Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008214.1 Hibiscus syriacus cultivar Beakdansim tig00110840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2117680
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 11
Found at i:8453 original size:21 final size:21
Alignment explanation
Indices: 8419--8472 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
8409 ATGTGATAAG
*
8419 ATAATAATAAGAATA-ATGAAA
1 ATAA-AATATGAATATATGAAA
* *
8440 ATATGAATATGAATATATGAGA
1 ATA-AAATATGAATATATGAAA
8462 ATAAAATATGA
1 ATAAAATATGA
8473 GAATACATGC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.59, C:0.00, G:0.13, T:0.28
Consensus pattern (21 bp):
ATAAAATATGAATATATGAAA
Found at i:8457 original size:14 final size:15
Alignment explanation
Indices: 8424--8472 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 15
8414 ATAAGATAAT
*
8424 AATAAGAATAATGAA
1 AATATGAATAATGAA
8439 AATATGAAT-ATGAA
1 AATATGAATAATGAA
* *
8453 TATATG-AGAAT-AA
1 AATATGAATAATGAA
8466 AATATGA
1 AATATGA
8473 GAATACATGC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 8 0.29
14 12 0.43
15 8 0.29
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.27
Consensus pattern (15 bp):
AATATGAATAATGAA
Found at i:8998 original size:60 final size:59
Alignment explanation
Indices: 8883--9002 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 59
8873 AGAGTCGAAG
* * *
8883 AATTACCTATGTCTTTCGGGACATGGACAATATACCTATGTTTTACGGAACATATGGACAT
1 AATTACCTATG--TTTCGGGACATGGACAATATACCTATCTTCTAAGGAACATATGGACAT
* *
8944 AATTACCTATG-TTCGGGACATATGGACAATATATCTATCTTCTAAGGAATATATGGACA
1 AATTACCTATGTTTCGGGAC--ATGGACAATATACCTATCTTCTAAGGAACATATGGACA
9003 GTTTACCTAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
58 8 0.15
60 33 0.63
61 11 0.21
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (59 bp):
AATTACCTATGTTTCGGGACATGGACAATATACCTATCTTCTAAGGAACATATGGACAT
Found at i:14928 original size:14 final size:14
Alignment explanation
Indices: 14911--14937 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14901 AATATTTGAG
14911 ATTTAGGAATTTAA
1 ATTTAGGAATTTAA
14925 ATTTAGGAATTTA
1 ATTTAGGAATTTA
14938 TGGATTTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (14 bp):
ATTTAGGAATTTAA
Found at i:16731 original size:25 final size:25
Alignment explanation
Indices: 16682--16731 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
16672 ATGGAAAAAA
*
16682 TATAAAGACAGATTTTAACTTAAAC
1 TATAAAGACAGATTTTAACTGAAAC
*
16707 TATAAAGACATATTTT-ACTCGAAAC
1 TATAAAGACAGATTTTAACT-GAAAC
16732 AGACTAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (25 bp):
TATAAAGACAGATTTTAACTGAAAC
Found at i:20795 original size:23 final size:23
Alignment explanation
Indices: 20765--20810 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
20755 GGTCGAGAAG
20765 TTGGAGTGAGCCTATACAAATGT
1 TTGGAGTGAGCCTATACAAATGT
20788 TTGGAGTGAGCCTATACAAATGT
1 TTGGAGTGAGCCTATACAAATGT
20811 ATTTCTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (23 bp):
TTGGAGTGAGCCTATACAAATGT
Found at i:21159 original size:31 final size:31
Alignment explanation
Indices: 21124--21199 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
21114 AAACGACCTA
* *
21124 TTTAGGTCGTCATGCAAGCGATGCGCTATTG
1 TTTAGGTCGCCATGCAAGCGATGCGCCATTG
*
21155 TTTAGGTCGCCATGCAAGCTATGCGCCATTG
1 TTTAGGTCGCCATGCAAGCGATGCGCCATTG
21186 -TT-GGTCGCCATGCA
1 TTTAGGTCGCCATGCA
21200 GGCCATGCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
29 12 0.29
30 2 0.05
31 28 0.67
ACGTcount: A:0.18, C:0.24, G:0.28, T:0.30
Consensus pattern (31 bp):
TTTAGGTCGCCATGCAAGCGATGCGCCATTG
Found at i:22136 original size:12 final size:12
Alignment explanation
Indices: 22113--22148 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 12
22103 TATCCTATAC
22113 TATTTATAAAAAA
1 TATTT-TAAAAAA
22126 TATTTTAAAAAA
1 TATTTTAAAAAA
22138 TATTATTAAAA
1 TATT-TTAAAA
22149 TACAATATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TATTTTAAAAAA
Found at i:22554 original size:7 final size:7
Alignment explanation
Indices: 22542--22599 Score: 57
Period size: 7 Copynumber: 8.4 Consensus size: 7
22532 TAGTAAGTTT
22542 AACCTTA
1 AACCTTA
22549 AACCTTA
1 AACCTTA
22556 AA-CTCTA
1 AACCT-TA
*
22563 AACCCTA
1 AACCTTA
*
22570 AACCATA
1 AACCTTA
*
22577 GACC-TA
1 AACCTTA
*
22583 AACATTA
1 AACCTTA
22590 AACCTTA
1 AACCTTA
22597 AAC
1 AAC
22600 TCTAAAATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.14
7 35 0.83
8 1 0.02
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (7 bp):
AACCTTA
Found at i:22566 original size:14 final size:14
Alignment explanation
Indices: 22547--22605 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
22537 AGTTTAACCT
22547 TAAACCTTAAACTC
1 TAAACCTTAAACTC
*
22561 TAAACCCTAAAC-C
1 TAAACCTTAAACTC
*
22574 ATAGACC-TAAACAT-
1 -TAAACCTTAAAC-TC
22588 TAAACCTTAAACTC
1 TAAACCTTAAACTC
22602 TAAA
1 TAAA
22606 ATATTTTTGC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
13 12 0.32
14 25 0.68
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAACCTTAAACTC
Found at i:23174 original size:2 final size:2
Alignment explanation
Indices: 23167--23197 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23157 TTGAATTTGG
23167 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23198 CAAAACAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23861 original size:29 final size:29
Alignment explanation
Indices: 23819--23890 Score: 117
Period size: 29 Copynumber: 2.4 Consensus size: 29
23809 AGTAATCTTG
23819 CAGGTCGCCATGTAATCAAAACGACCAAA
1 CAGGTCGCCATGTAATCAAAACGACCAAA
*
23848 CAGGTTGCCATGTAATCAAAACGACCAAA
1 CAGGTCGCCATGTAATCAAAACGACCAAA
23877 CAAAGGTCGCCATG
1 C--AGGTCGCCATG
23891 CACGCCCCGC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 29 0.74
31 10 0.26
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.15
Consensus pattern (29 bp):
CAGGTCGCCATGTAATCAAAACGACCAAA
Found at i:24458 original size:38 final size:37
Alignment explanation
Indices: 24411--24485 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
24401 TAGTTAATTA
*
24411 ATTTAAGTTATGTTATAATAAAAAATAGTTTATTAGTT
1 ATTTAAGTTATATTATAA-AAAAAATAGTTTATTAGTT
* * ** *
24449 ATTTCAGTTATATTTTAAAAAATTTAGTTTGTTAGTT
1 ATTTAAGTTATATTATAAAAAAAATAGTTTATTAGTT
24486 TATTAGTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.37, C:0.01, G:0.11, T:0.51
Consensus pattern (37 bp):
ATTTAAGTTATATTATAAAAAAAATAGTTTATTAGTT
Found at i:24740 original size:33 final size:34
Alignment explanation
Indices: 24676--24742 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
24666 TTAAGTTATA
24676 TTATAATAAAAAATAGTTCATTAGTTAGTTTAAG
1 TTATAATAAAAAATAGTTCATTAGTTAGTTTAAG
24710 TTAT-ATAAAAGAATAGTGT-ATTAGTT-GTTTAAG
1 TTATAATAAAA-AATAGT-TCATTAGTTAGTTTAAG
24743 GGGAAAATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
33 13 0.42
34 17 0.55
35 1 0.03
ACGTcount: A:0.42, C:0.01, G:0.15, T:0.42
Consensus pattern (34 bp):
TTATAATAAAAAATAGTTCATTAGTTAGTTTAAG
Found at i:24806 original size:14 final size:14
Alignment explanation
Indices: 24787--24870 Score: 73
Period size: 14 Copynumber: 6.0 Consensus size: 14
24777 TATAGTTTGT
24787 TAGTTTAGGGTTTA
1 TAGTTTAGGGTTTA
*
24801 TAGTTTATGGTTTA
1 TAGTTTAGGGTTTA
**
24815 GGGTTTAGGGTTTA
1 TAGTTTAGGGTTTA
* *
24829 TAGTTTATGATTTA
1 TAGTTTAGGGTTTA
*
24843 -AGGTTTAGTGTTTA
1 TA-GTTTAGGGTTTA
*
24857 GT-GTTTAGGATTTA
1 -TAGTTTAGGGTTTA
24871 AGGTTTTAGG
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
13 1 0.02
14 53 0.98
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.51
Consensus pattern (14 bp):
TAGTTTAGGGTTTA
Found at i:24815 original size:21 final size:21
Alignment explanation
Indices: 24768--24835 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
24758 TAAGTTATGA
*
24768 TTTAGGGTTTATAGTTTGTTAG
1 TTTAGGGTTTATAGTTT-ATAG
*
24790 TTTAGGGTTTATAGTTTATGG
1 TTTAGGGTTTATAGTTTATAG
**
24811 TTTAGGGTTTAGGGTTTATAG
1 TTTAGGGTTTATAGTTTATAG
24832 TTTA
1 TTTA
24836 TGATTTAAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
21 24 0.59
22 17 0.41
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (21 bp):
TTTAGGGTTTATAGTTTATAG
Found at i:24862 original size:28 final size:28
Alignment explanation
Indices: 24768--24876 Score: 124
Period size: 28 Copynumber: 4.1 Consensus size: 28
24758 TAAGTTATGA
24768 TTTAGGGTTTATAG-TT-TG--TT-A-G
1 TTTAGGGTTTATAGTTTATGATTTAAGG
* *
24790 TTTAGGGTTTATAGTTTATGGTTTAGGG
1 TTTAGGGTTTATAGTTTATGATTTAAGG
24818 TTTAGGGTTTATAGTTTATGATTTAAGG
1 TTTAGGGTTTATAGTTTATGATTTAAGG
* *
24846 TTTAGTGTTTAGT-GTTTAGGATTTAAGG
1 TTTAGGGTTTA-TAGTTTATGATTTAAGG
24874 TTT
1 TTT
24877 TAGGTTTCCA
Statistics
Matches: 75, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
22 14 0.19
23 2 0.03
24 2 0.03
26 2 0.03
28 54 0.72
29 1 0.01
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (28 bp):
TTTAGGGTTTATAGTTTATGATTTAAGG
Found at i:24876 original size:14 final size:13
Alignment explanation
Indices: 24789--24883 Score: 61
Period size: 14 Copynumber: 6.8 Consensus size: 13
24779 TAGTTTGTTA
24789 GTTTAGGGTTTATA-
1 GTTTA-GGTTTA-AG
*
24803 GTTTATGGTTTAGG
1 GTTTA-GGTTTAAG
24817 GTTTAGGGTTTATA-
1 GTTTA-GGTTTA-AG
*
24831 GTTTATGATTTAAG
1 GTTTA-GGTTTAAG
24845 GTTTAGTGTTT-AG
1 GTTTAG-GTTTAAG
24858 TGTTTAGGATTTAAG
1 -GTTTAGG-TTTAAG
24873 GTTTTAGGTTT
1 G-TTTAGGTTT
24884 CCACTCGTGT
