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 316 of 320
Found at i:101346698 original size:31 final size:31
Alignment explanation
Indices: 101346634--101346699 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
101346624 TTAAAGAAAC
* * *
101346634 AATTTAACTCTTTTTGAAAGGTTGATAGTTA
1 AATTTAACTCTTTTTAAAAGGTTGAGAGCTA
* *
101346665 AATTTGACTCTTTTTAAAAGGTTGAGGGCTA
1 AATTTAACTCTTTTTAAAAGGTTGAGAGCTA
101346696 AATT
1 AATT
101346700 AATAAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (31 bp):
AATTTAACTCTTTTTAAAAGGTTGAGAGCTA
Found at i:101350901 original size:22 final size:22
Alignment explanation
Indices: 101350858--101350902 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
101350848 AATGAATTTG
* *
101350858 ATATATATATATATCAATTTAA
1 ATATATATATAAATCAAGTTAA
101350880 ATATATATAATAAAT-AAGTTAA
1 ATATATAT-ATAAATCAAGTTAA
101350902 A
1 A
101350903 AAGCTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
ATATATATATAAATCAAGTTAA
Found at i:101352224 original size:68 final size:68
Alignment explanation
Indices: 101352091--101352222 Score: 157
Period size: 68 Copynumber: 2.0 Consensus size: 68
101352081 AGTATTATAT
* * *
101352091 GTTGAAAGAATTATTATTTTGTCTACATTCATTGTAATGAAAATTTTTCACGAGTATTCTTAAAA
1 GTTGAAAGAATTATTATTTTGTCTACATTCATTGAAATGAAAATTTTTCACGAGAATTATTAAAA
101352156 TTG
66 TTG
*
101352159 GTTGAAAGAATTATTATTTTGTCT-C-TT-ATTGAAAAT-AATAA-TTTTCGCGAGAATATATTG
1 GTTGAAAGAATTATTATTTTGTCTACATTCATTG-AAATGAA-AATTTTTCACGAGAAT-TATT-
101352219 AAAA
62 AAAA
101352223 ATATATATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
65 17 0.30
66 10 0.18
67 5 0.09
68 24 0.43
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (68 bp):
GTTGAAAGAATTATTATTTTGTCTACATTCATTGAAATGAAAATTTTTCACGAGAATTATTAAAA
TTG
Found at i:101356235 original size:54 final size:55
Alignment explanation
Indices: 101356149--101356284 Score: 136
Period size: 54 Copynumber: 2.5 Consensus size: 55
101356139 GGTGATCTGG
* * * * **
101356149 CCATACTCAGGGCTACCTCTATCTC-TCTTATAAAGACTTGGACCGT-G-GCCACGA
1 CCATAATCAGGGCTACCCCTCTCTCTTCCTATAAAGACTACGA-C-TAGAGCCACGA
* * *
101356203 CCATAATCAGGGCTCCCCCTCTC-CTTCCTATAAGGGCTACGACTAGAGCCACGA
1 CCATAATCAGGGCTACCCCTCTCTCTTCCTATAAAGACTACGACTAGAGCCACGA
*
101356257 CCATAATCGGGGCTACCCCTCTCTCTTC
1 CCATAATCAGGGCTACCCCTCTCTCTTC
101356285 GGAAGGGACT
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
52 1 0.01
53 3 0.04
54 59 0.88
55 4 0.06
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (55 bp):
CCATAATCAGGGCTACCCCTCTCTCTTCCTATAAAGACTACGACTAGAGCCACGA
Found at i:101362964 original size:27 final size:27
Alignment explanation
Indices: 101362917--101362968 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
101362907 ATAATTCAAT
*
101362917 TTCCAATCAATATACAATTTCAATCCA
1 TTCCAATCAATACACAATTTCAATCCA
*
101362944 TTCCAATTCAATACAC-TTTTCAATC
1 TTCCAA-TCAATACACAATTTCAATC
101362969 ATACACATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (27 bp):
TTCCAATCAATACACAATTTCAATCCA
Found at i:101363664 original size:22 final size:22
Alignment explanation
Indices: 101363621--101363664 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
101363611 TAAAATCCTA
* *
101363621 TTTTTCCTTTGTTTTCTTTCCC
1 TTTTTCCTTTCTTTCCTTTCCC
101363643 TTTTT-CTTTCTTTCCTTCTCCC
1 TTTTTCCTTTCTTTCCTT-TCCC
101363665 ATGTTTTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.00, C:0.32, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTTCCTTTCTTTCCTTTCCC
Found at i:101363707 original size:18 final size:18
Alignment explanation
Indices: 101363686--101363726 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
101363676 TTGGCTATTA
* *
101363686 TGTTTCTTTTCATTCTTT
1 TGTTTCCTTTAATTCTTT
*
101363704 TGTTTCCTTTAATTTTTT
1 TGTTTCCTTTAATTCTTT
101363722 TGTTT
1 TGTTT
101363727 AATTCTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.73
Consensus pattern (18 bp):
TGTTTCCTTTAATTCTTT
Found at i:101363767 original size:11 final size:12
Alignment explanation
Indices: 101363732--101363769 Score: 51
Period size: 11 Copynumber: 3.1 Consensus size: 12
101363722 TGTTTAATTC
101363732 TAATAATAATATAA
1 TAAT-ATAATAT-A
101363746 TAATATAATAT-
1 TAATATAATATA
101363757 TAATATAATATA
1 TAATATAATATA
101363769 T
1 T
101363770 TTACTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.48
12 1 0.04
13 7 0.30
14 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAATATAATATA
Found at i:101364145 original size:5 final size:5
Alignment explanation
Indices: 101364135--101364165 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
101364125 AATAATTAAG
101364135 TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TA-TAT TATAT
101364166 ATAAAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:101364235 original size:31 final size:30
Alignment explanation
Indices: 101364200--101364260 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
101364190 GAAACAGAAT
*
101364200 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
101364231 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
101364261 AATAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:101365824 original size:39 final size:39
Alignment explanation
Indices: 101365717--101365851 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
101365707 GACCTCGAGT
* * *
101365717 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
101365758 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
101365796 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
101365835 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
101365852 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:101366826 original size:19 final size:18
Alignment explanation
Indices: 101366802--101366838 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
101366792 TTACAGTATG
*
101366802 TATATTTTTATTACACATA
1 TATATTATTATTAC-CATA
101366821 TATATTATTATTACCATA
1 TATATTATTATTACCATA
101366839 CAATTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (18 bp):
TATATTATTATTACCATA
Found at i:101367936 original size:19 final size:18
Alignment explanation
Indices: 101367878--101367937 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 18
101367868 ATCATTTAAA
* *
101367878 AAAACTTTAATTTGTTTT
1 AAAATTTTAAATTGTTTT
* *
101367896 AAATTGTTTAAATT-TATAT
1 AAAAT-TTTAAATTGT-TTT
101367915 AAAATTTTAAATTGTGTTT
1 AAAATTTTAAATTGT-TTT
101367934 AAAA
1 AAAA
101367938 ACTTATTACA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
18 12 0.38
19 20 0.62
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (18 bp):
AAAATTTTAAATTGTTTT
Found at i:101368713 original size:6 final size:6
Alignment explanation
Indices: 101368699--101368756 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
101368689 TATACAGCCA
* * * * *
101368699 GAGCTG GAGCAG GAGCAG GAGCTG GAGCAG GAGCGG GAGCGG GAGCGG
1 GAGCAG GAGCAG GAGCAG GAGCAG GAGCAG GAGCAG GAGCAG GAGCAG
101368747 GAGCAG GAGC
1 GAGCAG GAGC
101368757 TGGGGCAGTC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.24, C:0.17, G:0.55, T:0.03
Consensus pattern (6 bp):
GAGCAG
Found at i:101368722 original size:18 final size:18
Alignment explanation
Indices: 101368699--101368764 Score: 96
Period size: 18 Copynumber: 3.7 Consensus size: 18
101368689 TATACAGCCA
101368699 GAGCTGGAGCAGGAGCAG
1 GAGCTGGAGCAGGAGCAG
*
101368717 GAGCTGGAGCAGGAGCGG
1 GAGCTGGAGCAGGAGCAG
* *
101368735 GAGCGGGAGCGGGAGCAG
1 GAGCTGGAGCAGGAGCAG
*
101368753 GAGCTGGGGCAG
1 GAGCTGGAGCAG
101368765 TCATCACTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.23, C:0.17, G:0.56, T:0.05
Consensus pattern (18 bp):
GAGCTGGAGCAGGAGCAG
Found at i:101368764 original size:12 final size:12
Alignment explanation
