT
GAATGAGATGAAACCACGAGTAAAAAATGAAGTGACTAGGATCGAGTCGAGGTAA
Found at i:22717271 original size:237 final size:239
Alignment explanation
Indices: 22716785--22717368 Score: 657
Period size: 237 Copynumber: 2.5 Consensus size: 239
22716775 ACCAGGACCA
* * * *
22716785 AGTCGAGGTAAAAAATAAATGACCGAA-ATAAAACCACAAGTCATAAGAAATGATTTGAACTGAG
1 AGTCGAGGTAAAAAATAAATGA-CTAAGATGAAACCACGAGTCATAAGAAATGATCTGAACTGAG
* * * * * **
22716849 CCAAGATTAGGTGATCGAGACGAAATCACGAGTAAAAAATGAAGTGACTAGGATTGAGTTGAGGT
65 CCAAGATCAGGTGATCGAGATGAAACCACGAGTAAAAAATGAAGCGACTAGGATCGAGTCAAGGT
** *
22716914 CGAAAATAAATGACCAGGGTGAAACCATAAATCATAAGAAATGATATAGACTGAGCCAAGATCAG
130 CGAAAATAAATGACCAGGGCAAAACCACAAATCATAAGAAATGATATAGACTGAGCCAAGATCAG
* * ** *
22716979 GTGACTGGGCTGAAATCACAAGTTAAAATGAAGTGACTAGGATCG
195 GTGACTGGGCTAAAACCACAAGTTAAAATGAAACGACTAAGATCG
* * * * *
22717024 AATCGAGGTAAAAAATAAATGACTAAGATGAAACCATGAGTCATAAGAAATAATCTGGACTAAGC
1 AGTCGAGGTAAAAAATAAATGACTAAGATGAAACCACGAGTCATAAGAAATGATCTGAACTGAGC
** *
22717089 CAAGATCAGGTGAAT-GAGATGAAACCATAAGTAAAAAATGAAGCGACTAGGA-CGAGTCAATGT
66 CAAGATCAGGTG-ATCGAGATGAAACCACGAGTAAAAAATGAAGCGACTAGGATCGAGTCAAGGT
* * * * * * * *
22717152 -TAAAATAAATGA-CTGGGACAAAATCACGAGTCATAAGAAATGATCTGGACT-AGGCCAAGATT
130 CGAAAATAAATGACCAGGG-CAAAACCACAAATCATAAGAAATGATATAGACTGA-GCCAAGATC
* * *
22717214 TGGTGACTGGGAC-AAAACCACGAGTTAAAATGAAACGA-TCAAGATTG
193 AGGTGACTGGG-CTAAAACCACAAGTTAAAATGAAACGACT-AAGATCG
* *
22717261 AGTCGAGGTAAAAAATAAA-GA-TCGAGACGAAACCACGAGTCATAAGAAATGATCTGAACTGAG
1 AGTCGAGGTAAAAAATAAATGACT-AAGATGAAACCACGAGTCATAAGAAATGATCTGAACTGAG
*
22717324 CCAAGATCAGGTGATCGGGATGAAACCACGAGTCAAAAAATGAAG
65 CCAAGATCAGGTGATCGAGATGAAACCACGAGT-AAAAAATGAAG
22717369 TTCATGATTT
Statistics
Matches: 288, Mismatches: 48, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
235 3 0.01
236 69 0.24
237 108 0.38
238 11 0.04
239 95 0.33
240 2 0.01
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.19
Consensus pattern (239 bp):
AGTCGAGGTAAAAAATAAATGACTAAGATGAAACCACGAGTCATAAGAAATGATCTGAACTGAGC
CAAGATCAGGTGATCGAGATGAAACCACGAGTAAAAAATGAAGCGACTAGGATCGAGTCAAGGTC
GAAAATAAATGACCAGGGCAAAACCACAAATCATAAGAAATGATATAGACTGAGCCAAGATCAGG
TGACTGGGCTAAAACCACAAGTTAAAATGAAACGACTAAGATCG
Found at i:22717550 original size:17 final size:17
Alignment explanation
Indices: 22717495--22717551 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
22717485 ACAAGAATGA
22717495 AAGATTCGT-AAGATCTC
1 AAGATTCGTAAAGAT-TC
* *
22717512 AAGTTTCGTAAAGATTT
1 AAGATTCGTAAAGATTC
* *
22717529 TAGATTCGTAAAGATGC
1 AAGATTCGTAAAGATTC
22717546 AAGATT
1 AAGATT
22717552 TGCAAGGATT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
17 27 0.84
18 5 0.16
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (17 bp):
AAGATTCGTAAAGATTC
Found at i:22717697 original size:69 final size:68
Alignment explanation
Indices: 22717533--22717740 Score: 213
Period size: 69 Copynumber: 3.0 Consensus size: 68
22717523 AGATTTTAGA
* * * ** *
22717533 TTCGTAAAGATGCAAGATTTGCAAGGATTTTCAAATTTGCAAGAAAGAGAGATTCACAAGA-TTC
