Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 45 of 199
Found at i:13069533 original size:7 final size:7
Alignment explanation
Indices: 13069523--13069548 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13069513 CATAATACAT
13069523 AATACTA
1 AATACTA
13069530 AATACTA
1 AATACTA
13069537 AATACTA
1 AATACTA
13069544 AATAC
1 AATAC
13069549 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:13070731 original size:11 final size:11
Alignment explanation
Indices: 13070715--13070740 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13070705 GCTTTTTTTA
13070715 AGAGGAATTTG
1 AGAGGAATTTG
13070726 AGAGGAATTTG
1 AGAGGAATTTG
13070737 AGAG
1 AGAG
13070741 AATATTGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (11 bp):
AGAGGAATTTG
Found at i:13071729 original size:109 final size:110
Alignment explanation
Indices: 13071510--13071751 Score: 330
Period size: 111 Copynumber: 2.2 Consensus size: 110
13071500 GGAAAAAAGA
*
13071510 ACCCAGTACAGTAAAAAAAATTTGAGTTTTGGTCTGTCAATGACCGGCACCAGAGTACGAAAAAA
1 ACCCAGTACAGTAAAAAAAATTTGAGTTTTGGTCTGTCAATGACAGGCACCAGAGTACGAAAAAA
*
13071575 AGTAAAAAAAAAATTTTTTTTGAGTGCTGGCCTGTCAATGGCCGGC
66 AGTAAAAAAAAAA-TATTTTTGAGTGCTGGCCTGTCAATGGCCGGC
* ** * * *
13071621 ACCCAGTACAGTAAAAAAAATTTTAGTTTTTTTCGTGTC-ATTATCAGGTATCAGTA-TACG-AA
1 ACCCAGTACAGTAAAAAAAATTTGAGTTTTGGTC-TGTCAATGA-CAGGCACCAG-AGTACGAAA
*
13071683 AAAAGTAAAAAAAAAA-ATTTTTGGGTGCTGGCCTGTCAATGGCCGGC
63 AAAAGTAAAAAAAAAATATTTTTGAGTGCTGGCCTGTCAATGGCCGGC
*
13071730 ATCCAGTACAGTAAAAAAAATT
1 ACCCAGTACAGTAAAAAAAATT
13071752 AGTTNNNNNN
Statistics
Matches: 118, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
109 50 0.42
111 52 0.44
112 15 0.13
113 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (110 bp):
ACCCAGTACAGTAAAAAAAATTTGAGTTTTGGTCTGTCAATGACAGGCACCAGAGTACGAAAAAA
AGTAAAAAAAAAATATTTTTGAGTGCTGGCCTGTCAATGGCCGGC
Found at i:13072120 original size:19 final size:19
Alignment explanation
Indices: 13072083--13072121 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13072073 TTCAGGTTAT
*
13072083 TTTGGTTATTGTTTTTAAA
1 TTTGGTTATTGTTTGTAAA
13072102 TTTGAGTTATT-TTTGTAAA
1 TTTG-GTTATTGTTTGTAAA
13072121 T
1 T
13072122 ATAATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (19 bp):
TTTGGTTATTGTTTGTAAA
Found at i:13072456 original size:25 final size:26
Alignment explanation
Indices: 13072408--13072461 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
13072398 TTAAAAATAA
*
13072408 TTAAATAGTATTTAAAAATTTTAATT
1 TTAAATAGTATTTAAAAATTTTAAAT
13072434 TTAAATAG-ATTT-AAAATTGTTAAAT
1 TTAAATAGTATTTAAAAATT-TTAAAT
13072459 TTA
1 TTA
13072462 GAAATAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 6 0.23
25 12 0.46
26 8 0.31
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (26 bp):
TTAAATAGTATTTAAAAATTTTAAAT
Found at i:13074790 original size:29 final size:30
Alignment explanation
Indices: 13074709--13074791 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
13074699 ACGTAAATGT
* * *
13074709 AATTCAAAAGTATAGGGACTAAAATTGATTA
1 AATT-AAAAGTACATGGACTAAAATTGATCA
* *
13074740 ATTTGAAAAGTACATGGGCTAAAATTGATCA
1 AATT-AAAAGTACATGGACTAAAATTGATCA
*
13074771 AATT-ATAGTACATGGACTAAA
1 AATTAAAAGTACATGGACTAAA
13074792 TCTACAACTT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
29 15 0.35
31 28 0.65
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (30 bp):
AATTAAAAGTACATGGACTAAAATTGATCA
Found at i:13075869 original size:22 final size:22
Alignment explanation
Indices: 13075844--13075890 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
13075834 AAATTTTTAA
* *
13075844 TATTGTAATATATTATTTTATT
1 TATTGTAATATATTATGTAATT
* *
13075866 TATTTTTATATATTATGTAATT
1 TATTGTAATATATTATGTAATT
13075888 TAT
1 TAT
13075891 ATCACATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (22 bp):
TATTGTAATATATTATGTAATT
Found at i:13079813 original size:20 final size:21
Alignment explanation
Indices: 13079783--13079875 Score: 68
Period size: 20 Copynumber: 4.4 Consensus size: 21
13079773 TCAAAGATAT
13079783 TTGTAATTAATA-TATATTATA
1 TTGT-ATTAATATTATATTATA
* *
13079804 TTGTATTAAT-TTAATAAATAAA
1 TTGTATTAATATT-AT-ATTATA
*
13079826 TAAGTAATT-ATATTATATTATA
1 T-TGT-ATTAATATTATATTATA
*
13079848 TTATATT-ATATTATATTATA
1 TTGTATTAATATTATATTATA
*
13079868 TTATATTA
1 TTGTATTA
13079876 TGAACAAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
20 30 0.52
21 7 0.12
22 10 0.17
23 6 0.10
24 5 0.09
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TTGTATTAATATTATATTATA
Found at i:13079842 original size:5 final size:5
Alignment explanation
Indices: 13079832--13079876 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
13079822 TAAATAAGTA
13079832 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
13079877 GAACAAATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:13080915 original size:22 final size:22
Alignment explanation
Indices: 13080853--13080932 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
13080843 TAGCATGTTG
*
13080853 GTGCTCTTTGATTACTAGCACGTCA
1 GTGCTCTTTG--TA-TAGCACATCA
* ** * *
13080878 ATGCTCTCCGTTTAGCACATCG
1 GTGCTCTTTGTATAGCACATCA
* *
13080900 GTGCTCTTTGTATAGCACTTTA
1 GTGCTCTTTGTATAGCACATCA
13080922 GTGCTCTTTGT
1 GTGCTCTTTGT
13080933 TCATTAGTGC
Statistics
Matches: 42, Mismatches: 13, Indels: 3
0.72 0.22 0.05
Matches are distributed among these distances:
22 34 0.81
23 1 0.02
25 7 0.17
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (22 bp):
GTGCTCTTTGTATAGCACATCA
Found at i:13082641 original size:17 final size:17
Alignment explanation
Indices: 13082600--13082647 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
13082590 CATTGTCCCC
*
13082600 AATGCATTGAC-ATGAA
1 AATGCAATGACAATGAA
* *
13082616 TATGTAATGACAATGAA
1 AATGCAATGACAATGAA
*
13082633 AATGCAATGAGAATG
1 AATGCAATGACAATG
13082648 TATACTTATC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 8 0.32
17 17 0.68
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (17 bp):
AATGCAATGACAATGAA
Found at i:13104090 original size:33 final size:33
Alignment explanation
Indices: 13104048--13104132 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 33
13104038 TACACTTTGT
*
13104048 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCGTATGAGCA
** *
13104081 TTGGTGTGTTGGAGGGATTAGCTCGTGTGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCGTATGAGCA
*
13104114 TCTTGTGTGTTTGGTTGGA
1 T-TGGTGTG-TTGGTTGGA
13104133 CTGACAATGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 30 0.70
34 6 0.14
35 7 0.16
ACGTcount: A:0.13, C:0.08, G:0.38, T:0.41
Consensus pattern (33 bp):
TTGGTGTGTTGGTTGGATTAGCTCGTATGAGCA
Found at i:13106780 original size:20 final size:20
Alignment explanation
Indices: 13106755--13106795 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
13106745 TTAAAAAGAA
13106755 AAAAT-AATAAAGAGAAAAAT
1 AAAATAAATAAA-AGAAAAAT
*
13106775 AAAATAAATAAAATAAAAAT
1 AAAATAAATAAAAGAAAAAT
13106795 A
1 A
13106796 TGCTAGAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (20 bp):
AAAATAAATAAAAGAAAAAT
Found at i:13109159 original size:14 final size:14
Alignment explanation
Indices: 13109140--13109175 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
13109130 TTGATTGCCA
*
13109140 GTAAAATGTTTTCT
1 GTAAAATGATTTCT
13109154 GTAAAATGATTTCT
1 GTAAAATGATTTCT
*
13109168 GGAAAATG
1 GTAAAATG
13109176 CTTTACTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (14 bp):
GTAAAATGATTTCT
Found at i:13110234 original size:10 final size:10
Alignment explanation
Indices: 13110219--13110244 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
13110209 TCATTAAGTG
13110219 CTAACAAATA
1 CTAACAAATA
13110229 CTAACAAATA
1 CTAACAAATA
13110239 CTAACA
1 CTAACA
13110245 GATCAGTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (10 bp):
CTAACAAATA
Found at i:13112105 original size:38 final size:39
Alignment explanation
Indices: 13112027--13112105 Score: 90
Period size: 39 Copynumber: 2.1 Consensus size: 39
13112017 GGATCGGTGG
* * *
13112027 CAAAAAATGGATCTAACCCCATATAGAGAAAATACTAAA
1 CAAAAAATGGATCAAACCCCAAATAGAGAAAATACAAAA
* *
13112066 CAAAAAATGGATCAAACCGCAAAT-GA-AGAAATTCAAAA
1 CAAAAAATGGATCAAACCCCAAATAGAGA-AAATACAAAA
13112104 CA
1 CA
13112106 GATTCGTTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
37 1 0.03
38 12 0.35
39 21 0.62
ACGTcount: A:0.56, C:0.18, G:0.11, T:0.15
Consensus pattern (39 bp):
CAAAAAATGGATCAAACCCCAAATAGAGAAAATACAAAA
Found at i:13113941 original size:21 final size:21
Alignment explanation
Indices: 13113899--13113942 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
13113889 ATTAAAAGTT
*
13113899 AAATTAAAAACAAAATTACTA
1 AAATTAAAAACAAAATGACTA
*
13113920 AAATTAAAATA-AAAATGCCTA
1 AAATTAAAA-ACAAAATGACTA
13113941 AA
1 AA
13113943 TTAGTAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (21 bp):
AAATTAAAAACAAAATGACTA
Found at i:13115084 original size:7 final size:7
Alignment explanation
Indices: 13115053--13115087 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
13115043 AATTTAAATA
13115053 AAATGAG
1 AAATGAG
13115060 AAAGTGAG
