Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 57 of 320
Found at i:16766988 original size:20 final size:21
Alignment explanation
Indices: 16766949--16766988 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
16766939 GTTATAATGA
16766949 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
16766970 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
16766989 GTTCCAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.10, C:0.40, G:0.30, T:0.20
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:16773723 original size:40 final size:41
Alignment explanation
Indices: 16773649--16773744 Score: 101
Period size: 40 Copynumber: 2.4 Consensus size: 41
16773639 GACTATGTTC
*
16773649 GGCACTAAGTATGC-AGTTAGAAATAACTTTGGCTACA-AA
1 GGCACTAAGTGTGCGAGTTAGAAATAACTTTGGCTACATAA
* * * *
16773688 TGGCACTAAGTGTGCGAGTT-GGAAT-AGTTTCGGCTATATGA
1 -GGCACTAAGTGTGCGAGTTAGAAATAACTTT-GGCTACATAA
16773729 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
16773745 TACCGAGATA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
39 4 0.08
40 39 0.81
41 5 0.10
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (41 bp):
GGCACTAAGTGTGCGAGTTAGAAATAACTTTGGCTACATAA
Found at i:16777761 original size:17 final size:17
Alignment explanation
Indices: 16777739--16777771 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
16777729 ATTTGGTTTT
16777739 GATGTAAAGTTTGAAAA
1 GATGTAAAGTTTGAAAA
16777756 GATGTAAAGTTTGAAA
1 GATGTAAAGTTTGAAA
16777772 GGTCTGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.30
Consensus pattern (17 bp):
GATGTAAAGTTTGAAAA
Found at i:16780398 original size:51 final size:51
Alignment explanation
Indices: 16780317--16780421 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
16780307 GGGAACTCGA
16780317 GGATGCTATGAGAAAACAATATTCAAACCTATTCACTGGTAAGATTTTCGG
1 GGATGCTATGAGAAAACAATATTCAAACCTATTCACTGGTAAGATTTTCGG
*
16780368 GGATTCTATGAGAAAACAATATTCAAACCTATTCACTGGTAAGATTTTCGG
1 GGATGCTATGAGAAAACAATATTCAAACCTATTCACTGGTAAGATTTTCGG
16780419 GGA
1 GGA
16780422 CAAAAATCCC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (51 bp):
GGATGCTATGAGAAAACAATATTCAAACCTATTCACTGGTAAGATTTTCGG
Found at i:16783568 original size:23 final size:22
Alignment explanation
Indices: 16783540--16783665 Score: 101
Period size: 23 Copynumber: 5.5 Consensus size: 22
16783530 AGCTGATGGA
*
16783540 CAGTAAGCTCTATTAAGCTGAAT
1 CAGTAAGCTCTATT-AGCTAAAT
* *
16783563 CGGTAAGCTCTAATTAGCTAAAA
1 CAGTAAGCTCT-ATTAGCTAAAT
*
16783586 CAGTAAGCTCTATCGAGCTAAAT
1 CAGTAAGCTCTAT-TAGCTAAAT
* *
16783609 CAGTAAGCTCCAATGAGCTGAAA-
1 CAGTAAGCT-CTATTAGCT-AAAT
* * * *
16783632 CAGTAAGCACCAATGAGCTAAAA
1 CAGTAAGC-TCTATTAGCTAAAT
16783655 CAGTAAGCTCT
1 CAGTAAGCTCT
16783666 TACGAGCTGA
Statistics
Matches: 87, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
22 6 0.07
23 72 0.83
24 9 0.10
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (22 bp):
CAGTAAGCTCTATTAGCTAAAT
Found at i:16783591 original size:46 final size:46
Alignment explanation
Indices: 16783539--16783639 Score: 139
Period size: 46 Copynumber: 2.2 Consensus size: 46
16783529 GAGCTGATGG
* * * * *
16783539 ACAGTAAGCTCTATTAAGCTGAATCGGTAAGCTCTAATTAGCTAAA
1 ACAGTAAGCTCTATCAAGCTAAATCAGTAAGCTCCAATGAGCTAAA
* *
16783585 ACAGTAAGCTCTATCGAGCTAAATCAGTAAGCTCCAATGAGCTGAA
1 ACAGTAAGCTCTATCAAGCTAAATCAGTAAGCTCCAATGAGCTAAA
16783631 ACAGTAAGC
1 ACAGTAAGC
16783640 ACCAATGAGC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.24
Consensus pattern (46 bp):
ACAGTAAGCTCTATCAAGCTAAATCAGTAAGCTCCAATGAGCTAAA
Found at i:16783615 original size:69 final size:69
Alignment explanation
Indices: 16783540--16783687 Score: 190
Period size: 69 Copynumber: 2.1 Consensus size: 69
16783530 AGCTGATGGA
* * * * * * *
16783540 CAGTAAGCTCTATTAAGCTGAATCGGTAAGCTCTAATTAGCTAAAACAGTAAGCTC-TATCGAGC
1 CAGTAAGCTCCAATAAGCTGAAACAGTAAGCACCAATGAGCTAAAACAGTAAGCTCTTA-CGAGC
16783604 TAAAT
65 TAAAT
*
16783609 CAGTAAGCTCCAATGAGCTGAAACAGTAAGCACCAATGAGCTAAAACAGTAAGCTCTTACGAGCT
1 CAGTAAGCTCCAATAAGCTGAAACAGTAAGCACCAATGAGCTAAAACAGTAAGCTCTTACGAGCT
*
16783674 GAAT
66 AAAT
*
16783678 CGGTAAGCTC
1 CAGTAAGCTC
16783688 ATACAAGCTA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
69 66 0.97
70 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (69 bp):
CAGTAAGCTCCAATAAGCTGAAACAGTAAGCACCAATGAGCTAAAACAGTAAGCTCTTACGAGCT
AAAT
Found at i:16783650 original size:46 final size:46
Alignment explanation
Indices: 16783555--16783664 Score: 132
Period size: 46 Copynumber: 2.4 Consensus size: 46
16783545 AGCTCTATTA
* * * * * *
16783555 AGCTGAATCGGTAAGCTCTAATTAGCTAAAACAGTAAGCTCTATCG
1 AGCTAAATCAGTAAGCTCCAATGAGCTAAAACAGTAAGCCCAATCG
*
16783601 AGCTAAATCAGTAAGCTCCAATGAGCTGAAACAGTAAGCACCAAT-G
1 AGCTAAATCAGTAAGCTCCAATGAGCTAAAACAGTAAGC-CCAATCG
*
16783647 AGCTAAAACAGTAAGCTC
1 AGCTAAATCAGTAAGCTC
16783665 TTACGAGCTG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 52 0.95
47 3 0.05
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (46 bp):
AGCTAAATCAGTAAGCTCCAATGAGCTAAAACAGTAAGCCCAATCG
Found at i:16783672 original size:23 final size:23
Alignment explanation
Indices: 16783578--16783697 Score: 107
Period size: 23 Copynumber: 5.2 Consensus size: 23
16783568 AGCTCTAATT
16783578 AGCTAAAACAGTAAGCT-CTATCG
1 AGCTAAAACAGTAAGCTCCTA-CG
* * *
16783601 AGCTAAATCAGTAAGCTCCAATG
1 AGCTAAAACAGTAAGCTCCTACG
* * * *
16783624 AGCTGAAACAGTAAGCACCAATG
1 AGCTAAAACAGTAAGCTCCTACG
*
16783647 AGCTAAAACAGTAAGCTCTTACG
1 AGCTAAAACAGTAAGCTCCTACG
* * * * *
16783670 AGCTGAATCGGTAAGCTCATACA
1 AGCTAAAACAGTAAGCTCCTACG
16783693 AGCTA
1 AGCTA
16783698 TGGTGAGTCC
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
23 77 0.97
24 2 0.03
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (23 bp):
AGCTAAAACAGTAAGCTCCTACG
Found at i:16783673 original size:46 final size:46
Alignment explanation
Indices: 16783578--16783685 Score: 119
Period size: 46 Copynumber: 2.3 Consensus size: 46
16783568 AGCTCTAATT
* * * * *
16783578 AGCTAAAACAGTAAGCTCTATCGAGCTAAATCAGTAAGCTCCAATG
1 AGCTGAAACAGTAAGCCCAATCGAGCTAAAACAGTAAGCTCCAACG
**
16783624 AGCTGAAACAGTAAGCACCAAT-GAGCTAAAACAGTAAGCTCTTACG
1 AGCTGAAACAGTAAGC-CCAATCGAGCTAAAACAGTAAGCTCCAACG
* *
16783670 AGCTGAATCGGTAAGC
1 AGCTGAAACAGTAAGC
16783686 TCATACAAGC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 49 0.94
47 3 0.06
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.19
Consensus pattern (46 bp):
AGCTGAAACAGTAAGCCCAATCGAGCTAAAACAGTAAGCTCCAACG
Found at i:16787038 original size:42 final size:44
Alignment explanation
Indices: 16786961--16787100 Score: 162
Period size: 42 Copynumber: 3.2 Consensus size: 44
16786951 TCCTGGACGT
* * * *
16786961 GGTCTTACATGTAATTCAG-TATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAAATCAGATATCGATGCCTATGTCCCAGACAC
*
16787004 GGTCTTACACG-AAATCAGATAT-GATGCCTATGTCCCAGACAT
1 GGTCTTACACGTAAATCAGATATCGATGCCTATGTCCCAGACAC
* * *
16787046 GGTCTTACACGTAAATCTA-AAATCGAGGCCTGTGTCCCAGACAC
1 GGTCTTACACGTAAATC-AGATATCGATGCCTATGTCCCAGACAC
*
16787090 AGTCTTACACG
1 GGTCTTACACG
16787101 ATATCTCAGA
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
42 35 0.42
43 21 0.25
44 28 0.33
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (44 bp):
GGTCTTACACGTAAATCAGATATCGATGCCTATGTCCCAGACAC
Found at i:16797177 original size:22 final size:21
Alignment explanation
Indices: 16797144--16797185 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
16797134 AAACAAAGTA
*
16797144 CAATATTATTTAACTACATAAG
1 CAATATTATTT-ACTAAATAAG
16797166 CAATA-TACTTTACTAAATAA
1 CAATATTA-TTTACTAAATAA
16797186 TTACATGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (21 bp):
CAATATTATTTACTAAATAAG
Found at i:16798307 original size:20 final size:21
Alignment explanation
Indices: 16798270--16798309 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
16798260 ATGACTAAGC
16798270 CTATCTTCAGTTTTACTTGAT
1 CTATCTTCAGTTTTACTTGAT
16798291 CTAT-TTCA-TTTTCACTTGA
1 CTATCTTCAGTTTT-ACTTGA
16798310 ACTTGGAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (21 bp):
CTATCTTCAGTTTTACTTGAT
Found at i:16800712 original size:56 final size:57
Alignment explanation
Indices: 16800625--16800741 Score: 155
Period size: 56 Copynumber: 2.1 Consensus size: 57
16800615 TTTTTGTAAT
* * **
16800625 ATATATATATAATATATGCATGACTTAAATGAAGCTAAATGGAATATATATGCATTA
1 ATATATATATAATATACGCATGACTTAAATGAAGCAAAACAGAATATATATGCATTA
* * **
16800682 ATATATATAT-ATATGCGCATGACTTAAATGAAGGAAAACATTATATATATGCATTA
1 ATATATATATAATATACGCATGACTTAAATGAAGCAAAACAGAATATATATGCATTA
16800738 ATAT
1 ATAT
16800742 TAAATGAAGC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
56 42 0.81
57 10 0.19
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (57 bp):
ATATATATATAATATACGCATGACTTAAATGAAGCAAAACAGAATATATATGCATTA
Found at i:16800745 original size:36 final size:36
Alignment explanation
Indices: 16800705--16800777 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
16800695 TGCGCATGAC
* * *
16800705 TTAAATGAAGGAAAACATTATATATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
*
16800741 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
16800777 T
1 T
16800778 ATATATGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.33