Statistics
Matches: 66, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
13 5 0.08
14 53 0.80
15 8 0.12
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (13 bp):
GTTTAGGTTTAAG
Found at i:24946 original size:21 final size:22
Alignment explanation
Indices: 24920--24999 Score: 60
Period size: 21 Copynumber: 3.8 Consensus size: 22
24910 CCTAAACCCT
24920 AACCTTAAATC-ATAAACTATA
1 AACCTTAAATCAATAAACTATA
* * **
24941 AACCTT-AGTCTATAAACCCTA
1 AACCTTAAATCAATAAACTATA
** *
24962 AACCAAAAACCAA-AAACTATA
1 AACCTTAAATCAATAAACTATA
*
24983 AACCCTAAA-CAATAAAC
1 AACCTTAAATCAATAAAC
25000 CTTAAATACT
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
20 6 0.14
21 35 0.80
22 3 0.07
ACGTcount: A:0.54, C:0.25, G:0.01, T:0.20
Consensus pattern (22 bp):
AACCTTAAATCAATAAACTATA
Found at i:24963 original size:28 final size:28
Alignment explanation
Indices: 24932--25005 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
24922 CCTTAAATCA
* **
24932 TAAACTATAAACCTTAGTCTATAAACCC
1 TAAACAATAAACCTTAAACTATAAACCC
**
24960 TAAACCAA-AAACCAAAAACTATAAACCC
1 TAAA-CAATAAACCTTAAACTATAAACCC
24988 TAAACAATAAACCTTAAA
1 TAAACAATAAACCTTAAA
25006 TACTAGACCT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
27 3 0.08
28 32 0.86
29 2 0.05
ACGTcount: A:0.54, C:0.24, G:0.01, T:0.20
Consensus pattern (28 bp):
TAAACAATAAACCTTAAACTATAAACCC
Found at i:25064 original size:7 final size:7
Alignment explanation
Indices: 25052--25153 Score: 53
Period size: 7 Copynumber: 14.7 Consensus size: 7
25042 TAGTTTGTTA
25052 GTTTAGG
1 GTTTAGG
25059 GTTTAGG
1 GTTTAGG
**
25066 GTTTATA
1 GTTTAGG
*
25073 ATTTAGG
1 GTTTAGG
* *
25080 ATTTAAG
1 GTTTAGG
**
25087 GTTTATT
1 GTTTAGG
25094 GTTTAGG
1 GTTTAGG
*
25101 GTTTATG
1 GTTTAGG
* *
25108 GTATAAG
1 GTTTAGG
* **
25115 ATTTATA
1 GTTTAGG
*
25122 GTTTATG
1 GTTTAGG
* *
25129 ATTTAAG
1 GTTTAGG
25136 G-TTAGG
1 GTTTAGG
25142 GTTTAGG
1 GTTTAGG
25149 GTTTA
1 GTTTA
25154 TAGTATATGT
Statistics
Matches: 70, Mismatches: 24, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
6 5 0.07
7 65 0.93
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (7 bp):
GTTTAGG
Found at i:25078 original size:21 final size:21
Alignment explanation
Indices: 25053--25155 Score: 75
Period size: 21 Copynumber: 5.0 Consensus size: 21
25043 AGTTTGTTAG
25053 TTTAGGGTTTAGGGTTTATAA
1 TTTAGGGTTTAGGGTTTATAA
* * **
25074 TTTAGGATTTAAGGTTTATTG
1 TTTAGGGTTTAGGGTTTATAA
* *
25095 TTTAGGGTTTATGGTATA-AGA
1 TTTAGGGTTTAGGGTTTATA-A
** * * *
25116 TTTATAGTTTATGATTTA-AG
1 TTTAGGGTTTAGGGTTTATAA
*
25136 GTTAGGGTTTAGGGTTTATA
1 TTTAGGGTTTAGGGTTTATA
25156 GTATATGTAA
Statistics
Matches: 61, Mismatches: 19, Indels: 4
0.73 0.23 0.05
Matches are distributed among these distances:
20 13 0.21
21 48 0.79
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (21 bp):
TTTAGGGTTTAGGGTTTATAA
Found at i:25243 original size:21 final size:22
Alignment explanation
Indices: 25180--25243 Score: 89
Period size: 21 Copynumber: 3.0 Consensus size: 22
25170 AGTGGAAACC
25180 TTAAATCCTAAACACTAAAC-A
1 TTAAATCCTAAACACTAAACTA
25201 TTAAA-CCATAAACACTAAACTA
1 TTAAATCC-TAAACACTAAACTA
*
25223 -TAAATCCTAAACCCTAAACTA
1 TTAAATCCTAAACACTAAACTA
25244 ACAAACTAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
20 2 0.05
21 34 0.87
22 3 0.08
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (22 bp):
TTAAATCCTAAACACTAAACTA
Found at i:25487 original size:8 final size:8
Alignment explanation
Indices: 25474--25528 Score: 51
Period size: 8 Copynumber: 7.1 Consensus size: 8
25464 ACCTAAACTC
25474 TAAACTAA
1 TAAACTAA
25482 TAAACTAA
1 TAAACTAA
25490 TAAACT-A
1 TAAACTAA
**
25497 TAAAC-CC
1 TAAACTAA
25504 TAAACTAA
1 TAAACTAA
* *
25512 CAAGCTAA
1 TAAACTAA
*
25520 CAAACTAA
1 TAAACTAA
25528 T
1 T
25529 TCTTTTATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
7 11 0.29
8 27 0.71
ACGTcount: A:0.56, C:0.20, G:0.02, T:0.22
Consensus pattern (8 bp):
TAAACTAA
Found at i:25507 original size:30 final size:30
Alignment explanation
Indices: 25467--25526 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
25457 ACCCTAAACC
* * *
25467 TAAACTCTAAACTAATAAACTAATAAACTA
1 TAAACCCTAAACTAACAAACTAACAAACTA
*
25497 TAAACCCTAAACTAACAAGCTAACAAACTA
1 TAAACCCTAAACTAACAAACTAACAAACTA
25527 ATTCTTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.55, C:0.22, G:0.02, T:0.22
Consensus pattern (30 bp):
TAAACCCTAAACTAACAAACTAACAAACTA
Found at i:26162 original size:31 final size:30
Alignment explanation
Indices: 26121--26191 Score: 117
Period size: 29 Copynumber: 2.4 Consensus size: 30
26111 GCGGGGCGTG
*
26121 CATGGTGACCTTTGCTTGGTCGTTTTGATTA
1 CATGGCGACC-TTGCTTGGTCGTTTTGATTA
26152 CATGGCGACC-TGCTTGGTCGTTTTGATTA
1 CATGGCGACCTTGCTTGGTCGTTTTGATTA
26181 CATGGCGACCT
1 CATGGCGACCT
26192 GTAAGATTAC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
29 29 0.76
31 9 0.24
ACGTcount: A:0.14, C:0.21, G:0.27, T:0.38
Consensus pattern (30 bp):
CATGGCGACCTTGCTTGGTCGTTTTGATTA
Found at i:26171 original size:29 final size:29
Alignment explanation
Indices: 26133--26192 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
26123 TGGTGACCTT
26133 TGCTTGGTCGTTTTGATTACATGGCGACC
1 TGCTTGGTCGTTTTGATTACATGGCGACC
26162 TGCTTGGTCGTTTTGATTACATGGCGACC
1 TGCTTGGTCGTTTTGATTACATGGCGACC
26191 TG
1 TG
26193 TAAGATTACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.13, C:0.20, G:0.28, T:0.38
Consensus pattern (29 bp):
TGCTTGGTCGTTTTGATTACATGGCGACC
Found at i:26506 original size:29 final size:29
Alignment explanation
Indices: 26473--26538 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
26463 CATGACTGCG
*
26473 TGGCGACCAACAATGGCGCA-CAGCTTGCA
1 TGGCGACCAAAAATGGCGCACCA-CTTGCA
26502 TGGCGACCAAAAATGGCGCACCACTTGCA
1 TGGCGACCAAAAATGGCGCACCACTTGCA
26531 TGGCGACC
1 TGGCGACC
26539 TAAATAGGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 33 0.94
30 2 0.06
ACGTcount: A:0.27, C:0.32, G:0.27, T:0.14
Consensus pattern (29 bp):
TGGCGACCAAAAATGGCGCACCACTTGCA
Found at i:26749 original size:29 final size:29
Alignment explanation
Indices: 26716--26781 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
26706 CATGACTGCG
26716 TGGCGACCAACAATGGCGCACAGCTTGCA
1 TGGCGACCAACAATGGCGCACAGCTTGCA
*
26745 TGGCGACCAACAATGGCGCACCGCTTGCA
1 TGGCGACCAACAATGGCGCACAGCTTGCA
26774 TGGCGACC
1 TGGCGACC
26782 TAAATAGGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.24, C:0.33, G:0.29, T:0.14
Consensus pattern (29 bp):
TGGCGACCAACAATGGCGCACAGCTTGCA
Found at i:26812 original size:243 final size:243
Alignment explanation
Indices: 26384--26870 Score: 920
Period size: 243 Copynumber: 2.0 Consensus size: 243
26374 AGCGCCACTT
26384 TAATATAATGCTCAAATAAAAACCTCATTTCCTCCCTGCACTAATCCCTTTGGACTAAGCAATAT
1 TAATATAATGCTCAAATAAAAACCTCATTTCCTCCCTGCACTAATCCCTTTGGACTAAGCAATAT
26449 CTAATAGAATATGGCATGACTGCGTGGCGACCAACAATGGCGCACAGCTTGCATGGCGACCAAAA
66 CTAATAGAATATGGCATGACTGCGTGGCGACCAACAATGGCGCACAGCTTGCATGGCGACCAAAA
26514 ATGGCGCACCACTTGCATGGCGACCTAAATAGGTCGTTTGAACCACCTGGCGACTAACACAATGA
131 ATGGCGCACCACTTGCATGGCGACCTAAATAGGTCGTTTGAACCACCTGGCGACTAACACAATGA
26579 CTGTAACAATCGCCCCATTTCAACAATTAATTCTTCGAGAGCAATATC
196 CTGTAACAATCGCCCCATTTCAACAATTAATTCTTCGAGAGCAATATC
*
26627 TAATATAATGCTCAAATGAAAACCTCATTTCCTCCCTGCACTAATCCCTTTGGACTAAGCAATAT
1 TAATATAATGCTCAAATAAAAACCTCATTTCCTCCCTGCACTAATCCCTTTGGACTAAGCAATAT
*
26692 CTAATAGAATATGGCATGACTGCGTGGCGACCAACAATGGCGCACAGCTTGCATGGCGACCAACA
66 CTAATAGAATATGGCATGACTGCGTGGCGACCAACAATGGCGCACAGCTTGCATGGCGACCAAAA
* *
26757 ATGGCGCACCGCTTGCATGGCGACCTAAATAGGTCGTTTGGACCACCTGGCGACTAACACAATGA
131 ATGGCGCACCACTTGCATGGCGACCTAAATAGGTCGTTTGAACCACCTGGCGACTAACACAATGA
* *
26822 CTGTAGCAATCGCCCCATTTCAGCAATTAATTCTTCGAGAGCAATATC
196 CTGTAACAATCGCCCCATTTCAACAATTAATTCTTCGAGAGCAATATC
26870 T
1 T
26871 TGTGAATTTT
Statistics
Matches: 238, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
243 238 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (243 bp):
TAATATAATGCTCAAATAAAAACCTCATTTCCTCCCTGCACTAATCCCTTTGGACTAAGCAATAT
CTAATAGAATATGGCATGACTGCGTGGCGACCAACAATGGCGCACAGCTTGCATGGCGACCAAAA
ATGGCGCACCACTTGCATGGCGACCTAAATAGGTCGTTTGAACCACCTGGCGACTAACACAATGA
CTGTAACAATCGCCCCATTTCAACAATTAATTCTTCGAGAGCAATATC
Found at i:35115 original size:22 final size:19
Alignment explanation
Indices: 35067--35115 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
35057 GAGTGGTCGT
*
35067 TCGACGATGACAAAGGCGA
1 TCGACGACGACAAAGGCGA
35086 TCGACGACGACAAAGGCGA
1 TCGACGACGACAAAGGCGA
35105 TCGACGACGAC
1 TCGACGACGAC
35116 TGGTAATGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.35, C:0.27, G:0.31, T:0.08
Consensus pattern (19 bp):
TCGACGACGACAAAGGCGA
Found at i:38721 original size:64 final size:64
Alignment explanation
Indices: 38652--38810 Score: 187
Period size: 64 Copynumber: 2.5 Consensus size: 64
38642 TTGAAGGTGT
** *** *
38652 ATCGATGCATTGGTAGTGCATCGATGCACT-CTTTTAA-AATAAAAACATCGAATGCAATTCATG
1 ATCGATGCATAAGTAGTGCATCGATGCA-TACCAATAATAAT-AAAACATCAAATGCAATTCATG
38715 C
64 C
* * *
38716 ATCGATGCATAAGTAGTGCATCGATGCATACCAATAATAATACAACATCAAATGCATTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATACCAATAATAATAAAACATCAAATGCAATTCATGC
* *
38780 ACCGATGCATCAGTAGTGCATCGATGCATAC
1 ATCGATGCATAAGTAGTGCATCGATGCATAC
38811 TTTCATTGAA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