1 AAA-TGAG
*
13115068 AAGTGAG
1 AAATGAG
13115075 AAATGAG
1 AAATGAG
13115082 AAATGA
1 AAATGA
13115088 TCCAAGGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.54, C:0.00, G:0.31, T:0.14
Consensus pattern (7 bp):
AAATGAG
Found at i:13117771 original size:20 final size:20
Alignment explanation
Indices: 13117746--13117788 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
13117736 AAAACTTAAA
13117746 CTTGTTGATAAAACTCGTTT
1 CTTGTTGATAAAACTCGTTT
13117766 CTTGTTGATAAAACTCGTTT
1 CTTGTTGATAAAACTCGTTT
13117786 CTT
1 CTT
13117789 AAGTTTGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (20 bp):
CTTGTTGATAAAACTCGTTT
Found at i:13118501 original size:26 final size:26
Alignment explanation
Indices: 13118471--13118534 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
13118461 AACAAAGCTG
13118471 CCAGTAACAGTAATGCAGCAGGGCTA
1 CCAGTAACAGTAATGCAGCAGGGCTA
* *
13118497 CCAGTAATAGTAATGCAGCAGGGCTG
1 CCAGTAACAGTAATGCAGCAGGGCTA
13118523 CCAGTAACAGTA
1 CCAGTAACAGTA
13118535 TATGTGGCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.17
Consensus pattern (26 bp):
CCAGTAACAGTAATGCAGCAGGGCTA
Found at i:13118742 original size:27 final size:27
Alignment explanation
Indices: 13118712--13118937 Score: 296
Period size: 27 Copynumber: 8.4 Consensus size: 27
13118702 TATAAAAGTT
*
13118712 ATTTTACCCTTCAAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
13118739 ATTTTACCCTTCGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* * *
13118766 ATTTTACCCATCGAGGTTATTTTG-TA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
13118792 ATTTTACCCTTCGAGGGTATATCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
13118819 ATTTTACCCTTCGAGGGTATTTC-AGTA
1 ATTTTACCCTTCGAGGGTATTTCGA-TA
* * *
13118846 ATTTTTCCCTT-TAGGGGTATTTCAATA
1 ATTTTACCCTTCGA-GGGTATTTCGATA
*
13118873 ATTTTACCCTTTGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
13118900 ATTTTACCCTTCGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
13118927 ATTTTTCCCTT
1 ATTTTACCCTT
13118938 TAGGGGAATT
Statistics
Matches: 176, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
26 24 0.14
27 150 0.85
28 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATA
Found at i:13118913 original size:81 final size:81
Alignment explanation
Indices: 13118712--13118961 Score: 369
Period size: 81 Copynumber: 3.1 Consensus size: 81
13118702 TATAAAAGTT
* * * *
13118712 ATTTTACCCTTCAAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTTGGTAATTTTACCC-A
1 ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCGGTAATTTTTCCCTT
* * *
13118776 TCGAGGTTATTT-TGTA
66 TAG-GGGTATTTCAGTA
* *
13118792 ATTTTACCCTTCGAGGGTATATCGATAATTTTACCCTTCGAGGGTATTTCAGTAATTTTTCCCTT
1 ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCGGTAATTTTTCCCTT
*
13118857 TAGGGGTATTTCAATA
66 TAGGGGTATTTCAGTA
*
13118873 ATTTTACCCTTTGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCGGTAATTTTTCCCTT
1 ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCGGTAATTTTTCCCTT
*
13118938 TAGGGGAATTTCAGTA
66 TAGGGGTATTTCAGTA
13118954 ATTTTACC
1 ATTTTACC
13118962 ATGATTTGCA
Statistics
Matches: 153, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
80 65 0.42
81 88 0.58
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (81 bp):
ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCGGTAATTTTTCCCTT
TAGGGGTATTTCAGTA
Found at i:13119919 original size:17 final size:19
Alignment explanation
Indices: 13119883--13119922 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
13119873 AATCAGCAAC
*
13119883 AAGAGAAGAAGAAACCGAA
1 AAGAGAAGAAGAAACAGAA
13119902 AAGA-AAGAAGAAA-AGAA
1 AAGAGAAGAAGAAACAGAA
13119919 AAGA
1 AAGA
13119923 TGAGGGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.70, C:0.05, G:0.25, T:0.00
Consensus pattern (19 bp):
AAGAGAAGAAGAAACAGAA
Found at i:13125606 original size:19 final size:20
Alignment explanation
Indices: 13125590--13125627 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13125580 TCAAAACTTA
*
13125590 TACTTTTTGATAAAACTCAT
1 TACTTGTTGATAAAACTCAT
*
13125610 TTCTTGTTGATAAAACTC
1 TACTTGTTGATAAAACTC
13125628 GTTTCTTAAG
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:0.32, C:0.16, G:0.08, T:0.45
Consensus pattern (20 bp):
TACTTGTTGATAAAACTCAT
Found at i:13125621 original size:20 final size:20
Alignment explanation
Indices: 13125596--13125634 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13125586 CTTATACTTT
13125596 TTGATAAAACTCATTTCTTG
1 TTGATAAAACTCATTTCTTG
*
13125616 TTGATAAAACTCGTTTCTT
1 TTGATAAAACTCATTTCTT
13125635 AAGTTTGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (20 bp):
TTGATAAAACTCATTTCTTG
Found at i:13126362 original size:32 final size:32
Alignment explanation
Indices: 13126326--13126403 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
13126316 TCCCAACCCC
13126326 ATGCAGTATGTCATGTCATAAATCATACGTGT
1 ATGCAGTATGTCATGTCATAAATCATACGTGT
* *
13126358 ATGCAGTATGTTATGTCATAAATCATACTTGT
1 ATGCAGTATGTCATGTCATAAATCATACGTGT
13126390 ATGCAGTATGTCAT
1 ATGCAGTATGTCAT
13126404 ACTCAGTAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (32 bp):
ATGCAGTATGTCATGTCATAAATCATACGTGT
Found at i:13126497 original size:27 final size:27
Alignment explanation
Indices: 13126480--13126648 Score: 168
Period size: 27 Copynumber: 6.3 Consensus size: 27
13126470 TATATAAGTT
*
13126480 ATTTTACCCTTCAAGGGTATTTCGATA
1 ATTTTACCCTTCAAGGGTATTTAGATA
13126507 ATTTTACCCTTC-AGGTGTATTTTAG-TA
1 ATTTTACCCTTCAAGG-GTA-TTTAGATA
* *
13126534 ATTTTACCCTTCAAGGTTATTTCGATA
1 ATTTTACCCTTCAAGGGTATTTAGATA
* *
13126561 ATTTTACCCTTTAAGGGTATTTCGATA
1 ATTTTACCCTTCAAGGGTATTTAGATA
*** * *
13126588 ATTTTACCCTTTGGGGGTATTTTGGTA
1 ATTTTACCCTTCAAGGGTATTTAGATA
*
13126615 A-TTTA-CCTTCCGAGGGTATTTCAG-TA
1 ATTTTACCCTT-CAAGGGTATTT-AGATA
13126641 ATTTTACC
1 ATTTTACC
13126649 ATGATTCGCA
Statistics
Matches: 122, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
25 4 0.03
26 23 0.19
27 87 0.71
28 8 0.07
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCAAGGGTATTTAGATA
Found at i:13126609 original size:54 final size:54
Alignment explanation
Indices: 13126480--13126648 Score: 193
Period size: 54 Copynumber: 3.1 Consensus size: 54
13126470 TATATAAGTT
* *
13126480 ATTTTACCCTTCAAGGGTATTTCGATAATTTTACCC-TTCAGGTGTATTTTAGTA
1 ATTTTACCCTTCAAGGGTATTTCGATAATTTTACCCTTTAAGG-GTATTTCAGTA
*
13126534 ATTTTACCCTTCAAGGTTATTTCGATAATTTTACCCTTTAAGGGTATTTC-GATA
1 ATTTTACCCTTCAAGGGTATTTCGATAATTTTACCCTTTAAGGGTATTTCAG-TA
*** * * **
13126588 ATTTTACCCTTTGGGGGTATTTTGGTAA-TTTA-CCTTCCGAGGGTATTTCAGTA
1 ATTTTACCCTTCAAGGGTATTTCGATAATTTTACCCTT-TAAGGGTATTTCAGTA
13126641 ATTTTACC
1 ATTTTACC
13126649 ATGATTCGCA
Statistics
Matches: 100, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
52 4 0.04
53 25 0.25
54 66 0.66
55 5 0.05
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.44
Consensus pattern (54 bp):
ATTTTACCCTTCAAGGGTATTTCGATAATTTTACCCTTTAAGGGTATTTCAGTA
Found at i:13126616 original size:81 final size:80
Alignment explanation
Indices: 13126480--13126648 Score: 234
Period size: 81 Copynumber: 2.1 Consensus size: 80
13126470 TATATAAGTT
*
13126480 ATTTTACCCTTCAAGGGTATTTCGATAATTTTACCCTTCAGGTGTATTTTAGTAATTTTACCCTT
1 ATTTTACCCTTCAAGGGTATTTCGATAATTTTACCCTTCAGGGGTATTTTAGTAA-TTTA-CCTT
*
13126545 -CAAGGTTATTTC-GATA
64 CCAAGGGTATTTCAG-TA
* ** *
13126561 ATTTTACCCTTTAAGGGTATTTCGATAATTTTACCCTTTGGGGGTATTTTGGTAATTTACCTTCC
1 ATTTTACCCTTCAAGGGTATTTCGATAATTTTACCCTTCAGGGGTATTTTAGTAATTTACCTTCC
*
13126626 GAGGGTATTTCAGTA
66 AAGGGTATTTCAGTA
13126641 ATTTTACC
1 ATTTTACC
13126649 ATGATTCGCA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
79 4 0.05
80 24 0.30
81 51 0.65
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.44
Consensus pattern (80 bp):
ATTTTACCCTTCAAGGGTATTTCGATAATTTTACCCTTCAGGGGTATTTTAGTAATTTACCTTCC
AAGGGTATTTCAGTA
Found at i:13134964 original size:24 final size:24
Alignment explanation
Indices: 13134932--13134990 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
13134922 GCTATCCGGT
13134932 GCTACCCGTTAATTGCTCTTC-AGA
1 GCTACCCGTTAATTGCTCTTCGA-A
*
13134956 GCTACCCGTTCATTGCTCTTCGAA
1 GCTACCCGTTAATTGCTCTTCGAA
13134980 GCTACCCGTTA
1 GCTACCCGTTA
13134991 TAGGCTCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 31 0.97
25 1 0.03
ACGTcount: A:0.19, C:0.32, G:0.17, T:0.32
Consensus pattern (24 bp):
GCTACCCGTTAATTGCTCTTCGAA
Found at i:13134997 original size:24 final size:24
Alignment explanation
Indices: 13134932--13134999 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 24
13134922 GCTATCCGGT
13134932 GCTACCCGTTA-ATTGCTCTTCAGA
1 GCTACCCGTTATA-TGCTCTTCAGA
13134956 GCTACCCGTTCAT-TGCTCTTC-GAA
1 GCTACCCGTT-ATATGCTCTTCAG-A
*
13134980 GCTACCCGTTATAGGCTCTT
1 GCTACCCGTTATATGCTCTT
13135000 TGTGAGCTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
23 3 0.08
24 35 0.90
25 1 0.03
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.34
Consensus pattern (24 bp):
GCTACCCGTTATATGCTCTTCAGA
Found at i:13135071 original size:24 final size:25
Alignment explanation