Consensus pattern (36 bp):
TTAAATGAAGCAAAACAGTATACATATGCATTAATA
Found at i:16800825 original size:45 final size:45
Alignment explanation
Indices: 16800775--16800865 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
16800765 TATGCATTAA
* **
16800775 TATATATATG-ATTGACTTAAATGAAGCTAAACCTGCTAATAATGG
1 TATATATATGCA-TGACTTAAATGAAACTAAAAATGCTAATAATGG
*
16800820 TATATATATGCATGACTTAAATGAAACTAAAAATGTTAATAATGG
1 TATATATATGCATGACTTAAATGAAACTAAAAATGCTAATAATGG
16800865 T
1 T
16800866 TAATTTAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 40 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (45 bp):
TATATATATGCATGACTTAAATGAAACTAAAAATGCTAATAATGG
Found at i:16804860 original size:23 final size:23
Alignment explanation
Indices: 16804828--16804994 Score: 138
Period size: 23 Copynumber: 7.3 Consensus size: 23
16804818 AGCTGATGGA
16804828 CAGTAAGCTCTATTGAGCTGAAT
1 CAGTAAGCTCTATTGAGCTGAAT
* * * * *
16804851 CGGTAAGCTCCAATGAGCTAAAA
1 CAGTAAGCTCTATTGAGCTGAAT
* *
16804874 CAATAAGCTCTATCGAGCTGAAT
1 CAGTAAGCTCTATTGAGCTGAAT
** * *
16804897 TGGTAAGCTCTAATGAGCTGAAA
1 CAGTAAGCTCTATTGAGCTGAAT
** * *
16804920 CAAAAAACTCTATCGAGCTGAAT
1 CAGTAAGCTCTATTGAGCTGAAT
* * *
16804943 CAGTAAGCTCCAATGAGCTGAAA
1 CAGTAAGCTCTATTGAGCTGAAT
*
16804966 CAGTAAGCTC-ATACGAGCTGAAT
1 CAGTAAGCTCTAT-TGAGCTGAAT
*
16804989 CGGTAA
1 CAGTAA
16804995 ACTCATACGA
Statistics
Matches: 106, Mismatches: 37, Indels: 2
0.73 0.26 0.01
Matches are distributed among these distances:
22 1 0.01
23 105 0.99
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (23 bp):
CAGTAAGCTCTATTGAGCTGAAT
Found at i:16804999 original size:23 final size:23
Alignment explanation
Indices: 16804924--16805008 Score: 93
Period size: 23 Copynumber: 3.7 Consensus size: 23
16804914 CTGAAACAAA
16804924 AAACTC-TATCGAGCTGAATCAGT
1 AAACTCATA-CGAGCTGAATCAGT
* * *
16804947 AAGCTCCA-ATGAGCTGAAACAGT
1 AAACT-CATACGAGCTGAATCAGT
* *
16804970 AAGCTCATACGAGCTGAATCGGT
1 AAACTCATACGAGCTGAATCAGT
16804993 AAACTCATACGAGCTG
1 AAACTCATACGAGCTG
16805009 TGGTGAGTCT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
22 2 0.04
23 48 0.92
24 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (23 bp):
AAACTCATACGAGCTGAATCAGT
Found at i:16805008 original size:46 final size:46
Alignment explanation
Indices: 16804831--16804994 Score: 240
Period size: 46 Copynumber: 3.6 Consensus size: 46
16804821 TGATGGACAG
* *
16804831 TAAGCTCTATTGAGCTGAATCGGTAAGCTCCAATGAGCTAAAACAA
1 TAAGCTCTATCGAGCTGAATCGGTAAGCTCCAATGAGCTGAAACAA
* *
16804877 TAAGCTCTATCGAGCTGAATTGGTAAGCTCTAATGAGCTGAAACAA
1 TAAGCTCTATCGAGCTGAATCGGTAAGCTCCAATGAGCTGAAACAA
* * * *
16804923 AAAACTCTATCGAGCTGAATCAGTAAGCTCCAATGAGCTGAAACAG
1 TAAGCTCTATCGAGCTGAATCGGTAAGCTCCAATGAGCTGAAACAA
16804969 TAAGCTC-ATACGAGCTGAATCGGTAA
1 TAAGCTCTAT-CGAGCTGAATCGGTAA
16804995 ACTCATACGA
Statistics
Matches: 104, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 2 0.02
46 102 0.98
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGCTCTATCGAGCTGAATCGGTAAGCTCCAATGAGCTGAAACAA
Found at i:16811062 original size:15 final size:15
Alignment explanation
Indices: 16811042--16811073 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16811032 TATGTGATGA
*
16811042 ATTTATTGAATTTAT
1 ATTTATTGAATTGAT
16811057 ATTTATTGAATTGAT
1 ATTTATTGAATTGAT
16811072 AT
1 AT
16811074 ATATACATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.56
Consensus pattern (15 bp):
ATTTATTGAATTGAT
Found at i:16812307 original size:13 final size:13
Alignment explanation
Indices: 16812291--16812323 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
16812281 TTTAATTAAA
*
16812291 TTAGTTAATTAGT
1 TTAGATAATTAGT
16812304 TTAGATAATTAGT
1 TTAGATAATTAGT
16812317 TTA-ATAA
1 TTAGATAA
16812324 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:16812768 original size:37 final size:38
Alignment explanation
Indices: 16812673--16812770 Score: 101
Period size: 37 Copynumber: 2.5 Consensus size: 38
16812663 CGAGTCGATA
*
16812673 AGACACTGGGTGTCAATCTATTACTTCGGATTAATTCGATG
1 AGACACTGGGTGTCAA--T-TTACTTCGGATTAATTCAATG
* * * *
16812714 AGGCACTAGGTGCCAATTTACTTC-GATTTAGTT-AATG
1 AGACACTGGGTGTCAATTTACTTCGGA-TTAATTCAATG
16812751 AGACACTGGGTGTCAATTTA
1 AGACACTGGGTGTCAATTTA
16812771 TTACTTCGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
37 22 0.46
38 12 0.25
39 1 0.02
41 13 0.27
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (38 bp):
AGACACTGGGTGTCAATTTACTTCGGATTAATTCAATG
Found at i:16812792 original size:40 final size:38
Alignment explanation
Indices: 16812673--16812802 Score: 129
Period size: 40 Copynumber: 3.3 Consensus size: 38
16812663 CGAGTCGATA
*
16812673 AGACACTGGGTGTCAATCTATTACTTCGGATTAATTCGATG
1 AGACACTGGGTGTCAAT-TATTACTTCGAATT-ATT-GATG
* * * * *
16812714 AGGCACTAGGTGCCAA-T-TTACTTCGATTTAGTTAATG
1 AGACACTGGGTGTCAATTATTACTTCGAATTA-TTGATG
16812751 AGACACTGGGTGTCAATTTATTACTTCGAATTATCTGATG
1 AGACACTGGGTGTCAA-TTATTACTTCGAATTAT-TGATG
*
16812791 AGGCACTGGGTG
1 AGACACTGGGTG
16812803 CCAAACTGGT
Statistics
Matches: 72, Mismatches: 12, Indels: 11
0.76 0.13 0.12
Matches are distributed among these distances:
37 17 0.24
38 12 0.17
39 3 0.04
40 27 0.38
41 13 0.18
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (38 bp):
AGACACTGGGTGTCAATTATTACTTCGAATTATTGATG
Found at i:16822023 original size:26 final size:25
Alignment explanation
Indices: 16821946--16822023 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 25
16821936 CCTCTTAAAA
*
16821946 AATTCAAAATAATATTAAAAAAATATTT
1 AATTCAAAA-AAT-TT-AAAAAATATAT
** * *
16821974 TTTTCAAAAAAATTATAAATATATAT
1 AATTCAAAAAATTTA-AAAAATATAT
16822000 AATTCAAAAAATTTAAGAAAATAT
1 AATTCAAAAAATTTAA-AAAATAT
16822024 TATTTGTGTA
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
25 2 0.05
26 28 0.72
27 2 0.05
28 7 0.18
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (25 bp):
AATTCAAAAAATTTAAAAAATATAT
Found at i:16824123 original size:32 final size:32
Alignment explanation
Indices: 16824083--16824151 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
16824073 AAGAGCTATT
16824083 AAAG-TATATGGACAAAATCATGAAAGGGCTA
1 AAAGTTATATGGACAAAATCATGAAAGGGCTA
16824114 AAAGTTATATGGACAAAATCATGAAAGGGCTA
1 AAAGTTATATGGACAAAATCATGAAAGGGCTA
16824146 AAAGTT
1 AAAGTT
16824152 GAATTATAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.11
32 33 0.89
ACGTcount: A:0.48, C:0.09, G:0.22, T:0.22
Consensus pattern (32 bp):
AAAGTTATATGGACAAAATCATGAAAGGGCTA
Found at i:16825523 original size:18 final size:19
Alignment explanation
Indices: 16825496--16825552 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 19
16825486 GGGATGACAA
16825496 GGATGAGAAAT-GGATATG
1 GGATGAGAAATGGGATATG
*
16825514 GGATGGGAAATGGGATATG
1 GGATGAGAAATGGGATATG
** *
16825533 AAATGACGAAACGGGATATG
1 GGATGA-GAAATGGGATATG
16825553 AATATTGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 10 0.31
19 10 0.31
20 12 0.38
ACGTcount: A:0.39, C:0.04, G:0.39, T:0.19
Consensus pattern (19 bp):
GGATGAGAAATGGGATATG
Found at i:16829763 original size:46 final size:48
Alignment explanation
Indices: 16829644--16829763 Score: 124
Period size: 46 Copynumber: 2.6 Consensus size: 48
16829634 TGAGAGCCAA
* *
16829644 TGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGTGCTAG
1 TGTAAGACCATGTTTGGGACATGGCATCAGCATCGAGACGAGTGCTAG
* * * * *
16829692 TGTAAGA-CATTTTTGGTACAT-GCATCAGC-TACGGGATGTGT-C-AG
1 TGTAAGACCATGTTTGGGACATGGCATCAGCAT-CGAGACGAGTGCTAG
*
16829736 TGTAAAACCATGTTTGGGACATGGCATC
1 TGTAAGACCATGTTTGGGACATGGCATC
16829764 GGCACAGATA
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
44 8 0.14
45 14 0.24
46 19 0.32
47 11 0.19
48 7 0.12
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (48 bp):
TGTAAGACCATGTTTGGGACATGGCATCAGCATCGAGACGAGTGCTAG
Found at i:16835123 original size:30 final size:30
Alignment explanation
Indices: 16835079--16835147 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
16835069 CAAAGATAAC
*
16835079 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
* * *
16835108 GAGAAACCCAGAATAAAGAGATCCAGGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
16835138 AAGAAACCCA
1 AAGAAACCCA
16835148 AGATACGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.57, C:0.17, G:0.17, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATA
Found at i:16835152 original size:15 final size:15
Alignment explanation
Indices: 16835090--16835152 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
16835080 AGAAAACCGA
*
16835090 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
16835105 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* * *
16835119 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
16835135 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
16835150 ATA
1 ATA
16835153 CGATACTATG
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
14 2 0.05
15 34 0.92
16 1 0.03
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.11
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:16838127 original size:46 final size:46
Alignment explanation
Indices: 16838060--16838229 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
16838050 ACCCGCCCAC