Indices: 101368699--101368756 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
101368689 TATACAGCCA
* *
101368699 GAGCTGGAGCAG
1 GAGCAGGAGCGG
*
101368711 GAGCAGGAGCTG
1 GAGCAGGAGCGG
101368723 GAGCAGGAGCGG
1 GAGCAGGAGCGG
*
101368735 GAGCGGGAGCGG
1 GAGCAGGAGCGG
101368747 GAGCAGGAGC
1 GAGCAGGAGC
101368757 TGGGGCAGTC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.24, C:0.17, G:0.55, T:0.03
Consensus pattern (12 bp):
GAGCAGGAGCGG
Found at i:101369877 original size:72 final size:72
Alignment explanation
Indices: 101369757--101369976 Score: 350
Period size: 72 Copynumber: 3.1 Consensus size: 72
101369747 AGGGTAGGGT
*
101369757 AAGAGCTGTTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCGAAGAGCCCATTACCCAATGTA
1 AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCGAAGAGCCCATTACCCAATGTA
*
101369822 GCACCCG
66 GAACCCG
* * * * * * * *
101369829 AAGAGCTGCTATTGAGACTAGGGTGAGACCTGCTACTGCTTCCAAAGAGCCCATTAACTACTATA
1 AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCGAAGAGCCCATTACCCAATGTA
101369894 GAACCCG
66 GAACCCG
101369901 AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCGAAGAGCCCATTACCCAATGTA
1 AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCGAAGAGCCCATTACCCAATGTA
101369966 GAACCCG
66 GAACCCG
101369973 AAGA
1 AAGA
101369977 ATGAAAGCCA
Statistics
Matches: 130, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 130 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.21
Consensus pattern (72 bp):
AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCGAAGAGCCCATTACCCAATGTA
GAACCCG
Found at i:101374869 original size:22 final size:22
Alignment explanation
Indices: 101374828--101374870 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
101374818 ATTTAAACTG
101374828 ATTAAAATTAATTATATAAATTA
1 ATTAAAATT-ATTATATAAATTA
101374851 ATTAAAATT-TTCATATAAAT
1 ATTAAAATTATT-ATATAAAT
101374871 CCCAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.11
22 8 0.42
23 9 0.47
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTAAAATTATTATATAAATTA
Found at i:101379835 original size:13 final size:13
Alignment explanation
Indices: 101379817--101379841 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101379807 AAGATTAATG
101379817 TGTATATATACGA
1 TGTATATATACGA
101379830 TGTATATATACG
1 TGTATATATACG
101379842 TCATAACTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
TGTATATATACGA
Found at i:101381495 original size:11 final size:11
Alignment explanation
Indices: 101381479--101381504 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
101381469 AAACTCTTTC
101381479 TTTTTCTTTTT
1 TTTTTCTTTTT
101381490 TTTTTCTTTTT
1 TTTTTCTTTTT
101381501 TTTT
1 TTTT
101381505 CCTCACCATT
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:101391355 original size:24 final size:23
Alignment explanation
Indices: 101391318--101391363 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
101391308 GATTAAAGTT
* *
101391318 ATGGATAAATTTTGATTTTAAATA
1 ATGGATAAAGTTTG-TTTGAAATA
*
101391342 ATGGATAAGGTTTGTTTGAAAT
1 ATGGATAAAGTTTGTTTGAAAT
101391364 TTTTTAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (23 bp):
ATGGATAAAGTTTGTTTGAAATA
Found at i:101392619 original size:20 final size:22
Alignment explanation
Indices: 101392580--101392620 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
101392570 GTTTAGCTAT
*
101392580 TTCCTCAAACAAGGAAAAAACA
1 TTCCTCAAACAAGAAAAAAACA
101392602 TTCC-CAAA-AAGAAAAAAAC
1 TTCCTCAAACAAGAAAAAAAC
101392621 CCGCCGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.59, C:0.22, G:0.07, T:0.12
Consensus pattern (22 bp):
TTCCTCAAACAAGAAAAAAACA
Found at i:101409293 original size:21 final size:22
Alignment explanation
Indices: 101409264--101409310 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
101409254 CAGAAGGAGT
*
101409264 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
101409286 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
101409307 GAGT
1 GAGT
101409311 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:101415161 original size:53 final size:52
Alignment explanation
Indices: 101415075--101415176 Score: 168
Period size: 53 Copynumber: 1.9 Consensus size: 52
101415065 GGTTGTATTA
* *
101415075 GTTCAATTTTCAAATGTAAGGTTGTATTAGTTCAAACTAACTAGTTAAACGT
1 GTTCAATTTTCAAATATAAAGTTGTATTAGTTCAAACTAACTAGTTAAACGT
*
101415127 GTTCAATTTTCAAAATATAAAGTTGTATTAGTTCAAACTAATTAGTTAAA
1 GTTCAATTTTC-AAATATAAAGTTGTATTAGTTCAAACTAACTAGTTAAA
101415177 GTAAAAGAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 11 0.24
53 35 0.76
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (52 bp):
GTTCAATTTTCAAATATAAAGTTGTATTAGTTCAAACTAACTAGTTAAACGT
Found at i:101419273 original size:22 final size:22
Alignment explanation
Indices: 101419248--101419291 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
101419238 TAGTCATATA
101419248 ATAAATTATTAATGTAATAAAT
1 ATAAATTATTAATGTAATAAAT
* * *
101419270 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATGTAATAAAT
101419292 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATGTAATAAAT
Found at i:101419302 original size:20 final size:22
Alignment explanation
Indices: 101419262--101419303 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
101419252 ATTATTAATG
*
101419262 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
101419284 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
101419304 CAATTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:101419326 original size:13 final size:14
Alignment explanation
Indices: 101419310--101419351 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
101419300 ATTTCAATTT
101419310 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
101419323 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
101419338 ATTTTAAATAATAT
1 ATTTT-AATAATAT
101419352 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:101419336 original size:16 final size:16
Alignment explanation
Indices: 101419314--101419350 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
101419304 CAATTTATTT
101419314 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
101419331 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
101419346 TAATA
1 TAATA
101419351 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:101419412 original size:19 final size:19
Alignment explanation
Indices: 101419385--101419421 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
101419375 TCAATATTAA
*
101419385 TATTTCAATAATAAATATT
1 TATTACAATAATAAATATT
*
101419404 TATTACAATTATAAATAT
1 TATTACAATAATAAATAT
101419422 ATTAATAATA
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:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTACAATAATAAATATT
Found at i:101419849 original size:32 final size:33
Alignment explanation
Indices: 101419808--101419879 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 33
101419798 AACTTTTATG
*
101419808 AAATATTTTAAACAAATCTA-CCAAACAACAGA
1 AAATATTTTAAACAAATCCATCCAAACAACAGA
* *
101419840 AAATATTTTACACAAATCCATCCAAACACCAGA
1 AAATATTTTAAACAAATCCATCCAAACAACAGA
101419873 AAATATT
1 AAATATT
101419880 AACTTTTCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
32 18 0.50
33 18 0.50
ACGTcount: A:0.53, C:0.21, G:0.03, T:0.24
Consensus pattern (33 bp):
AAATATTTTAAACAAATCCATCCAAACAACAGA
Found at i:101434304 original size:17 final size:18
Alignment explanation
Indices: 101434278--101434325 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
101434268 TTTGGTTAAA
*
101434278 AATTAACCGAATTAACCG
1 AATTACCCGAATTAACCG
*
101434296 -ATTACCCGAATTACCCG
1 AATTACCCGAATTAACCG
*
101434313 AATTACCCAAATT
1 AATTACCCGAATT
101434326 GAATCACTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:101434318 original size:9 final size:9