Indices: 13135002--13135071 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
13134992 AGGCTCTTTG
** * *
13135002 TGAGCTTCCTGTTATATTGCCCAGA
1 TGAGCTTCCCATTATAATGCTCAGA
* *
13135027 TAAGCTTCCCATTACAATGCTCA-A
1 TGAGCTTCCCATTATAATGCTCAGA
*
13135051 TGAGCTTCCCATTATAGTGCT
1 TGAGCTTCCCATTATAATGCT
13135072 TGAGAGAGAG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 19 0.53
25 17 0.47
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (25 bp):
TGAGCTTCCCATTATAATGCTCAGA
Found at i:13139181 original size:24 final size:24
Alignment explanation
Indices: 13139149--13139196 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
13139139 CCGTTGAAGG
13139149 TATTAGAGTTGATCTGAGTAAAAC
1 TATTAGAGTTGATCTGAGTAAAAC
13139173 TATTAGAGTTGATCTGAGTAAAAC
1 TATTAGAGTTGATCTGAGTAAAAC
13139197 ATCAGCTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (24 bp):
TATTAGAGTTGATCTGAGTAAAAC
Found at i:13144059 original size:28 final size:29
Alignment explanation
Indices: 13144018--13144073 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
13144008 TACTTCAAAT
* *
13144018 ACCATACGACCTAA-GACACGGGTGTGTC
1 ACCACACGACCTAACCACACGGGTGTGTC
*
13144046 ACCACACGGCCTAACCACACGGGTGTGT
1 ACCACACGACCTAACCACACGGGTGTGT
13144074 GTCCCTTGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.27, C:0.32, G:0.25, T:0.16
Consensus pattern (29 bp):
ACCACACGACCTAACCACACGGGTGTGTC
Found at i:13149629 original size:13 final size:12
Alignment explanation
Indices: 13149608--13149655 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
13149598 AAAATTTACA
13149608 AAAATACTTTTT
1 AAAATACTTTTT
*
13149620 AAAATCACTTTTC
1 AAAAT-ACTTTTT
*
13149633 AAAATATTTTTT
1 AAAATACTTTTT
13149645 AAAAATACTTT
1 -AAAATACTTT
13149656 CCAAAAACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 10 0.33
13 20 0.67
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (12 bp):
AAAATACTTTTT
Found at i:13149638 original size:25 final size:25
Alignment explanation
Indices: 13149608--13149661 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
13149598 AAAATTTACA
*
13149608 AAAATACTTTTT-AAAATCACTTTTC
1 AAAATACTTTTTAAAAAT-ACTTTCC
*
13149633 AAAATATTTTTTAAAAATACTTTCC
1 AAAATACTTTTTAAAAATACTTTCC
13149658 AAAA
1 AAAA
13149662 ACAATATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (25 bp):
AAAATACTTTTTAAAAATACTTTCC
Found at i:13149661 original size:13 final size:13
Alignment explanation
Indices: 13149606--13149662 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
13149596 CTAAAATTTA
13149606 CAAAAATACTTTT
1 CAAAAATACTTTT
*
13149619 -TAAAATCACTTTT
1 CAAAAAT-ACTTTT
*
13149632 C-AAAATATTTTT
1 CAAAAATACTTTT
* *
13149644 TAAAAATACTTTC
1 CAAAAATACTTTT
13149657 CAAAAA
1 CAAAAA
13149663 CAATATTGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
12 10 0.29
13 25 0.71
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (13 bp):
CAAAAATACTTTT
Found at i:13154042 original size:22 final size:23
Alignment explanation
Indices: 13153989--13154044 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
13153979 TTTAATTAAA
* * *
13153989 ATTAAAATTAAAATTAGTTTTTT
1 ATTAAAATTAAAACTAGATTGTT
*
13154012 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTAGATTGTT
13154034 ATTAAAATTAA
1 ATTAAAATTAA
13154045 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (23 bp):
ATTAAAATTAAAACTAGATTGTT
Found at i:13154057 original size:16 final size:16
Alignment explanation
Indices: 13154020--13154059 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
13154010 TTAATAAAAT
* *
13154020 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
13154036 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
13154052 TAAAATTA
1 TAAAATTA
13154060 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:13154138 original size:59 final size:59
Alignment explanation
Indices: 13154070--13154248 Score: 250
Period size: 68 Copynumber: 2.9 Consensus size: 59
13154060 TCAAATTATT
*
13154070 AATTGTTAATTGTATTAATTGATGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGATGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
13154129 AATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTA
1 AATTATTAATTGTATTAATTG-----A----TGTAATAAAATCTAACATTTGATTAGTAAATTTA
13154194 TCA
57 TCA
* *
13154197 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 AATTATTAATTGTATTAATTGATGTAATAAAATCTAACATTTGATTAGTAAA
13154249 ACAAACTTGA
Statistics
Matches: 108, Mismatches: 3, Indels: 18
0.84 0.02 0.14
Matches are distributed among these distances:
59 49 0.45
64 1 0.01
68 58 0.54
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGATGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:13154165 original size:9 final size:9
Alignment explanation
Indices: 13154132--13154159 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
13154122 TTTATCAAAT
13154132 TATTAATTG
1 TATTAATTG
13154141 TATTAATTG
1 TATTAATTG
13154150 TATTAATTG
1 TATTAATTG
13154159 T
1 T
13154160 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:13154170 original size:68 final size:68
Alignment explanation
Indices: 13154048--13154218 Score: 310
Period size: 68 Copynumber: 2.5 Consensus size: 68
13154038 AAATTAATTG
*
13154048 TTAGTAAAATTATCAAATTATTAATTG--TTAATTGTATTAATTGATGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGATGTAATAAAATCTAACATT
13154111 TGA
66 TGA
*
13154114 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGATGTAATAAAATCTAACATT
13154179 TGA
66 TGA
13154182 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGT
13154219 TGTAACAAAA
Statistics
Matches: 101, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
66 26 0.26
68 75 0.74
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (68 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGATGTAATAAAATCTAACATT
TGA
Found at i:13154361 original size:22 final size:24
Alignment explanation
Indices: 13154321--13154364 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
13154311 AAATAAACTT
13154321 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
13154345 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
13154365 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:13155672 original size:10 final size:9
Alignment explanation
Indices: 13155649--13155727 Score: 72
Period size: 9 Copynumber: 8.7 Consensus size: 9
13155639 TATTCTTTAG
13155649 ATTTTTAAA
1 ATTTTTAAA
13155658 ATTTTTAAA
1 ATTTTTAAA
*
13155667 ATTTTTAAG
1 ATTTTTAAA
13155676 A-TTTTAAA
1 ATTTTTAAA
** *
13155684 AAATGTATAA
1 ATTTTTA-AA
*
13155694 A-TTTTAGA
1 ATTTTTAAA
13155702 ATTTTTAAA
1 ATTTTTAAA
13155711 ATTATATTAAA
1 ATT-T-TTAAA
13155722 ATTTTT
1 ATTTTT
13155728 TTGTAATTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
8 9 0.16
9 35 0.61
10 5 0.09
11 8 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:13155677 original size:27 final size:27
Alignment explanation
Indices: 13155625--13155727 Score: 88
Period size: 26 Copynumber: 3.8 Consensus size: 27
13155615 TTTAAAAAAA
* *
13155625 TTAAATTTTTTATATATTCTTTAGATTT
1 TTAAAATTTTTATAAATT-TTTAGATTT
13155653 TTAAAATTTTTA-AAATTTTTAAGA-TT
1 TTAAAATTTTTATAAATTTTT-AGATTT
** *
13155679 TTAAAAAATGTATAAA-TTTTAGAATTT
1 TTAAAATTTTTATAAATTTTTAG-ATTT
13155706 TTAAAATTATATTA-AAATTTTT
1 TTAAAATT-T-TTATAAATTTTT
13155728 TTGTAATTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
25 2 0.03
26 19 0.32
27 18 0.30
28 15 0.25
29 6 0.10
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (27 bp):
TTAAAATTTTTATAAATTTTTAGATTT
Found at i:13157565 original size:2 final size:2
Alignment explanation
Indices: 13157558--13157583 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13157548 AGAGAAATAA
13157558 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
13157584 TCAAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13166004 original size:3 final size:3
Alignment explanation
Indices: 13165991--13166022 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
13165981 GGAATCGACT
*
13165991 TCA TAA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
13166023 TATTGAAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:13171831 original size:24 final size:24
Alignment explanation
Indices: 13171804--13171852 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
13171794 TATGCTACCA
13171804 AGGAGCCCACTCAAACTACTGTTG
1 AGGAGCCCACTCAAACTACTGTTG
* **
13171828 AGGAGCCTACTCAATTTACTGTTG
1 AGGAGCCCACTCAAACTACTGTTG
13171852 A
1 A
13171853 AGATTCCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (24 bp):
AGGAGCCCACTCAAACTACTGTTG
Found at i:13172336 original size:14 final size:14
Alignment explanation
Indices: 13172319--13172347 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13172309 GTATGTATGA
13172319 TCATTTTAGTATAG
1 TCATTTTAGTATAG
13172333 TCATTTTAGTATAG
1 TCATTTTAGTATAG
13172347 T
1 T
13172348 TAAATCTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.52
Consensus pattern (14 bp):
TCATTTTAGTATAG
Found at i:13179723 original size:19 final size:22
Alignment explanation
Indices: 13179699--13179738 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13179689 AATCGTGAAA