*
16838060 AAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCAT
* * *
16838106 AAGTGAACTCGGACTCAACTCAAAGAGCTCGGATGCCTAATT-ACAT-C-T
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--ATTCGCATCCAT
* *
16838154 -A-TCGAACTTGGACTCAACTCAACGAGTTC-GACATTCGCATCCAT
1 AAGT-GAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCAT
*
16838198 AATTGAACTCGGACTCAACTCAACGAGTTCGG
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGG
16838230 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
41 3 0.03
42 3 0.03
43 2 0.02
44 1 0.01
45 26 0.25
46 34 0.33
47 24 0.24
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCAT
Found at i:16838230 original size:92 final size:93
Alignment explanation
Indices: 16838064--16838233 Score: 279
Period size: 92 Copynumber: 1.8 Consensus size: 93
16838054 GCCCACAAGT
* *
16838064 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16838129 AGAGCTCGGATGCCTAATTACATCTATC
66 AGAGCTCGGATGCCTAATTACATCTATC
* *
16838157 GAACTTGGACTCAACTCAACGAGTTC-GACATTCGCATCCATAATTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
16838221 CGAGTTCGGATGC
66 AGAGCTCGGATGC
16838234 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 46 0.65
93 25 0.35
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
AGAGCTCGGATGCCTAATTACATCTATC
Found at i:16839685 original size:19 final size:19
Alignment explanation
Indices: 16839649--16839704 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
16839639 GGGCACAAAT
*
16839649 GTGCACACAAGAGCACCGAA
1 GTGCAAACAAG-GCACCGAA
16839669 GTGCAAACAAGGCACCGAA
1 GTGCAAACAAGGCACCGAA
*
16839688 GTGCATAACAGGGCACC
1 GTGCA-AACAAGGCACC
16839705 AATATGTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.39
20 20 0.61
ACGTcount: A:0.38, C:0.29, G:0.27, T:0.07
Consensus pattern (19 bp):
GTGCAAACAAGGCACCGAA
Found at i:16845653 original size:5 final size:5
Alignment explanation
Indices: 16845637--16845666 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
16845627 AAGATTACAT
*
16845637 AATCA AACCA AATCA AATCA AATCA AATCA
1 AATCA AATCA AATCA AATCA AATCA AATCA
16845667 TATAAGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (5 bp):
AATCA
Found at i:16848831 original size:103 final size:101
Alignment explanation
Indices: 16848694--16848884 Score: 310
Period size: 103 Copynumber: 1.9 Consensus size: 101
16848684 ATCAAAATAG
* *
16848694 TTTTTTTTTTGTAACATTTATTCAATAGGCATTCAGTAATGTTAAGTCACCTTTTTATGTTGTAA
1 TTTTTTTTTTGCAACATTTATTCAATAGGCATTCAATAATGTTAAGTCACCTTTTTATGTTGTAA
*
16848759 AACACTGATAATATACCAAAATAATATTTTTTTATT
66 AACACTGACAATATACCAAAATAATATTTTTTTATT
* *
16848795 TTTTTTATTGTTGCAACATTTATTCAGTAGGTATTCAATAATGTTAAGTCACCTTTTTATGTTGT
1 TTTTTT-TT-TTGCAACATTTATTCAATAGGCATTCAATAATGTTAAGTCACCTTTTTATGTTGT
*
16848860 AAAACACTGACAATATATCAAAATA
64 AAAACACTGACAATATACCAAAATA
16848885 GTAAAAAAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
101 6 0.07
102 2 0.02
103 74 0.90
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.45
Consensus pattern (101 bp):
TTTTTTTTTTGCAACATTTATTCAATAGGCATTCAATAATGTTAAGTCACCTTTTTATGTTGTAA
AACACTGACAATATACCAAAATAATATTTTTTTATT
Found at i:16850134 original size:17 final size:17
Alignment explanation
Indices: 16850112--16850190 Score: 101
Period size: 17 Copynumber: 4.8 Consensus size: 17
16850102 ACTTATCAAG
*
16850112 ATAAATATTAGATTAAA
1 ATAAATATTAAATTAAA
*
16850129 ATAAATATTAAATTAAT
1 ATAAATATTAAATTAAA
*
16850146 A-AAATATT--ATCAAA
1 ATAAATATTAAATTAAA
16850160 ATAAATATTAAATTAAA
1 ATAAATATTAAATTAAA
*
16850177 TTAAATATTAAATT
1 ATAAATATTAAATT
16850191 TATTAAAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
14 5 0.09
15 7 0.13
16 7 0.13
17 34 0.64
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (17 bp):
ATAAATATTAAATTAAA
Found at i:16850141 original size:48 final size:48
Alignment explanation
Indices: 16850084--16850200 Score: 164
Period size: 48 Copynumber: 2.4 Consensus size: 48
16850074 TGATCACTTT
* * *
16850084 AATATTAAATTAATATAAA-CTTATCAAGATAAATATTAGATTAAAATA
1 AATATTAAATTAATA-AAATATTATCAAAATAAATATTAAATTAAAATA
*
16850132 AATATTAAATTAATAAAATATTATCAAAATAAATATTAAATTAAATTA
1 AATATTAAATTAATAAAATATTATCAAAATAAATATTAAATTAAAATA
*
16850180 AATATTAAATTTATTAAAATA
1 AATATTAAA-TTAATAAAATA
16850201 ATATTATTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
47 3 0.05
48 49 0.79
49 10 0.16
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (48 bp):
AATATTAAATTAATAAAATATTATCAAAATAAATATTAAATTAAAATA
Found at i:16850161 original size:31 final size:32
Alignment explanation
Indices: 16850126--16850186 Score: 106
Period size: 31 Copynumber: 1.9 Consensus size: 32
16850116 ATATTAGATT
16850126 AAAATAAATATTAAATT-AATAAAATATTATC
1 AAAATAAATATTAAATTAAATAAAATATTATC
*
16850157 AAAATAAATATTAAATTAAATTAAATATTA
1 AAAATAAATATTAAATTAAATAAAATATTA
16850187 AATTTATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (32 bp):
AAAATAAATATTAAATTAAATAAAATATTATC
Found at i:16852811 original size:24 final size:25
Alignment explanation
Indices: 16852783--16852853 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
16852773 ATATTGTTTG
16852783 GAAAGCCTTTGTGGCAAGTTATCTA
1 GAAAGCCTTTGTGGCAAGTTATCTA
* *
16852808 -AAAGACCTATGTGGCATA-TTGTCTA
1 GAAAG-CCTTTGTGGCA-AGTTATCTA
* *
16852833 GAAAG-CATTGTGGCGAGTTAT
1 GAAAGCCTTTGTGGCAAGTTAT
16852854 TTGAAAGGCC
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
23 1 0.03
24 14 0.39
25 16 0.44
26 5 0.14
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (25 bp):
GAAAGCCTTTGTGGCAAGTTATCTA
Found at i:16852852 original size:49 final size:50
Alignment explanation
Indices: 16852745--16852876 Score: 160
Period size: 49 Copynumber: 2.7 Consensus size: 50
16852735 AAAGCTTTTT
* * * * *
16852745 TGGCGAGTTATTTCAAAGGCCT-TGTAGCATATTGTTTGGAAAGCCTTTG
1 TGGCGAGTTATTTAAAAGGCCTATGTGGCATATTGTCTAGAAAGCCATTG
* * *
16852794 TGGCAAGTTATCTAAAAGACCTATGTGGCATATTGTCTAGAAAG-CATTG
1 TGGCGAGTTATTTAAAAGGCCTATGTGGCATATTGTCTAGAAAGCCATTG
* *
16852843 TGGCGAGTTATTTGAAAGGCCTATGTGACATATT
1 TGGCGAGTTATTTAAAAGGCCTATGTGGCATATT
16852877 ATTTGGGTAG
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
49 51 0.74
50 18 0.26
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (50 bp):
TGGCGAGTTATTTAAAAGGCCTATGTGGCATATTGTCTAGAAAGCCATTG
Found at i:16856646 original size:52 final size:52
Alignment explanation
Indices: 16856576--16856679 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
16856566 TAAAATAAGG
*
16856576 TACATAAAACACGCCCTTTAAAACAATCTTCCTAAAATTATCAAAATGTAAA
1 TACATAAAACACACCCTTTAAAACAATCTTCCTAAAATTATCAAAATGTAAA
* * *
16856628 TACATAAAAGACATCCTTTAAAACAATCTTTCTAAAATTATCAAAATGTAAA
1 TACATAAAACACACCCTTTAAAACAATCTTCCTAAAATTATCAAAATGTAAA
16856680 ATAACTTCTC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.49, C:0.18, G:0.04, T:0.29
Consensus pattern (52 bp):
TACATAAAACACACCCTTTAAAACAATCTTCCTAAAATTATCAAAATGTAAA
Found at i:16859522 original size:12 final size:12
Alignment explanation
Indices: 16859462--16859525 Score: 55
Period size: 12 Copynumber: 5.2 Consensus size: 12
16859452 AAACTTAATT
16859462 AATTTAATATTA
1 AATTTAATATTA
16859474 AA-TTAATA-TA
1 AATTTAATATTA
16859484 ATATTT-ATCAATGTA
1 A-ATTTAAT--AT-TA
16859499 AATATTAA-ATTA
1 AAT-TTAATATTA
16859511 AATTTAATATTA
1 AATTTAATATTA
16859523 AAT
1 AAT
16859526 CTATTAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 18
0.70 0.00 0.30
Matches are distributed among these distances:
10 3 0.07
11 13 0.30
12 16 0.37
13 3 0.07
14 2 0.05
15 5 0.12
16 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (12 bp):
AATTTAATATTA
Found at i:16859531 original size:58 final size:62
Alignment explanation
Indices: 16859469--16859603 Score: 179
Period size: 63 Copynumber: 2.2 Consensus size: 62
16859459 ATTAATTTAA
* * *
16859469 TATTAAATTAATATAATAT-TTATC-A-ATG-TAAATATTAAATTAAATTTAATATTAAATC
1 TATTAAATTAATATAATATATTATCTACAAGATAAAAATTAAATTAAATTAAATATTAAATC
* *
16859527 TATTAAATTAATAGAATATAATTATCTACAAGATAAAAATTAAATTAAATTAAATATTAAATT
1 TATTAAATTAATATAATAT-ATTATCTACAAGATAAAAATTAAATTAAATTAAATATTAAATC
*
16859590 TATTAAAATAATAT
1 TATTAAATTAATAT
16859604 TATTTTTGAA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
58 18 0.28
60 5 0.08
61 1 0.02
62 2 0.03
63 39 0.60
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (62 bp):
TATTAAATTAATATAATATATTATCTACAAGATAAAAATTAAATTAAATTAAATATTAAATC
Found at i:16859598 original size:17 final size:18
Alignment explanation
Indices: 16859560--16859599 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
16859550 ATCTACAAGA
16859560 TAAAA-ATTAAATTAAAT
1 TAAAATATTAAATTAAAT
*
16859577 T-AAATATTAAATT-TAT
1 TAAAATATTAAATTAAAT
16859593 TAAAATA
1 TAAAATA
16859600 ATATTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAAATATTAAATTAAAT
Found at i:16862371 original size:20 final size:21
Alignment explanation
Indices: 16862336--16862383 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
16862326 TCTTTTTCAA
16862336 CAAAAATTACAAAATAATTT-T
1 CAAAAATTACAAAAT-ATTTAT
*
16862357 CAAAAATT-CATAATATTTAT
1 CAAAAATTACAAAATATTTAT
16862377 -AAAAATT
1 CAAAAATT
16862384 TTAAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 11 0.44
20 6 0.24
21 8 0.32