1 TTCGCAAAGGTGCAAGGTTTGCAAGGATTTTC-AATTCACAAGAAAGAAAGATTCACAAGATTTC
22717597 TAAGT
65 -AAGT
* ** * *
22717602 TTCGCAAAGGTGCAAAGTTTATAAGGATTTTTAGATTCACAAGAAAGAAAGATTCGCAAGATTTC
1 TTCGCAAAGGTGCAAGGTTTGCAAGGATTTTCA-ATTCACAAGAAAGAAAGATTCACAAGATTTC
22717667 AAGT
65 AAGT
* * * * * * *
22717671 TTTGCAAATGTGCAAGGTTCGCAAGGATTTTCAAATCCCAAGAAA-AAATATTCATAAGATTTCA
1 TTCGCAAAGGTGCAAGGTTTGCAAGGATTTTCAATTCACAAGAAAGAAAGATTCACAAGATTTCA
22717735 AGT
66 AGT
22717738 TTC
1 TTC
22717741 ATAAAGGTTC
Statistics
Matches: 113, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
67 21 0.19
68 11 0.10
69 78 0.69
70 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (68 bp):
TTCGCAAAGGTGCAAGGTTTGCAAGGATTTTCAATTCACAAGAAAGAAAGATTCACAAGATTTCA
AGT
Found at i:22722690 original size:17 final size:17
Alignment explanation
Indices: 22722668--22722722 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
22722658 AATTCATGAA
*
22722668 TTTATTTTGTAAGGATT
1 TTTATTTTGAAAGGATT
22722685 TTTA-TTTGAAAAGGATT
1 TTTATTTTG-AAAGGATT
*
22722702 TTTTTTATTGAAAGGATT
1 TTTATT-TTGAAAGGATT
22722720 TTT
1 TTT
22722723 CTATACATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
16 4 0.12
17 14 0.42
18 12 0.36
19 3 0.09
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.56
Consensus pattern (17 bp):
TTTATTTTGAAAGGATT
Found at i:22722715 original size:18 final size:20
Alignment explanation
Indices: 22722683--22722722 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
22722673 TTTGTAAGGA
22722683 TTTTTATTTGAAAAGGATTT
1 TTTTTATTTGAAAAGGATTT
22722703 TTTTTA-TTG-AAAGGATTT
1 TTTTTATTTGAAAAGGATTT
22722721 TT
1 TT
22722723 CTATACATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 11 0.55
19 3 0.15
20 6 0.30
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (20 bp):
TTTTTATTTGAAAAGGATTT
Found at i:22722930 original size:25 final size:25
Alignment explanation
Indices: 22722902--22722959 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
22722892 AAAAACCAGC
* *
22722902 AAAATAAAACAAAATAAAAAATTTT
1 AAAATAAAACAAAATAAAAAATATG
**
22722927 AAAATAAAACAAAATTTAAAATATG
1 AAAATAAAACAAAATAAAAAATATG
22722952 AAAATAAA
1 AAAATAAA
22722960 TAATAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.22
Consensus pattern (25 bp):
AAAATAAAACAAAATAAAAAATATG
Found at i:22722946 original size:17 final size:16
Alignment explanation
Indices: 22722912--22722949 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
22722902 AAAATAAAAC
*
22722912 AAAAT-AAAAAATTTT
1 AAAATAAAAAAAATTT
22722927 AAAATAAAACAAAATTT
1 AAAATAAAA-AAAATTT
22722944 AAAATA
1 AAAATA
22722950 TGAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 3 0.15
17 12 0.60
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATAAAAAAAATTT
Found at i:22722972 original size:8 final size:8
Alignment explanation
Indices: 22722943--22722984 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
22722933 AAACAAAATT
22722943 TAAAAT-A
1 TAAAATAA
22722950 TGAAAATAA
1 T-AAAATAA
*
22722959 -ATAATAA
1 TAAAATAA
22722966 TAAAATAA
1 TAAAATAA