13179699 AATAC-TAA-AAA-AAAATAAG
1 AATACTTAACAAAGAAAATAAG
13179718 AATACTTAACAAAGAAAATAA
1 AATACTTAACAAAGAAAATAA
13179739 ACAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 3 0.17
21 3 0.17
22 7 0.39
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.17
Consensus pattern (22 bp):
AATACTTAACAAAGAAAATAAG
Found at i:13183874 original size:25 final size:24
Alignment explanation
Indices: 13183840--13183968 Score: 72
Period size: 25 Copynumber: 5.4 Consensus size: 24
13183830 ATCAAAGTAT
13183840 GCCACAAAGGTAACATATAAAATAC
1 GCCACAAAGG-AACATATAAAATAC
*
13183865 GCCACAAAGG--C-TATCAAAGTAC
1 GCCACAAAGGAACATAT-AAAATAC
* * *
13183887 GCCACAAAGGCAACATACAACATAT
1 GCCACAAAGG-AACATATAAAATAC
* * *
13183912 ACCACAAAGG--C-TATTAGAGTAC
1 GCCACAAAGGAACATA-TAAAATAC
* * *
13183934 GCCACAAAGGCAACAAACAAAATAT
1 GCCACAAAGG-AACATATAAAATAC
*
13183959 GCCATAAAGG
1 GCCACAAAGG
13183969 CCAAATAAAA
Statistics
Matches: 76, Mismatches: 18, Indels: 20
0.67 0.16 0.18
Matches are distributed among these distances:
21 5 0.07
22 30 0.39
25 38 0.50
26 3 0.04
ACGTcount: A:0.47, C:0.24, G:0.16, T:0.13
Consensus pattern (24 bp):
GCCACAAAGGAACATATAAAATAC
Found at i:13183883 original size:47 final size:47
Alignment explanation
Indices: 13183829--13183969 Score: 192
Period size: 47 Copynumber: 3.0 Consensus size: 47
13183819 AACATAGACT
* * * *
13183829 TATCAAAGTATGCCACAAAGGTAACATATAAAATACGCCACAAAGGC
1 TATCAAAGTACGCCACAAAGGCAACATACAAAATATGCCACAAAGGC
* *
13183876 TATCAAAGTACGCCACAAAGGCAACATACAACATATACCACAAAGGC
1 TATCAAAGTACGCCACAAAGGCAACATACAAAATATGCCACAAAGGC
* * * *
13183923 TATTAGAGTACGCCACAAAGGCAACAAACAAAATATGCCATAAAGGC
1 TATCAAAGTACGCCACAAAGGCAACATACAAAATATGCCACAAAGGC
13183970 CAAATAAAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 82 1.00
ACGTcount: A:0.47, C:0.23, G:0.15, T:0.15
Consensus pattern (47 bp):
TATCAAAGTACGCCACAAAGGCAACATACAAAATATGCCACAAAGGC
Found at i:13183890 original size:22 final size:23
Alignment explanation
Indices: 13183829--13183945 Score: 89
Period size: 22 Copynumber: 5.0 Consensus size: 23
13183819 AACATAGACT
*
13183829 TATCAAAGTATGCCACAAAGGTAACA
1 TATCAAAGTACGCCACAAAGG---CA
*
13183855 TAT-AAAATACGCCACAAAGGC-
1 TATCAAAGTACGCCACAAAGGCA
13183876 TATCAAAGTACGCCACAAAGGCAA
1 TATCAAAGTACGCCACAAAGGC-A
* **
13183900 CATACAACA-TATACCACAAAGGC-
1 TAT-CAA-AGTACGCCACAAAGGCA
* *
13183923 TATTAGAGTACGCCACAAAGGCA
1 TATCAAAGTACGCCACAAAGGCA
13183946 ACAAACAAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
21 4 0.05
22 31 0.42
23 2 0.03
24 2 0.03
25 30 0.41
26 4 0.05
ACGTcount: A:0.45, C:0.24, G:0.15, T:0.15
Consensus pattern (23 bp):
TATCAAAGTACGCCACAAAGGCA
Found at i:13189713 original size:28 final size:28
Alignment explanation
Indices: 13189674--13189756 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 28
13189664 TATAGTTTAA
* *
13189674 ATTTATTTATATAATAATATATTTTTTTT
1 ATTT-TTTATATAATAATATATTATTATT
13189703 ATTTTTTATATATAGTAATATA-TATTATT
1 ATTTTTTATATA-A-TAATATATTATTATT
* *
13189732 A-TTTATATATAATAGTATA-TATTAT
1 ATTTTTTATATAATAATATATTATTAT
13189757 ATGAAAGAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
26 12 0.25
27 1 0.02
28 17 0.35
29 11 0.23
30 7 0.15
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (28 bp):
ATTTTTTATATAATAATATATTATTATT
Found at i:13189722 original size:30 final size:29
Alignment explanation
Indices: 13189674--13189756 Score: 89
Period size: 30 Copynumber: 2.9 Consensus size: 29
13189664 TATAGTTTAA
* * * *
13189674 ATTTATTTATATAATAATATATTTTTTTT
1 ATTTATATATATAGTAATATATTATTATT
*
13189703 ATTTTTTATATATAGTAATATA-TATTATT
1 A-TTTATATATATAGTAATATATTATTATT
13189732 ATTTATATATAATAGT-ATATATTAT
1 ATTTATATAT-ATAGTAATATATTAT
13189757 ATGAAAGAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
28 13 0.29
29 15 0.33
30 17 0.38
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
ATTTATATATATAGTAATATATTATTATT
Found at i:13189726 original size:32 final size:33
Alignment explanation
Indices: 13189675--13189737 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
13189665 ATAGTTTAAA
* *
13189675 TTTATTTATATAATAATATATT-TTTTTTATTT
1 TTTATATATATAATAATATATTATTATTTATTT
13189707 TTTATATATAGTAAT-ATATATTATTATTTAT
1 TTTATATATA-TAATAATATATTATTATTTAT
13189738 ATATAATAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (33 bp):
TTTATATATATAATAATATATTATTATTTATTT
Found at i:13189730 original size:26 final size:26
Alignment explanation
Indices: 13189676--13189756 Score: 90
Period size: 26 Copynumber: 3.0 Consensus size: 26
13189666 TAGTTTAAAT
* * *
13189676 TTATTTATATAATAATATATTTTTTTTA
1 TTATTTATAT-ATAATA-ATATATATTA
* *
13189704 TTTTTTATATATAGTAATATATATTA
1 TTATTTATATATAATAATATATATTA
*
13189730 TTATTTATATATAATAGTATATATTA
1 TTATTTATATATAATAATATATATTA
13189756 T
1 T
13189757 ATGAAAGAGA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
26 31 0.69
27 5 0.11
28 9 0.20
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.59
Consensus pattern (26 bp):
TTATTTATATATAATAATATATATTA
Found at i:13191861 original size:26 final size:25
Alignment explanation
Indices: 13191831--13191898 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
13191821 GTTTAAGGTT
* *
13191831 TTTTTAACCTTATTTCTTATTTTATA
1 TTTTTAATCTTATTT-TTACTTTATA
** *
13191857 TTTTTTTTGTTATTTTTACTTTATA
1 TTTTTAATCTTATTTTTACTTTATA
13191882 TCTTTTAATCTTATTTT
1 T-TTTTAATCTTATTTT
13191899 ACATTATTTG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
25 10 0.30
26 23 0.70
ACGTcount: A:0.19, C:0.09, G:0.01, T:0.71
Consensus pattern (25 bp):
TTTTTAATCTTATTTTTACTTTATA
Found at i:13197068 original size:23 final size:23
Alignment explanation
Indices: 13197037--13197108 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
13197027 TATGTAATAT
* *
13197037 ACCGTAGTGTCAGAATGAATTGC
1 ACCGAAGTGCCAGAATGAATTGC
*
13197060 ACCGAAGTGCCAGAATGAATCGC
1 ACCGAAGTGCCAGAATGAATTGC
* *
13197083 ATC-ATAGTGCCAGAATGAATTCC
1 ACCGA-AGTGCCAGAATGAATTGC
13197106 ACC
1 ACC
13197109 TTAGTCACAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
22 1 0.02
23 40 0.98
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (23 bp):
ACCGAAGTGCCAGAATGAATTGC
Found at i:13218335 original size:41 final size:41
Alignment explanation
Indices: 13218265--13218346 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
13218255 ATTAAACTCT
* *
13218265 ATTTTTTAGTTTCCCACTTAAAATTTGATTAGGGTAGGTTA
1 ATTTATTAGTTTCCCACTTAAAATCTGATTAGGGTAGGTTA
* * *
13218306 ATTTATTATTTTCCCACTTAAACTCTGATTAGTGTAGGTTA
1 ATTTATTAGTTTCCCACTTAAAATCTGATTAGGGTAGGTTA
13218347 TTGTAATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (41 bp):
ATTTATTAGTTTCCCACTTAAAATCTGATTAGGGTAGGTTA
Found at i:13218427 original size:20 final size:20
Alignment explanation
Indices: 13218402--13218447 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 20
13218392 TTTTTCCACC
13218402 TAAAAAAAATTTAACCTTAT
1 TAAAAAAAATTTAACCTTAT
13218422 T---AAAAATTTAACCTTAT
1 TAAAAAAAATTTAACCTTAT
13218439 TGAAAAAAA
1 T-AAAAAAA
13218448 GTTTTCCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
17 17 0.77
20 1 0.05
21 4 0.18
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAAAAAAATTTAACCTTAT
Found at i:13218428 original size:17 final size:18
Alignment explanation
Indices: 13218406--13218445 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
13218396 TCCACCTAAA
13218406 AAAAATTTAACCTTATT-
1 AAAAATTTAACCTTATTG
13218423 AAAAATTTAACCTTATTG
1 AAAAATTTAACCTTATTG
13218441 AAAAA
1 AAAAA
13218446 AAGTTTTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.35
Consensus pattern (18 bp):
AAAAATTTAACCTTATTG
Found at i:13235520 original size:27 final size:26
Alignment explanation
Indices: 13235464--13235521 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
13235454 TATATATTAT
* *
13235464 AAAAATAATAATATACTTTTTTTGACA
1 AAAAATAATAATATAATTTTTATGA-A
*
13235491 AAAACTAATAATATAATTATTTAT-AA
1 AAAAATAATAATATAATT-TTTATGAA
13235517 AAAAA
1 AAAAA
13235522 GTTATATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 5 0.19
27 17 0.65
28 4 0.15
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (26 bp):
AAAAATAATAATATAATTTTTATGAA
Found at i:13238221 original size:9 final size:9
Alignment explanation
Indices: 13238207--13238275 Score: 93
Period size: 9 Copynumber: 7.7 Consensus size: 9
13238197 TTTGGTTAAA
13238207 AATTAACCG
1 AATTAACCG
13238216 AATTAACCG
1 AATTAACCG
*
13238225 AATTACCCG
1 AATTAACCG
*
13238234 AATTACCCG
1 AATTAACCG
13238243 AATTAACCG
1 AATTAACCG
*
13238252 AATTACCCG
1 AATTAACCG
* *
13238261 AATTGACCA
1 AATTAACCG
13238270 AATTAA
1 AATTAA
13238276 AAAAATTGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:13238245 original size:27 final size:27
Alignment explanation
Indices: 13238207--13238275 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
13238197 TTTGGTTAAA
13238207 AATTAACCGAATTAACCGAATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
*
13238234 AATTACCCGAATTAACCGAATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
* *
13238261 AATTGACCAAATTAA
1 AATTAACCGAATTAA