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.35
Consensus pattern (21 bp):
CAAAAATTACAAAATATTTAT
Found at i:16862392 original size:18 final size:18
Alignment explanation
Indices: 16862371--16862447 Score: 68
Period size: 17 Copynumber: 4.2 Consensus size: 18
16862361 AATTCATAAT
16862371 ATTTATAAAAATTTTAAA
1 ATTTATAAAAATTTTAAA
***
16862389 ATTTAT-ATTTTTTTAAA
1 ATTTATAAAAATTTTAAA
*
16862406 A-TTATAAAAATTCTAAAAA
1 ATTTATAAAAATT-T-TAAA
*
16862425 ATATATAAAGAATTTTAAA
1 ATTTATAAA-AATTTTAAA
16862444 ATTT
1 ATTT
16862448 TAATTTTTTT
Statistics
Matches: 44, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
16 4 0.09
17 12 0.27
18 7 0.16
19 10 0.23
20 7 0.16
21 4 0.09
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (18 bp):
ATTTATAAAAATTTTAAA
Found at i:16862443 original size:21 final size:19
Alignment explanation
Indices: 16862403--16862444 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
16862393 ATATTTTTTT
16862403 AAAATTATAAAAATTCTAA
1 AAAATTATAAAAATTCTAA
*
16862422 AAAATATATAAAGAATTTTAA
1 AAAAT-TATAAA-AATTCTAA
16862443 AA
1 AA
16862445 TTTTAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 6 0.30
21 9 0.45
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAAAATTCTAA
Found at i:16862980 original size:25 final size:23
Alignment explanation
Indices: 16862938--16862987 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 23
16862928 GGAGGGAGAA
16862938 ATTTTTTTTAATATTTTATATTT
1 ATTTTTTTTAATATTTTATATTT
*
16862961 ATTTTTGTTCTAATTTTTTATATTT
1 ATTTTT-TT-TAATATTTTATATTT
16862986 AT
1 AT
16862988 AGTATTGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 6 0.25
24 2 0.08
25 16 0.67
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (23 bp):
ATTTTTTTTAATATTTTATATTT
Found at i:16871876 original size:19 final size:19
Alignment explanation
Indices: 16871852--16871895 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
16871842 TCATAAAATT
* *
16871852 ATAATTGGATATATTTTTA
1 ATAATTGGATAGATTTTAA
**
16871871 ATAATTTTATAGATTTTAA
1 ATAATTGGATAGATTTTAA
16871890 ATAATT
1 ATAATT
16871896 TAAAACTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (19 bp):
ATAATTGGATAGATTTTAA
Found at i:16885725 original size:13 final size:14
Alignment explanation
Indices: 16885707--16885740 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
16885697 TTTAAAATCC
16885707 AAAACCCTA-CTTT
1 AAAACCCTAGCTTT
16885720 AAAACCCTAGCTTT
1 AAAACCCTAGCTTT
16885734 -AAACCCT
1 AAAACCCT
16885741 TAAACACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.38, C:0.32, G:0.03, T:0.26
Consensus pattern (14 bp):
AAAACCCTAGCTTT
Found at i:16888042 original size:24 final size:24
Alignment explanation
Indices: 16888004--16888052 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
16887994 AGTATGTAGC
16888004 ATCATTCACAATAGTGGAATTCAT
1 ATCATTCACAATAGTGGAATTCAT
* *
16888028 ATCATTCATAGTAGTGGAATTCAT
1 ATCATTCACAATAGTGGAATTCAT
16888052 A
1 A
16888053 GCCTGACCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (24 bp):
ATCATTCACAATAGTGGAATTCAT
Found at i:16898681 original size:8 final size:9
Alignment explanation
Indices: 16898653--16898685 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
16898643 TACATATTAA
*
16898653 TTTAAATTT
1 TTTAAAATT
16898662 TTTAAAATT
1 TTTAAAATT
16898671 TTTAAAATT
1 TTTAAAATT
16898680 TTTAAA
1 TTTAAA
16898686 GACACAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTAAAATT
Found at i:16900132 original size:8 final size:8
Alignment explanation
Indices: 16900119--16900156 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
16900109 TCTGGGTGGA
16900119 AAAAAAGG
1 AAAAAAGG
16900127 AAAAAAGG
1 AAAAAAGG
16900135 AAAAAA-G
1 AAAAAAGG
*
16900142 AAAAAAGA
1 AAAAAAGG
16900150 AAAAAAG
1 AAAAAAG
16900157 AGTGAAGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
7 7 0.25
8 21 0.75
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (8 bp):
AAAAAAGG
Found at i:16900144 original size:15 final size:15
Alignment explanation
Indices: 16900117--16900157 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
16900107 ATTCTGGGTG
16900117 GAAAAAAAGGAAAAAA
1 GAAAAAAA-GAAAAAA
*
16900133 GGAAAAAAGAAAAAA
1 GAAAAAAAGAAAAAA
16900148 GAAAAAAAGA
1 GAAAAAAAGA
16900158 GTGAAGAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
GAAAAAAAGAAAAAA
Found at i:16900145 original size:6 final size:7
Alignment explanation
Indices: 16900119--16900154 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
16900109 TCTGGGTGGA
16900119 AAAAAAGG
1 AAAAAA-G
16900127 AAAAAAGG
1 AAAAAA-G
16900135 AAAAAAG
1 AAAAAAG
16900142 AAAAAAG
1 AAAAAAG
16900149 AAAAAA
1 AAAAAA
16900155 AGAGTGAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 14 0.50
8 14 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:16900660 original size:44 final size:44
Alignment explanation
Indices: 16900611--16900702 Score: 175
Period size: 44 Copynumber: 2.1 Consensus size: 44
16900601 GACATAATTT
*
16900611 TTAGAACTAAATAAGTGTTAAATTTATATTATAAAATTGTTATG
1 TTAGAACTAAATAAATGTTAAATTTATATTATAAAATTGTTATG
16900655 TTAGAACTAAATAAATGTTAAATTTATATTATAAAATTGTTATG
1 TTAGAACTAAATAAATGTTAAATTTATATTATAAAATTGTTATG
16900699 TTAG
1 TTAG
16900703 TAAAATTTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (44 bp):
TTAGAACTAAATAAATGTTAAATTTATATTATAAAATTGTTATG
Found at i:16900695 original size:22 final size:22
Alignment explanation
Indices: 16900626--16900696 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
16900616 ACTAAATAAG
16900626 TGTTAAATTTATATTATAAAAT
1 TGTTAAATTTATATTATAAAAT
* * *
16900648 TGTT--ATGTTAGAACTA-AATAAA
1 TGTTAAAT-TTA-TATTATAA-AAT
16900670 TGTTAAATTTATATTATAAAAT
1 TGTTAAATTTATATTATAAAAT
16900692 TGTTA
1 TGTTA
16900697 TGTTAGTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
20 2 0.05
21 5 0.14
22 23 0.62
23 5 0.14
24 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.46
Consensus pattern (22 bp):
TGTTAAATTTATATTATAAAAT
Found at i:16901234 original size:6 final size:6
Alignment explanation
Indices: 16901223--16901250 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
16901213 ATGAGTTTGG
16901223 GGTTAT GGTTAT GGTTAT GGTTAT GGTT
1 GGTTAT GGTTAT GGTTAT GGTTAT GGTT
16901251 TAAGGTTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (6 bp):
GGTTAT
Found at i:16901632 original size:22 final size:24
Alignment explanation
Indices: 16901606--16901651 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
16901596 TACTTATTTC
16901606 ATAATTT-TA-ATTTTTTAATATA
1 ATAATTTATATATTTTTTAATATA
16901628 ATAATTTATATTATTTTTTAATAT
1 ATAATTTATA-TATTTTTTAATAT
16901652 TTTGAGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.33
23 2 0.10
25 12 0.57
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
ATAATTTATATATTTTTTAATATA
Found at i:16902657 original size:13 final size:13
Alignment explanation
Indices: 16902639--16902668 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16902629 TAGGTGGTTT
*
16902639 GCATATTGAGCTC
1 GCATATCGAGCTC
16902652 GCATATCGAGCTC
1 GCATATCGAGCTC
16902665 GCAT
1 GCAT
16902669 GATATTGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (13 bp):
GCATATCGAGCTC
Found at i:16903076 original size:13 final size:13
Alignment explanation
Indices: 16903058--16903121 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
16903048 TGTTTGGCAA
16903058 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
16903071 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
** *
16903084 TGCGGTGGAAAAG
1 TGCTTTTGAAAAG
*
16903097 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
16903110 TGCTTTTGAAAA
1 TGCTTTTGAAAA
16903122 TTTTAGGTGT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:16903764 original size:18 final size:18
Alignment explanation
Indices: 16903741--16903777 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16903731 TTTGATTCAC
16903741 CGTCATCACCATCATCAT
1 CGTCATCACCATCATCAT
**
16903759 CGTCATCGTCATCATCAT
1 CGTCATCACCATCATCAT
16903777 C
1 C
16903778 ACTTTCTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.38, G:0.08, T:0.30
Consensus pattern (18 bp):
CGTCATCACCATCATCAT
Found at i:16905283 original size:73 final size:72
Alignment explanation
Indices: 16905174--16905407 Score: 337
Period size: 72 Copynumber: 3.2 Consensus size: 72
16905164 ATATATTAAT
** * *
16905174 AACTATTGATAAAACTA-ATTTA-GTATAAATAAGTAGAGCATAAATTCAATATCCCAAAGACCA
1 AACTATTGATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATAT-CCAAAAACCA
16905237 AACATAAAC
64 AACATAAAC
* * * *
16905246 AACTATTAATAAAAGTAGATTACACATAAATAAGTAGAACATAAATTCAATATTCAAAAACTAAA
1 AACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAA
16905311 CATAAAC
66 CATAAAC
* *
16905318 AACCATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAGTTCAATATCCAAAAACCAAA
1 AACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAA
*
16905383 CATAAAT
66 CATAAAC
16905390 AACTATTGATAAAACTAG
1 AACTATTGATAAAACTAG
16905408 TTTAGCATTT
Statistics
Matches: 144, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
72 116 0.81
73 28 0.19
ACGTcount: A:0.54, C:0.15, G:0.07, T:0.24
Consensus pattern (72 bp):
AACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAA
CATAAAC
Found at i:16905857 original size:18 final size:18
Alignment explanation
Indices: 16905836--16905883 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
16905826 TCCATCAATT
*
16905836 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
16905854 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
16905872 TGAACATCATTT
1 TGAACATCATTT
16905884 CTCACATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:16907041 original size:19 final size:19
Alignment explanation
Indices: 16907017--16907053 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16907007 GCTATTAATA
*
16907017 TAAAAGGTGCTATATCTAT
1 TAAAAGGTCCTATATCTAT
*
16907036 TAAAAGGTCCTGTATCTA
1 TAAAAGGTCCTATATCTA
16907054 AAACATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (19 bp):
TAAAAGGTCCTATATCTAT
Found at i:16912044 original size:13 final size:14
Alignment explanation
Indices: 16912028--16912063 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
16912018 CAATCTCATA
16912028 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
16912041 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
16912054 TCTC-ATTTCA
1 TCTCAATTTCA
16912064 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:16912053 original size:18 final size:19
Alignment explanation
Indices: 16912015--16912055 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
16912005 TGGTTCATGT
16912015 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
16912034 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
16912052 TTTC
1 TTTC
16912056 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:16912245 original size:39 final size:38
Alignment explanation
Indices: 16912178--16912312 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
16912168 ACCAATATGG
* * *
16912178 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
16912217 CACCCAGTGTCTCATCGGCCTAGCCGAAGGAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
16912255 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
16912296 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
16912313 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:16912578 original size:18 final size:19
Alignment explanation
Indices: 16912552--16912590 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
16912542 TTTCAATTCA
16912552 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
16912571 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
16912589 AT
1 AT
16912591 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:16912628 original size:15 final size:15
Alignment explanation
Indices: 16912608--16912645 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
16912598 TATATACGCC
16912608 AATTCAATCAATATA
1 AATTCAATCAATATA
16912623 AATTCAATCAATATA
1 AATTCAATCAATATA
16912638 AATTCAAT
1 AATTCAAT
16912646 AATTTCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (15 bp):
AATTCAATCAATATA
Found at i:16913932 original size:5 final size:5
Alignment explanation
Indices: 16913922--16913978 Score: 71
Period size: 5 Copynumber: 11.0 Consensus size: 5
16913912 TTACTTATTT
*
16913922 ATATA ATATAA TATATA ATATA ATATA ATATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
16913970 ATAT- ATATA
1 ATATA ATATA
16913979 TTTTAACACA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
4 4 0.09
5 31 0.67
6 7 0.15
7 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:16913938 original size:12 final size:12
Alignment explanation
Indices: 16913921--16913976 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
16913911 TTTACTTATT
16913921 TATATAATATAA
1 TATATAATATAA
16913933 TATATAATATAATA
1 TATATAATAT-A-A
16913947 TAATATAATATAA
1 T-ATATAATATAA
*
16913960 TA-ATAATTTAA
1 TATATAATATAA
16913971 TATATA
1 TATATA
16913977 TATTTTAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 14 0.36
13 3 0.08
14 3 0.08
15 9 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:16913947 original size:22 final size:22
Alignment explanation
Indices: 16913922--16913979 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
16913912 TTACTTATTT
16913922 ATATAATATAATATATAAT-ATA
1 ATATAATAT-ATATATAATAATA
16913944 ATATAATATA-ATATAATAATA
1 ATATAATATATATATAATAATA
*
16913965 ATTTAATATATATAT
1 ATATAATATATATAT
16913980 TTTAACACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 7 0.21
21 13 0.39
22 13 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
ATATAATATATATATAATAATA
Found at i:16913991 original size:26 final size:26
Alignment explanation
Indices: 16913922--16913979 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
16913912 TTACTTATTT
*
16913922 ATATAATATAATATATAATATAATATA
1 ATATAATATAACA-ATAATATAATATA
* *
16913949 ATATAATATAATAATAATTTAATATA
1 ATATAATATAACAATAATATAATATA
16913975 TATAT
1 -ATAT
16913980 TTTAACACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 12 0.41
27 17 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATAATATAACAATAATATAATATA
Found at i:16921741 original size:15 final size:14
Alignment explanation
Indices: 16921703--16921732 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16921693 GGGCCCATAC
*
16921703 AAAAACTAAAACCA
1 AAAAAATAAAACCA
16921717 AAAAAATAAAACCA
1 AAAAAATAAAACCA
16921731 AA
1 AA
16921733 TTAATTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.17, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAAAATAAAACCA
Found at i:16923184 original size:18 final size:18
Alignment explanation
Indices: 16923134--16923186 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
16923124 TTTGTATAAA
*
16923134 ATTTT-AAATTGTTCTATT
1 ATTTTAAAATT-TTCTTTT
*
16923152 A-TATAAAA-TTT-TTTT
1 ATTTTAAAATTTTCTTTT
16923167 ATTTTAAAATTTTCTTTT
1 ATTTTAAAATTTTCTTTT
16923185 AT
1 AT
16923187 ACATATCTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
15 4 0.14
16 8 0.29
17 6 0.21
18 10 0.36
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTTTAAAATTTTCTTTT
Found at i:16926324 original size:27 final size:26
Alignment explanation
Indices: 16926284--16926335 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
16926274 GCGAGGCTGC
*
16926284 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
16926310 CAGATATATGTGACGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
16926336 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:16927238 original size:27 final size:27
Alignment explanation
Indices: 16926987--16927236 Score: 351
Period size: 27 Copynumber: 9.3 Consensus size: 27
16926977 GGGGCAAAAT
* * * *
16926987 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
16927014 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
16927041 GGT-ATTCCTACCCTACAAGGGG-ATTTC
1 GGTAATT-CTACCCTAC-AGGGGTATTTC
* *
16927068 GGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
16927095 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
16927122 AGTAATTCTACCCAACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
16927149 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
16927176 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
16927203 GGTAATTTTACCCTATAGGGGTGTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
16927230 GGTAATT
1 GGTAATT
16927237 TTGTAAATCG
Statistics
Matches: 200, Mismatches: 19, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.04
27 184 0.92
28 8 0.04
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:16927287 original size:27 final size:27
Alignment explanation
Indices: 16927257--16927506 Score: 242
Period size: 27 Copynumber: 9.3 Consensus size: 27
16927247 AGGGTAAAAC
** *
16927257 GGTAATTTTGTAAATCGGAGGTACTTT
1 GGTAATTTTACAAATCGGAGGTATTTT
* * *
16927284 GGTAATTTTACAAGTTGAAGGTATTTT
1 GGTAATTTTACAAATCGGAGGTATTTT
* *
16927311 AGTAATTTTACAAATCGG-GGTATTTC
1 GGTAATTTTACAAATCGGAGGTATTTT
* *
16927337 AGTAAATTTT-CAAATCGGAGGTATTTC
1 GGT-AATTTTACAAATCGGAGGTATTTT
* *
16927364 GGTAATTTTACAAATCGGGGGTAATTT
1 GGTAATTTTACAAATCGGAGGTATTTT
*
16927391 GGTAATTTTACAAACCAGG-GGTATTTT
1 GGTAATTTTACAAATC-GGAGGTATTTT
**
16927418 GGTAATTTTACAAA-CCAAGGGTATTTT
1 GGTAATTTTACAAATCGGA-GGTATTTT
* *
16927445 GGTAATTTTGCTAATC-GAGGGTATTTT
1 GGTAATTTTACAAATCGGA-GGTATTTT
* *
16927472 GGTAATTTTGCTAATC-GAGGGTATTTT
1 GGTAATTTTACAAATCGGA-GGTATTTT
16927499 GGTAATTT
1 GGTAATTT
16927507 GGTAAACTAA
Statistics
Matches: 194, Mismatches: 22, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
26 25 0.13
27 166 0.86
28 3 0.02
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.40
Consensus pattern (27 bp):
GGTAATTTTACAAATCGGAGGTATTTT
Found at i:16933259 original size:27 final size:27
Alignment explanation
Indices: 16933229--16933478 Score: 322
Period size: 27 Copynumber: 9.3 Consensus size: 27
16933219 GGGGAAAAAT
* * * *
16933229 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
16933256 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
16933283 GGT-ATTCCTACCCTACAAGGGTATTTC
1 GGTAATT-CTACCCTACAGGGGTATTTC
* *
16933310 AGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
16933337 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
16933364 AATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
16933391 GGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