22722974 TAAAATAA
1 TAAAATAA
22722982 TAA
1 TAA
22722985 TGGAAAAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
7 7 0.23
8 22 0.73
9 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (8 bp):
TAAAATAA
Found at i:22722978 original size:23 final size:22
Alignment explanation
Indices: 22722943--22722985 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
22722933 AAACAAAATT
22722943 TAAAATATGAAAATAAATAATAA
1 TAAAATATGAAAAT-AATAATAA
22722966 TAAAATAAT-AAAATAATAAT
1 TAAAAT-ATGAAAATAATAAT
22722986 GGAAAAGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 11 0.58
24 2 0.11
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (22 bp):
TAAAATATGAAAATAATAATAA
Found at i:22723879 original size:3 final size:3
Alignment explanation
Indices: 22723873--22723904 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
22723863 AAAAGAAGGA
22723873 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22723905 CAACAACAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22723909 original size:3 final size:3
Alignment explanation
Indices: 22723903--22723964 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
22723893 TAATAATAAT
*
22723903 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAT AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
22723951 AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AA
22723965 TACTATACCA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.68, C:0.31, G:0.00, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:22726441 original size:2 final size:2
Alignment explanation
Indices: 22726434--22726458 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22726424 CAAGTCTTTA
22726434 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
22726459 AAATAAAGAC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22726827 original size:12 final size:12
Alignment explanation
Indices: 22726812--22726838 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22726802 AGAAATCAAG
22726812 AATAAAATTATT
1 AATAAAATTATT
22726824 AATAAAATTATT
1 AATAAAATTATT
22726836 AAT
1 AAT
22726839 TTAAGTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AATAAAATTATT
Found at i:22727051 original size:2 final size:2
Alignment explanation
Indices: 22727044--22727069 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22727034 TGGAAAAATA
22727044 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
22727070 GCAGCATTTG
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:22727726 original size:3 final size:3
Alignment explanation
Indices: 22727720--22727761 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
22727710 TAATTTTTTT
22727720 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22727762 CATGTTTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22728857 original size:5 final size:5
Alignment explanation
Indices: 22728835--22728860 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22728825 AAACATATAA
22728835 ATTAT ATTAT ATTAT ATTAT ATTAT A
1 ATTAT ATTAT ATTAT ATTAT ATTAT A