13238276 AAAAATTGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTACCCG
Found at i:13238282 original size:27 final size:27
Alignment explanation
Indices: 13238225--13238282 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
13238215 GAATTAACCG
* ***
13238225 AATTACCCGAATTACCCGAATTAACCG
1 AATTACCCGAATTACCCAAATTAAAAA
13238252 AATTACCCGAATTGA-CCAAATTAAAAA
1 AATTACCCGAATT-ACCCAAATTAAAAA
13238279 AATT
1 AATT
13238283 GAATCACTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.45, C:0.22, G:0.09, T:0.24
Consensus pattern (27 bp):
AATTACCCGAATTACCCAAATTAAAAA
Found at i:13238428 original size:18 final size:18
Alignment explanation
Indices: 13238385--13238428 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
13238375 TAATTTTATG
**
13238385 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
*
13238403 ATTAGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
13238421 CTTGGGTT
1 ATTGGGTT
13238429 TAGATTGGGT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:13247789 original size:21 final size:21
Alignment explanation
Indices: 13247759--13247825 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 21
13247749 AGGAGAAAAC
*
13247759 TGAAAATGCCCTGAATTTGGA
1 TGAAATTGCCCTGAATTTGGA
* *
13247780 TGAAATTG-CCAGAA-CT-GA
1 TGAAATTGCCCTGAATTTGGA
13247798 --AAA-TGCCCTGAATTTGGA
1 TGAAATTGCCCTGAATTTGGA
*
13247816 TCAAATTGCC
1 TGAAATTGCC
13247826 AGAATAGTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 12
0.67 0.10 0.23
Matches are distributed among these distances:
15 2 0.06
16 8 0.23
17 1 0.03
18 4 0.11
19 1 0.03
20 8 0.23
21 11 0.31
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (21 bp):
TGAAATTGCCCTGAATTTGGA
Found at i:13247803 original size:36 final size:36
Alignment explanation
Indices: 13247756--13247829 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
13247746 AGAAGGAGAA
*
13247756 AACTGAAAATGCCCTGAATTTGGATGAAATTGCCAG
1 AACTGAAAATGCCCTGAATTTGGATCAAATTGCCAG
13247792 AACTGAAAATGCCCTGAATTTGGATCAAATTGCCAG
1 AACTGAAAATGCCCTGAATTTGGATCAAATTGCCAG
13247828 AA
1 AA
13247830 TAGTGAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (36 bp):
AACTGAAAATGCCCTGAATTTGGATCAAATTGCCAG
Found at i:13247902 original size:12 final size:12
Alignment explanation
Indices: 13247887--13247922 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
13247877 TTAGAAAACT
13247887 AATAAGAAGATA
1 AATAAGAAGATA
13247899 AATAA-AA-ATA
1 AATAAGAAGATA
13247909 AATAAGAAGATA
1 AATAAGAAGATA
13247921 AA
1 AA
13247923 GTGATTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 8 0.36
11 4 0.18
12 10 0.45
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (12 bp):
AATAAGAAGATA
Found at i:13247972 original size:17 final size:17
Alignment explanation
Indices: 13247938--13247975 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
13247928 TACAAACTCG
13247938 AATAAAAAAACAATCAA
1 AATAAAAAAACAATCAA
*
13247955 AATAATAAAAATAA-CAA
1 AATAA-AAAAACAATCAA
13247972 AATA
1 AATA
13247976 GTTCAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (17 bp):
AATAAAAAAACAATCAA
Found at i:13247995 original size:29 final size:28
Alignment explanation
Indices: 13247958--13248022 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 28
13247948 CAATCAAAAT
* *
13247958 AATAAAAAT--AACAAAATAGT-TCA-A
1 AATAAAAATAAAATAAAAAAGTCTCACA
*
13247982 AATAAAAATAAAATAAAGAAGTCTCACA
1 AATAAAAATAAAATAAAAAAGTCTCACA
13248010 AATAAAAATAAAA
1 AATAAAAATAAAA
13248023 GTATAAATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.26
26 8 0.24
27 3 0.09
28 14 0.41
ACGTcount: A:0.69, C:0.08, G:0.05, T:0.18
Consensus pattern (28 bp):
AATAAAAATAAAATAAAAAAGTCTCACA
Found at i:13248020 original size:6 final size:6
Alignment explanation
Indices: 13248009--13248063 Score: 83
Period size: 6 Copynumber: 9.2 Consensus size: 6
13247999 GAAGTCTCAC
* * *
13248009 AAATAA AAATAA AAGTAT AAATGA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
13248057 AAATAA A
1 AAATAA A
13248064 TAAAGCAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:13248021 original size:28 final size:24
Alignment explanation
Indices: 13247958--13248052 Score: 77
Period size: 24 Copynumber: 3.8 Consensus size: 24
13247948 CAATCAAAAT
* *
13247958 AATAAAAATAACAAAATAGTTCAA
1 AATAAAAATAAAAAAAAAGTTCAA
13247982 AATAAAAATAAAATAAAGAAGTCTCACA
1 AATAAAAATAAAA-AAA-AAGT-TCA-A
* *
13248010 AATAAAAATAAAAGTATAAA--TGAA
1 AATAAAAATAAAA--AAAAAGTTCAA
13248034 AATAAAAATAAAAATAAAA
1 AATAAAAATAAAAA-AAAA
13248053 ATAAAAATAA
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.02
23 3 0.05
24 26 0.43
25 5 0.08
26 3 0.05
27 3 0.05
28 16 0.27
29 3 0.05
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.19
Consensus pattern (24 bp):
AATAAAAATAAAAAAAAAGTTCAA
Found at i:13248269 original size:105 final size:104
Alignment explanation
Indices: 13248136--13248342 Score: 378
Period size: 105 Copynumber: 2.0 Consensus size: 104
13248126 ATGCATAATT
*
13248136 AGAATGGGAGATATGAAAGTACTGGCGTATCTGATGCAAAGCTGTGTCGATGCTATCAAACCACT
1 AGAATGGGAGATATGAAAGTACTAGCGTATCTGATGCAAAGCTGTGTCGATGCTATCAAACCACT
* *
13248201 CAAAGCACTGCTGCTTAAAACGGTCAAACCACTCAGAATC
66 CAAACCACCGCTGCTTAAAACGGTCAAA-CACTCAGAATC
13248241 AGAATGGGAGATATGAAAGTACTAGCGTATCTGATGCAAAGCTGTGTCGATGCTATCAAACCACT
1 AGAATGGGAGATATGAAAGTACTAGCGTATCTGATGCAAAGCTGTGTCGATGCTATCAAACCACT
13248306 CAAACCACCGCTGCTTAAAACGGTCAAACACTCAGAA
66 CAAACCACCGCTGCTTAAAACGGTCAAACACTCAGAA
13248343 AGATCCTCGA
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
104 9 0.09
105 90 0.91
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (104 bp):
AGAATGGGAGATATGAAAGTACTAGCGTATCTGATGCAAAGCTGTGTCGATGCTATCAAACCACT
CAAACCACCGCTGCTTAAAACGGTCAAACACTCAGAATC
Found at i:13249763 original size:16 final size:16
Alignment explanation
Indices: 13249742--13249804 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
13249732 ATCGAAAACA
*
13249742 AATAAAAAATAAGATT
1 AATAAAAAATAAAATT
13249758 AATAAATAAATAAAATAAT
1 AATAAA-AAATAAAAT--T
* *
13249777 AATAAGAAATAAAATA
1 AATAAAAAATAAAATT
*
13249793 AATAATAAATAA
1 AATAAAAAATAA
13249805 TAAAAATAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 17 0.43
17 8 0.20
18 9 0.22
19 6 0.15
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AATAAAAAATAAAATT
Found at i:13249775 original size:22 final size:20
Alignment explanation
Indices: 13249747--13249809 Score: 78
Period size: 19 Copynumber: 3.2 Consensus size: 20
13249737 AAACAAATAA
13249747 AAAATAAGATTAATAAATAAAT
1 AAAATAA-A-TAATAAATAAAT
*
13249769 AAAAT-AATAAT-AAGAAAT
1 AAAATAAATAATAAATAAAT
13249787 AAAATAAATAATAAAT-AAT
1 AAAATAAATAATAAATAAAT
13249806 AAAA
1 AAAA
13249810 ATAAGAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
18 11 0.30
19 17 0.46
20 3 0.08
21 1 0.03
22 5 0.14
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (20 bp):
AAAATAAATAATAAATAAAT
Found at i:13249781 original size:19 final size:19
Alignment explanation
Indices: 13249757--13249821 Score: 75
Period size: 18 Copynumber: 3.6 Consensus size: 19
13249747 AAAATAAGAT
13249757 TAATAAATAAATAAAATAA
1 TAATAAATAAATAAAATAA
*
13249776 TAAT-AAGAAATAAAATAAA
1 TAATAAATAAATAAAAT-AA
13249795 TAATAAAT-AAT-AAA-AA
1 TAATAAATAAATAAAATAA
*
13249811 TAAGAAATAAA
1 TAATAAATAAA
13249822 CCAAACAGTG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 9 0.22
17 2 0.05
18 14 0.35
19 13 0.32
20 2 0.05
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (19 bp):
TAATAAATAAATAAAATAA
Found at i:13249787 original size:35 final size:32
Alignment explanation
Indices: 13249741--13249821 Score: 99
Period size: 32 Copynumber: 2.4 Consensus size: 32
13249731 AATCGAAAAC
* * *
13249741 AAATAAAAAATAAGATTAATAAATAAATAAAATAA
1 AAATAAGAAATAAAATAAAT-AATAAAT--AATAA
*
13249776 TAATAAGAAATAAAATAAATAATAAATAATAA
1 AAATAAGAAATAAAATAAATAATAAATAATAA
13249808 AAATAAGAAATAAA
1 AAATAAGAAATAAA
13249822 CCAAACAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
32 18 0.44
34 7 0.17
35 16 0.39
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (32 bp):
AAATAAGAAATAAAATAAATAATAAATAATAA
Found at i:13249811 original size:16 final size:16
Alignment explanation
Indices: 13249771--13249820 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
13249761 AAATAAATAA
*
13249771 AATAATAATAAGAAAT
1 AATAAAAATAAGAAAT
*
13249787 AA-AATAAATAATAAAT
1 AATAA-AAATAAGAAAT
13249803 AATAAAAATAAGAAAT
1 AATAAAAATAAGAAAT
13249819 AA
1 AA
13249821 ACCAAACAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 2 0.07
16 25 0.86
17 2 0.07
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (16 bp):
AATAAAAATAAGAAAT
Found at i:13256407 original size:22 final size:22
Alignment explanation
Indices: 13256379--13256434 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
13256369 TATATTTAAG
13256379 GAGAAAATACAAT-GATTAAAGA
1 GAGAAAATACAATAG-TTAAAGA
*
13256401 GAGAAAATAAAATAGTTAAAGA
1 GAGAAAATACAATAGTTAAAGA
*
13256423 AAGAAAATACAA
1 GAGAAAATACAA
13256435 GACTATAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (22 bp):
GAGAAAATACAATAGTTAAAGA
Found at i:13256444 original size:22 final size:22
Alignment explanation