16933418 GGTAATTCTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
16933445 AGTAATTCTACCCTATAGGGGTGTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
16933472 GGTAATT
1 GGTAATT
16933479 TTGTAAATCG
Statistics
Matches: 191, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 3 0.02
27 185 0.97
28 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:16933530 original size:27 final size:27
Alignment explanation
Indices: 16933500--16933802 Score: 284
Period size: 27 Copynumber: 11.3 Consensus size: 27
16933490 GGGTAAAACT
** *
16933500 GTAATTTTGTAAATCGGGGGTACTTTG
1 GTAATTTTACAAATCGGGGGTATTTTG
* *** *
16933527 GTAATTTTACAAGTCGAAAGTATTTTA
1 GTAATTTTACAAATCGGGGGTATTTTG
**
16933554 GTAATTTTACAAATC-GGGGTATTTCA
1 GTAATTTTACAAATCGGGGGTATTTTG
* ** *
16933580 GTAATTTTACAAATCAGATGTATTTCG
1 GTAATTTTACAAATCGGGGGTATTTTG
* *
16933607 GTAATTTTACAAATCGGAGGTATTTCG
1 GTAATTTTACAAATCGGGGGTATTTTG
* *
16933634 GTAATTTTACAAATCAGGGGTAATTTG
1 GTAATTTTACAAATCGGGGGTATTTTG
* *
16933661 GTAATTTTACAAATCAGGGGTAATTTG
1 GTAATTTTACAAATCGGGGGTATTTTG
* *
16933688 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAATCGGGGGTATTTTG
* * *
16933715 GTAATTTTGCTAATCGAGGGTATTTTG
1 GTAATTTTACAAATCGGGGGTATTTTG
*** **
16933742 GTAATTTTGTTAATCAAGGGTATTTTG
1 GTAATTTTACAAATCGGGGGTATTTTG
* * **
16933769 GTAATTTTGCTAATCGATGGTATTTTG
1 GTAATTTTACAAATCGGGGGTATTTTG
*
16933796 ATAATTT
1 GTAATTT
16933803 GGTAAACTAA
Statistics
Matches: 240, Mismatches: 35, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
26 22 0.09
27 218 0.91
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATCGGGGGTATTTTG
Found at i:16944821 original size:16 final size:16
Alignment explanation
Indices: 16944800--16944835 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16944790 CTAATTTAAT
*
16944800 ATAAAATCAAAAGAAA
1 ATAAAATAAAAAGAAA
*
16944816 ATAAAATAAAAATAAA
1 ATAAAATAAAAAGAAA
16944832 ATAA
1 ATAA
16944836 GATTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (16 bp):
ATAAAATAAAAAGAAA
Found at i:16945621 original size:19 final size:19
Alignment explanation
Indices: 16945597--16945634 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16945587 TTTATTTTAT
*
16945597 TTATTTATGTACAAGCAAA
1 TTATTTATATACAAGCAAA
16945616 TTATTTATATACAAGCAAA
1 TTATTTATATACAAGCAAA
16945635 CATTTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (19 bp):
TTATTTATATACAAGCAAA
Found at i:16980298 original size:46 final size:46
Alignment explanation
Indices: 16980248--16980362 Score: 144
Period size: 46 Copynumber: 2.5 Consensus size: 46
16980238 CAAGTGCTAG
*
16980248 TGTAAGACATGTCTGCGACATGCAGCGGC-ATCGAGATG-TAAGCCAA
1 TGTAAGACATGTCTGGGACATGCAGCGGCTA-CGAGATGAT-AGCCAA
* * * *
16980294 TGTAAGACATGTTTGGGACATGCATCGGCTACGAGATGATAGTCAG
1 TGTAAGACATGTCTGGGACATGCAGCGGCTACGAGATGATAGCCAA
16980340 TGTAAGACCATGTCTGGGACATG
1 TGTAAGA-CATGTCTGGGACATG
16980363 GCATCGAAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
46 44 0.73
47 16 0.27
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCAGCGGCTACGAGATGATAGCCAA
Found at i:16981556 original size:21 final size:21
Alignment explanation
Indices: 16981517--16981556 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16981507 TCGAAATGGT
* **
16981517 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCGTCTACCCCTTC
16981538 CACACGGGCGTCTACCCCT
1 CACACGGGCGTCTACCCCT
16981557 GTATCAAGTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.42, G:0.25, T:0.20
Consensus pattern (21 bp):
CACACGGGCGTCTACCCCTTC
Found at i:16991678 original size:33 final size:33
Alignment explanation
Indices: 16991641--16991708 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
16991631 AATTGGACAC
*
16991641 AATGCTATAGAATGTTAATGCCAAATTGAAAGG
1 AATGCTATAGAATGTTAATGCAAAATTGAAAGG
16991674 AATGCTATAGAATGTTAATGCAAAATTGAAAGG
1 AATGCTATAGAATGTTAATGCAAAATTGAAAGG
16991707 AA
1 AA
16991709 AAAATGAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (33 bp):
AATGCTATAGAATGTTAATGCAAAATTGAAAGG
Found at i:16993845 original size:27 final size:27
Alignment explanation
Indices: 16993768--16993860 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 27
16993758 AAGGGATTTT
** * * * *
16993768 CCTTCAGAGTTCGTTATACCTACCATT
1 CCTTCAGAGTTCGCCACACATACTATC
*
16993795 CCTTCAGAGTTCGCCATACATACTATC
1 CCTTCAGAGTTCGCCACACATACTATC
16993822 CCTTCA-ATGTTCGCCACACATACTATC
1 CCTTCAGA-GTTCGCCACACATACTATC
* *
16993849 TCTTGAGAGTTC
1 CCTTCAGAGTTC
16993861 ATCGGGAATA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.02
27 54 0.96
28 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.12, T:0.33
Consensus pattern (27 bp):
CCTTCAGAGTTCGCCACACATACTATC
Found at i:16994063 original size:27 final size:27
Alignment explanation
Indices: 16994003--16994089 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 27
16993993 CCTTAGATCA
* * *
16994003 CCAC-AAGTCTTCCATTTCATAGGTTA
1 CCACAAAGACTTCCATTTCATAGATTG
* *
16994029 CCACAAAGGCTTTCATTTCATAGATTG
1 CCACAAAGACTTCCATTTCATAGATTG
* * *
16994056 TCATAAAGACTTCCATTTCGTAGATTG
1 CCACAAAGACTTCCATTTCATAGATTG
16994083 CCACAAA
1 CCACAAA
16994090 AGCTTCTATT
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
26 4 0.08
27 45 0.92
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (27 bp):
CCACAAAGACTTCCATTTCATAGATTG
Found at i:16994095 original size:27 final size:27
Alignment explanation
Indices: 16994011--16994100 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
16994001 CACCACAAGT
* * *
16994011 CTTCCATTTCATAGGTTACCACAAAGG
1 CTTCCATTTCATAGATTGCCACAAAAG
* * *
16994038 CTTTCATTTCATAGATTGTCA-TAAAG
1 CTTCCATTTCATAGATTGCCACAAAAG
*
16994064 ACTTCCATTTCGTAGATTGCCACAAAAG
1 -CTTCCATTTCATAGATTGCCACAAAAG
*
16994092 CTTCTATTT
1 CTTCCATTT
16994101 TTTGGTGTGT
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
26 3 0.06
27 43 0.86
28 4 0.08
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (27 bp):
CTTCCATTTCATAGATTGCCACAAAAG
Found at i:16996229 original size:23 final size:23
Alignment explanation
Indices: 16996199--16996244 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
16996189 AAAATACATT
**
16996199 AAAAAAGTCTTTAAATTTTTTTA
1 AAAAAAGTAATTAAATTTTTTTA
*
16996222 AAAAAAGTAATTAAGTTTTTTTA
1 AAAAAAGTAATTAAATTTTTTTA
16996245 CTTAAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (23 bp):
AAAAAAGTAATTAAATTTTTTTA
Found at i:16996564 original size:21 final size:20
Alignment explanation
Indices: 16996526--16996565 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16996516 ATTTTTTTAA
*
16996526 TTTAAAAAATAGATTAAAGG
1 TTTAAAAAATAAATTAAAGG
*
16996546 TTTACAAAATAAATATAAAG
1 TTTAAAAAATAAAT-TAAAG
16996566 CTTATCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (20 bp):
TTTAAAAAATAAATTAAAGG
Found at i:16997304 original size:15 final size:14
Alignment explanation
Indices: 16997274--16997315 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
16997264 GAAGAAAAAG
16997274 AAAATATATAT-AT
1 AAAATATATATAAT
*
16997287 AAAGTATATATAAGT
1 AAAATATATATAA-T
*
16997302 AAAATATTTATAAT
1 AAAATATATATAAT
16997316 TTATAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 10 0.42
14 2 0.08
15 12 0.50
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (14 bp):
AAAATATATATAAT
Found at i:16998991 original size:31 final size:32
Alignment explanation
Indices: 16998953--16999013 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
16998943 AATATAGTAA
* *
16998953 TTATAAT-AAAATCTAATTAGTATAAAAATCC
1 TTATAATAAAAATCTAATAAGCATAAAAATCC
*
16998984 TTATAATAAAAATCTTATAAGCATAAAAAT
1 TTATAATAAAAATCTAATAAGCATAAAAAT
16999014 TTAAATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 7 0.27
32 19 0.73
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.34
Consensus pattern (32 bp):
TTATAATAAAAATCTAATAAGCATAAAAATCC
Found at i:16999000 original size:14 final size:15
Alignment explanation
Indices: 16998974--16999003 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16998964 TCTAATTAGT
16998974 ATAAAAATCCTTATA
1 ATAAAAATCCTTATA
16998989 ATAAAAAT-CTTATA
1 ATAAAAATCCTTATA
16999003 A
1 A
16999004 GCATAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAAAAATCCTTATA
Found at i:17002560 original size:49 final size:48
Alignment explanation
Indices: 17002444--17002665 Score: 197
Period size: 49 Copynumber: 4.7 Consensus size: 48
17002434 GGGATAAAAT
* * * * * *
17002444 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACAT-T-AAA
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGACT-TCATATATCGAG
* *
17002492 GTCGATGCCATGTCCCAGACATGTCTTACACTGACTTTCATATATCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGAC-TTCATATATCGAG
* * *
17002541 GCCGATGCCATGTTCCAGACAGGTCTTACACTGGCTCTCATCTATCG-G
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACT-TCATATATCGAG
* * * * *
17002589 TGTCGATGCCATGTCCCATATAGGTCTTACACTGAC-ACATA-A-C-AA
1 -GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTCATATATCGAG
*
17002634 GCTGATGCCATGTCCCAGACAGGTCTTACACT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACT
17002666 AGCTTGTATA
Statistics
Matches: 143, Mismatches: 25, Indels: 16
0.78 0.14 0.09
Matches are distributed among these distances:
44 28 0.20
45 1 0.01
46 1 0.01
47 19 0.13