Alignment explanation
Indices: 101434278--101434325 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
101434268 TTTGGTTAAA
*
101434278 AATTAACCG
1 AATTACCCG
*
101434287 AATTAACCG
1 AATTACCCG
101434296 -ATTACCCG
1 AATTACCCG
101434304 AATTACCCG
1 AATTACCCG
*
101434313 AATTACCCA
1 AATTACCCG
101434322 AATT
1 AATT
101434326 GAATCACTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
8 7 0.19
9 29 0.81
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:101434430 original size:17 final size:17
Alignment explanation
Indices: 101434408--101434468 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
101434398 TATGAGTCAC
101434408 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
101434425 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
*
101434445 AACATAATTAAAAACAT
1 TACATAATTAAAAACAT
101434462 TACATAA
1 TACATAA
101434469 GGTCTTGAAA
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
17 19 0.61
20 12 0.39
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:101434477 original size:37 final size:37
Alignment explanation
Indices: 101434324--101434474 Score: 212
Period size: 37 Copynumber: 4.0 Consensus size: 37
101434314 ATTACCCAAA
**
101434324 TTGAATCACTACATAATTAAAAACATTATGTAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
* * *
101434361 TTGAATCACTACATAATTAAAAATATTATATATAGCCT
1 TTGAATCACTACATAATTAAAAACATTACATA-AGTCT
* *
101434399 ATGAGTCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
101434436 TTGAATCACAACATAATTAAAAACATTACATAAGGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAA-GTCT
101434474 T
1 T
101434475 GAAATTAACA
Statistics
Matches: 101, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
37 64 0.63
38 37 0.37
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:101436775 original size:37 final size:36
Alignment explanation
Indices: 101436658--101436784 Score: 163
Period size: 35 Copynumber: 3.6 Consensus size: 36
101436648 AGACTAGTAA
* *
101436658 TTTTAA-TATGT-TTGATTCAAAGAC-TATGTAAGT
1 TTTTAATTATGTAGTGATTCAAAGACTTATATAAGT
* * *
101436691 TTTTAATTATGTAGTGACTCATAGGCTTATATAA-T
1 TTTTAATTATGTAGTGATTCAAAGACTTATATAAGT
*
101436726 TTTTAATTATGTAGTGATTCAAAGACTTACATAATGT
1 TTTTAATTATGTAGTGATTCAAAGACTTATATAA-GT
101436763 TTTTAATTATGTAGTGATTCAA
1 TTTTAATTATGTAGTGATTCAA
101436785 TTTGGGTAAT
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
33 6 0.08
34 5 0.06
35 40 0.50
36 6 0.08
37 23 0.29
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.46
Consensus pattern (36 bp):
TTTTAATTATGTAGTGATTCAAAGACTTATATAAGT
Found at i:101436800 original size:9 final size:9
Alignment explanation
Indices: 101436783--101436828 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
101436773 GTAGTGATTC
*
101436783 AATTTGGGT
1 AATTCGGGT
101436792 AATTCGGGT
1 AATTCGGGT
101436801 AATTCGGGT
1 AATTCGGGT
101436810 AA-TC--GT
1 AATTCGGGT
*
101436816 AATTCGGTT
1 AATTCGGGT
101436825 AATT
1 AATT
101436829 TTTAACCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 4 0.12
7 2 0.06
8 2 0.06
9 24 0.75
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.39
Consensus pattern (9 bp):
AATTCGGGT
Found at i:101437661 original size:26 final size:25
Alignment explanation
Indices: 101437614--101437664 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
101437604 ATTTGTTTTA
* *
101437614 ATATTTGTTTTTTATGCTTTTAAAT
1 ATATTTGTTTATTATACTTTTAAAT
*
101437639 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTTATTATACTTTTAAAT
101437665 TTTTTATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (25 bp):
ATATTTGTTTATTATACTTTTAAAT
Found at i:101443369 original size:21 final size:21
Alignment explanation
Indices: 101443345--101443393 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
101443335 GAGTTACTAT
101443345 TTTAAGGTTCATG-GTTATGGG
1 TTTAAGGTTCATGAGTTAT-GG
* * *
101443366 TTTAGGGTTTATGATTTATGG
1 TTTAAGGTTCATGAGTTATGG
101443387 TTTAAGG
1 TTTAAGG
101443394 GTTGGGGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.47
Consensus pattern (21 bp):
TTTAAGGTTCATGAGTTATGG
Found at i:101443421 original size:8 final size:7
Alignment explanation
Indices: 101443363--101443431 Score: 52
Period size: 7 Copynumber: 9.7 Consensus size: 7
101443353 TCATGGTTAT
101443363 GGGTTTA
1 GGGTTTA
101443370 GGGTTTA
1 GGGTTTA
* *
101443377 TGATTTA
1 GGGTTTA
*
101443384 TGGTTTAA
1 GGGTTT-A
*
101443392 GGG-TTG
1 GGGTTTA
101443398 GGGTTTA
1 GGGTTTA
*
101443405 AGG-TTA
1 GGGTTTA
101443411 GGGGTTTA
1 -GGGTTTA
101443419 GGGTTTA
1 GGGTTTA
101443426 TGGGTT
1 -GGGTT
101443432 ATATTCTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
6 6 0.12
7 32 0.65
8 11 0.22
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:101447228 original size:46 final size:46
Alignment explanation
Indices: 101447047--101447228 Score: 213
Period size: 46 Copynumber: 4.0 Consensus size: 46
101447037 TTTGACAAGA
* * * * * * * *
101447047 TGCCATAGTGTCTTTGAACTATGGTGTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
101447093 TGCCATGGTATCTTTCAACCATGGTTTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
101447139 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
101447185 TGCCATGGTATCATTCAACTATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
101447229 AGAGCACACT
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 4 0.03
46 115 0.97
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:101449726 original size:3 final size:3
Alignment explanation
Indices: 101449718--101449758 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
101449708 ATTGGTAACA
101449718 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
101449759 ATGTTAAAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:101453203 original size:39 final size:40
Alignment explanation
Indices: 101453096--101453206 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 40
101453086 GACCTCGAGT
* **
101453096 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGC
** ** *
101453137 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
101453175 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
101453207 AACTATCCGA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.34
39 19 0.34
40 1 0.02
41 15 0.27
42 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:101453217 original size:39 final size:39
Alignment explanation
Indices: 101453096--101453230 Score: 98
Period size: 39 Copynumber: 3.4 Consensus size: 39
101453086 GACCTCGAGT
* * *
101453096 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATA-GATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTC-GA-ACTATC
** ** * *
101453137 CGATGAGGTACTGGGTACCAACT-TTACTTCG-GCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
101453175 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
* *
101453214 CGATAAGGCACTGGGTG
1 CGATGAGACACTGGGTG
101453231 CCATATTGGT
Statistics
Matches: 72, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
37 1 0.01
38 20 0.28
39 30 0.42
40 4 0.06
41 15 0.21
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
Found at i:101454588 original size:24 final size:24
Alignment explanation
Indices: 101454531--101454577 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
101454521 AACCATGATG
101454531 GTTAATTATTACGAGTTTTGTAGT
1 GTTAATTATTACGAGTTTTGTAGT
*
101454555 GTTAATTATTACTAGTTTTGTAG
1 GTTAATTATTACGAGTTTTGTAG
101454578 CTTCTATTAT
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:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (24 bp):
GTTAATTATTACGAGTTTTGTAGT
Found at i:101454744 original size:24 final size:22
Alignment explanation
Indices: 101454717--101454760 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