Indices: 13256380--13256446 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
13256370 ATATTTAAGG
* *
13256380 AGAAAATACAATGATTA-AAGAG
1 AGAAAATACAA-GACTATAAGAA
* * *
13256402 AGAAAATAAAATAGT-TAAAGAA
1 AGAAAATACAAGACTAT-AAGAA
13256424 AGAAAATACAAGACTATAAGAA
1 AGAAAATACAAGACTATAAGAA
13256446 A
1 A
13256447 TCTAAATCAT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
21 2 0.06
22 32 0.91
23 1 0.03
ACGTcount: A:0.64, C:0.04, G:0.15, T:0.16
Consensus pattern (22 bp):
AGAAAATACAAGACTATAAGAA
Found at i:13262254 original size:20 final size:20
Alignment explanation
Indices: 13262217--13262289 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
13262207 GTTGCAGTTT
*
13262217 GAATCAAGTT-AAATAATAAA
1 GAATCAA-TTCAAACAATAAA
* *
13262237 GAATCGATTCAAACAATAAT
1 GAATCAATTCAAACAATAAA
*
13262257 GAATCAATTTAAAACAA-AAA
1 GAATCAA-TTCAAACAATAAA
*
13262277 AAATCAATTCAAA
1 GAATCAATTCAAA
13262290 GAAGCAAAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
19 7 0.16
20 28 0.65
21 8 0.19
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.23
Consensus pattern (20 bp):
GAATCAATTCAAACAATAAA
Found at i:13262287 original size:40 final size:41
Alignment explanation
Indices: 13262216--13262445 Score: 128
Period size: 44 Copynumber: 5.4 Consensus size: 41
13262206 TGTTGCAGTT
* * * * *
13262216 TGAATCAAGTTAAATA-ATAAAGAATCGATTCAAACAA-TAA
1 TGAATCAATTTAAA-ACAAAAAAAATCAATTCAAACAAGCAA
*
13262256 TGAATCAATTTAAAACAAAAAAAATCAATTCAAAGAAGCAA
1 TGAATCAATTTAAAACAAAAAAAATCAATTCAAACAAGCAA
* * ** * *
13262297 AGAATCGATTTAAAACAGCAATCATGAATCGATTCAAAGAAGCAAA
1 TGAATCAATTTAAAACA--AA--AAAAATCAATTCAAACAAGC-AA
* * *
13262343 T-AAT-GATTTAAAACAACAATAATGAATCAATTTAAAGAAGCAAA
1 TGAATCAATTTAAAACAA-AA-AA--AATCAATTCAAACAAGC-AA
* * * *
13262387 T-AATCAATTTAAAACAACAAACAATCGATTCAAAGAAGAAA
1 TGAATCAATTTAAAACAA-AAAAAATCAATTCAAACAAGCAA
**
13262428 AAAATCAATTTAAAACAA
1 TGAATCAATTTAAAACAA
13262446 CAAATTTAGT
Statistics
Matches: 155, Mismatches: 22, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
39 1 0.01
40 30 0.19
41 20 0.13
42 31 0.20
43 3 0.02
44 34 0.22
45 34 0.22
46 2 0.01
ACGTcount: A:0.57, C:0.12, G:0.09, T:0.22
Consensus pattern (41 bp):
TGAATCAATTTAAAACAAAAAAAATCAATTCAAACAAGCAA
Found at i:13262316 original size:21 final size:21
Alignment explanation
Indices: 13262257--13262449 Score: 101
Period size: 21 Copynumber: 9.0 Consensus size: 21
13262247 AAACAATAAT
*
13262257 GAATCAATTTAAAACA-AAAA
1 GAATCAATTTAAAACAGCAAA
* *
13262277 AAATCAATTCAAAGA-AGCAAA
1 GAATCAATTTAAA-ACAGCAAA
*
13262298 GAATCGATTTAAAACAGCAATCA
1 GAATCAATTTAAAACAGCAA--A
* *
13262321 TGAATCGATTCAAAGA-AGCAAA
1 -GAATCAATTTAAA-ACAGCAAA
* * *
13262343 TAAT-GATTTAAAACAACAATAA
1 GAATCAATTTAAAACAGC-A-AA
13262365 TGAATCAATTTAAAGA-AGCAAA
1 -GAATCAATTTAAA-ACAGCAAA
* *
13262387 TAATCAATTTAAAACAACAAA
1 GAATCAATTTAAAACAGCAAA
* * * *
13262408 CAATCGATTCAAAGA-AGAAAA
1 GAATCAATTTAAA-ACAGCAAA
* *
13262429 AAATCAATTTAAAACAACAAA
1 GAATCAATTTAAAACAGCAAA
13262450 TTTAGTAACA
Statistics
Matches: 132, Mismatches: 25, Indels: 31
0.70 0.13 0.16
Matches are distributed among these distances:
19 1 0.01
20 24 0.18
21 68 0.52
22 6 0.05
23 5 0.04
24 26 0.20
25 2 0.02
ACGTcount: A:0.58, C:0.13, G:0.09, T:0.20
Consensus pattern (21 bp):
GAATCAATTTAAAACAGCAAA
Found at i:13262342 original size:45 final size:44
Alignment explanation
Indices: 13262258--13262448 Score: 223
Period size: 44 Copynumber: 4.4 Consensus size: 44
13262248 AACAATAATG
* *
13262258 AATCAATTTAAAACAA-AA-A-AAATCAATTCAAAGAAGCAAAG
1 AATCAATTTAAAACAACAATATGAATCAATTCAAAGAAGCAAAT
* * *
13262299 AATCGATTTAAAACAGCAATCATGAATCGATTCAAAGAAGCAAAT
1 AATCAATTTAAAACAACAAT-ATGAATCAATTCAAAGAAGCAAAT
* *
13262344 AAT-GATTTAAAACAACAATAATGAATCAATTTAAAGAAGCAAAT
1 AATCAATTTAAAACAACAAT-ATGAATCAATTCAAAGAAGCAAAT
* * * *
13262388 AATCAATTTAAAACAACAA-A-CAATCGATTCAAAGAAGAAAAA
1 AATCAATTTAAAACAACAATATGAATCAATTCAAAGAAGCAAAT
13262430 AATCAATTTAAAACAACAA
1 AATCAATTTAAAACAACAA
13262449 ATTTAGTAAC
Statistics
Matches: 130, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
41 14 0.11
42 38 0.29
43 1 0.01
44 41 0.32
45 36 0.28
ACGTcount: A:0.58, C:0.13, G:0.08, T:0.20
Consensus pattern (44 bp):
AATCAATTTAAAACAACAATATGAATCAATTCAAAGAAGCAAAT
Found at i:13262397 original size:89 final size:84
Alignment explanation
Indices: 13262258--13262449 Score: 244
Period size: 89 Copynumber: 2.2 Consensus size: 84
13262248 AACAATAATG
* *
13262258 AATCAATTTAAAACAA-AAAAAATCAATTCAAAGAAGCAAAGAATCGATTTAAAACAGCAATCAT
1 AATCAATTTAAAACAACAAAAAATCAATTCAAAGAAGCAAAGAATCAATTTAAAACAACAA--A-
* * *
13262322 GAATCGATTCAAAGAAGCAAAT
63 CAATCGATTCAAAGAAGAAAAA
* * *
13262344 AAT-GATTTAAAACAACAATAATGAATCAATTTAAAGAAGCAAATAATCAATTTAAAACAACAAA
1 AATCAATTTAAAACAACAA-AA--AATCAATTCAAAGAAGCAAAGAATCAATTTAAAACAACAAA
13262408 CAATCGATTCAAAGAAGAAAAA
63 CAATCGATTCAAAGAAGAAAAA
13262430 AATCAATTTAAAACAACAAA
1 AATCAATTTAAAACAACAAA
13262450 TTTAGTAACA
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
85 11 0.12
86 28 0.30
87 17 0.18
89 36 0.39
ACGTcount: A:0.58, C:0.13, G:0.08, T:0.20
Consensus pattern (84 bp):
AATCAATTTAAAACAACAAAAAATCAATTCAAAGAAGCAAAGAATCAATTTAAAACAACAAACAA
TCGATTCAAAGAAGAAAAA
Found at i:13266120 original size:18 final size:19
Alignment explanation
Indices: 13266093--13266141 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
13266083 TGTTTTTATC
*
13266093 TTCTTCTTTTTTTG-CTTT
1 TTCTTTTTTTTTTGTCTTT
*
13266111 TTC-TTTTTTTTTGTTTTT
1 TTCTTTTTTTTTTGTCTTT
13266129 TTCTTTATTTTTT
1 TTCTTT-TTTTTT
13266142 ATTTTTGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 9 0.35
18 9 0.35
19 2 0.08
20 6 0.23
ACGTcount: A:0.02, C:0.10, G:0.04, T:0.84
Consensus pattern (19 bp):
TTCTTTTTTTTTTGTCTTT
Found at i:13266127 original size:25 final size:25
Alignment explanation
Indices: 13266085--13266149 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 25
13266075 TATTTTTTTG
*
13266085 TTTTTATCTTCTTCTTTTTTTGCTTT-T
1 TTTTTAT-TT-TTGTTTTTTT-CTTTAT
13266112 TCTTTT-TTTTTGTTTTTTTCTTTAT
1 T-TTTTATTTTTGTTTTTTTCTTTAT
13266137 TTTTTATTTTTGT
1 TTTTTATTTTTGT
13266150 GTGTGTGAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
24 8 0.24
25 18 0.53
26 2 0.06
27 2 0.06
28 4 0.12
ACGTcount: A:0.05, C:0.09, G:0.05, T:0.82
Consensus pattern (25 bp):
TTTTTATTTTTGTTTTTTTCTTTAT
Found at i:13266146 original size:18 final size:18
Alignment explanation
Indices: 13266093--13266147 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
13266083 TGTTTTTATC
*
13266093 TTCTTCTTTTTTTG-CTTT
1 TTCTT-TTTTTTTGATTTT
*
13266111 TTCTTTTTTTTTGTTTTT
1 TTCTTTTTTTTTGATTTT
13266129 TTCTTTATTTTTT-ATTTT
1 TTCTTT-TTTTTTGATTTT
13266147 T
1 T
13266148 GTGTGTGTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.24
18 19 0.58
19 6 0.18
ACGTcount: A:0.04, C:0.09, G:0.04, T:0.84
Consensus pattern (18 bp):
TTCTTTTTTTTTGATTTT
Found at i:13266214 original size:2 final size:2
Alignment explanation
Indices: 13266207--13266234 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13266197 TATTCATTAT
13266207 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
13266235 ACTCACAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:13280089 original size:7 final size:7
Alignment explanation
Indices: 13280076--13280105 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
13280066 TAAACAAAAC
13280076 AAATTTT
1 AAATTTT
*
13280083 GAATTTT
1 AAATTTT
13280090 AAATTTT
1 AAATTTT
13280097 AAATTTT
1 AAATTTT
13280104 AA
1 AA
13280106 CATGTTTGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (7 bp):
AAATTTT
Found at i:13283144 original size:24 final size:26
Alignment explanation
Indices: 13283120--13283169 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
13283110 ACAACTCATT
13283120 AATTAAAAATATT-TTTAAATAATTAA
1 AATTAAAAATATTATTTAAATAATT-A
*
13283146 AATTAAAAATATTATTTTAATAAT
1 AATTAAAAATATTATTTAAATAAT
13283170 ATTACATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AATTAAAAATATTATTTAAATAATTA
Found at i:13283317 original size:64 final size:64
Alignment explanation
Indices: 13283237--13283357 Score: 224
Period size: 64 Copynumber: 1.9 Consensus size: 64
13283227 AAATAAAATA
* *
13283237 AAAATTTGATCATTAGATATAATCAAGTAAACAATTTGATTAAAAAACAAATATTCAATATATT
1 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTCAATATATT
13283301 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTCA
1 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTCA
13283358 TTGTTATTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.31
Consensus pattern (64 bp):
AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTCAATATATT
Found at i:13283391 original size:16 final size:16
Alignment explanation
Indices: 13283370--13283400 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13283360 GTTATTATGA
13283370 TTGATTAAAAAACAAC
1 TTGATTAAAAAACAAC
*
13283386 TTGATTAAACAACAA
1 TTGATTAAAAAACAA
13283401 GTATTTGGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.13, G:0.06, T:0.26
Consensus pattern (16 bp):
TTGATTAAAAAACAAC