22728861 GAAATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:22728925 original size:19 final size:19
Alignment explanation
Indices: 22728885--22728927 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
22728875 TAATAAAGAA
*
22728885 AAAATTTTAAAAGATAATT
1 AAAATTTTAAAAGATAAAT
*
22728904 AAAATTTGTAAAATA-AAAT
1 AAAATTT-TAAAAGATAAAT
22728923 AAAAT
1 AAAAT
22728928 AAAATAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
AAAATTTTAAAAGATAAAT
Found at i:22732517 original size:6 final size:6
Alignment explanation
Indices: 22732416--22732543 Score: 60
Period size: 6 Copynumber: 21.2 Consensus size: 6
22732406 AAAAACCTAC
* * * * * * * *
22732416 AATTTT AATATC AATATT AATATT AATATT AATTTT -ACTTT GATTTA
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
* * * * * * * *
22732463 AATTTA AATTTA AAATTT GATTTT CAGTTT GATTTT GGATTTT AGATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT -AATTTT A-ATTTT
* * *
22732513 AATTTT TATTGT AATTTT ATTTTT AATTTT A
1 AATTTT AATTTT AATTTT AATTTT AATTTT A
22732544 GTCAACAGTC
Statistics
Matches: 96, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
5 4 0.04
6 80 0.83
7 12 0.12
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (6 bp):
AATTTT
Found at i:22733528 original size:25 final size:25
Alignment explanation
Indices: 22733498--22733545 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
22733488 TTGATAATTT
*
22733498 ATTTTATTT-TATTTATTTGATTTAA
1 ATTTTATTTAT-TTTAATTGATTTAA
22733523 ATTTTATTTATTTTAATTGATTT
1 ATTTTATTTATTTTAATTGATTT
22733546 TTTTTAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (25 bp):
ATTTTATTTATTTTAATTGATTTAA
Found at i:22733547 original size:20 final size:20
Alignment explanation
Indices: 22733503--22733540 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22733493 AATTTATTTT
*
22733503 ATTTTATTTATTTGATTTAA
1 ATTTTATTTATTTGAATTAA
*
22733523 ATTTTATTTATTTTAATT
1 ATTTTATTTATTTGAATT
22733541 GATTTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTTTATTTATTTGAATTAA
Found at i:22736295 original size:16 final size:16
Alignment explanation
Indices: 22736274--22736308 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
22736264 TTCAACCAAA
22736274 ATTTTAT-TTATTTTTT
1 ATTTTATATT-TTTTTT
22736290 ATTTTATATTTTTTTT
1 ATTTTATATTTTTTTT
22736306 ATT
1 ATT
22736309 GAAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
ATTTTATATTTTTTTT
Found at i:22737179 original size:43 final size:43
Alignment explanation
Indices: 22737132--22737471 Score: 235
Period size: 43 Copynumber: 8.0 Consensus size: 43
22737122 TTCATAAAAA
* *
22737132 CTCCTCTAAATAGAGG-TCAACAACTTT-AAAAACTAAAATTAGG
1 CTCCTCTAAATAGAGGCTCAACAACTTTGAAAAA-T-AAATAAAG
* **
22737175 CTCCTCTAAGTAGAGGCTCAATGACTTTGAAAAATAAATAAAG
1 CTCCTCTAAATAGAGGCTCAACAACTTTGAAAAATAAATAAAG
* * *
22737218 CTCCTCT-AATCATACGCTCAACGACTTTTGAAAAATAAA-AAAGG
1 CTCCTCTAAAT-AGAGGCTCAACAAC-TTTGAAAAATAAATAAA-G
* * * *
22737262 CTCCCCTAAACAGAAGCTTAACAACTTTGAAAAAT--A-AAAG
1 CTCCTCTAAATAGAGGCTCAACAACTTTGAAAAATAAATAAAG
* * ** * *
22737302 TTCCTCTAAACAGAGGCTCAATGACTTTGGAAAATAAATAAGG