101454707 AATTTCAAAA
101454717 ATAAAACATAATATAATATTTATC
1 ATAAAA-ATAA-ATAATATTTATC
*
101454741 ATAAAAATAAATATTATTTA
1 ATAAAAATAAATAATATTTA
101454761 ATAATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAAAAATAAATAATATTTATC
Found at i:101454862 original size:43 final size:43
Alignment explanation
Indices: 101454807--101454973 Score: 237
Period size: 43 Copynumber: 3.9 Consensus size: 43
101454797 TTTTCAAAAT
* *
101454807 AAAAGTGCCGCTAAAGGTCATGATTTTTAGCGGCGTTTGCGAG
1 AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGCGAG
* *
101454850 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGGG
1 AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGCGAG
* * *
101454893 AAAAGCGCCGCTAGAGGTCTTGGTCTTTAGCGGCGTTTGC-AGG
1 AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGCGA-G
* *
101454936 AAAAGCGCCGCTAAAGGTCTTGACCTTTAGCGGCGTTT
1 AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTT
101454974 TTTTTAAATA
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 113 1.00
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGCGAG
Found at i:101456040 original size:105 final size:104
Alignment explanation
Indices: 101455892--101456084 Score: 300
Period size: 105 Copynumber: 1.8 Consensus size: 104
101455882 TCCTCATTGA
*
101455892 AATACCATACCTACATTTTATACTCGGTATGGAAAATACCATACCTACGTTTCACAACTCGGTAT
1 AATACCATACCTACATTTTATACTCGGTATGGAAAATACCATACCTACATTTCACAACTCGGTAT
*
101455957 GGGA-AATGCCATACCTACATTTCTTAACCCAGTATAGAT
66 -GGATAATACCATACCTACATTTCTTAACCCAGTATAGAT
* **
101455996 AATACCATACCTATATTTCTCA-ACTCGGTATGGATGATACCATACCTACATTTCACAACTCGGT
1 AATACCATACCTACATTT-T-ATACTCGGTATGGAAAATACCATACCTACATTTCACAACTCGGT
101456060 ATGGATAATACCATACCTACATTTC
64 ATGGATAATACCATACCTACATTTC
101456085 GCACTTTGCC
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
104 20 0.25
105 60 0.74
106 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (104 bp):
AATACCATACCTACATTTTATACTCGGTATGGAAAATACCATACCTACATTTCACAACTCGGTAT
GGATAATACCATACCTACATTTCTTAACCCAGTATAGAT
Found at i:101456100 original size:35 final size:35
Alignment explanation
Indices: 101455892--101456084 Score: 246
Period size: 35 Copynumber: 5.5 Consensus size: 35
101455882 TCCTCATTGA
* * *
101455892 AATACCATACCTACATTTTA-TACTCGGTATGGAA
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
*
101455926 AATACCATACCTACGTTTCACAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCGGTAT-GGAT
* ** * * *
101455961 AATGCCATACCTACATTTCTTAACCCAGTATAGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* *
101455996 AATACCATACCTATATTTCTCAACTCGGTATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
*
101456031 GATACCATACCTACATTTCACAACTCGGTATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
101456066 AATACCATACCTACATTTC
1 AATACCATACCTACATTTC
101456085 GCACTTTGCC
Statistics
Matches: 136, Mismatches: 20, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
34 20 0.15
35 113 0.83
36 3 0.02
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCGGTATGGAT
Found at i:101458758 original size:24 final size:26
Alignment explanation
Indices: 101458731--101458788 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
101458721 TTTATTAAAT
*
101458731 ACAAATATA-GA-ATTAAAAAAATTA
1 ACAAATATACGACATTAAAAAAATCA
*
101458755 ACAAATATACTACATTAAAAAAATCA
1 ACAAATATACGACATTAAAAAAATCA
*
101458781 ATAAATAT
1 ACAAATAT
101458789 TATTTATATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 9 0.31
25 1 0.03
26 19 0.66
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.26
Consensus pattern (26 bp):
ACAAATATACGACATTAAAAAAATCA
Found at i:101459837 original size:18 final size:18
Alignment explanation
Indices: 101459814--101459855 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
101459804 AATTTCAAAG
*
101459814 ATAAAAAAATTTAAAAAT
1 ATAAAAAAATTAAAAAAT
101459832 ATAAAAAAATTAAAAAAT
1 ATAAAAAAATTAAAAAAT
101459850 ATAAAA
1 ATAAAA
101459856 TCAAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
ATAAAAAAATTAAAAAAT
Found at i:101460320 original size:14 final size:14
Alignment explanation
Indices: 101460301--101460327 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
101460291 ATCATTTCAT
101460301 TATTATGTTGTTAC
1 TATTATGTTGTTAC
101460315 TATTATGTTGTTA
1 TATTATGTTGTTA
101460328 TTGTTTAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.15, T:0.59
Consensus pattern (14 bp):
TATTATGTTGTTAC
Found at i:101460386 original size:19 final size:18
Alignment explanation
Indices: 101460337--101460387 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
101460327 ATTGTTTAGA
* *
101460337 TATTGTATAACTATTGTTT
1 TATTGTATAA-TTTTGTTC
101460356 TATTGT-TAATTTTGTTAC
1 TATTGTATAATTTTGTT-C
101460374 TATTGTATAATTTT
1 TATTGTATAATTTT
101460388 TAATTTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 6 0.21
18 9 0.32
19 13 0.46
ACGTcount: A:0.25, C:0.04, G:0.10, T:0.61
Consensus pattern (18 bp):
TATTGTATAATTTTGTTC
Found at i:101463478 original size:3 final size:3
Alignment explanation
Indices: 101463470--101463514 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
101463460 CCACTCAGTA
101463470 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
101463515 ATGTGAATCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:101464860 original size:7 final size:7
Alignment explanation
Indices: 101464848--101464875 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
101464838 ATAGTGGAGT
101464848 GAGGTGG
1 GAGGTGG
101464855 GAGGTGG
1 GAGGTGG
101464862 GAGGTGG
1 GAGGTGG
101464869 GAGGTGG
1 GAGGTGG
101464876 AGTGGAGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.71, T:0.14
Consensus pattern (7 bp):
GAGGTGG
Found at i:101465933 original size:96 final size:96
Alignment explanation
Indices: 101465769--101465950 Score: 283
Period size: 96 Copynumber: 1.9 Consensus size: 96
101465759 AACTGTAGCA
** * *
101465769 ACAATAATAATATAAACCGAATTAATACTCAATCATCATATTCATAAATTTTTAATTTTATAAAA
1 ACAATAATAATATAAACCGAACAAATACACAACCATCATATTCATAAATTTTTAATTTTATAAAA
101465834 TATGACGACTTTGGGTGGCTATTGGCTAATC
66 TATGACGACTTTGGGTGGCTATTGGCTAATC
* * *
101465865 ACAATAATAATATAAACTGAACAAATACACAACCATCATATTCATAATTTTTTAGTTTTATAAAA
1 ACAATAATAATATAAACCGAACAAATACACAACCATCATATTCATAAATTTTTAATTTTATAAAA
* *
101465930 TATGGCTACTTTGGGTGGCTA
66 TATGACGACTTTGGGTGGCTA
101465951 ATCTGATTTG
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 77 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (96 bp):
ACAATAATAATATAAACCGAACAAATACACAACCATCATATTCATAAATTTTTAATTTTATAAAA
TATGACGACTTTGGGTGGCTATTGGCTAATC
Found at i:101486229 original size:11 final size:11
Alignment explanation
Indices: 101486185--101486241 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
101486175 AATAAATAAA
*
101486185 TATTAGTTTAT
1 TATTATTTTAT
*
101486196 TAATATTTTGAT
1 TATTATTTT-AT
*
101486208 T-TAACTTTTAT
1 TATTA-TTTTAT
101486219 TATTATTTTAT
1 TATTATTTTAT
*
101486230 CATTATTTTAT
1 TATTATTTTAT
101486241 T
1 T
101486242 TAGTATATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
11 27 0.75
12 9 0.25
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:101486612 original size:59 final size:60
Alignment explanation
Indices: 101486487--101486613 Score: 211
Period size: 59 Copynumber: 2.1 Consensus size: 60
101486477 AGAGAGAAAG
101486487 TTAAGTTAAAGTTTGGTTTCAAGAGAATAAGGTATATGGATATTAAGGCTTTATGTTATTT
1 TTAAGTTAAAGTTTGGTTTCAAGAGAATAA-GTATATGGATATTAAGGCTTTATGTTATTT
* * *
101486548 TTAAGTTAAAGTTTGGTTTCAAGAGAATAA-TGTATGGTTGTTAAGGCTTTATGTTATTT
1 TTAAGTTAAAGTTTGGTTTCAAGAGAATAAGTATATGGATATTAAGGCTTTATGTTATTT
101486607 TTAAGTT
1 TTAAGTT
101486614 TAGTAGTGAT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
59 33 0.52
61 30 0.48