63 1 0.01
64 78 0.95
65 3 0.04
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATACCAATAATAATAAAACATCAAATGCAATTCATGC
Found at i:39508 original size:31 final size:31
Alignment explanation
Indices: 39465--39558 Score: 154
Period size: 31 Copynumber: 3.0 Consensus size: 31
39455 AGGGTCGAGG
39465 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
39496 GTTTGCCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
39527 GTTTACCTAGGTTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
39558 G
1 G
39559 ATCCTTTAGG
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 58 0.98
32 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:40468 original size:37 final size:37
Alignment explanation
Indices: 40399--40476 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
40389 ACCATAGAAT
* * **
40399 AGAAGCCCAGAATCCCTACATCATGTTGAAACTCTAA
1 AGAAGCCCACAATCCCTACATCATATCAAAACTCTAA
* * *
40436 AGAAGCCTACAATCCTTACATCATATCAAAACTTTAA
1 AGAAGCCCACAATCCCTACATCATATCAAAACTCTAA
40473 AGAA
1 AGAA
40477 ACCATAGAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.42, C:0.24, G:0.10, T:0.23
Consensus pattern (37 bp):
AGAAGCCCACAATCCCTACATCATATCAAAACTCTAA
Found at i:42510 original size:33 final size:35
Alignment explanation
Indices: 42422--42490 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
42412 AACATCTACC
*
42422 AAAC-TTTACCAAACTTTAAAAAACATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAAACATTTTCAAAG
42456 AAACATTTACCAAACTTTGAAAAACATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAAACATTTTCAAAG
42491 TTGATTGCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 4 0.12
35 29 0.88
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.29
Consensus pattern (35 bp):
AAACATTTACCAAACTTTGAAAAACATTTTCAAAG
Found at i:44648 original size:19 final size:20
Alignment explanation
Indices: 44611--44648 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44601 TTTTTTTATA
*
44611 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
44631 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
44649 TCTAGCATTC
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:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:50794 original size:23 final size:23
Alignment explanation
Indices: 50768--50812 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
50758 CACCACAGCT
*
50768 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
50791 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
50813 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:51471 original size:19 final size:20
Alignment explanation
Indices: 51434--51471 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51424 TTTTTTTATA
*
51434 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
51454 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
51472 TCTAGCATTC
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:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:64971 original size:31 final size:31
Alignment explanation
Indices: 64933--65033 Score: 143
Period size: 31 Copynumber: 3.2 Consensus size: 31
64923 GTCGAAGAAT
64933 TACCTATGTCTTTCGGGACATATGGACAATA
1 TACCTATGTCTTTCGGGACATATGGACAATA
*
64964 TACCTATGT-TTTACGGAACATATGGAC-ATAA
1 TACCTATGTCTTT-CGGGACATATGGACAAT-A
64995 TTACCTATGTCTTTCGGGACATATGGACAATA
1 -TACCTATGTCTTTCGGGACATATGGACAATA
*
65027 TATCTAT
1 TACCTAT
65034 CTTCTAAGGA
Statistics
Matches: 62, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
30 5 0.08
31 29 0.47
32 23 0.37
33 5 0.08
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (31 bp):
TACCTATGTCTTTCGGGACATATGGACAATA
Found at i:65008 original size:63 final size:64
Alignment explanation
Indices: 64930--65085 Score: 212
Period size: 63 Copynumber: 2.5 Consensus size: 64
64920 AGAGTCGAAG
* * *
64930 AATTACCTATGTCTTTCGGGACATATGGACAATATACCTATGTTTTACGGAACATATGGACA-T
1 AATTACCTATGTCTTTCGGGACATATGGACAATATACCTATCTTCTAAGGAACATATGGACAGT
* *
64993 AATTACCTATGTCTTTCGGGACATATGGACAATATATCTATCTTCTAAGGAATATATGGACAGT
1 AATTACCTATGTCTTTCGGGACATATGGACAATATACCTATCTTCTAAGGAACATATGGACAGT
* *
65057 --TTACCTAGGT-TCTTCGGGACCTATGGACA
1 AATTACCTATGTCT-TTCGGGACATATGGACA
65086 GTTTTCGAGG
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
61 1 0.01
62 25 0.30
63 57 0.68
64 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (64 bp):
AATTACCTATGTCTTTCGGGACATATGGACAATATACCTATCTTCTAAGGAACATATGGACAGT
Found at i:72870 original size:25 final size:25
Alignment explanation
Indices: 72821--72870 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
72811 ATGGAAAAAA
*
72821 TATAAAGACAGATTTTAACTTAAAC
1 TATAAAGACAGATTTTAACTGAAAC
*
72846 TATAAAGACATATTTT-ACTCGAAAC
1 TATAAAGACAGATTTTAACT-GAAAC
72871 AGACTAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (25 bp):
TATAAAGACAGATTTTAACTGAAAC
Found at i:76943 original size:23 final size:23
Alignment explanation
Indices: 76913--76958 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
76903 GGTCGAGAAG
76913 TTGGAGTGAGCCTATACAAATGT
1 TTGGAGTGAGCCTATACAAATGT
76936 TTGGAGTGAGCCTATACAAATGT
1 TTGGAGTGAGCCTATACAAATGT
76959 ATTTCTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (23 bp):
TTGGAGTGAGCCTATACAAATGT
Found at i:77308 original size:31 final size:31
Alignment explanation
Indices: 77273--77348 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
77263 AAACGACCTA
* *
77273 TTTAGGTCGTCATGCAAGCGATGCGCTATTG
1 TTTAGGTCGCCATGCAAGCGATGCGCCATTG
*
77304 TTTAGGTCGCCATGCAAGCTATGCGCCATTG
1 TTTAGGTCGCCATGCAAGCGATGCGCCATTG
77335 -TT-GGTCGCCATGCA
1 TTTAGGTCGCCATGCA
77349 GGCCATGCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
29 12 0.29
30 2 0.05
31 28 0.67
ACGTcount: A:0.18, C:0.24, G:0.28, T:0.30
Consensus pattern (31 bp):
TTTAGGTCGCCATGCAAGCGATGCGCCATTG
Found at i:78287 original size:12 final size:13
Alignment explanation
Indices: 78265--78298 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
78255 CCTATACTAT
*
78265 TTATAAAAAAATA
1 TTATTAAAAAATA
78278 TT-TTAAAAAATA
1 TTATTAAAAAATA
78290 TTATTAAAA
1 TTATTAAAA
78299 TACAATATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTATTAAAAAATA
Found at i:78705 original size:7 final size:7
Alignment explanation
Indices: 78693--78750 Score: 57
Period size: 7 Copynumber: 8.4 Consensus size: 7
78683 TAGTAAGTTT
78693 AACCTTA
1 AACCTTA
78700 AACCTTA
1 AACCTTA
78707 AA-CTCTA
1 AACCT-TA
*
78714 AACCCTA
1 AACCTTA
*
78721 AACCATA
1 AACCTTA
*
78728 GACC-TA
1 AACCTTA
*
78734 AACATTA
1 AACCTTA
78741 AACCTTA
1 AACCTTA
78748 AAC
1 AAC
78751 TCTAAAATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.14
7 35 0.83
8 1 0.02
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (7 bp):
AACCTTA
Found at i:78717 original size:14 final size:14
Alignment explanation
Indices: 78698--78756 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
78688 AGTTTAACCT
78698 TAAACCTTAAACTC
1 TAAACCTTAAACTC
*
78712 TAAACCCTAAAC-C
1 TAAACCTTAAACTC
*
78725 ATAGACC-TAAACAT-
1 -TAAACCTTAAAC-TC
78739 TAAACCTTAAACTC
1 TAAACCTTAAACTC
78753 TAAA
1 TAAA
78757 ATATTTTTGC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
13 12 0.32
14 25 0.68
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAACCTTAAACTC
Found at i:79998 original size:29 final size:29
Alignment explanation
Indices: 79956--80027 Score: 117
Period size: 29 Copynumber: 2.4 Consensus size: 29
79946 AGTAATCTTG
79956 CAGGTCGCCATGTAATCAAAACGACCAAA
1 CAGGTCGCCATGTAATCAAAACGACCAAA
*
79985 CAGGTTGCCATGTAATCAAAACGACCAAA
1 CAGGTCGCCATGTAATCAAAACGACCAAA
80014 CAAAGGTCGCCATG
1 C--AGGTCGCCATG
80028 CACGCCCCGC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 29 0.74
31 10 0.26
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.15
Consensus pattern (29 bp):
CAGGTCGCCATGTAATCAAAACGACCAAA
Found at i:80795 original size:47 final size:43
Alignment explanation
Indices: 80756--80838 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 43
80746 TTATATTTTT
*
80756 GTTGAATTTATATTAT-ATAAAAAATTTAGTTAATTAGTTAATTA
1 GTTGAAGTTATATTATAATAAAAAA--TAGTTAATTAGTTAATTA
* *
80800 GTTTAAGTTATATTATAATAAAAAATAGTTCATTAGTTA
1 GTTGAAGTTATATTATAATAAAAAATAGTTAATTAGTTA
80839 GTTTAAGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
43 13 0.37
44 14 0.40
45 8 0.23
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.46
Consensus pattern (43 bp):
GTTGAAGTTATATTATAATAAAAAATAGTTAATTAGTTAATTA
Found at i:80876 original size:33 final size:34
Alignment explanation
Indices: 80812--80878 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
80802 TTAAGTTATA
80812 TTATAATAAAAAATAGTTCATTAGTTAGTTTAAG
1 TTATAATAAAAAATAGTTCATTAGTTAGTTTAAG
80846 TTAT-ATAAAAGAATAGTGT-ATTAGTT-GTTTAAG
1 TTATAATAAAA-AATAGT-TCATTAGTTAGTTTAAG
80879 GGGAAAATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
33 13 0.42
34 17 0.55
35 1 0.03
ACGTcount: A:0.42, C:0.01, G:0.15, T:0.42
Consensus pattern (34 bp):
TTATAATAAAAAATAGTTCATTAGTTAGTTTAAG
Found at i:80942 original size:14 final size:14
Alignment explanation
Indices: 80923--81006 Score: 73
Period size: 14 Copynumber: 6.0 Consensus size: 14
80913 TATAGTTTGT
80923 TAGTTTAGGGTTTA
1 TAGTTTAGGGTTTA
*
80937 TAGTTTATGGTTTA
1 TAGTTTAGGGTTTA
**
80951 GGGTTTAGGGTTTA
1 TAGTTTAGGGTTTA
* *
80965 TAGTTTATGATTTA
1 TAGTTTAGGGTTTA
*
80979 -AGGTTTAGTGTTTA