Found at i:13283423 original size:47 final size:49
Alignment explanation
Indices: 13283329--13283431 Score: 129
Period size: 50 Copynumber: 2.1 Consensus size: 49
13283319 ATAATCAAGT
* * **
13283329 AAACAACTTGATTAAAAAACAAATATTCATTGTTATTATGATTGATTAAA
1 AAACAACTTGATTAAAAAACAAATATT-ATGGTAACAATGATTGATTAAA
* *
13283379 AAACAACTTGATTAAACAACAAGTATT-TGGTAACAATG-TTGATTAAA
1 AAACAACTTGATTAAAAAACAAATATTATGGTAACAATGATTGATTAAA
13283426 AAACAA
1 AAACAA
13283432 ATATTCATTG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
47 15 0.32
48 7 0.15
50 25 0.53
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.31
Consensus pattern (49 bp):
AAACAACTTGATTAAAAAACAAATATTATGGTAACAATGATTGATTAAA
Found at i:13286667 original size:44 final size:43
Alignment explanation
Indices: 13286619--13286838 Score: 128
Period size: 44 Copynumber: 4.9 Consensus size: 43
13286609 AATATTAATT
*
13286619 ATTTTAAATTGTATAAATTCATATAAGAAAATTTATTATCAAGA
1 ATTTTAAATT-TATAAATTCATATAAGAAAATTTATTATCAAAA
* * * * * **
13286663 ATTTTATGAAATTATATA-TCATTATTAA-ATTATATTTAATATTAATT
1 ATTTTA--AATTTATAAATTCA-TA-TAAGA--AAATTTATTATCAAAA
13286710 ATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAAA
1 ATTTTAAATT-TATAAATTCATATAAGAAAATTTATTATCAAAA
* * **
13286754 ATTTTATGAAATTATATATT-AT-T-ATTAAATTATATTTAAT-AATAA
1 ATTTTA--AATTTATAAATTCATATAAGAAAATT-TA-TT-ATCAA-AA
*
13286799 TTATTTTAAATTATACAAATTCATATAAGAAAATTTATTA
1 --ATTTTAAATT-TATAAATTCATATAAGAAAATTTATTA
13286839 GTTATAATTA
Statistics
Matches: 132, Mismatches: 23, Indels: 40
0.68 0.12 0.21
Matches are distributed among these distances:
42 6 0.05
43 3 0.02
44 32 0.24
45 28 0.21
46 24 0.18
47 30 0.23
48 3 0.02
49 6 0.05
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (43 bp):
ATTTTAAATTTATAAATTCATATAAGAAAATTTATTATCAAAA
Found at i:13286778 original size:101 final size:92
Alignment explanation
Indices: 13286724--13286915 Score: 176
Period size: 101 Copynumber: 2.0 Consensus size: 92
13286714 TAAATTATAT
13286724 AAATTCATATAAGAAAATTTATTA-TCAAAAATT-TTATGA--AATTATATATTATTATTAAATT
1 AAATTCATATAAGAAAATTTATTAGT-AAAAATTATT-TGATTAATTATATA-TATTATTAAATT
* *
13286785 ATATTTAATAATAATTATTTTAAATTATAC
63 ATATTTAATATTAATTATTTTAAATTATAT
* * * *
13286815 AAATTCATATAAGAAAATTTATTAGTTATAATTATTTTAAATTTTATTAAATCATATATTTTAAT
1 AAATTCATATAAGAAAATTTATTAG-TA-AA--A-ATT--ATTTGATT-AATTATATATATT-AT
* *
13286880 TAAAATATATTTAATATTAATTATTTCAAATTATAT
57 TAAATTATATTTAATATTAATTATTTTAAATTATAT
13286916 TTTATAGTAT
Statistics
Matches: 80, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
91 24 0.30
92 1 0.01
93 3 0.04
95 1 0.01
96 2 0.03
98 2 0.03
99 2 0.03
100 3 0.04
101 42 0.52
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (92 bp):
AAATTCATATAAGAAAATTTATTAGTAAAAATTATTTGATTAATTATATATATTATTAAATTATA
TTTAATATTAATTATTTTAAATTATAT
Found at i:13286809 original size:117 final size:116
Alignment explanation
Indices: 13286687--13287287 Score: 437
Period size: 117 Copynumber: 5.2 Consensus size: 116
13286677 TATATCATTA
* * * *
13286687 TTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAA
1 TTAAATTATATTTAATATT-ATTATATTAAATTATATAAATTCATATAAGAATATTGATTATTAA
* *
13286752 AAATTTTATGAAATTATATATTATT-ATTA-AATTATATTTAATAATAATTATT
65 GAATTTTATTAAATTATATATT-TTAATTATAA-TATATTTAATAATAATTATT
* ** * * *
13286804 TTAAATTATA--CAA-ATTCA-TATAAGAAAATTTATTAGTTATAATT-ATTTTA-AAT-TTTAT
1 TTAAATTATATTTAATATT-ATTAT-ATTAAA-TTA-TA--TA-AATTCATATAAGAATATTGAT
* * * * *
13286862 TAAATCATATATTTTAATTAAA--ATATA-TTTAA-TATTAAT-TATTTCA-AATTA-TATT
59 T-ATTAAGA-ATTTT-ATTAAATTATATATTTTAATTA-TAATATATTTAATAATAATTATT
* *
13286917 TT--A-TAGTA--TCATA-TATTATGATT---TTA-GTAAATTCATATAAGAATATTGATTATTA
1 TTAAATTA-TATTTAATATTATTAT-ATTAAATTATATAAATTCATATAAGAATATTGATTATTA
*
13286972 AGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
64 AGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATT
* * * * *
13287025 TTAAATTATCTTTTATAGTATCATATATTATGATT-TGAGTAAATTCATATAAGAATATTAATTA
1 TTAAATTATATTTAATATTAT--TATATTA-AATTAT-A-TAAATTCATATAAGAATATTGATTA
*
13287089 TTAAGAATTTTATTAAATTATATATTTTAATTATAATATA-TT--TAATAATTATG
61 TTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATT
* *
13287142 TTAAATTATATTTTAT-TGTATCATATATTATGATT-TGAATAAATTCATATAAGAATATTGATT
1 TTAAATTATATTTAATAT-TAT--TATATTA-AATTAT--ATAAATTCATATAAGAATATTGATT
13287205 ATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGT
60 ATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT-T
13287263 TTAAA-TATGA-TTAA-ATTATT-TATTA
1 TTAAATTAT-ATTTAATATTATTATATTA
13287288 TTGATATTAA
Statistics
Matches: 396, Mismatches: 40, Indels: 97
0.74 0.08 0.18
Matches are distributed among these distances:
102 10 0.03
103 11 0.03
104 12 0.03
105 14 0.04
106 8 0.02
107 7 0.02
108 5 0.01
110 5 0.01
111 11 0.03
112 5 0.01
113 12 0.03
114 14 0.04
115 18 0.05
116 16 0.04
117 131 0.33
118 16 0.04
119 14 0.04
120 81 0.20
121 6 0.02
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (116 bp):
TTAAATTATATTTAATATTATTATATTAAATTATATAAATTCATATAAGAATATTGATTATTAAG
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATT
Found at i:13286857 original size:91 final size:91
Alignment explanation
Indices: 13286540--13286838 Score: 526
Period size: 91 Copynumber: 3.3 Consensus size: 91
13286530 ATGATTTTAG
* *
13286540 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
*
13286605 ATTTAATATTAATTATTTTAAATTGTA
65 ATTTAATATTAATTATTTTAAATTATA
13286632 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
13286697 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
* *
13286723 TAAATTCATATAAGAAAATTTATTATCAAAAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
13286788 TTTAATAATAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
13286814 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
13286839 GTTATAATTA
Statistics
Matches: 200, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
91 184 0.92
92 16 0.08
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATATTAATTATTTTAAATTATA
Found at i:13286984 original size:120 final size:120
Alignment explanation
Indices: 13286854--13287268 Score: 712
Period size: 120 Copynumber: 3.5 Consensus size: 120
13286844 AATTATTTTA
* * *
13286854 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
*
13286918 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
13286974 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
*
13287039 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
13287094 AATTTTATTAAATTATATATTTTAATTATAATATA-TT--TAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
13287156 ATTGTATCATATATTATGATTTGAATAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
13287211 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
13287269 ATGATTAAAT
Statistics
Matches: 280, Mismatches: 10, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
117 111 0.40
118 2 0.01
119 2 0.01
120 157 0.56
121 8 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:13287009 original size:16 final size:16
Alignment explanation
Indices: 13286988--13287033 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
13286978 TTATTAAATT
13286988 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
13287004 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
13287019 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
13287034 CTTTTATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:13287246 original size:16 final size:16
Alignment explanation
Indices: 13287225--13287266 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
13287215 TTATTAAATT
*
13287225 ATATATTTTAATTATA
1 ATATATTTTAATAATA
13287241 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
13287256 AT-TATGTTTAA
1 ATATAT-TTTAA
13287267 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:13287251 original size:15 final size:15
Alignment explanation
Indices: 13287216--13287257 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13287206 TTAAGAATTT
*
13287216 TATTAAATTAT-ATA
1 TATTTAATTATAATA
13287230 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
13287244 TATTTAATAATAAT
1 TATTTAATTATAAT
13287258 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:13287460 original size:44 final size:45
Alignment explanation
Indices: 13287411--13287500 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
13287401 ACCTCTATTC
13287411 CATTCAACCAAACACA-AGA-ATACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACA-ATAGATATACTATTACGCCTCTATTCCATTA
* * * *
13287455 CATTCAACCAAACAATTGATTTGCTATTACGCCTCTATTCTATTA
1 CATTCAACCAAACAATAGATATACTATTACGCCTCTATTCCATTA
13287500 C
1 C
13287501 GCCTCTATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.03
44 16 0.40
45 23 0.57
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (45 bp):
CATTCAACCAAACAATAGATATACTATTACGCCTCTATTCCATTA
Found at i:13287499 original size:16 final size:16
Alignment explanation
Indices: 13287478--13287510 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13287468 AATTGATTTG
13287478 CTATTACGCCTCTATT
1 CTATTACGCCTCTATT
13287494 CTATTACGCCTCTATT
1 CTATTACGCCTCTATT
13287510 C