48 23 0.16
49 71 0.50
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTCATATATCGAG
Found at i:17002616 original size:98 final size:91
Alignment explanation
Indices: 17002444--17002665 Score: 246
Period size: 98 Copynumber: 2.4 Consensus size: 91
17002434 GGGATAAAAT
* *
17002444 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATTAAAGTCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCA
* * *
17002509 GACATGTCTTACACTGACTTTCATATATCGAG
65 GACAGGTCTTACACTGAC--ACATA-A-C-AA
* ** ***
17002541 GCCGATGCCATGTTCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTAGCA-C-ATCAAAGTCGATGCCATGTCCC
* *
17002606 ATATAGGTCTTACACTGACACATAACAA
64 AGACAGGTCTTACACTGACACATAACAA
*
17002634 GCTGATGCCATGTCCCAGACAGGTCTTACACT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACT
17002666 AGCTTGTATA
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
93 31 0.29
94 1 0.01
95 1 0.01
96 21 0.19
97 20 0.19
98 34 0.31
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (91 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAG
ACAGGTCTTACACTGACACATAACAA
Found at i:17002776 original size:29 final size:29
Alignment explanation
Indices: 17002732--17002790 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
17002722 TTTCAATGCT
* *
17002732 GATGCATGTCCTAGACATGTCTTACACTG
1 GATGCATGTCCCAGACATATCTTACACTG
17002761 GATGCATGTCCCAGACATATCTTACACTG
1 GATGCATGTCCCAGACATATCTTACACTG
17002790 G
1 G
17002791 CTCACCTACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (29 bp):
GATGCATGTCCCAGACATATCTTACACTG
Found at i:17004153 original size:29 final size:29
Alignment explanation
Indices: 17004111--17004170 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
17004101 CCACTTTGTT
17004111 TCTCAAATGAATAAGTAATCTCATTAAAA
1 TCTCAAATGAATAAGTAATCTCATTAAAA
17004140 TCTCAAATGAATAAGTAATCTCATTAAAA
1 TCTCAAATGAATAAGTAATCTCATTAAAA
17004169 TC
1 TC
17004171 ACCCACAACA
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:0.47, C:0.15, G:0.07, T:0.32
Consensus pattern (29 bp):
TCTCAAATGAATAAGTAATCTCATTAAAA
Found at i:17004161 original size:18 final size:18
Alignment explanation
Indices: 17004111--17004162 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
17004101 CCACTTTGTT
17004111 TCTCAAATGAATAAGTAA
1 TCTCAAATGAATAAGTAA
17004129 TCTC--AT---TAA--AA
1 TCTCAAATGAATAAGTAA
17004140 TCTCAAATGAATAAGTAA
1 TCTCAAATGAATAAGTAA
17004158 TCTCA
1 TCTCA
17004163 TTAAAATCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 14
0.66 0.00 0.34
Matches are distributed among these distances:
11 6 0.22
13 5 0.19
16 5 0.19
18 11 0.41
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (18 bp):
TCTCAAATGAATAAGTAA
Found at i:17005089 original size:31 final size:31
Alignment explanation
Indices: 17005046--17005104 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
17005036 TTTTAGTTAA
17005046 CCAATTAAAAAACACCTAGTTTATTTAAATT
1 CCAATTAAAAAACACCTAGTTTATTTAAATT
*
17005077 CCAATTAGAAAACACCTAGTTTATTTAA
1 CCAATTAAAAAACACCTAGTTTATTTAA
17005105 GTTACATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (31 bp):
CCAATTAAAAAACACCTAGTTTATTTAAATT
Found at i:17005881 original size:328 final size:328
Alignment explanation
Indices: 17005277--17006247 Score: 1539
Period size: 328 Copynumber: 3.0 Consensus size: 328
17005267 AGTTACAAAA
* * * * * *
17005277 AAACGTGATGATTCTAAGACCTCTGACTTGCCGAATCCAGTTGCAAAAAAGAAAAGTGTACCTAA
1 AAACGCGATGATTTTAAGACCTCTGACTTGTCGAGTCTAGTTGCAGAAAAGAAAAGTGTACCTAA
* * *
17005342 AAAGGAAACACTAAGATGGGGTGAGCCATACGAGCTCAGTGTGAGTCCAAATCAAGATGAAAACA
66 AAAGGAAACACTAAGAGGGGGTGAGCCATACGAGCTCAGTGTGAGTTCGAATCAAGATGAAAACA
17005407 GAAATACAGTACACAATTCAATATCGAACAACTACAGATACATATTCAGAAGCAAAAGGTAATAC
131 GAAATACAGTACACAATTCAATATCGAACAACTACAGATA-ATATTCAGAAGCAAAAGGTAATAC
17005472 CGGAATCAACATCCCAATGGAACGTAACATCTCAAACACAAACACTCAGTCATATATATATTTAC
195 CGGAATCAACATCCCAATGGAACGTAACATCTCAAACACAAACACTCAGTCATATATATATTTAC
* * * *
17005537 AGTTAGACAAAGAACAGTTAGACGATCTAGCATCCAGAATGCTCAAAAAGATACGTATGAATAGT
260 AGTTAGACAAAGAACAGTCAGACGGTCTAGCATCCAGAATGCTCAAAAAGATACGTATGAAAAGC
17005602 AGTC
325 AGTC
* *
17005606 AAACGCGATGATTTTTAGACCTCCGACTTGTCGAGTCTAGTTGCAGAAAAGAAAAGTGTACCTAA
1 AAACGCGATGATTTTAAGACCTCTGACTTGTCGAGTCTAGTTGCAGAAAAGAAAAGTGTACCTAA
* *
17005671 AAAAGAAACACTAAGA-GGGGTGAGCCATACAAGCTCAGTGTGAGTTCGAATCAAGATGAAAACA
66 AAAGGAAACACTAAGAGGGGGTGAGCCATACGAGCTCAGTGTGAGTTCGAATCAAGATGAAAACA
17005735 GAAATACAGTACACAATTCAATATCGAACAACTACAGATATATATTCAGAAGCAAAAGGTAATAC
131 GAAATACAGTACACAATTCAATATCGAACAACTACAGATA-ATATTCAGAAGCAAAAGGTAATAC
* *
17005800 CGGAATCAACATCCCAACGGAACGTAACATCTCAAACACAAACACTCAATCATATATATATTTAC
195 CGGAATCAACATCCCAATGGAACGTAACATCTCAAACACAAACACTCAGTCATATATATATTTAC
17005865 AGTTAGACAAAGAACAGTCAGACGGTCTAGCATCCAGAATGCTCAAAAAGATACGTATGAAAAGC
260 AGTTAGACAAAGAACAGTCAGACGGTCTAGCATCCAGAATGCTCAAAAAGATACGTATGAAAAGC
17005930 AGTC
325 AGTC
* * *
17005934 AAACGCGACGATTTTGAGACCTCTGACTTGTGGAGTCTAGTTGCAGAAAAGAAAAGTGTACCTAA
1 AAACGCGATGATTTTAAGACCTCTGACTTGTCGAGTCTAGTTGCAGAAAAGAAAAGTGTACCTAA
*
17005999 AAAGGAAACACTAAGAGGGGGTGAGCCATATGAGCTCAGTGTGAGTTCGAATCAAGATGAAAACA
66 AAAGGAAACACTAAGAGGGGGTGAGCCATACGAGCTCAGTGTGAGTTCGAATCAAGATGAAAACA
*
17006064 GAAATATAGTACACAATTCAATATCGAAC-A--AC------TA--C---AG----AGGTAATACC
131 GAAATACAGTACACAATTCAATATCGAACAACTACAGATAATATTCAGAAGCAAAAGGTAATACC
* *
17006111 GAAATCAACATCCTAATGGAACGTAACATCTCAAACACAAACACTCAGTCATATATATATTTACA
196 GGAATCAACATCCCAATGGAACGTAACATCTCAAACACAAACACTCAGTCATATATATATTTACA
* *
17006176 GTTAGACAAAGAACAGTCAAACGGTCTAGCATCTAGAATGCTCAAAAAGATACGTATGAAAAGCA
261 GTTAGACAAAGAACAGTCAGACGGTCTAGCATCCAGAATGCTCAAAAAGATACGTATGAAAAGCA
17006241 GTC
326 GTC
17006244 AAAC
1 AAAC
17006248 AATGAAACCC
Statistics
Matches: 608, Mismatches: 33, Indels: 21
0.92 0.05 0.03
Matches are distributed among these distances:
310 141 0.23
314 2 0.00
317 1 0.00
319 2 0.00
326 2 0.00
328 314 0.52
329 146 0.24
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (328 bp):
AAACGCGATGATTTTAAGACCTCTGACTTGTCGAGTCTAGTTGCAGAAAAGAAAAGTGTACCTAA
AAAGGAAACACTAAGAGGGGGTGAGCCATACGAGCTCAGTGTGAGTTCGAATCAAGATGAAAACA
GAAATACAGTACACAATTCAATATCGAACAACTACAGATAATATTCAGAAGCAAAAGGTAATACC
GGAATCAACATCCCAATGGAACGTAACATCTCAAACACAAACACTCAGTCATATATATATTTACA
GTTAGACAAAGAACAGTCAGACGGTCTAGCATCCAGAATGCTCAAAAAGATACGTATGAAAAGCA
GTC
Found at i:17006975 original size:22 final size:22
Alignment explanation
Indices: 17006949--17006990 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17006939 ACCGTGTGGC
*
17006949 AGAGGTACAC-GCCAGTATGAAG
1 AGAGGCACACAGCCA-TATGAAG
17006971 AGAGGCACACAGCCATATGA
1 AGAGGCACACAGCCATATGA
17006991 CTAAGGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.38, C:0.21, G:0.29, T:0.12
Consensus pattern (22 bp):
AGAGGCACACAGCCATATGAAG
Found at i:17007752 original size:15 final size:15
Alignment explanation
Indices: 17007732--17007769 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
17007722 CCAAGAAGAC
17007732 AAAAATAATAAAAAT
1 AAAAATAATAAAAAT
17007747 AAAAATAAT-AAAAT
1 AAAAATAATAAAAAT
17007761 -AAAATAATA
1 AAAAATAATA
17007770 GAAAGTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.36
14 5 0.23
15 9 0.41
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATAATAAAAAT
Found at i:17008447 original size:21 final size:19
Alignment explanation
Indices: 17008420--17008468 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 19
17008410 CTCAAAATAA
*
17008420 AAATTAATTAAAAATAAATT
1 AAATTAAAT-AAAATAAATT
17008440 AAAGTTAAATAAAATACAATT
1 AAA-TTAAATAAAATA-AATT
17008461 AAATTAAA
1 AAATTAAA
17008469 CTTTATGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
AAATTAAATAAAATAAATT
Found at i:17009963 original size:24 final size:23
Alignment explanation
Indices: 17009926--17009980 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
17009916 AGAGAAATTG
* * *
17009926 AGAAGAGAGGAAAACAAAGGGAGA
1 AGAAGAGAAGAAAA-AAAAGAAGA
*
17009950 AGAAGAGAATAAAAAAAAGAAGA
1 AGAAGAGAAGAAAAAAAAGAAGA
17009973 AGAA-AGAA
1 AGAAGAGAA
17009981 AGTTAAAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 4 0.15
23 11 0.41
24 12 0.44
ACGTcount: A:0.67, C:0.02, G:0.29, T:0.02
Consensus pattern (23 bp):
AGAAGAGAAGAAAAAAAAGAAGA
Found at i:17010586 original size:22 final size:20
Alignment explanation
Indices: 17010561--17010610 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 20
17010551 TTTGAAATTT
17010561 AATTTTTATATTTTATTTTAAA
1 AATTTTT-T-TTTTATTTTAAA
*
17010583 AATTTAGTTTTTTTATTTTTAA
1 AATTT--TTTTTTTATTTTAAA
17010605 AATTTT
1 AATTTT
17010611 AAAATTTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
22 21 0.84
23 1 0.04
24 2 0.08
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
AATTTTTTTTTTATTTTAAA
Found at i:17011608 original size:27 final size:27
Alignment explanation
Indices: 17011547--17011608 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
17011537 AGTTTGTCAA
17011547 TTTTG-AAAAATACTTTTGAAAAGTGC
1 TTTTGAAAAAATACTTTTGAAAAGTGC
* *
17011573 -TGTGAAAAAAATACTTTTGAGAAGTGC
1 TTTTG-AAAAAATACTTTTGAAAAGTGC
17011600 TTTTGAAAA
1 TTTTGAAAA
17011609 GTTTAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 3 0.10
27 24 0.80
28 3 0.10