1 TA-GTTTAGGGTTTA
*
80993 GT-GTTTAGGATTTA
1 -TAGTTTAGGGTTTA
81007 AGGTTTTAGG
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
13 1 0.02
14 53 0.98
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.51
Consensus pattern (14 bp):
TAGTTTAGGGTTTA
Found at i:80951 original size:21 final size:21
Alignment explanation
Indices: 80904--80971 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
80894 TAAGTTATGA
*
80904 TTTAGGGTTTATAGTTTGTTAG
1 TTTAGGGTTTATAGTTT-ATAG
*
80926 TTTAGGGTTTATAGTTTATGG
1 TTTAGGGTTTATAGTTTATAG
**
80947 TTTAGGGTTTAGGGTTTATAG
1 TTTAGGGTTTATAGTTTATAG
80968 TTTA
1 TTTA
80972 TGATTTAAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
21 24 0.59
22 17 0.41
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (21 bp):
TTTAGGGTTTATAGTTTATAG
Found at i:80998 original size:28 final size:28
Alignment explanation
Indices: 80904--81012 Score: 124
Period size: 28 Copynumber: 4.1 Consensus size: 28
80894 TAAGTTATGA
80904 TTTAGGGTTTATAG-TT-TG--TT-A-G
1 TTTAGGGTTTATAGTTTATGATTTAAGG
* *
80926 TTTAGGGTTTATAGTTTATGGTTTAGGG
1 TTTAGGGTTTATAGTTTATGATTTAAGG
80954 TTTAGGGTTTATAGTTTATGATTTAAGG
1 TTTAGGGTTTATAGTTTATGATTTAAGG
* *
80982 TTTAGTGTTTAGT-GTTTAGGATTTAAGG
1 TTTAGGGTTTA-TAGTTTATGATTTAAGG
81010 TTT
1 TTT
81013 TAGGTTTCCA
Statistics
Matches: 75, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
22 14 0.19
23 2 0.03
24 2 0.03
26 2 0.03
28 54 0.72
29 1 0.01
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (28 bp):
TTTAGGGTTTATAGTTTATGATTTAAGG
Found at i:81012 original size:14 final size:13
Alignment explanation
Indices: 80925--81019 Score: 61
Period size: 14 Copynumber: 6.8 Consensus size: 13
80915 TAGTTTGTTA
80925 GTTTAGGGTTTATA-
1 GTTTA-GGTTTA-AG
*
80939 GTTTATGGTTTAGG
1 GTTTA-GGTTTAAG
80953 GTTTAGGGTTTATA-
1 GTTTA-GGTTTA-AG
*
80967 GTTTATGATTTAAG
1 GTTTA-GGTTTAAG
80981 GTTTAGTGTTT-AG
1 GTTTAG-GTTTAAG
80994 TGTTTAGGATTTAAG
1 -GTTTAGG-TTTAAG
81009 GTTTTAGGTTT
1 G-TTTAGGTTT
81020 CCACTCGTGT
Statistics
Matches: 66, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
13 5 0.08
14 53 0.80
15 8 0.12
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (13 bp):
GTTTAGGTTTAAG
Found at i:81082 original size:21 final size:22
Alignment explanation
Indices: 81056--81134 Score: 60
Period size: 21 Copynumber: 3.8 Consensus size: 22
81046 CCTAAACCCT
81056 AACCTTAAATC-ATAAACTATA
1 AACCTTAAATCAATAAACTATA
* * **
81077 AACCTT-AGTCTATAAACCCTA
1 AACCTTAAATCAATAAACTATA
* *
81098 AACC-AAAACCAA-AAACTATA
1 AACCTTAAATCAATAAACTATA
*
81118 AACCCTAAA-CAATAAAC
1 AACCTTAAATCAATAAAC
81135 CTTAAATACT
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
20 16 0.36
21 28 0.64
ACGTcount: A:0.53, C:0.25, G:0.01, T:0.20
Consensus pattern (22 bp):
AACCTTAAATCAATAAACTATA
Found at i:81127 original size:14 final size:14
Alignment explanation
Indices: 81048--81174 Score: 82
Period size: 14 Copynumber: 9.2 Consensus size: 14
81038 CTATAAACCC
*
81048 TAAACCCTAACCT-
1 TAAACCCTAAACTA
* *
81061 TAAATCATAAACTA
1 TAAACCCTAAACTA
* **
81075 TAAACCTTAGTCTA
1 TAAACCCTAAACTA
*
81089 TAAACCCTAAACCA
1 TAAACCCTAAACTA
**
81103 -AAACCAAAAACTA
1 TAAACCCTAAACTA
*
81116 TAAACCCTAAACAA
1 TAAACCCTAAACTA
*
81130 TAAACCTTAAA-TA
1 TAAACCCTAAACTA
* * *
81143 CTATACCTTAGACCT-
1 -TAAACCCTA-AACTA
81158 TAAACCCTAAACTA
1 TAAACCCTAAACTA
81172 TAA
1 TAA
81175 TTTAGTTTGT
Statistics
Matches: 84, Mismatches: 24, Indels: 11
0.71 0.20 0.09
Matches are distributed among these distances:
13 24 0.29
14 58 0.69
15 1 0.01
16 1 0.01
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:81140 original size:21 final size:21
Alignment explanation
Indices: 81116--81174 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
81106 CCAAAAACTA
81116 TAAACCCTAAACAATAAACCT
1 TAAACCCTAAACAATAAACCT
** * ** *
81137 TAAATACTATACCTTAGACCT
1 TAAACCCTAAACAATAAACCT
*
81158 TAAACCCTAAACTATAA
1 TAAACCCTAAACAATAA
81175 TTTAGTTTGT
Statistics
Matches: 26, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.47, C:0.25, G:0.02, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAACAATAAACCT
Found at i:81199 original size:7 final size:7
Alignment explanation
Indices: 81187--81288 Score: 53
Period size: 7 Copynumber: 14.7 Consensus size: 7
81177 TAGTTTGTTA
81187 GTTTAGG
1 GTTTAGG
81194 GTTTAGG
1 GTTTAGG
**
81201 GTTTATA
1 GTTTAGG
*
81208 ATTTAGG
1 GTTTAGG
* *
81215 ATTTAAG
1 GTTTAGG
**
81222 GTTTATT
1 GTTTAGG
81229 GTTTAGG
1 GTTTAGG
*
81236 GTTTATG
1 GTTTAGG
* *
81243 GTATAAG
1 GTTTAGG
* **
81250 ATTTATA
1 GTTTAGG
*
81257 GTTTATG
1 GTTTAGG
* *
81264 ATTTAAG
1 GTTTAGG
81271 G-TTAGG
1 GTTTAGG
81277 GTTTAGG
1 GTTTAGG
81284 GTTTA
1 GTTTA
81289 TAGTATATGT
Statistics
Matches: 70, Mismatches: 24, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
6 5 0.07
7 65 0.93
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (7 bp):
GTTTAGG
Found at i:81213 original size:21 final size:21
Alignment explanation
Indices: 81188--81290 Score: 75
Period size: 21 Copynumber: 5.0 Consensus size: 21
81178 AGTTTGTTAG
81188 TTTAGGGTTTAGGGTTTATAA
1 TTTAGGGTTTAGGGTTTATAA
* * **
81209 TTTAGGATTTAAGGTTTATTG
1 TTTAGGGTTTAGGGTTTATAA
* *
81230 TTTAGGGTTTATGGTATA-AGA
1 TTTAGGGTTTAGGGTTTATA-A
** * * *
81251 TTTATAGTTTATGATTTA-AG
1 TTTAGGGTTTAGGGTTTATAA
*
81271 GTTAGGGTTTAGGGTTTATA
1 TTTAGGGTTTAGGGTTTATA
81291 GTATATGTAA
Statistics
Matches: 61, Mismatches: 19, Indels: 4
0.73 0.23 0.05
Matches are distributed among these distances:
20 13 0.21
21 48 0.79
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (21 bp):
TTTAGGGTTTAGGGTTTATAA
Found at i:81378 original size:21 final size:22
Alignment explanation
Indices: 81315--81378 Score: 89
Period size: 21 Copynumber: 3.0 Consensus size: 22
81305 AGTGGAAACC
81315 TTAAATCCTAAACACTAAAC-A
1 TTAAATCCTAAACACTAAACTA
81336 TTAAA-CCATAAACACTAAACTA
1 TTAAATCC-TAAACACTAAACTA
*
81358 -TAAATCCTAAACCCTAAACTA
1 TTAAATCCTAAACACTAAACTA
81379 ACAAACTAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
20 2 0.05
21 34 0.87
22 3 0.08
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (22 bp):
TTAAATCCTAAACACTAAACTA
Found at i:81621 original size:8 final size:8
Alignment explanation
Indices: 81608--81662 Score: 51
Period size: 8 Copynumber: 7.1 Consensus size: 8
81598 ACCTAAACTC
81608 TAAACTAA
1 TAAACTAA
81616 TAAACTAA
1 TAAACTAA
81624 TAAACT-A
1 TAAACTAA
**
81631 TAAAC-CC
1 TAAACTAA
81638 TAAACTAA
1 TAAACTAA
* *
81646 CAAGCTAA
1 TAAACTAA
*
81654 CAAACTAA
1 TAAACTAA
81662 T
1 T
81663 TCTTTTATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
7 11 0.29
8 27 0.71
ACGTcount: A:0.56, C:0.20, G:0.02, T:0.22
Consensus pattern (8 bp):
TAAACTAA
Found at i:81641 original size:30 final size:30
Alignment explanation
Indices: 81601--81660 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
81591 ACCCTAAACC
* * *
81601 TAAACTCTAAACTAATAAACTAATAAACTA
1 TAAACCCTAAACTAACAAACTAACAAACTA
*
81631 TAAACCCTAAACTAACAAGCTAACAAACTA
1 TAAACCCTAAACTAACAAACTAACAAACTA
81661 ATTCTTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.55, C:0.22, G:0.02, T:0.22
Consensus pattern (30 bp):
TAAACCCTAAACTAACAAACTAACAAACTA
Found at i:82291 original size:31 final size:30
Alignment explanation
Indices: 82250--82320 Score: 117
Period size: 29 Copynumber: 2.4 Consensus size: 30
82240 GCGGGGCGTG
*
82250 CATGGTGACCTTTGCTTGGTCGTTTTGATTA
1 CATGGCGACC-TTGCTTGGTCGTTTTGATTA
82281 CATGGCGACC-TGCTTGGTCGTTTTGATTA
1 CATGGCGACCTTGCTTGGTCGTTTTGATTA
82310 CATGGCGACCT
1 CATGGCGACCT
82321 GTAAGATTAC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
29 29 0.76
31 9 0.24
ACGTcount: A:0.14, C:0.21, G:0.27, T:0.38
Consensus pattern (30 bp):
CATGGCGACCTTGCTTGGTCGTTTTGATTA
Found at i:82300 original size:29 final size:29
Alignment explanation
Indices: 82262--82321 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
82252 TGGTGACCTT
82262 TGCTTGGTCGTTTTGATTACATGGCGACC
1 TGCTTGGTCGTTTTGATTACATGGCGACC
82291 TGCTTGGTCGTTTTGATTACATGGCGACC
1 TGCTTGGTCGTTTTGATTACATGGCGACC
82320 TG
1 TG
82322 TAAGATTACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.13, C:0.20, G:0.28, T:0.38
Consensus pattern (29 bp):
TGCTTGGTCGTTTTGATTACATGGCGACC
Found at i:82633 original size:29 final size:29
Alignment explanation
Indices: 82596--82666 Score: 117
Period size: 29 Copynumber: 2.4 Consensus size: 29
82586 TATGGCATGA
*
82596 TTGCGTGGCGACCAACAATGGCGCA-CAGC
1 TTGCATGGCGACCAACAATGGCGCACCA-C
82625 TTGCATGGCGACCAACAATGGCGCACCAC
1 TTGCATGGCGACCAACAATGGCGCACCAC
82654 TTGCATGGCGACC
1 TTGCATGGCGACC
82667 TAAATAGGTC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 38 0.95
30 2 0.05
ACGTcount: A:0.24, C:0.32, G:0.28, T:0.15
Consensus pattern (29 bp):
TTGCATGGCGACCAACAATGGCGCACCAC
Found at i:82877 original size:29 final size:29
Alignment explanation
Indices: 82844--82909 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
82834 CATGACTGCG
82844 TGGCGACCAACAATGGCGCACAGCTTGCA
1 TGGCGACCAACAATGGCGCACAGCTTGCA
*
82873 TGGCGACCAACAATGGCGCACCGCTTGCA
1 TGGCGACCAACAATGGCGCACAGCTTGCA
82902 TGGCGACC
1 TGGCGACC
82910 TAAATAGGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.24, C:0.33, G:0.29, T:0.14
Consensus pattern (29 bp):
TGGCGACCAACAATGGCGCACAGCTTGCA
Found at i:82940 original size:243 final size:243
Alignment explanation