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (60 bp):
TTAAGTTAAAGTTTGGTTTCAAGAGAATAAGTATATGGATATTAAGGCTTTATGTTATTT
Found at i:101494607 original size:22 final size:21
Alignment explanation
Indices: 101494562--101494613 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
101494552 TTACCTATTG
*
101494562 TTTTGTTATTGTTTTATGTCA
1 TTTTGTTGTTGTTTTATGTCA
101494583 TTTTGTTGTTGTTTTGCA-GTCA
1 TTTTGTTGTTGTTTT--ATGTCA
101494605 TTTTGTTGT
1 TTTTGTTGT
101494614 AATTACTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 14 0.50
22 13 0.46
23 1 0.04
ACGTcount: A:0.10, C:0.06, G:0.19, T:0.65
Consensus pattern (21 bp):
TTTTGTTGTTGTTTTATGTCA
Found at i:101503030 original size:24 final size:23
Alignment explanation
Indices: 101503002--101503049 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
101502992 AAAAATTCTT
* *
101503002 ATTAAACCCCTAAAATTTTAAAAA
1 ATTAAAACCCT-AAATTTAAAAAA
*
101503026 ATTAAAACCCTTAATTTAAAAAA
1 ATTAAAACCCTAAATTTAAAAAA
101503049 A
1 A
101503050 AATTAAGTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (23 bp):
ATTAAAACCCTAAATTTAAAAAA
Found at i:101506878 original size:12 final size:12
Alignment explanation
Indices: 101506861--101506893 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
101506851 TGTTGTTAAA
101506861 GAAGCTGAAACT
1 GAAGCTGAAACT
101506873 GAAGCTGAAACT
1 GAAGCTGAAACT
*
101506885 GAAGTTGAA
1 GAAGCTGAA
101506894 CTTTCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.18
Consensus pattern (12 bp):
GAAGCTGAAACT
Found at i:101506986 original size:2 final size:2
Alignment explanation
Indices: 101506974--101507010 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
101506964 TACTGCAAAA
*
101506974 AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
101507011 CGTATGAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:101507962 original size:29 final size:30
Alignment explanation
Indices: 101507901--101507958 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
101507891 TAAACTAAAA
* **
101507901 AAAACATATTTTAATTTTAAAAATTTAATT
1 AAAACATATTTAAATTTTAAAAATAAAATT
101507931 AAAACAT-TTTAAATTTT-AAAATAAAATT
1 AAAACATATTTAAATTTTAAAAATAAAATT
101507959 TAAATTTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 9 0.36
29 9 0.36
30 7 0.28
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (30 bp):
AAAACATATTTAAATTTTAAAAATAAAATT
Found at i:101515762 original size:3 final size:3
Alignment explanation
Indices: 101515754--101515778 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
101515744 CCACGTCTTT
101515754 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
101515779 TTTATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:101516065 original size:21 final size:21
Alignment explanation
Indices: 101516006--101516067 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
101515996 AATTTTTATT
* * *
101516006 AATATAAGTATATATTAAATA
1 AATATAATTTTATATTTAATA
* *
101516027 TA-ATAATTTTCA-AGTTAATA
1 AATATAATTTT-ATATTTAATA
101516047 AATATAATTTTATATTTAATA
1 AATATAATTTTATATTTAATA
101516068 GAATGCTATG
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (21 bp):
AATATAATTTTATATTTAATA
Found at i:101523235 original size:29 final size:30
Alignment explanation
Indices: 101523183--101523250 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
101523173 CTAGAAAATT
* *
101523183 TTTTTAAAATGTAAAAATTAAA-TT-ATAA
1 TTTTTATAATGTAAAAATGAAATTTCATAA
*
101523211 TTTTTATAATAGTAAAAATGCAATTTCATAA
1 TTTTTATAAT-GTAAAAATGAAATTTCATAA
*
101523242 TTTTAATAA
1 TTTTTATAA
101523251 CTTGTATCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 9 0.27
29 10 0.30
30 2 0.06
31 12 0.36
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (30 bp):
TTTTTATAATGTAAAAATGAAATTTCATAA
Found at i:101530613 original size:7 final size:7
Alignment explanation
Indices: 101530601--101530635 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
101530591 GATTTCTTGG
101530601 GTAAGCA
1 GTAAGCA
101530608 GTAAGCA
1 GTAAGCA
101530615 GTAAGCA
1 GTAAGCA
*
101530622 GTCAGCA
1 GTAAGCA
101530629 GTAAGCA
1 GTAAGCA
101530636 ATTACTCGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.40, C:0.17, G:0.29, T:0.14
Consensus pattern (7 bp):
GTAAGCA
Found at i:101532383 original size:14 final size:14
Alignment explanation
Indices: 101532364--101532394 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
101532354 CATACCATTC
101532364 ATTCAATTAAATAT
1 ATTCAATTAAATAT
101532378 ATTCAATTAAATAT
1 ATTCAATTAAATAT
101532392 ATT
1 ATT
101532395 TTTAATCGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTCAATTAAATAT
Found at i:101539310 original size:96 final size:96
Alignment explanation
Indices: 101539141--101539322 Score: 283
Period size: 96 Copynumber: 1.9 Consensus size: 96
101539131 CAAATCAGAT
* * **
101539141 TAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGGTTGTGTATTTG
1 TAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGATTGAGTATTAA
101539206 TTCAGTTTATATTATTATTGTGATTAGCCAA
66 TTCAGTTTATATTATTATTGTGATTAGCCAA
* * * *
101539237 TAGCCACCCAAAGTCGTCATATTTTATAAAATTAAAAATTTATGAATATGATGATTGAGTATTAA
1 TAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGATTGAGTATTAA
*
101539302 TTCGGTTTATATTATTATTGT
66 TTCAGTTTATATTATTATTGT
101539323 TGCTACAGTT
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 77 1.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (96 bp):
TAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGATTGAGTATTAA
TTCAGTTTATATTATTATTGTGATTAGCCAA
Found at i:101540227 original size:7 final size:7
Alignment explanation
Indices: 101540215--101540242 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
101540205 ACACTCCACT
101540215 CCACCTC
1 CCACCTC
101540222 CCACCTC
1 CCACCTC
101540229 CCACCTC
1 CCACCTC
101540236 CCACCTC
1 CCACCTC
101540243 ACTCCACTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.71, G:0.00, T:0.14
Consensus pattern (7 bp):
CCACCTC
Found at i:101541586 original size:3 final size:3
Alignment explanation
Indices: 101541578--101541622 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
101541568 AGATTCACAT
101541578 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
101541623 TACTGAGTGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:101544725 original size:19 final size:18
Alignment explanation
Indices: 101544701--101544751 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
101544691 AAACAAATTA
*
101544701 AAAATTATACAATAGTAAC
1 AAAATTATACAATA-AAAC
101544720 AAAATTA-ACAATAAAAC
1 AAAATTATACAATAAAAC
*
101544737 AATAGTTATACAATA
1 AA-AATTATACAATA
101544752 TCTAAACAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 5 0.18
18 10 0.36
19 13 0.46
ACGTcount: A:0.61, C:0.10, G:0.04, T:0.25
Consensus pattern (18 bp):
AAAATTATACAATAAAAC
Found at i:101544780 original size:14 final size:14
Alignment explanation
Indices: 101544761--101544787 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
101544751 ATCTAAACAA
101544761 TAACAACATAATAG
1 TAACAACATAATAG
101544775 TAACAACATAATA
1 TAACAACATAATA
101544788 ATGAAATGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.15, G:0.04, T:0.22
Consensus pattern (14 bp):
TAACAACATAATAG
Found at i:101545255 original size:18 final size:17
Alignment explanation
Indices: 101545232--101545283 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
101545222 TATATTTTGA
*
101545232 TTTTATATTTTTTAATTT
1 TTTTATA-TTTTAAATTT
101545250 TTTTATATTTTAAATTT
1 TTTTATATTTTAAATTT
* *
101545267 TTTTATCTTTGAAATTT
1 TTTTATATTTTAAATTT
101545284 AAATTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
17 24 0.77
18 7 0.23
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTTATATTTTAAATTT
Found at i:101545260 original size:16 final size:16