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.35
Consensus pattern (27 bp):
TTTTGAAAAAATACTTTTGAAAAGTGC
Found at i:17017159 original size:49 final size:49
Alignment explanation
Indices: 17017102--17017232 Score: 154
Period size: 49 Copynumber: 2.7 Consensus size: 49
17017092 TGTTGTGTGT
* *
17017102 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTAGGACATGGCATCGACACCGATAGATGAAAGC
* * * * *
17017151 CAGTGTAAGACCTGTCTAGGATATGGCATCGACTCTGATATATGAAAGT
1 CAGTGTAAGACCTGTCTAGGACATGGCATCGACACCGATAGATGAAAGC
* * * * *
17017200 CAGTGTAAAACTTGTTTAGGAAACGGCATCGAC
1 CAGTGTAAGACCTGTCTAGGACATGGCATCGAC
17017233 TTTAATGTAC
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 70 1.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTAGGACATGGCATCGACACCGATAGATGAAAGC
Found at i:17017927 original size:14 final size:17
Alignment explanation
Indices: 17017890--17017931 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
17017880 CTGTTTTTAC
17017890 ATATATTAATAAATTAT
1 ATATATTAATAAATTAT
17017907 ATATATTAATAAATT-T
1 ATATATTAATAAATTAT
*
17017923 ATATTTTAA
1 ATATATTAA
17017932 ACTGTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATTAATAAATTAT
Found at i:17020897 original size:29 final size:29
Alignment explanation
Indices: 17020855--17020916 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
17020845 CTGATTATTG
17020855 GCTAATCATAATAGATGCGAAATTCGTAT
1 GCTAATCATAATAGATGCGAAATTCGTAT
* *
17020884 GCTAATTATAATAGCTGCGAAATTCGTAT
1 GCTAATCATAATAGATGCGAAATTCGTAT
17020913 GCTA
1 GCTA
17020917 GAAATTGTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (29 bp):
GCTAATCATAATAGATGCGAAATTCGTAT
Found at i:17026715 original size:25 final size:24
Alignment explanation
Indices: 17026686--17026745 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 24
17026676 GCCATACCTT
17026686 AGAAAGAGAGATTTGCCTTTGCCTA
1 AGAAA-AGAGATTTGCCTTTGCCTA
* *
17026711 AGAAATGAGATTTGCCTTTGCCTG
1 AGAAAAGAGATTTGCCTTTGCCTA
17026735 AGAAAAAGAGA
1 AG-AAAAGAGA
17026746 AAAAGAGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 19 0.61
25 12 0.39
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (24 bp):
AGAAAAGAGATTTGCCTTTGCCTA
Found at i:17026720 original size:24 final size:24
Alignment explanation
Indices: 17026693--17026739 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
17026683 CTTAGAAAGA
17026693 GAGATTTGCCTTTGCCTAAGAAAT
1 GAGATTTGCCTTTGCCTAAGAAAT
*
17026717 GAGATTTGCCTTTGCCTGAGAAA
1 GAGATTTGCCTTTGCCTAAGAAA
17026740 AAGAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (24 bp):
GAGATTTGCCTTTGCCTAAGAAAT
Found at i:17027052 original size:22 final size:22
Alignment explanation
Indices: 17027027--17027072 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
17027017 TGTCACATTG
17027027 TTTTGGGGCCAAATGTGTTGGC
1 TTTTGGGGCCAAATGTGTTGGC
17027049 TTTTGGGGCCAAATGTGTTGGC
1 TTTTGGGGCCAAATGTGTTGGC
17027071 TT
1 TT
17027073 ACTTTTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.13, C:0.13, G:0.35, T:0.39
Consensus pattern (22 bp):
TTTTGGGGCCAAATGTGTTGGC
Found at i:17027851 original size:20 final size:21
Alignment explanation
Indices: 17027812--17027851 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17027802 GTCAACAGGG
17027812 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
17027833 CCACACGGGTGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
17027852 GTTTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:17036585 original size:39 final size:40
Alignment explanation
Indices: 17036542--17036711 Score: 218
Period size: 40 Copynumber: 4.3 Consensus size: 40
17036532 TCCTCGTTCT
* * *
17036542 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACA
* *
17036581 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACA
* *
17036621 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACA
* * * *
17036661 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCACA
17036701 AATGCCTTCGG
1 AATGCCTTCGG
17036712 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
39 35 0.30
40 79 0.67
41 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACA
Found at i:17036640 original size:40 final size:39
Alignment explanation
Indices: 17036542--17036764 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
17036532 TCCTCGTTCT
* * * *
17036542 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
17036581 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
17036620 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
17036660 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
17036700 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
17036741 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
17036765 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:17036773 original size:41 final size:41
Alignment explanation
Indices: 17036696--17036773 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
17036686 TTTGTATCTC
* * *
17036696 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
17036737 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
17036774 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:17048181 original size:16 final size:16
Alignment explanation
Indices: 17048160--17048198 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
17048150 ATGTATCGGC
*
17048160 AAAAGCCAAAATGTAG
1 AAAAGCCAAAATGCAG
*
17048176 AAAAGCCAAAATGCCG
1 AAAAGCCAAAATGCAG
17048192 AAAAGCC
1 AAAAGCC
17048199 GAAAGTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.54, C:0.21, G:0.18, T:0.08
Consensus pattern (16 bp):
AAAAGCCAAAATGCAG
Found at i:17048462 original size:29 final size:29
Alignment explanation
Indices: 17048426--17048525 Score: 130
Period size: 29 Copynumber: 3.5 Consensus size: 29
17048416 TGAATGGGAC
*
17048426 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
17048455 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* * *
17048484 TGAGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
17048512 TGGGCTTAATGGGC
1 TGGGCCTAATGGGC
17048526 TAGATACAGG
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 13 0.21
29 48 0.79
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:17050209 original size:126 final size:125
Alignment explanation
Indices: 17049993--17050517 Score: 773
Period size: 126 Copynumber: 4.2 Consensus size: 125
17049983 AAAAGCTTTT
* *
17049993 ACGTGGACGCTCTTTTGGTACAGTAGTCTCTG-AAAAATAAATTTGAGAAGACGTGTCTGCACAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
17050057 ATAGTGTTAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTG-TAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * **
17050118 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTATGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * *
17050183 ATAGTGTAAAAAATGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACGGAAAGAAGCTTCC
66 ATAGTGT-AAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * *
17050244 ACGTGGACGCTTTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAAAAGACGTGTTTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * *
17050309 ATAGTGGTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * * * *
17050370 ACGTAGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTAAGAAGACATGTCCGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * *
17050435 ATAGTGTCAAAAACGCTTCAAGTAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCTC
66 ATAGTGT-AAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
17050496 ACGTGGACGCTCTTTTGCTACA
1 ACGTGGACGCTCTTTTGCTACA
17050518 ATGGTTTCTG
Statistics
Matches: 359, Mismatches: 37, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
125 33 0.09
126 324 0.90
127 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (125 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
ATAGTGTAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:17053655 original size:116 final size:116
Alignment explanation
Indices: 17053478--17053833 Score: 604
Period size: 116 Copynumber: 3.1 Consensus size: 116
17053468 TATTTATATT
* * *
17053478 TTATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTAT
1 TTATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTAT
*
17053543 TAAAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATA
66 TAAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATA
* *
17053594 TTATCACAAGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTAT
1 TTATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTAT
* * *
17053659 TAAAAATATAAAAGTAAATTACAATTACTTTATTCAAAATAACCTTTTATC
66 TAAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATA
*
17053710 TAATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTAT
1 TTATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTAT
*
17053775 TAAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATC
66 TAAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATA
*
17053826 TAATTACA
1 TTATTACA
17053834 ATTGTGTGGG
Statistics
Matches: 226, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 226 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (116 bp):
TTATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTAT
TAAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATA
Done.