Indices: 82512--82998 Score: 911
Period size: 243 Copynumber: 2.0 Consensus size: 243
82502 AGCGCCACTT
82512 TAATATAATGCTCAAATAAAAACCTCATTTCCTCCCTGCACTAATCCCTTTGGACTAAGCAATAT
1 TAATATAATGCTCAAATAAAAACCTCATTTCCTCCCTGCACTAATCCCTTTGGACTAAGCAATAT
*
82577 CTAATAGAATATGGCATGATTGCGTGGCGACCAACAATGGCGCACAGCTTGCATGGCGACCAACA
66 CTAATAGAATATGGCATGACTGCGTGGCGACCAACAATGGCGCACAGCTTGCATGGCGACCAACA
82642 ATGGCGCACCACTTGCATGGCGACCTAAATAGGTCGTTTGAACCACCTGGCGACTAACACAATGA
131 ATGGCGCACCACTTGCATGGCGACCTAAATAGGTCGTTTGAACCACCTGGCGACTAACACAATGA
*
82707 CTGTAACAATCGCTCCATTTCAACAATTAATTCTTCGAGAGCAATATC
196 CTGTAACAATCGCCCCATTTCAACAATTAATTCTTCGAGAGCAATATC
*
82755 TAATATAATGCTCAAATGAAAACCTCATTTCCTCCCTGCACTAATCCCTTTGGACTAAGCAATAT
1 TAATATAATGCTCAAATAAAAACCTCATTTCCTCCCTGCACTAATCCCTTTGGACTAAGCAATAT
82820 CTAATAGAATATGGCATGACTGCGTGGCGACCAACAATGGCGCACAGCTTGCATGGCGACCAACA
66 CTAATAGAATATGGCATGACTGCGTGGCGACCAACAATGGCGCACAGCTTGCATGGCGACCAACA
* *
82885 ATGGCGCACCGCTTGCATGGCGACCTAAATAGGTCGTTTGGACCACCTGGCGACTAACACAATGA
131 ATGGCGCACCACTTGCATGGCGACCTAAATAGGTCGTTTGAACCACCTGGCGACTAACACAATGA
* *
82950 CTGTAGCAATCGCCCCATTTCAGCAATTAATTCTTCGAGAGCAATATC
196 CTGTAACAATCGCCCCATTTCAACAATTAATTCTTCGAGAGCAATATC
82998 T
1 T
82999 TGTGAATTTT
Statistics
Matches: 237, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
243 237 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (243 bp):
TAATATAATGCTCAAATAAAAACCTCATTTCCTCCCTGCACTAATCCCTTTGGACTAAGCAATAT
CTAATAGAATATGGCATGACTGCGTGGCGACCAACAATGGCGCACAGCTTGCATGGCGACCAACA
ATGGCGCACCACTTGCATGGCGACCTAAATAGGTCGTTTGAACCACCTGGCGACTAACACAATGA
CTGTAACAATCGCCCCATTTCAACAATTAATTCTTCGAGAGCAATATC
Found at i:90812 original size:19 final size:20
Alignment explanation
Indices: 90788--90825 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
90778 ACATTACCCG
90788 CCCCGCATCCGCCC-CCCCC
1 CCCCGCATCCGCCCACCCCC
90807 CCCCGCATCCGCCCACCCC
1 CCCCGCATCCGCCCACCCC
90826 ACATCCGCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.08, C:0.76, G:0.11, T:0.05
Consensus pattern (20 bp):
CCCCGCATCCGCCCACCCCC
Found at i:92086 original size:19 final size:19
Alignment explanation
Indices: 92062--92098 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
92052 TCGCGATGAC
92062 AAGGCGATCGACGACGACA
1 AAGGCGATCGACGACGACA
92081 AAGGCGATCGACGACGAC
1 AAGGCGATCGACGACGAC
92099 TGGTAATGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.27, G:0.32, T:0.05
Consensus pattern (19 bp):
AAGGCGATCGACGACGACA
Found at i:96450 original size:31 final size:31
Alignment explanation
Indices: 96412--96505 Score: 145
Period size: 31 Copynumber: 3.0 Consensus size: 31
96402 AGGGTCGAGG
*
96412 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
96443 GTTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
96474 GTTTACCTAGGTTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
96505 G
1 G
96506 GTCCTTTAGG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
31 57 0.98
32 1 0.02
ACGTcount: A:0.18, C:0.17, G:0.24, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:99407 original size:15 final size:15
Alignment explanation
Indices: 99387--99416 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99377 TTTACCAAAC
99387 TTTAAAAAAACATTT
1 TTTAAAAAAACATTT
*
99402 TTTAAAGAAACATTT
1 TTTAAAAAAACATTT
99417 ACCAAACTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (15 bp):
TTTAAAAAAACATTT
Found at i:103065 original size:36 final size:34
Alignment explanation
Indices: 103021--103090 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 34
103011 AGCATCTACC
*
103021 AAACTTTACCAAACTTTGAAAAATATTTTTCAAAG
1 AAACTTTACCAAACTTTGAAAAACA-TTTTCAAAG
*
103056 AAACATTTACCAAAGTTTGAAAAACATTTTCAAAG
1 AAAC-TTTACCAAACTTTGAAAAACATTTTCAAAG
103091 TTGGTTGCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 13 0.41
36 19 0.59
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.31
Consensus pattern (34 bp):
AAACTTTACCAAACTTTGAAAAACATTTTCAAAG
Found at i:108973 original size:13 final size:13
Alignment explanation
Indices: 108955--108996 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
108945 AAAAGAGAGA
108955 TGATATGAATAAG
1 TGATATGAATAAG
108968 TGATATGAATAAG
1 TGATATGAATAAG
*
108981 TGATATGAATATG
1 TGATATGAATAAG
108994 TGA
1 TGA
108997 ATATAAGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.24, T:0.33
Consensus pattern (13 bp):
TGATATGAATAAG
Found at i:109589 original size:31 final size:31
Alignment explanation
Indices: 109551--109705 Score: 149
Period size: 31 Copynumber: 5.0 Consensus size: 31
109541 GTCGAAGAAT
109551 TACCTATGTCTTTCGGGACATATGGACAGTA
1 TACCTATGTCTTTCGGGACATATGGACAGTA
*
109582 TACCTATGT-TTTACGGAACATATGGACA-TAA
1 TACCTATGTCTTT-CGGGACATATGGACAGT-A
*
109613 TTACCTATGTCTTTCGGGACATATGGACAATA
1 -TACCTATGTCTTTCGGGACATATGGACAGTA
* * * *
109645 TACCTA--TCTTCTAAGGAATATATGGACAGTT
1 TACCTATGTCTT-T-CGGGACATATGGACAGTA
* *
109676 TACCTAGGT-TCTTCGGGACCTATGGACAGT
1 TACCTATGTCT-TTCGGGACATATGGACAGT
109706 TGTCGAGGTT
Statistics
Matches: 103, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
29 4 0.04
30 5 0.05
31 62 0.60
32 26 0.25
33 6 0.06
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (31 bp):
TACCTATGTCTTTCGGGACATATGGACAGTA
Found at i:109626 original size:63 final size:64
Alignment explanation
Indices: 109548--109705 Score: 216
Period size: 63 Copynumber: 2.5 Consensus size: 64
109538 AGAGTCGAAG
* * *
109548 AATTACCTATGTCTTTCGGGACATATGGACAGTATACCTATGTTTTACGGAACATATGGACA-T
1 AATTACCTATGTCTTTCGGGACATATGGACAGTATACCTATCTTCTAAGGAACATATGGACAGT
* *
109611 AATTACCTATGTCTTTCGGGACATATGGACAATATACCTATCTTCTAAGGAATATATGGACAGT
1 AATTACCTATGTCTTTCGGGACATATGGACAGTATACCTATCTTCTAAGGAACATATGGACAGT
* *
109675 --TTACCTAGGT-TCTTCGGGACCTATGGACAGT
1 AATTACCTATGTCT-TTCGGGACATATGGACAGT
109706 TGTCGAGGTT
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
61 1 0.01
62 26 0.31
63 57 0.67
64 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (64 bp):
AATTACCTATGTCTTTCGGGACATATGGACAGTATACCTATCTTCTAAGGAACATATGGACAGT
Found at i:120464 original size:46 final size:45
Alignment explanation
Indices: 120397--120486 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 45
120387 AGAATCCCAG
* **
120397 AATCCTACATCATGTTGAAACTATAAAGAAACCAAAGAAGCCTAC
1 AATCCTACATCATATCAAAACTATAAAGAAACCAAAGAAGCCTAC
*
120442 AATCCTTACATCATATCAAAACTTTAAAGAAACCAAAGAAGCCTA
1 AATCC-TACATCATATCAAAACTATAAAGAAACCAAAGAAGCCTA
120487 TAGCGCTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 5 0.12
46 35 0.88
ACGTcount: A:0.48, C:0.22, G:0.09, T:0.21
Consensus pattern (45 bp):
AATCCTACATCATATCAAAACTATAAAGAAACCAAAGAAGCCTAC
Found at i:121988 original size:23 final size:23
Alignment explanation
Indices: 121958--122003 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
121948 GGTCGAGAAG
121958 TTGGAGTGAGCCTATACAAATGT
1 TTGGAGTGAGCCTATACAAATGT
121981 TTGGAGTGAGCCTATACAAATGT
1 TTGGAGTGAGCCTATACAAATGT
122004 ATTTCTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (23 bp):
TTGGAGTGAGCCTATACAAATGT
Found at i:122356 original size:31 final size:31
Alignment explanation
Indices: 122318--122393 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
122308 AAACGACCTA
* *
122318 TTTAGGTCGTCATGCAAGCGATGCGCCATTG
1 TTTAGGTCGCCATGCAAACGATGCGCCATTG
*
122349 TTTAGGTCGCCATGCAAACTATGCGCCATTG
1 TTTAGGTCGCCATGCAAACGATGCGCCATTG
122380 -TT-GGTCGCCATGCA
1 TTTAGGTCGCCATGCA
122394 GGCCATGTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
29 12 0.29
30 2 0.05
31 28 0.67
ACGTcount: A:0.20, C:0.25, G:0.26, T:0.29
Consensus pattern (31 bp):
TTTAGGTCGCCATGCAAACGATGCGCCATTG
Found at i:123760 original size:14 final size:14
Alignment explanation
Indices: 123738--123788 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
123728 TAGTAAGTTT
*
123738 AACCTTAAACCTTA
1 AACCCTAAACCTTA
*
123752 AACCCTAAACCATA
1 AACCCTAAACCTTA
* **
123766 GA-CCTAAATATTA
1 AACCCTAAACCTTA
123779 AACCCTAAAC
1 AACCCTAAAC
123789 TCTAAAATAT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
13 9 0.32
14 19 0.68
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (14 bp):
AACCCTAAACCTTA
Found at i:124362 original size:2 final size:2
Alignment explanation
Indices: 124355--124385 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
124345 TTGAATTTGG
124355 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
124386 CAAAATAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:125621 original size:39 final size:37
Alignment explanation
Indices: 125552--125648 Score: 94
Period size: 37 Copynumber: 2.6 Consensus size: 37
125542 ATTTATATTA
* * *
125552 TTTAAAAAATTTAGTTAATTA---ATTTAAGTTATGT
1 TTTAAAAAAATTAGTTTATTAGTTATTTAAGTTATAT
*
125586 TATAATAAAAAAA-TAGTTTATTAGTTATTTCAGTTATAT
1 T-T--TAAAAAAATTAGTTTATTAGTTATTTAAGTTATAT
*
125625 TTTAAAAAAATTAGTTTGTTAGTT
1 TTTAAAAAAATTAGTTTATTAGTT
125649 TATTAGTTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
34 1 0.02
35 1 0.02
36 17 0.33
37 19 0.37
38 1 0.02
39 12 0.24
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.48
Consensus pattern (37 bp):
TTTAAAAAAATTAGTTTATTAGTTATTTAAGTTATAT
Found at i:125679 original size:21 final size:22
Alignment explanation
Indices: 125646--125692 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
125636 TAGTTTGTTA
* *
125646 GTTTATTAGTTTAGGGTTTAGG