Alignment explanation
Indices: 101545222--101545272 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
101545212 AAAATTGAAA
* *
101545222 TATATTTTGA-TTTTA
1 TATATTTTAATTTTTT
*
101545237 TATTTTTTAATTTTTT
1 TATATTTTAATTTTTT
101545253 TATATTTTAAATTTTTT
1 TATATTTT-AATTTTTT
101545270 TAT
1 TAT
101545273 CTTTGAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 8 0.27
16 11 0.37
17 11 0.37
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (16 bp):
TATATTTTAATTTTTT
Found at i:101546344 original size:24 final size:26
Alignment explanation
Indices: 101546292--101546349 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
101546282 GATATAAATA
* * *
101546292 ATATTTATTGATTTTTTTAATGTAGT
1 ATATTTGTTAATTTTTTTAATGTACT
101546318 ATATTTGTTAATTTTTTTAAT-T-CT
1 ATATTTGTTAATTTTTTTAATGTACT
101546342 ATATTTGT
1 ATATTTGT
101546350 ATTTAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 9 0.31
25 1 0.03
26 19 0.66
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.64
Consensus pattern (26 bp):
ATATTTGTTAATTTTTTTAATGTACT
Found at i:101549005 original size:35 final size:35
Alignment explanation
Indices: 101548982--101549173 Score: 248
Period size: 35 Copynumber: 5.5 Consensus size: 35
101548972 GGCAAAGTGC
*
101548982 GAAATGTAGGTATGGTATTATCCATACCGAGTTGT
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
*
101549017 GAAATGTAGGTATGGTATCATCCATACCGAGTTGA
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
* * * * *
101549052 GAAATATAGGTATGGTATTATCTATACTGGGTTAA
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
* *
101549087 GAAATGTAGGTATGGCATT-TCCCATACCGAGTTGT
1 GAAATGTAGGTATGGTATTAT-CCATACCGAGTTGA
*
101549122 GAAACGTAGGTATGGTATT-TCCATACCGAGTAT-A
1 GAAATGTAGGTATGGTATTATCCATACCGAGT-TGA
101549156 -AAATGTAGGTATGGTATT
1 GAAATGTAGGTATGGTATT
101549174 TCAATGAGGA
Statistics
Matches: 136, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
33 17 0.12
34 12 0.09
35 107 0.79
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
Found at i:101550150 original size:43 final size:43
Alignment explanation
Indices: 101550087--101550252 Score: 235
Period size: 43 Copynumber: 3.9 Consensus size: 43
101550077 TATTTAAAAA
**
101550087 AAACGCCGCTAAAGGTCAAGACCTTTAGCGGCGCTTTTCCTGC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCTGC
* *
101550130 AAACGCCGCTAAAGACCAAGACCTCTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCTGC
*
101550173 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTT-CTCGC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCT-GC
* * * *
101550216 AAACGCCGCTAAAAATCATGACCTTTAGCGGCACTTT
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTT
101550253 ATTTTGAAAA
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 1 0.01
43 111 0.99
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCTGC
Found at i:101550509 original size:24 final size:24
Alignment explanation
Indices: 101550482--101550528 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
101550472 ATAATAGAAG
101550482 CTACAAAACTAGTAATAATTAACA
1 CTACAAAACTAGTAATAATTAACA
*
101550506 CTACAAAACTCGTAATAATTAAC
1 CTACAAAACTAGTAATAATTAAC
101550529 CATCATGGTT
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:0.51, C:0.19, G:0.04, T:0.26
Consensus pattern (24 bp):
CTACAAAACTAGTAATAATTAACA
Found at i:101551895 original size:39 final size:40
Alignment explanation
Indices: 101551852--101551963 Score: 113
Period size: 39 Copynumber: 2.8 Consensus size: 40
101551842 TCGGATAGTT
*
101551852 CGAAGTAATAGTTGACACCCAGTGTCTCATCG-GCCTAGC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGC
** ** * *
101551891 CGAAGTAA-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGC
*
101551930 CGAAGAAATA-TAGTGACACCCAGTGTCTCATCGA
1 CGAAGTAATAGT--TGACACCCAGTGTCTCATCGA
101551964 CTCGAGGTCG
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.33
39 20 0.35
40 1 0.02
41 17 0.30
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:101555306 original size:3 final size:3
Alignment explanation
Indices: 101555298--101555341 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
101555288 GCTTTAACAT
101555298 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
101555342 TGTTACCAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:101556147 original size:20 final size:20
Alignment explanation
Indices: 101556110--101556147 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
101556100 TGATGGGGAG
*
101556110 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
101556130 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
101556148 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:101557894 original size:46 final size:46
Alignment explanation
Indices: 101557842--101558023 Score: 213
Period size: 46 Copynumber: 4.0 Consensus size: 46
101557832 AGTGTGCTCT
* *
101557842 CTGATATGAAATGTGTAAGACCATAGTTGAATGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAAC
* *
101557888 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAAC
* ** * *
101557934 GTGATATGAAATGAACAAAACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAAC
* * * * * *
101557980 ATGACA-GAAAATGAGTAACACCATAGTTCAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATAGTTGAAAGATACCATGGCA
101558024 TCTTGTCAAA
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 1 0.01
46 118 0.99
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAAC
Found at i:101561147 original size:15 final size:14
Alignment explanation
Indices: 101561103--101561154 Score: 61
Period size: 13 Copynumber: 3.7 Consensus size: 14
101561093 AGTTACATGA
101561103 TTTTATAAAATATT
1 TTTTATAAAATATT
* *
101561117 TTTTAT-TACTATT
1 TTTTATAAAATATT
*
101561130 TTTTATAAATTATAT
1 TTTTATAAAATAT-T
101561145 TTTTATAAAA
1 TTTTATAAAA
101561155 GAAAAAATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 11 0.35
14 10 0.32
15 10 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTATAAAATATT
Found at i:101561147 original size:16 final size:16
Alignment explanation
Indices: 101561121--101561153 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
101561111 AATATTTTTT
101561121 ATTACTATTTTTTATAA
1 ATTACTA-TTTTTATAA
101561138 ATTA-TATTTTTATAA
1 ATTACTATTTTTATAA
101561153 A
1 A
101561154 AGAAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.62
16 2 0.12
17 4 0.25
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTACTATTTTTATAA
Found at i:101561903 original size:14 final size:15
Alignment explanation
Indices: 101561880--101561927 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
101561870 ATTAAACCCC
*
101561880 AACCCTTAAACCATA
1 AACCCATAAACCATA
* *
101561895 AA-TCATAAACCCTA
1 AACCCATAAACCATA
*
101561909 AACCCATAACCCATA
1 AACCCATAAACCATA
101561924 AACC
1 AACC
101561928 TTAAAACAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.17
Consensus pattern (15 bp):
AACCCATAAACCATA
Found at i:101561905 original size:22 final size:23
Alignment explanation
Indices: 101561880--101561932 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
101561870 ATTAAACCCC
*
101561880 AACCCTTAAA-CCATAAATCATA
1 AACCCTTAAACCCATAAACCATA
*
101561902 AACCC-TAAACCCATAACCCATA
1 AACCCTTAAACCCATAAACCATA
101561924 AA-CCTTAAA
1 AACCCTTAAA
101561933 ACAGTAACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (23 bp):
AACCCTTAAACCCATAAACCATA
Found at i:101561940 original size:22 final size:22
Alignment explanation
Indices: 101561883--101561955 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
101561873 AAACCCCAAC
**
101561883 CCTTAAAC-CATAAATCATAAA
1 CCTTAAACACATAACCCATAAA
* *
101561904 CCCTAAACCCATAACCCATAAA
1 CCTTAAACACATAACCCATAAA
* *
101561926 CCTTAAA-ACAGTAACTCTTAAA
1 CCTTAAACACA-TAACCCATAAA