1 CTCCTCTAAATAGAGGCTCAACAACTTTGAAAAATAAATAAAG
*
22737345 CTCCTCT-AATCAGAGGCTCAACAGCTTTTGAAAAATAAAT-AAG
1 CTCCTCTAAAT-AGAGGCTCAACAAC-TTTGAAAAATAAATAAAG
* * *
22737388 ACTTCTCT-AATCA-AGGGCTCAACGATTTTG-AAAA-AAATAAAGG
1 -CTCCTCTAAAT-AGA-GGCTCAACAACTTTGAAAAATAAATAAA-G
** *
22737431 CTTATCT-AATCAGAGGCTCAATAACTTTG-AAAA-AAATAAAG
1 CTCCTCTAAAT-AGAGGCTCAACAACTTTGAAAAATAAATAAAG
22737472 GCACATTGAT
Statistics
Matches: 243, Mismatches: 38, Indels: 34
0.77 0.12 0.11
Matches are distributed among these distances:
40 29 0.12
41 9 0.04
42 45 0.19
43 81 0.33
44 72 0.30
45 7 0.03
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.25
Consensus pattern (43 bp):
CTCCTCTAAATAGAGGCTCAACAACTTTGAAAAATAAATAAAG
Found at i:22737265 original size:44 final size:43
Alignment explanation
Indices: 22737132--22737473 Score: 294
Period size: 44 Copynumber: 8.0 Consensus size: 43
22737122 TTCATAAAAA
* *
22737132 CTCCTCTAAAT-AGAGG-TCAACAACTTT-AAAAACTAAAATTAGG
1 CTCCTCT-AATCAGAGGCTCAACGACTTTGAAAAA-TAAAA-AAGG
*
22737175 CTCCTCTAAGT-AGAGGCTCAATGACTTTGAAAAATAAATAAA-G
1 CTCCTCTAA-TCAGAGGCTCAACGACTTTGAAAAATAAA-AAAGG
* *
22737218 CTCCTCTAATCATACGCTCAACGACTTTTGAAAAATAAAAAAGG
1 CTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAAAAAGG
* * * * *
22737262 CTCCCCTAAACAGAAGCTTAACAACTTTGAAAAAT--AAAA-G
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAAAAGG
* * * * *
22737302 TTCCTCTAAACAGAGGCTCAATGACTTTGGAAAATAAATAAGG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAAAAGG
* *
22737345 CTCCTCTAATCAGAGGCTCAAC-AGCTTTTGAAAAATAAATAAGA
1 CTCCTCTAATCAGAGGCTCAACGA-C-TTTGAAAAATAAAAAAGG
* * *
22737389 CTTCTCTAATCA-AGGGCTCAACGATTTTGAAAAA-AATAAAGG
1 CTCCTCTAATCAGA-GGCTCAACGACTTTGAAAAATAAAAAAGG
** ** *
22737431 CTTATCTAATCAGAGGCTCAATAACTTTGAAAAA-AATAAAGG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAAAAGG
22737473 C
1 C
22737474 ACATTGATAA
Statistics
Matches: 250, Mismatches: 34, Indels: 31
0.79 0.11 0.10
Matches are distributed among these distances:
40 29 0.12
41 4 0.02
42 49 0.20
43 79 0.32
44 82 0.33
45 7 0.03
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (43 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAAAAGG
Found at i:22737418 original size:127 final size:129
Alignment explanation
Indices: 22737176--22737471 Score: 345
Period size: 127 Copynumber: 2.3 Consensus size: 129
22737166 AAAATTAGGC
** * *
22737176 TCCTCTAAGTAGAGGCTCAATGACTTTGAAAAATAAATAAAGCTCCTCTAATCATACGCTCAACG
1 TCCTCTAAACAGAGGCTCAATGACTTTGGAAAATAAATAAAGCTCCTCTAATCAGACGCTCAACG
* *
22737241 ACTTTTGAAAAATAAAAAAGGCTCCCCTAAACAGAAGCTTAACAACTTTG-AAAAATAAAAG-T
66 ACTTTTGAAAAATAAAAAAGACTCCCCTAAACAGAAGCTCAACAACTTTGAAAAAATAAAAGCT
* *
22737303 TCCTCTAAACAGAGGCTCAATGACTTTGGAAAATAAATAAGGCTCCTCTAATCAGAGGCTCAAC-
1 TCCTCTAAACAGAGGCTCAATGACTTTGGAAAATAAATAAAGCTCCTCTAATCAGACGCTCAACG
* * * * * * * *
22737367 AGCTTTTGAAAAATAAATAAGACTTCTCTAATCA-AGGGCTCAACGATTTTGAAAAAAATAAAGG
66 A-CTTTTGAAAAATAAAAAAGACTCCCCTAAACAGA-AGCTCAACAACTTTG-AAAAAATAAAAG
22737431 CT
128 CT
* * *