1 GTTTATTAATTTAGAGTTTAGG
125668 GTTTA-TAATTTAGAGTTTAGG
1 GTTTATTAATTTAGAGTTTAGG
125689 GTTT
1 GTTT
125693 TAGGTTTCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (22 bp):
GTTTATTAATTTAGAGTTTAGG
Found at i:125897 original size:34 final size:38
Alignment explanation
Indices: 125834--125914 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 38
125824 AATTAGTTAA
125834 TTAGTTTAAGTTATATTATAATAAAAATAGT-TCATTAG
1 TTAGTTTAAGTTATATTATAATAAAAATAGTGT-ATTAG
*
125872 TTAGTTTAAG-T-TA-TATAA-AAGAATAGTGTATTAG
1 TTAGTTTAAGTTATATTATAATAAAAATAGTGTATTAG
125906 TT-GTTTAAG
1 TTAGTTTAAG
125915 GGGAAAATTC
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
33 7 0.17
34 15 0.37
35 6 0.15
36 2 0.05
37 1 0.02
38 10 0.24
ACGTcount: A:0.40, C:0.01, G:0.15, T:0.44
Consensus pattern (38 bp):
TTAGTTTAAGTTATATTATAATAAAAATAGTGTATTAG
Found at i:125978 original size:14 final size:14
Alignment explanation
Indices: 125959--126027 Score: 63
Period size: 14 Copynumber: 5.0 Consensus size: 14
125949 TATAGTTTGT
125959 TAGTTTAGGGTTTA
1 TAGTTTAGGGTTTA
125973 TAGTTTA-GGTTTA
1 TAGTTTAGGGTTTA
* *
125986 TAGTTTATGATTTA
1 TAGTTTAGGGTTTA
*
126000 -AGGTTTAGTGTTTA
1 TA-GTTTAGGGTTTA
*
126014 GTA-TTTAGTGTTTA
1 -TAGTTTAGGGTTTA
126028 GGATTTAAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
13 14 0.30
14 32 0.68
16 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (14 bp):
TAGTTTAGGGTTTA
Found at i:126019 original size:21 final size:19
Alignment explanation
Indices: 125961--126028 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 19
125951 TAGTTTGTTA
*
125961 GTTTAGGGTTTATAGTTTAG
1 GTTTAGTGTTTATA-TTTAG
125981 GTTTA-TAGTTTATGATTTAAG
1 GTTTAGT-GTTTAT-ATTT-AG
126002 GTTTAGTGTTTAGTATTTAG
1 GTTTAGTGTTTA-TATTTAG
126022 TGTTTAG
1 -GTTTAG
126029 GATTTAAGGT
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
20 16 0.39
21 23 0.56
22 2 0.05
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (19 bp):
GTTTAGTGTTTATATTTAG
Found at i:126040 original size:14 final size:14
Alignment explanation
Indices: 126003--126034 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
125993 TGATTTAAGG
*
126003 TTTAGTGTTTAGTA
1 TTTAGTGTTTAGGA
126017 TTTAGTGTTTAGGA
1 TTTAGTGTTTAGGA
126031 TTTA
1 TTTA
126035 AGGTTTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (14 bp):
TTTAGTGTTTAGGA
Found at i:126210 original size:7 final size:7
Alignment explanation
Indices: 126068--126210 Score: 56
Period size: 7 Copynumber: 20.6 Consensus size: 7
126058 TGCATATACT
126068 ATAAACC
1 ATAAACC
*
126075 TTAAACC
1 ATAAACC
*
126082 CTAAACC
1 ATAAACC
*
126089 AT-AATC
1 ATAAACC
* *
126095 TTAAATC
1 ATAAACC
*
126102 ATAAACT
1 ATAAACC
126109 ATAAACC
1 ATAAACC
* ***
126116 TTAGTTC
1 ATAAACC
126123 ATAAACC
1 ATAAACC
*
126130 CTAAACC
1 ATAAACC
* *
126137 AAAAACT
1 ATAAACC
126144 ATAAACC
1 ATAAACC
* *
126151 CTAAACA
1 ATAAACC
126158 ATAAACC
1 ATAAACC
* *
126165 TTAAA-T
1 ATAAACC
*
126171 ACTAGACC
1 A-TAAACC
* *
126179 TTAGACC
1 ATAAACC
*
126186 CTAAACC
1 ATAAACC
*
126193 CTAAACC
1 ATAAACC
*
126200 ATAAACT
1 ATAAACC
126207 ATAA
1 ATAA
126211 TTTAGTTTGT
Statistics
Matches: 96, Mismatches: 37, Indels: 6
0.69 0.27 0.04
Matches are distributed among these distances:
6 4 0.04
7 92 0.96
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (7 bp):
ATAAACC
Found at i:126235 original size:7 final size:7
Alignment explanation
Indices: 126223--126338 Score: 63
Period size: 7 Copynumber: 16.7 Consensus size: 7
126213 TAGTTTGTTA
126223 GTTTAGG
1 GTTTAGG
126230 GTTTAGG
1 GTTTAGG
**
126237 GTTTATA
1 GTTTAGG
*
126244 ATTTAGG
1 GTTTAGG
* *
126251 ATTTAAG
1 GTTTAGG
**
126258 GTTTATT
1 GTTTAGG
126265 GTTTAGG
1 GTTTAGG
**
126272 GTTTATA
1 GTTTAGG
126279 GTTTAGG
1 GTTTAGG
*
126286 GTTTATG
1 GTTTAGG
* *
126293 GTATAAG
1 GTTTAGG
* **
126300 ATTTATA
1 GTTTAGG
*
126307 GTTTATG
1 GTTTAGG
* *
126314 ATTTAAG
1 GTTTAGG
126321 G-TTAGG
1 GTTTAGG
126327 GTTTAGG
1 GTTTAGG
126334 GTTTA
1 GTTTA
126339 TAGTATATGT
Statistics
Matches: 80, Mismatches: 28, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
6 5 0.06
7 75 0.94
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (7 bp):
GTTTAGG
Found at i:126282 original size:21 final size:21
Alignment explanation
Indices: 126221--126342 Score: 77
Period size: 21 Copynumber: 5.9 Consensus size: 21
126211 TTTAGTTTGT
**
126221 TAGTTTAGGGTTTAGGGTTTA
1 TAGTTTAGGGTTTATAGTTTA
* * **
126242 TAATTTAGGATTTAAGGTTTA
1 TAGTTTAGGGTTTATAGTTTA
*
126263 TTGTTTAGGGTTTATAGTTTA
1 TAGTTTAGGGTTTATAGTTTA
** * *
126284 GGGTTTATGGTATA-AGATTTA
1 TAGTTTAGGGTTTATAG-TTTA
* * *
126305 TAGTTTATGATTTA-AGGTTA
1 TAGTTTAGGGTTTATAGTTTA
**
126325 GGGTTTAGGGTTTATAGT
1 TAGTTTAGGGTTTATAGT
126343 ATATGTAACA
Statistics
Matches: 77, Mismatches: 22, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
20 15 0.19
21 62 0.81
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (21 bp):
TAGTTTAGGGTTTATAGTTTA
Found at i:126283 original size:28 final size:28
Alignment explanation
Indices: 126252--126311 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
126242 TAATTTAGGA
* * * *
126252 TTTAAGGTTTATTGTTTAGGGTTTATAG
1 TTTAAGGTTTATGGTATAAGATTTATAG
*
126280 TTTAGGGTTTATGGTATAAGATTTATAG
1 TTTAAGGTTTATGGTATAAGATTTATAG
126308 TTTA
1 TTTA
126312 TGATTTAAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.52
Consensus pattern (28 bp):
TTTAAGGTTTATGGTATAAGATTTATAG
Found at i:126389 original size:21 final size:20
Alignment explanation
Indices: 126364--126427 Score: 74
Period size: 21 Copynumber: 3.1 Consensus size: 20
126354 GAGTGGAAAC
126364 CTTAAACCCTAAACACTAAA
1 CTTAAACCCTAAACACTAAA
* *
126384 CATTAAACCATAAAGACTAAA
1 C-TTAAACCCTAAACACTAAA
* *
126405 CTATAAATCCTAAACCCTAAA
1 CT-TAAACCCTAAACACTAAA
126426 CT
1 CT
126428 AACAAACTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 2 0.06
21 34 0.94
ACGTcount: A:0.50, C:0.27, G:0.02, T:0.22
Consensus pattern (20 bp):
CTTAAACCCTAAACACTAAA
Found at i:126472 original size:35 final size:36
Alignment explanation
Indices: 126431--126517 Score: 101
Period size: 35 Copynumber: 2.5 Consensus size: 36
126421 CTAAACTAAC
*
126431 AAACTAACAAACTAATTCTTTTA-TATAACT-TAAATT
1 AAACTAATAAACTAATT-TTTTATTATAA-TATAAATT
* *
126467 -AACTAATAAACT-GTTTTTTATTATAATATAACTT
1 AAACTAATAAACTAATTTTTTATTATAATATAAATT
126501 AAACTAATAAACTAATT
1 AAACTAATAAACTAATT
126518 AACTAAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 6 0.14
34 12 0.28
35 23 0.53
36 2 0.05
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.40
Consensus pattern (36 bp):
AAACTAATAAACTAATTTTTTATTATAATATAAATT
Found at i:126652 original size:7 final size:7
Alignment explanation
Indices: 126640--126664 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
126630 ATAAACTTGG
126640 AAACCCT
1 AAACCCT
126647 AAACCCT
1 AAACCCT
126654 AAACCCT
1 AAACCCT
126661 AAAC
1 AAAC
126665 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.40, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:126671 original size:22 final size:22
Alignment explanation
Indices: 126646--126689 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
126636 TTGGAAACCC
*
126646 TAAACCCTAAACCCTAAACTAA
1 TAAACCATAAACCCTAAACTAA
*
126668 TAAACTATAAACCCTAAACTAA
1 TAAACCATAAACCCTAAACTAA
126690 CAAGCTAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAACCATAAACCCTAAACTAA
Found at i:126750 original size:35 final size:38
Alignment explanation
Indices: 126694--126766 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 38
126684 AACTAACAAG
126694 CTAACAAACTAATTC-TTT-T-ATATAACTTAAACTAA
1 CTAACAAACTAATTCTTTTATAATATAACTTAAACTAA
* *
126729 CTAATAAACT-ATTTTTATTATAATATAACTTAAACTAA
1 CTAACAAACTAATTCTT-TTATAATATAACTTAAACTAA
126767 TAAACTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
34 3 0.09
35 10 0.31
36 2 0.06
37 1 0.03
38 16 0.50
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (38 bp):
CTAACAAACTAATTCTTTTATAATATAACTTAAACTAA
Found at i:126827 original size:42 final size:45
Alignment explanation
Indices: 126722--126814 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 45
126712 TATATAACTT
* * * *
126722 AAACTAACTAA-TAAACTATTTTTATTATAATATAACTTAAACTAAT
1 AAACTAATTAACTAAA-T-TTTTTATTATAATATAAATTAAACAAAC
*
126768 AAACTAATTAACTAAATTTTTTA-TATAATATAAATTCAACAAAC
1 AAACTAATTAACTAAATTTTTTATTATAATATAAATTAAACAAAC
126812 AAA
1 AAA
126815 TATAACTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
44 20 0.49
45 6 0.15
46 11 0.27
47 4 0.10
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (45 bp):
AAACTAATTAACTAAATTTTTTATTATAATATAAATTAAACAAAC
Found at i:126943 original size:2 final size:2
Alignment explanation
Indices: 126936--126987 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
126926 TTAGAATTTA
126936 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
126978 AT AT AT AT AT
1 AT AT AT AT AT
126988 TTGTATAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127376 original size:29 final size:29
Alignment explanation
Indices: 127328--127400 Score: 119
Period size: 29 Copynumber: 2.4 Consensus size: 29
127318 GCGGGCCGTG
127328 CATGGCGACCTTTGCTTGGTCGTTTTGATTA
1 CATGGCGACC--TGCTTGGTCGTTTTGATTA
*
127359 CATGGCGATCTGCTTGGTCGTTTTGATTA
1 CATGGCGACCTGCTTGGTCGTTTTGATTA
127388 CATGGCGACCTGC
1 CATGGCGACCTGC