*
101561948 TCTTAAAC
1 CCTTAAAC
101561956 CCTAAGCCAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 9 0.22
22 32 0.78
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (22 bp):
CCTTAAACACATAACCCATAAA
Found at i:101562206 original size:41 final size:40
Alignment explanation
Indices: 101562145--101562312 Score: 219
Period size: 41 Copynumber: 4.1 Consensus size: 40
101562135 TTTTTTACGA
* * * * *
101562145 CGTTTTTCAAAAGCGTCGCTAAAAGCTCGATCTATAGCGG
1 CGTTTTCCAGAAGCGCCGCTAAAACCTCGACCTATAGCGG
*
101562185 CGTTTCTCCAGAAGCGCCGCTAAAACCTCTACCTATAGCGG
1 CGTTT-TCCAGAAGCGCCGCTAAAACCTCGACCTATAGCGG
* * *
101562226 CGTTTTTCTAGAAGTGCCACTAAAACCTCGACCTATAGCGG
1 CG-TTTTCCAGAAGCGCCGCTAAAACCTCGACCTATAGCGG
*
101562267 CGCTTTTCCAGAAGCGCCGCTAAAACCTCGATCTATAGCGG
1 CG-TTTTCCAGAAGCGCCGCTAAAACCTCGACCTATAGCGG
101562308 CGTTT
1 CGTTT
101562313 GGACCAAAAA
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
40 8 0.07
41 100 0.90
42 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
CGTTTTCCAGAAGCGCCGCTAAAACCTCGACCTATAGCGG
Found at i:101563316 original size:15 final size:16
Alignment explanation
Indices: 101563287--101563317 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
101563277 AAAATTAAAA
101563287 AATCCCTATTTTTTTT
1 AATCCCTATTTTTTTT
101563303 AATCCCTATTTTTTT
1 AATCCCTATTTTTTT
101563318 CTATATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (16 bp):
AATCCCTATTTTTTTT
Found at i:101563574 original size:4 final size:4
Alignment explanation
Indices: 101563567--101563595 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
101563557 GCATGCATGA
101563567 ATCC ATCC ATCC ATCC ATCC ATCC ATCC A
1 ATCC ATCC ATCC ATCC ATCC ATCC ATCC A
101563596 AGTGCTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.28, C:0.48, G:0.00, T:0.24
Consensus pattern (4 bp):
ATCC
Found at i:101578826 original size:33 final size:33
Alignment explanation
Indices: 101578784--101578874 Score: 100
Period size: 33 Copynumber: 2.8 Consensus size: 33
101578774 CTATTATGTG
101578784 GTTTTCTCACTATTTTATTGTTATTTT-CATATT
1 GTTTTCTCACTATTTTATTGTTATTTTAC-TATT
*
101578817 GTTTTCTCACAATTTT-TT-TATAGTTTTACTATT
1 GTTTTCTCACTATTTTATTGT-TA-TTTTACTATT
*
101578850 GTGTTGCT-ACTATTTTATTGTTATT
1 GT-TTTCTCACTATTTTATTGTTATT
101578875 GTTTAGATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
31 1 0.02
32 4 0.08
33 34 0.69
34 9 0.18
35 1 0.02
ACGTcount: A:0.19, C:0.11, G:0.09, T:0.62
Consensus pattern (33 bp):
GTTTTCTCACTATTTTATTGTTATTTTACTATT
Found at i:101578922 original size:259 final size:260
Alignment explanation
Indices: 101578495--101579007 Score: 875
Period size: 259 Copynumber: 2.0 Consensus size: 260
101578485 AAAAAGTATG
* * * * **
101578495 TTTAGAAAATGATTCGGGTCTATTATGTTATTTTTTCACTATTTTATTGTCATTTTTTTTATTGT
1 TTTAGAAAATGATCCGGGCCTATTATGTGATTTTCTCACTATTTTATTGTCATTTTTCATATTGT
*
101578560 TTCCTCACTATTTTGTTATAGTTTTACTATTATGTTGCTACTATTTTATTGTTATTATTTAGATA
66 TTCCTCACAATTTTGTTATAGTTTTACTATTATGTTGCTACTATTTTATTGTTATTATTTAGATA
* *
101578625 TTGTATAACTCTTATTTTATCATTAATTTTGTTACTATTTTAGAGACATTTGCTTGTTAAGTTGT
131 TTGCATAACTCTTATTTTATCATTAATTTTATTACTATTTTAGAGACATTTGCTTGTTAAGTTGT
101578690 ACTTATCTTAATGTTATTTAAGTATACGCATTTTTAAAAATTTATTTTCAATTTGTTGGAAAATA
196 ACTTATCTTAATGTTATTTAAGTATACGCATTTTTAAAAATTTATTTTCAATTTGTTGGAAAATA
* *
101578755 TTTAGAAAATGATCCGGGCCTATTATGTGGTTTTCTCACTATTTTATTGTTA-TTTTCATATTGT
1 TTTAGAAAATGATCCGGGCCTATTATGTGATTTTCTCACTATTTTATTGTCATTTTTCATATTGT
* * * *
101578819 TTTCTCACAATTTTTTTATAGTTTTACTATTGTGTTGCTACTATTTTATTGTTATTGTTTAGATA
66 TTCCTCACAATTTTGTTATAGTTTTACTATTATGTTGCTACTATTTTATTGTTATTATTTAGATA
*
101578884 TTGCATAACTCTTATTTTATCATTAATTTTATTACTATTTTAGAGACATTTTCTTGTTAAGTTGT
131 TTGCATAACTCTTATTTTATCATTAATTTTATTACTATTTTAGAGACATTTGCTTGTTAAGTTGT
101578949 ACTTATCTTAATGTTATTTAAGTATACGCATTTTTAAAAATTTATTTTCAATTTGTTGG
196 ACTTATCTTAATGTTATTTAAGTATACGCATTTTTAAAAATTTATTTTCAATTTGTTGG
101579008 GAACTTTTAT
Statistics
Matches: 237, Mismatches: 16, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
259 191 0.81
260 46 0.19
ACGTcount: A:0.26, C:0.10, G:0.11, T:0.54
Consensus pattern (260 bp):
TTTAGAAAATGATCCGGGCCTATTATGTGATTTTCTCACTATTTTATTGTCATTTTTCATATTGT
TTCCTCACAATTTTGTTATAGTTTTACTATTATGTTGCTACTATTTTATTGTTATTATTTAGATA
TTGCATAACTCTTATTTTATCATTAATTTTATTACTATTTTAGAGACATTTGCTTGTTAAGTTGT
ACTTATCTTAATGTTATTTAAGTATACGCATTTTTAAAAATTTATTTTCAATTTGTTGGAAAATA
Found at i:101579401 original size:27 final size:26
Alignment explanation
Indices: 101579341--101579402 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
101579331 ATTTTATTTT
101579341 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
101579367 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
101579395 ATTTTATT
1 ATTTTATT
101579403 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:101582474 original size:26 final size:26
Alignment explanation
Indices: 101582434--101582492 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
101582424 TTTTTAACAA
101582434 AGACAGG-TGTTACCATTCAGTTGGC
1 AGACAGGTTGTTACCATTCAGTTGGC
101582459 AGACAGGTTGTTACCATTCAGTTGGC
1 AGACAGGTTGTTACCATTCAGTTGGC
101582485 AGACAGGT
1 AGACAGGT
101582493 CTATTGTGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 7 0.21
26 26 0.79
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (26 bp):
AGACAGGTTGTTACCATTCAGTTGGC
Found at i:101583205 original size:4 final size:4
Alignment explanation
Indices: 101583198--101583256 Score: 50
Period size: 4 Copynumber: 14.8 Consensus size: 4
101583188 TCTTTTTATT
* * * *
101583198 TTTA TTTA -TTA TTTA TTATT TTTC TTTA TTTT TTTA -TTA TTTA TTTT
1 TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
101583245 TTTA TTTTA TTT
1 TTTA -TTTA TTT
101583257 TAGTTAAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
3 6 0.14
4 31 0.70
5 7 0.16
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.80
Consensus pattern (4 bp):
TTTA
Found at i:101583209 original size:7 final size:7
Alignment explanation
Indices: 101583193--101583251 Score: 63
Period size: 7 Copynumber: 8.9 Consensus size: 7
101583183 ATCTTTCTTT
101583193 TTATTT-
1 TTATTTA
101583199 TTATTTA
1 TTATTTA
101583206 TTATTTA
1 TTATTTA
101583213 TTATTT-
1 TTATTTA
*
101583219 TTCTTTA
1 TTATTTA
*
101583226 TTTTTTTA
1 -TTATTTA
101583234 TTATTTA
1 TTATTTA
101583241 TT-TTT-
1 TTATTTA
101583246 TTATTT
1 TTATTT
101583252 TATTTTAGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
5 2 0.04
6 17 0.37
7 21 0.46
8 6 0.13
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.80
Consensus pattern (7 bp):
TTATTTA
Found at i:101583218 original size:20 final size:18
Alignment explanation
Indices: 101583190--101583257 Score: 82
Period size: 20 Copynumber: 3.6 Consensus size: 18
101583180 CCAATCTTTC
101583190 TTTTTATTTTTATTTATT
1 TTTTTATTTTTATTTATT
*
101583208 ATTTATTATTTTTCTTTATT
1 -TTT-TTATTTTTATTTATT
*
101583228 TTTTTATTATTTATTTTTT
1 TTTTTATT-TTTATTTATT
101583247 TATTTTATTTT
1 T-TTTTATTTT
101583258 AGTTAAATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
18 5 0.12
19 17 0.40
20 21 0.49
ACGTcount: A:0.18, C:0.01, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTATTTTTATTTATT
Found at i:101583232 original size:32 final size:33
Alignment explanation
Indices: 101583186--101583252 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
101583176 CAACCCAATC
101583186 TTTCTTTTTATTTTTATT-TATTA-TTTATTATT
1 TTTCTTTTTATTTTTATTAT-TTATTTTATTATT
*
101583218 TTTCTTTATT-TTTTTATTATTTATTTTTTTATT
1 TTTCTTT-TTATTTTTATTATTTATTTTATTATT
101583251 TT
1 TT
101583253 ATTTTAGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
32 18 0.58
33 13 0.42
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (33 bp):