1 C
13287511 CAATACAGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.33, G:0.06, T:0.42
Consensus pattern (16 bp):
CTATTACGCCTCTATT
Found at i:13291507 original size:34 final size:28
Alignment explanation
Indices: 13291438--13291494 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
13291428 AAATGTGTCC
13291438 TTATGTTGTAACTGTATATTATTAGCAT
1 TTATGTTGTAACTGTATATTATTAGCAT
13291466 TTATGTTGTAACTGTATATTATTAGCAT
1 TTATGTTGTAACTGTATATTATTAGCAT
13291494 T
1 T
13291495 CTTGAAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.51
Consensus pattern (28 bp):
TTATGTTGTAACTGTATATTATTAGCAT
Found at i:13295151 original size:22 final size:23
Alignment explanation
Indices: 13295123--13295165 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
13295113 TGTGGCATAA
13295123 TTTTACA-ATGTCAAATTTAAAC
1 TTTTACATATGTCAAATTTAAAC
* *
13295145 TTTTACATTTGTCAAGTTTAA
1 TTTTACATATGTCAAATTTAA
13295166 TGATCAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.47
Consensus pattern (23 bp):
TTTTACATATGTCAAATTTAAAC
Found at i:13296131 original size:112 final size:112
Alignment explanation
Indices: 13295910--13296133 Score: 405
Period size: 113 Copynumber: 2.0 Consensus size: 112
13295900 CGTAAATTTC
*
13295910 TCTAAACTCAAACTTGGAAAGTGATAAGGTTTTGTTTCCAAAACAACATTAGGGAAACTAGTTGA
1 TCTAAACTCAAACTTGGAAAGTGATAAGGTTTTGTTTCCAAAACAACATTAGAGAAACTAGTTGA
*
13295975 TAATGTGTCACTATGATTGCATATTTCAAGTTAAAAAAAACCCCAGA
66 TAATGTGTCACAATGATTGCATATTTCAAGTTAAAAAAAACCCCAGA
*
13296022 TCTAAACTCAAAACTTGGAAAGTGATAAGGTTTTGTTTCCAAAACAACATTCGAGAAACTAGTTG
1 TCTAAACTC-AAACTTGGAAAGTGATAAGGTTTTGTTTCCAAAACAACATTAGAGAAACTAGTTG
13296087 ATAATGTGTC-CAATGATTGCATATTTCAAGTTAAAAAAAACCCCAGA
65 ATAATGTGTCACAATGATTGCATATTTCAAGTTAAAAAAAACCCCAGA
13296134 AACAGCAGTG
Statistics
Matches: 108, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
112 45 0.42
113 63 0.58
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (112 bp):
TCTAAACTCAAACTTGGAAAGTGATAAGGTTTTGTTTCCAAAACAACATTAGAGAAACTAGTTGA
TAATGTGTCACAATGATTGCATATTTCAAGTTAAAAAAAACCCCAGA
Found at i:13296897 original size:81 final size:81
Alignment explanation
Indices: 13296793--13296954 Score: 306
Period size: 81 Copynumber: 2.0 Consensus size: 81
13296783 TGGCAGGGTC
*
13296793 GGATCACATTATCAAGTAGGTTCCTATCCTTGTATATACATACATCATCTAATTATATAGTTTTA
1 GGATCACATTATCAAGTAGGTTCCTATCCTTCTATATACATACATCATCTAATTATATAGTTTTA
13296858 TCCATTTCAGCATGTT
66 TCCATTTCAGCATGTT
*
13296874 GGATCACATTATCAAGTAGGTTCCTCTCCTTCTATATACATACATCATCTAATTATATAGTTTTA
1 GGATCACATTATCAAGTAGGTTCCTATCCTTCTATATACATACATCATCTAATTATATAGTTTTA
13296939 TCCATTTCAGCATGTT
66 TCCATTTCAGCATGTT
13296955 ATTGCATGAG
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (81 bp):
GGATCACATTATCAAGTAGGTTCCTATCCTTCTATATACATACATCATCTAATTATATAGTTTTA
TCCATTTCAGCATGTT
Found at i:13312342 original size:24 final size:23
Alignment explanation
Indices: 13312288--13312342 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
13312278 GTTTTATCCA
13312288 AAAAAT-AATAAAATAAAAACAT
1 AAAAATAAATAAAATAAAAACAT
* *
13312310 AAAATATAAATAAAGTAAAAAGAT
1 AAAA-ATAAATAAAATAAAAACAT
13312334 AACAAATAA
1 AA-AAATAA
13312343 GTAGCTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 4 0.14
23 2 0.07
24 20 0.71
25 2 0.07
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (23 bp):
AAAAATAAATAAAATAAAAACAT
Found at i:13314154 original size:57 final size:59
Alignment explanation
Indices: 13314063--13314198 Score: 170
Period size: 57 Copynumber: 2.3 Consensus size: 59
13314053 NNNNNNNNNT
* **
13314063 ACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATC-A-A-GATC
1 ACCCGTCCGGGCTAGAT-TTTTTTCCACATATTCTTCGGGAGGGCTATATCGATAGGATC
* *
13314120 ACTCGTCCGGGCTAGATTTTTTTCACACATATTCTTCGGGAGGGTTATATCAGGATAGGATC
1 ACCCGTCCGGGCTAGATTTTTTTC-CACATATTCTTCGGGAGGGCTATATC--GATAGGATC
13314182 ACCCGTCCGGGCTAGAT
1 ACCCGTCCGGGCTAGAT
13314199 CCTTTTTACC
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
56 5 0.07
57 40 0.60
60 1 0.01
61 1 0.01
62 20 0.30
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (59 bp):
ACCCGTCCGGGCTAGATTTTTTTCCACATATTCTTCGGGAGGGCTATATCGATAGGATC
Found at i:13315219 original size:45 final size:46
Alignment explanation
Indices: 13315144--13315350 Score: 332
Period size: 46 Copynumber: 4.6 Consensus size: 46
13315134 TATGTATGAT
* * * *
13315144 CACTTATCAC-TTGTC-CCTAATTAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
13315187 CACTTATCAGTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
13315233 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
13315278 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
13315324 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
13315351 AGTACTCAAA
Statistics
Matches: 152, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
43 9 0.06
44 5 0.03
45 62 0.41
46 76 0.50
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:13315268 original size:91 final size:91
Alignment explanation
Indices: 13315144--13315350 Score: 364
Period size: 91 Copynumber: 2.3 Consensus size: 91
13315134 TATGTATGAT
* * * *
13315144 CACTTATCAC-TTGTC-CCTAATTAGATAAGTGTAGCTAGGCTACCACTTATCAGTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
13315207 GATCAGATAAGTGTAGCTAAAGCTAC
66 GATCAGATAAGTGTAGCTAAAGCTAC
13315233 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
13315298 GATCAGATAAGTGTAGCTAAAGCTAC
66 GATCAGATAAGTGTAGCTAAAGCTAC
13315324 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
13315351 AGTACTCAAA
Statistics
Matches: 112, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
89 10 0.09
90 5 0.04
91 97 0.87
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (91 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
GATCAGATAAGTGTAGCTAAAGCTAC
Found at i:13321264 original size:22 final size:22
Alignment explanation
Indices: 13321179--13321256 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
13321169 AAAGATATCA
** *
13321179 TAAGCTCTCATGTTTAACGAAC
1 TAAGCTCTCATGGCTAACGTAC
* *
13321201 TAAACCCTCATGGCTAACGTAC
1 TAAGCTCTCATGGCTAACGTAC
13321223 TAAGCTCTCATGGCTAACGTAC
1 TAAGCTCTCATGGCTAACGTAC
13321245 TAAGCTCTCATG
1 TAAGCTCTCATG
13321257 TTTCACGTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (22 bp):
TAAGCTCTCATGGCTAACGTAC
Found at i:13323389 original size:3 final size:3
Alignment explanation
Indices: 13323381--13323431 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
13323371 ATAATCAAAT
* *
13323381 ATA ATA ATA ATA ACA ATA ATAA ATA GTA A-A ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
13323426 ATA ATA
1 ATA ATA
13323432 GCAAATAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:13323400 original size:12 final size:12
Alignment explanation
Indices: 13323383--13323452 Score: 68
Period size: 12 Copynumber: 5.5 Consensus size: 12
13323373 AATCAAATAT
*
13323383 AATAATAATAAC
1 AATAATAATAAA
13323395 AATAATAAATAGTAA
1 AATAAT-AATA--AA
*
13323410 AATAATAATAAT
1 AATAATAATAAA
*
13323422 AATAATAATAGCA
1 AATAATAATA-AA
*
13323435 AATAAAAATAAA
1 AATAATAATAAA
13323447 AATAAT
1 AATAAT
13323453 TAAATAATTA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
12 23 0.49
13 13 0.28
14 4 0.09
15 7 0.15
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:13323404 original size:24 final size:24
Alignment explanation
Indices: 13323371--13323426 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
13323361 ATAGGTAAAT
13323371 ATAATCAAATA-TAATAATAATAACA
1 ATAAT-AAATAGTAA-AATAATAACA
*
13323396 ATAATAAATAGTAAAATAATAATA
1 ATAATAAATAGTAAAATAATAACA
13323420 ATAATAA
1 ATAATAA
13323427 TAATAGCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 21 0.72
25 8 0.28
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
ATAATAAATAGTAAAATAATAACA
Found at i:13323410 original size:7 final size:7
Alignment explanation
Indices: 13323381--13323460 Score: 55
Period size: 6 Copynumber: 11.7 Consensus size: 7
13323371 ATAATCAAAT
13323381 ATAAT-A
1 ATAATAA
13323387 ATAATAACA
1 ATAAT-A-A
13323396 ATAATAA
1 ATAATAA
*
13323403 ATAGTAAA
1 ATAAT-AA
13323411 ATAAT-A
1 ATAATAA
13323417 ATAAT-A
1 ATAATAA
13323423 ATAAT-A
1 ATAATAA
**
13323429 ATAGCAA
1 ATAATAA
13323436 ATAA-AA
1 ATAATAA
13323442 ATAA-AA
1 ATAATAA
13323448 ATAATTAA
1 ATAA-TAA
13323456 ATAAT
1 ATAAT
13323461 TAGAAAACGC
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
6 33 0.53
7 10 0.16
8 13 0.21
9 6 0.10
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (7 bp):
ATAATAA
Found at i:13323441 original size:30 final size:30
Alignment explanation
Indices: 13323381--13323460 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 30
13323371 ATAATCAAAT
13323381 ATAATAATAATAACAATAATAAATAGT-AAA
1 ATAATAATAATAA-AATAATAAATAGTAAAA
13323411 ATAATAATAATAATAATAATAGCAA-A-TAAAA
1 ATAATAATAATAA-AATAATA--AATAGTAAAA
* *
13323442 ATAAAAATAATTAAATAAT
1 ATAATAATAATAAAATAAT
13323461 TAGAAAACGC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
30 27 0.61
31 15 0.34
32 2 0.05
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (30 bp):
ATAATAATAATAAAATAATAAATAGTAAAA
Done.