127401 AAGATTACTG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 31 0.77
31 9 0.22
ACGTcount: A:0.14, C:0.22, G:0.27, T:0.37
Consensus pattern (29 bp):
CATGGCGACCTGCTTGGTCGTTTTGATTA
Found at i:127713 original size:29 final size:29
Alignment explanation
Indices: 127680--127745 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
127670 CATGACTGCG
*
127680 TGGCGACCAATAATGGCGCACAGCTTGCA
1 TGGCGACCAACAATGGCGCACAGCTTGCA
*
127709 TGGCGACCAACAATGGCGCACCGCTTGCA
1 TGGCGACCAACAATGGCGCACAGCTTGCA
127738 TGGCGACC
1 TGGCGACC
127746 TAAATAGGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.24, C:0.32, G:0.29, T:0.15
Consensus pattern (29 bp):
TGGCGACCAACAATGGCGCACAGCTTGCA
Found at i:127955 original size:29 final size:29
Alignment explanation
Indices: 127922--127987 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
127912 CATGACTGCG
* *
127922 TGGCGACCAACAATGGCGCACAGCTTGCA
1 TGGCGACCAACAATAGCACACAGCTTGCA
*
127951 TGGCGACCAACAATAGCACACCGCTTGCA
1 TGGCGACCAACAATAGCACACAGCTTGCA
127980 TGGCGACC
1 TGGCGACC
127988 TAAATAGGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.27, C:0.33, G:0.26, T:0.14
Consensus pattern (29 bp):
TGGCGACCAACAATAGCACACAGCTTGCA
Found at i:128040 original size:242 final size:243
Alignment explanation
Indices: 127591--128076 Score: 877
Period size: 242 Copynumber: 2.0 Consensus size: 243
127581 AGCGCCACTT
127591 TAATATAATGCTCAAATAAAAACCTCATTTCCTCCCTGCACTAATCCCTTTGGACTAAGCAATAT
1 TAATATAATGCTCAAATAAAAACCTCATTTCCTCCCTGCACTAATCCCTTTGGACTAAGCAATAT
*
127656 CTAATAGAATATGGCATGACTGCGTGGCGACCAATAATGGCGCACAGCTTGCATGGCGACCAACA
66 CTAATAGAATATGGCATGACTGCGTGGCGACCAACAATGGCGCACAGCTTGCATGGCGACCAACA
* *
127721 ATGGCGCACCGCTTGCATGGCGACCTAAATAGGTCGTTTGAACCACATGGCGACTAACACAATGA
131 ATAGCACACCGCTTGCATGGCGACCTAAATAGGTCGTTTGAACCACATGGCGACTAACACAATGA
127786 CTGTAACAATCGCCCCATTTCAACAATTAATTCTTCGAGAGCAATATC
196 CTGTAACAATCGCCCCATTTCAACAATTAATTCTTCGAGAGCAATATC
* *
127834 TAATATAATGCTCAAAT-GATACCTCATTTCCTCCCTGCACTAATCCCTTTGGACTAAGCAATAT
1 TAATATAATGCTCAAATAAAAACCTCATTTCCTCCCTGCACTAATCCCTTTGGACTAAGCAATAT
127898 CTAATAGAATATGGCATGACTGCGTGGCGACCAACAATGGCGCACAGCTTGCATGGCGACCAACA
66 CTAATAGAATATGGCATGACTGCGTGGCGACCAACAATGGCGCACAGCTTGCATGGCGACCAACA
*
127963 ATAGCACACCGCTTGCATGGCGACCTAAATAGGTCGTTTGGACCATC-TGGCGACTAACACAATG
131 ATAGCACACCGCTTGCATGGCGACCTAAATAGGTCGTTTGAACCA-CATGGCGACTAACACAATG
* *
128027 ACTGTAGCAATCGCCCCATTTCAGCAATTAATTCTTCGAGAGCAATATC
195 ACTGTAACAATCGCCCCATTTCAACAATTAATTCTTCGAGAGCAATATC
128076 T
1 T
128077 TGTGAATTTT
Statistics
Matches: 234, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
242 216 0.92
243 18 0.08
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (243 bp):
TAATATAATGCTCAAATAAAAACCTCATTTCCTCCCTGCACTAATCCCTTTGGACTAAGCAATAT
CTAATAGAATATGGCATGACTGCGTGGCGACCAACAATGGCGCACAGCTTGCATGGCGACCAACA
ATAGCACACCGCTTGCATGGCGACCTAAATAGGTCGTTTGAACCACATGGCGACTAACACAATGA
CTGTAACAATCGCCCCATTTCAACAATTAATTCTTCGAGAGCAATATC
Found at i:143054 original size:46 final size:46
Alignment explanation
Indices: 142987--143115 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 46
142977 TCTTCGCTTT
142987 TTTGTAAAGGAGAGTGAAGATGTATTTAATGGGAAG-TATGGGGGGG
1 TTTGTAAAGGAGAGTGAAGATGTATTTAATGGGAAGAT-TGGGGGGG
*
143033 TTTGTAAAGGAGAGTGAAGATGTATTTAATGGGAAAGATTGGGGGGT
1 TTTGTAAAGGAGAGTGAAGATGTATTTAATGGG-AAGATTGGGGGGG
143080 TTTGTAAAAGGAGAGTGAAGATGTATTTAATGGGAA
1 TTTGT-AAAGGAGAGTGAAGATGTATTTAATGGGAA
143116 ATATCGAGGG
Statistics
Matches: 79, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
46 33 0.42
47 17 0.22
48 29 0.37
ACGTcount: A:0.33, C:0.00, G:0.37, T:0.29
Consensus pattern (46 bp):
TTTGTAAAGGAGAGTGAAGATGTATTTAATGGGAAGATTGGGGGGG
Found at i:143097 original size:48 final size:47
Alignment explanation
Indices: 142986--143137 Score: 227
Period size: 48 Copynumber: 3.2 Consensus size: 47
142976 ATCTTCGCTT
142986 TTTTGTAAAGGAGAGTGAAGATGTATTTAATGGG-AAG-TATGGGGGG
1 TTTTGTAAAGGAGAGTGAAGATGTATTTAATGGGAAAGAT-TGGGGGG
*
143032 GTTTGTAAAGGAGAGTGAAGATGTATTTAATGGGAAAGATTGGGGGG
1 TTTTGTAAAGGAGAGTGAAGATGTATTTAATGGGAAAGATTGGGGGG
* * * *
143079 TTTTGTAAAAGGAGAGTGAAGATGTATTTAATGGGAAATATCGAGGGA
1 TTTTGT-AAAGGAGAGTGAAGATGTATTTAATGGGAAAGATTGGGGGG
143127 TTTTGTAAAGG
1 TTTTGTAAAGG
143138 GTTGTAGGAA
Statistics
Matches: 97, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
46 33 0.34
47 20 0.21
48 44 0.45
ACGTcount: A:0.33, C:0.01, G:0.36, T:0.30
Consensus pattern (47 bp):
TTTTGTAAAGGAGAGTGAAGATGTATTTAATGGGAAAGATTGGGGGG
Found at i:143266 original size:17 final size:17
Alignment explanation
Indices: 143236--143268 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
143226 GGCTGGTAAC
143236 GGAGGGTAGCAGGTGAA
1 GGAGGGTAGCAGGTGAA
143253 GGAGAGGTAG-AGGTGA
1 GGAG-GGTAGCAGGTGA
143269 GAGAAAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.30, C:0.03, G:0.55, T:0.12
Consensus pattern (17 bp):
GGAGGGTAGCAGGTGAA
Found at i:148655 original size:46 final size:46
Alignment explanation
Indices: 148565--148688 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 46
148555 GCTATACTCT
* * * **
148565 AAACTTTAAAGAAACCGTAGAATAGAAGCCCAGAATCCCTACATCATGTTG
1 AAACTTTAAAGAAACC----AA-AGAAGCCTACAATCCCTACATCATATCA
*
148616 AAACTTTAAAGAAACCAAAGAAGCCTACAATCCTTACATCATATCA
1 AAACTTTAAAGAAACCAAAGAAGCCTACAATCCCTACATCATATCA
*
148662 AAACTTTAAAGAAACCGAAGAAGCCTA
1 AAACTTTAAAGAAACCAAAGAAGCCTA
148689 TAGCGCTTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 48 0.73
47 2 0.03
51 16 0.24
ACGTcount: A:0.46, C:0.22, G:0.12, T:0.20
Consensus pattern (46 bp):
AAACTTTAAAGAAACCAAAGAAGCCTACAATCCCTACATCATATCA
Found at i:159956 original size:19 final size:19
Alignment explanation
Indices: 159932--159980 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
159922 TAAAAAAAAT
* *
159932 AAGAAAATAAAAGAAGTAA
1 AAGAAAATAAAACAAGAAA
*
159951 AAGAAAAATTAAACAAGAAA
1 AAG-AAAATAAAACAAGAAA
*
159971 AAAAAAATAA
1 AAGAAAATAA
159981 CGTAACGAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (19 bp):
AAGAAAATAAAACAAGAAA
Found at i:159972 original size:20 final size:19
Alignment explanation
Indices: 159935--159980 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
159925 AAAAAATAAG
* *
159935 AAAATAAAAGAAGTAAAAGA
1 AAAATAAAACAAG-AAAAAA
*
159955 AAAATTAAACAAGAAAAAA
1 AAAATAAAACAAGAAAAAA
159974 AAAATAA
1 AAAATAA
159981 CGTAACGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (19 bp):
AAAATAAAACAAGAAAAAA
Found at i:160867 original size:35 final size:35
Alignment explanation
Indices: 160822--160893 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
160812 TAAAAAAACC
*
160822 CTATTTTAGACTAGTATTTAAGTCATAATCCAACT
1 CTATTCTAGACTAGTATTTAAGTCATAATCCAACT
* *
160857 CTATTCTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTCTAGACTAGTATTTAAGTCATAATCCAACT
160892 CT
1 CT
160894 TTTTTGTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.39
Consensus pattern (35 bp):
CTATTCTAGACTAGTATTTAAGTCATAATCCAACT
Found at i:161792 original size:109 final size:109
Alignment explanation
Indices: 161351--161781 Score: 772
Period size: 109 Copynumber: 4.0 Consensus size: 109
161341 ATACAAGTCA
* * *
161351 AAATCGACTCTGAAATTGGGAAGTTGTTTGTTGAGAACCAACCGTCCCTTCGTTGTGAAGTTGAA
1 AAATCGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAATCGTCCCTTCGTTGTGAAGTTGAA
161416 CTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGGAGTTG
66 CTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGGAGTTG
*
161460 AAATCGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAA
1 AAATCGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAATCGTCCCTTCGTTGTGAAGTTGAA
161525 CTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGGAGTTG
66 CTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGGAGTTG
*
161569 AAATCGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAATCGTCCATTCGTTGTGAAGTTGAA
1 AAATCGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAATCGTCCCTTCGTTGTGAAGTTGAA
* *
161634 CTTGTGTTGTCTCGGGTATCACGATATCCTCCGTCATGGAGTTG
66 CTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGGAGTTG
* * *
161678 AAATCGGCTCTGAAATTGGGAAGTTGTTTGTTGACAATCAGTTGTCCCTTCGTTGTGAAGTTGAA
1 AAATCGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAATCGTCCCTTCGTTGTGAAGTTGAA
161743 CTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGG
66 CTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGG
161782 GTTTAAAATC
Statistics
Matches: 308, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
109 308 1.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.33
Consensus pattern (109 bp):
AAATCGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAATCGTCCCTTCGTTGTGAAGTTGAA
CTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGGAGTTG
Found at i:170325 original size:2 final size:2
Alignment explanation
Indices: 170318--170350 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
170308 AGTTATATGA
170318 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
170351 ACAATTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:170474 original size:2 final size:2
Alignment explanation
Indices: 170467--170497 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
170457 ATTAAAGTAA
*
170467 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
170498 AATAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:170514 original size:22 final size:23