22737433 T-ATCTAATCAGAGGCTCAATAACTTT-GAAAA-AAATAAAG
1 TCCTCTAAACAGAGGCTCAATGACTTTGGAAAATAAATAAAG
22737472 GCACATTGAT
Statistics
Matches: 144, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
126 2 0.01
127 103 0.72
128 5 0.03
129 32 0.22
130 2 0.01
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (129 bp):
TCCTCTAAACAGAGGCTCAATGACTTTGGAAAATAAATAAAGCTCCTCTAATCAGACGCTCAACG
ACTTTTGAAAAATAAAAAAGACTCCCCTAAACAGAAGCTCAACAACTTTGAAAAAATAAAAGCT
Found at i:22737646 original size:15 final size:14
Alignment explanation
Indices: 22737602--22737652 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
22737592 ATAATTTACT
*
22737602 AAAATTTGATTCTC
1 AAAATTTGATTCAC
* *
22737616 AAATTTTAGTTTCAC
1 AAAATTT-GATTCAC
22737631 AAGAATTTGATTCAC
1 AA-AATTTGATTCAC
22737646 AAAATTT
1 AAAATTT
22737653 CAGATATGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 11 0.37
15 15 0.50
16 4 0.13
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (14 bp):
AAAATTTGATTCAC
Found at i:22737911 original size:179 final size:179
Alignment explanation
Indices: 22737605--22737966 Score: 690
Period size: 179 Copynumber: 2.0 Consensus size: 179
22737595 ATTTACTAAA
22737605 ATTTGATTCTCAAATTTTAGTTTCACAAGAATTTGATTCACAAAATTTCAGATATGCAAGAATTC
1 ATTTGATTCTCAAATTTTAGTTTCACAAGAATTTGATTCACAAAATTTCAGATATGCAAGAATTC
* *
22737670 AGATTTACGAGATTTCAAGATTTGCATTTGTGAGGATTTCATCTAAATTTTAATTTAGGGATTCG
66 AGATTTACGAGATTTCAAGATTTGCATTTGTGAGGATTTCATCTAAATTTTAATTCAGGGATTCA
22737735 CATGCAAATTGCATGGCTCACATCCAACATTTAAAGATTCATTTTGGAG
131 CATGCAAATTGCATGGCTCACATCCAACATTTAAAGATTCATTTTGGAG
22737784 ATTTGATTCTCAAATTTTAGTTTCACAAGAATTTGATTCACAAAATTTCAGATATGCAAGAATTC
1 ATTTGATTCTCAAATTTTAGTTTCACAAGAATTTGATTCACAAAATTTCAGATATGCAAGAATTC
22737849 AGATTTACGAGATTTCAAGATTTGCATTTGTGA-GATTTTCATCTAAATTTTAATTCAGGGATTC
66 AGATTTACGAGATTTCAAGATTTGCATTTGTGAGGA-TTTCATCTAAATTTTAATTCAGGGATTC
22737913 ACATGCAAATTGCATGGCTCACATCCAACATTTAAAGATTCATTTTGGAG
130 ACATGCAAATTGCATGGCTCACATCCAACATTTAAAGATTCATTTTGGAG
22737963 ATTT
1 ATTT
22737967 ACATCCAAAA
Statistics
Matches: 180, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
178 2 0.01
179 178 0.99
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (179 bp):
ATTTGATTCTCAAATTTTAGTTTCACAAGAATTTGATTCACAAAATTTCAGATATGCAAGAATTC
AGATTTACGAGATTTCAAGATTTGCATTTGTGAGGATTTCATCTAAATTTTAATTCAGGGATTCA
CATGCAAATTGCATGGCTCACATCCAACATTTAAAGATTCATTTTGGAG
Found at i:22738235 original size:41 final size:41
Alignment explanation
Indices: 22738180--22738273 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
22738170 AAGTTCTCAT
* * *
22738180 TTAAAAA-ACTCAAAGATTCTGAAAGATTCTTATTT-GAAAC
1 TTAAAAATTCTCAAAGATTCTCAAAGATTCTCATTTAG-AAC
*
22738220 TTAAAAATTCTCAAAGATTCTCAAAGATTCTCATTTAGGAC
1 TTAAAAATTCTCAAAGATTCTCAAAGATTCTCATTTAGAAC
*
22738261 TTAAAGATTCTCA
1 TTAAAAATTCTCA
22738274 TTTAAGACTC
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
40 7 0.15
41 39 0.83
42 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (41 bp):
TTAAAAATTCTCAAAGATTCTCAAAGATTCTCATTTAGAAC
Done.