Alignment explanation
Indices: 170489--170532 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
170479 ATATATATAT
*
170489 GTATATAT-AAATAAAAAATAAA
1 GTATAAATGAAATAAAAAATAAA
170511 GTATAAATGAAATAAAAAATAA
1 GTATAAATGAAATAAAAAATAA
170533 TAATAATGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (23 bp):
GTATAAATGAAATAAAAAATAAA
Found at i:170538 original size:22 final size:22
Alignment explanation
Indices: 170497--170546 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
170487 ATGTATATAT
170497 AAATAAAAAATAAAGTATAAAT-G
1 AAATAAAAAATAAAG-AT-AATGG
170520 AAATAAAAAATAATA-ATAATGG
1 AAATAAAAAATAA-AGATAATGG
170542 AAATA
1 AAATA
170547 TAAGTAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
23 13 0.52
24 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (22 bp):
AAATAAAAAATAAAGATAATGG
Found at i:171048 original size:35 final size:35
Alignment explanation
Indices: 171009--171080 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
170999 CTAAAAAACC
*
171009 CTATTTTAGACGAGTATTTGAGTCCTAATCCAACT
1 CTATTCTAGACGAGTATTTGAGTCCTAATCCAACT
**
171044 CTATTCTAGATTAGTATTTGAGTCCTAATCCAACT
1 CTATTCTAGACGAGTATTTGAGTCCTAATCCAACT
171079 CT
1 CT
171081 TCTTTGTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (35 bp):
CTATTCTAGACGAGTATTTGAGTCCTAATCCAACT
Found at i:180022 original size:27 final size:27
Alignment explanation
Indices: 179984--180046 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
179974 ACTGAAATGT
*
179984 GATTGCTTTATTAGTTTGCAATCATTC
1 GATTGTTTTATTAGTTTGCAATCATTC
180011 GATTGTTTTATTAGTTTGCAATCATTC
1 GATTGTTTTATTAGTTTGCAATCATTC
180038 GATTGTTTT
1 GATTGTTTT
180047 GTAATTAGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.52
Consensus pattern (27 bp):
GATTGTTTTATTAGTTTGCAATCATTC
Found at i:181483 original size:138 final size:138
Alignment explanation
Indices: 181234--181483 Score: 326
Period size: 138 Copynumber: 1.8 Consensus size: 138
181224 AATCTCAAAA
* ** *
181234 ACATCGAAATCCATAATTACAATGTAATAGGTAAATTTACAATGTACCCGATAGAAATATACCAG
1 ACATCGAAATCCATAATTACAATATAATACATAAATTTACAATGTAACCGATAGAAATATACCAG
* * **
181299 TTTTATGAGAAAATAGGTAAACATATGTGTCGATACATTTTCTAAAAGTATCGAATGTATCGACA
66 TTTTATGAGAAAATAGGTAAACATATGTATCGACACAAATTCTAAAAGTATCGAATGTATCGACA
181364 CATATGTT
131 CATATGTT
* * * *
181372 ACATCGAAA-CCGATAATTATAATATAATACATAAATTTACAATGTAACCGGTATAAATATA-CT
1 ACATCGAAATCC-ATAATTACAATATAATACATAAATTTACAATGTAACCGATAGAAATATACCA
* *
181435 GATTTTATGAGATAATAGGTCAACATAATGTATCGACACAAATT-TAAAA
65 G-TTTTATGAGAAAATAGGTAAACAT-ATGTATCGACACAAATTCTAAAA
181484 AGTGTCGATA
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
137 4 0.04
138 78 0.82
139 13 0.14
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (138 bp):
ACATCGAAATCCATAATTACAATATAATACATAAATTTACAATGTAACCGATAGAAATATACCAG
TTTTATGAGAAAATAGGTAAACATATGTATCGACACAAATTCTAAAAGTATCGAATGTATCGACA
CATATGTT
Found at i:181573 original size:338 final size:329
Alignment explanation
Indices: 180958--181670 Score: 1075
Period size: 338 Copynumber: 2.1 Consensus size: 329
180948 AGTAATAGGT
* * * *
180958 AAAATATAACAGTTTAATGAGAGAATAGGTAAATATATGTGTCGATACATTTTCTAAAAGTATCG
1 AAAATATACCAGTTTTATGAGAAAATAGGTAAACATATGTGTCGATACATTTTCTAAAAGTATCG
* **
181023 ACACATATGTTACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATATAACCGGTAT
66 ACACATATGTTACATCGAAACCGATAATTATAATATAATACATAAATTTACAATATAACCGGTAT
*
181088 AAATATACCGGTTTTATAAGAGAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCG
131 AAATATACCGATTTTATAAGAGAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCG
*
181153 ATACATTTTGTCCAGAATGAATGTCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAA
196 ATACATTTTGTCCAGAATGAATGCCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAA
* * * *
181218 AGTATCAATCTCAAAAACATCGAAATCCATAATTACAATGTAATAGGTAAATTTACAATGTACCC
261 AATATCAATCCCAAAAACATCGAAAACCATAATTACAATGTAATAGGTAAATTTACAATATACCC
181283 GATA
326 GATA
*
181287 GAAATATACCAGTTTTATGAGAAAATAGGTAAACATATGTGTCGATACATTTTCTAAAAGTATCG
1 AAAATATACCAGTTTTATGAGAAAATAGGTAAACATATGTGTCGATACATTTTCT---A--A---
*
181352 AATGTATCGACACATATGTTACATCGAAACCGATAATTATAATATAATACATAAATTTACAATGT
58 AA-GTATCGACACATATGTTACATCGAAACCGATAATTATAATATAATACATAAATTTACAATAT
* * *
181417 AACCGGTATAAATATACTGATTTTATGAGATAATAGGTCAACATAATGTATCGACACAAATTTAA
122 AACCGGTATAAATATACCGATTTTATAAGAGAATAGGTCAACATAATGTATCGACACAAATTTAA
*
181482 AAAGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGATGTGCACGCATAAAGTGTCGATACA
187 AAAGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGAGGTGCACGCATAAAGTGTCGATACA
** * *
181547 TTTATTAAAAATATTGATCCCAAAAACATCGAAAACGATAATTACAATGTAATATGTAAATTTAC
252 TTTATTAAAAATATCAATCCCAAAAACATCGAAAACCATAATTACAATGTAATAGGTAAATTTAC
* * *
181612 AATATATCTGGTA
317 AATATACCCGATA
* * *
181625 AAAATATACCAATTTTATGAGAAAATAGGTATACATAATGTATCGA
1 AAAATATACCAGTTTTATGAGAAAATAGGTAAACAT-ATGTGTCGA
181671 CACGTTTTAA
Statistics
Matches: 344, Mismatches: 30, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
329 50 0.15
332 1 0.00
334 1 0.00
337 2 0.01
338 282 0.82
339 8 0.02
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.30
Consensus pattern (329 bp):
AAAATATACCAGTTTTATGAGAAAATAGGTAAACATATGTGTCGATACATTTTCTAAAAGTATCG
ACACATATGTTACATCGAAACCGATAATTATAATATAATACATAAATTTACAATATAACCGGTAT
AAATATACCGATTTTATAAGAGAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCG
ATACATTTTGTCCAGAATGAATGCCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAA
AATATCAATCCCAAAAACATCGAAAACCATAATTACAATGTAATAGGTAAATTTACAATATACCC
GATA
Found at i:181830 original size:198 final size:199
Alignment explanation
Indices: 181372--181831 Score: 588
Period size: 200 Copynumber: 2.3 Consensus size: 199
181362 CACATATGTT
* * * **
181372 ACATCGAAACCGATAATTATAATATAATACATAAATTTACAATGTAACCGGTATAAATATACTGA
1 ACATCGAAACCGATAATTATAATGTAATACGTAAATTTACAATGTTACCGGTATAAATATACCAA
* *
181437 TTTTATGAGATAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCGATACATTTTGT
66 TTTTATGAGAAAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCAATACATTTTGT
* * * *
181502 CCAGAATGAATGCCAAACGATGTGCACGCATAAAGTGTCGATACATTTATTAAAAATATTGATCC
131 CCAGAATGAATGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTA-TAAAAATATCGAACC
181567 CAAAA
195 CAAAA
* * * * * *
181572 ACATCGAAAACGATAATTACAATGTAATATGTAAATTTACAAT-ATATCTGGTAAAAATATACCA
1 ACATCGAAACCGATAATTATAATGTAATACGTAAATTTACAATGTTA-CCGGTATAAATATACCA
** ***
181636 ATTTTATGAGAAAATAGGT-ATACATAATGTATCGACAC-GTTTTAAGTTTGTGTCAATAC-TTT
65 ATTTTATGAGAAAATAGGTCA-ACATAATGTATCGACACAAATTTAA-AAAGTGTCAATACATTT
* * **
181698 TTTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTA-AAATTGTATCGA
128 TGTCCAGAATGAATGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTATAAA-AATATCGA
181762 ACCCAAAA
192 ACCCAAAA
* *
181770 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTTACCGATATAAATATAC
1 ACATCGAAACCGATAATTATAATGTAATACGTAAATTTACAATGTTACCGGTATAAATATAC
181832 TGGTTTAGTT
Statistics
Matches: 222, Mismatches: 33, Indels: 12
0.83 0.12 0.04
Matches are distributed among these distances:
197 3 0.01
198 64 0.29
199 60 0.27
200 95 0.43
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.30
Consensus pattern (199 bp):
ACATCGAAACCGATAATTATAATGTAATACGTAAATTTACAATGTTACCGGTATAAATATACCAA
TTTTATGAGAAAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCAATACATTTTGT
CCAGAATGAATGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTATAAAAATATCGAACCC
AAAA
Found at i:181958 original size:87 final size:87
Alignment explanation
Indices: 181855--182017 Score: 272
Period size: 87 Copynumber: 1.9 Consensus size: 87
181845 AAATAAGTCA
* * *
181855 ATATAAACATTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAACACTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTAATAATATTT
* *
181920 TCGGTTAAATGCCTATTTTATT
66 CCGATTAAATGCCTATTTTATT
*
181942 ATATAAACGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTAATAATATTT
1 ATATAAACACTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTAATAATATTT
182007 CCGATTAAATG
66 CCGATTAAATG
182018 ATATAACATA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.41
Consensus pattern (87 bp):
ATATAAACACTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTAATAATATTT
CCGATTAAATGCCTATTTTATT
Found at i:181989 original size:23 final size:23
Alignment explanation
Indices: 181939--181983 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
181929 TGCCTATTTT
*
181939 ATTATATAAACGCTACCTATTAC
1 ATTATATAAACGCTACCTAATAC
181962 ATTATATAAACGCTACCTAATA
1 ATTATATAAACGCTACCTAATA
181984 TGTTATTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.20, G:0.04, T:0.33
Consensus pattern (23 bp):
ATTATATAAACGCTACCTAATAC
Found at i:183650 original size:36 final size:36
Alignment explanation
Indices: 183578--183650 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
183568 AGGGAGCTTG
*
183578 AAGATGGACCAGTGGCTGTGGTAGCAGTGTCGTCAT
1 AAGATGGACCAGTGGCTGTGGTAGCAGTGTCATCAT
*
183614 AAGATGGACCTGTGGCTGTGGTAGCAGTTGT-ATCAT
1 AAGATGGACCAGTGGCTGTGGTAGCAG-TGTCATCAT
183650 A
1 A
183651 TCCGGCATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 31 0.91
37 3 0.09
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.27
Consensus pattern (36 bp):
AAGATGGACCAGTGGCTGTGGTAGCAGTGTCATCAT
Done.