TTTCTTTTTATTTTTATTATTTATTTTATTATT
Found at i:101583238 original size:28 final size:29
Alignment explanation
Indices: 101583192--101583258 Score: 93
Period size: 28 Copynumber: 2.3 Consensus size: 29
101583182 AATCTTTCTT
101583192 TTTATTTTTATTTATTATTTATTATTTTT-C
1 TTTA-TTTTATTTATTATTTATT-TTTTTAC
*
101583222 TTTATTTT-TTTATTATTTATTTTTTTAT
1 TTTATTTTATTTATTATTTATTTTTTTAC
101583250 TTTATTTTA
1 TTTATTTTA
101583259 GTTAAATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
27 5 0.15
28 21 0.62
29 4 0.12
30 4 0.12
ACGTcount: A:0.19, C:0.01, G:0.00, T:0.79
Consensus pattern (29 bp):
TTTATTTTATTTATTATTTATTTTTTTAC
Found at i:101583252 original size:7 final size:7
Alignment explanation
Indices: 101583190--101583257 Score: 50
Period size: 7 Copynumber: 9.4 Consensus size: 7
101583180 CCAATCTTTC
101583190 TTTTTA-
1 TTTTTAT
101583196 TTTTTAT
1 TTTTTAT
*
101583203 TTATTAT
1 TTTTTAT
*
101583210 TTATTATTT
1 TT-TT-TAT
101583219 TTCTTTATT
1 TT-TTTA-T
101583228 TTTTTAT
1 TTTTTAT
*
101583235 TATTTAT
1 TTTTTAT
101583242 TTTTT-T
1 TTTTTAT
*
101583248 ATTTTAT
1 TTTTTAT
101583255 TTT
1 TTT
101583258 AGTTAAATAT
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
6 11 0.23
7 22 0.46
8 6 0.12
9 9 0.19
ACGTcount: A:0.18, C:0.01, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTAT
Found at i:101583403 original size:20 final size:20
Alignment explanation
Indices: 101583378--101583472 Score: 54
Period size: 22 Copynumber: 4.5 Consensus size: 20
101583368 GAAACAGTTC
101583378 TATTCCAGCCCAAA-ATGCCA
1 TATTCCAGCCCAAACA-GCCA
* *
101583398 TATTCCTGCTGCCAAACAGTTC-
1 TATTCCAGC--CCAAACAG-CCA
*
101583420 TATTCCAGCCCAGAA-TGCCA
1 TATTCCAGCCCA-AACAGCCA
*
101583440 TATCTCTGCAG-CCAAACAGTCA
1 TAT-TC--CAGCCCAAACAGCCA
101583462 TATTCCAGCCC
1 TATTCCAGCCC
101583473 TAGAATCCCC
Statistics
Matches: 57, Mismatches: 7, Indels: 22
0.66 0.08 0.26
Matches are distributed among these distances:
19 4 0.07
20 17 0.30
21 8 0.14
22 23 0.40
23 5 0.09
ACGTcount: A:0.28, C:0.35, G:0.13, T:0.24
Consensus pattern (20 bp):
TATTCCAGCCCAAACAGCCA
Found at i:101583428 original size:42 final size:42
Alignment explanation
Indices: 101583369--101583472 Score: 158
Period size: 42 Copynumber: 2.5 Consensus size: 42
101583359 CCATGGTACG
*
101583369 AAACAGTTCTATTCCAGCCCAAAATGCCATAT-TCCTGCTGCC
1 AAACAGTTCTATTCCAGCCCAAAATGCCATATCT-CTGCAGCC
*
101583411 AAACAGTTCTATTCCAGCCCAGAATGCCATATCTCTGCAGCC
1 AAACAGTTCTATTCCAGCCCAAAATGCCATATCTCTGCAGCC
101583453 AAACAG-TCATATTCCAGCCC
1 AAACAGTTC-TATTCCAGCCC
101583473 TAGAATCCCC
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
41 2 0.03
42 55 0.95
43 1 0.02
ACGTcount: A:0.30, C:0.34, G:0.12, T:0.24
Consensus pattern (42 bp):
AAACAGTTCTATTCCAGCCCAAAATGCCATATCTCTGCAGCC
Found at i:101583493 original size:43 final size:41
Alignment explanation
Indices: 101583369--101583500 Score: 140
Period size: 42 Copynumber: 3.1 Consensus size: 41
101583359 CCATGGTACG
* * ** *
101583369 AAACAGTTCTATTCCAGCCCAAAATGCCATATTCCTGCTGCC
1 AAACAGTTCTATTCCAGCCCAGAATCCCA-AAACCTGCAGCC
* * *
101583411 AAACAGTTCTATTCCAGCCCAGAATGCCATATCTCTGCAGCC
1 AAACAGTTCTATTCCAGCCCAGAATCCCAAAAC-CTGCAGCC
101583453 AAACAG-TCATATTCCAGCCCTAGAATCCCCAAAACCTGCAGCC
1 AAACAGTTC-TATTCCAGCCC-AGAAT-CCCAAAACCTGCAGCC
101583496 AAACA
1 AAACA
101583501 TCCCTTTTCA
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
41 4 0.05
42 52 0.66
43 18 0.23
44 5 0.06
ACGTcount: A:0.33, C:0.34, G:0.12, T:0.21
Consensus pattern (41 bp):
AAACAGTTCTATTCCAGCCCAGAATCCCAAAACCTGCAGCC
Found at i:101584473 original size:118 final size:118
Alignment explanation
Indices: 101584246--101584458 Score: 345
Period size: 118 Copynumber: 1.8 Consensus size: 118
101584236 AGCTTTTCAC
* *
101584246 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCAGAGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCAGAGTAGGGTGCTTGGGTTGTCATT
101584311 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
** * * *
101584364 GGTTATGAGTATGGCTCAAATCGTGACTGACTTAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCAGAGTAGGGTGCTTGGGTTGTCATT
* *
101584429 CTACTTTGCGTCAAACGGTTGTGTGACGTG
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
101584459 TTGGGTAAAT
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
118 86 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.30
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCAGAGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
Found at i:101584615 original size:12 final size:12
Alignment explanation
Indices: 101584600--101584634 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
101584590 AAAAAATCAA
101584600 AAAAAGAATAAG
1 AAAAAGAATAAG
*
101584612 AAAAAGAAGAAG
1 AAAAAGAATAAG
101584624 AAAAA-AATAAG
1 AAAAAGAATAAG
101584635 TACTAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (12 bp):
AAAAAGAATAAG
Found at i:101585261 original size:27 final size:26
Alignment explanation
Indices: 101585201--101585262 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
101585191 ATTTTATTTT
101585201 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
101585227 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
101585255 ATTTTATT
1 ATTTTATT
101585263 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:101587729 original size:44 final size:45
Alignment explanation
Indices: 101587654--101587742 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
101587644 GTTTAATAAA
*
101587654 TTTTTAATTCTTGTTGTATAGTAATTTGAACCAATCAAGTTGACT
1 TTTTTAATTCTTGTTGTATAGCAATTTGAACCAATCAAGTTGACT
101587699 TTTTTAATTCTTGTTGTATAGCAA-TTGAACCAATCAAGTTGACT
1 TTTTTAATTCTTGTTGTATAGCAATTTGAACCAATCAAGTTGACT
101587743 GAATTAGAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 20 0.47
45 23 0.53
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.45
Consensus pattern (45 bp):
TTTTTAATTCTTGTTGTATAGCAATTTGAACCAATCAAGTTGACT
Found at i:101599554 original size:22 final size:23
Alignment explanation
Indices: 101599529--101599588 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
101599519 TATAAAATAA
*
101599529 TTATTCAA-CTACTTAAATTTTT
1 TTATTCAAGCTACTTAAAATTTT
* *
101599551 TTATTTAAGTTACTTAAAATTTT
1 TTATTCAAGCTACTTAAAATTTT
* *
101599574 TTATTTAAGTTACTT
1 TTATTCAAGCTACTT
101599589 GGCTGTTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 7 0.21
23 27 0.79
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (23 bp):
TTATTCAAGCTACTTAAAATTTT
Found at i:101599565 original size:23 final size:23
Alignment explanation
Indices: 101599538--101599588 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
101599528 ATTATTCAAC
*
101599538 TACTTAAATTTTTTTATTTAAGT
1 TACTTAAAATTTTTTATTTAAGT
101599561 TACTTAAAATTTTTTATTTAAGT
1 TACTTAAAATTTTTTATTTAAGT
101599584 TACTT
1 TACTT
101599589 GGCTGTTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (23 bp):
TACTTAAAATTTTTTATTTAAGT
Found at i:101603731 original size:7 final size:7
Alignment explanation
Indices: 101603719--101603746 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
101603709 AGAACAAAAG
101603719 CTTTCTT
1 CTTTCTT
101603726 CTTTCTT
1 CTTTCTT
101603733 CTTTCTT
1 CTTTCTT
101603740 CTTTCTT
1 CTTTCTT
101603747 TCATGCTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (7 bp):
CTTTCTT
Found at i:101607537 original size:18 final size:18
Alignment explanation
Indices: 101607511--101607552 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
101607501 AAAAATTATT
*
101607511 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
101607529 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
101607547 TTTATA
1 TTTATA
101607553 CTTTAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:101607807 original size:30 final size:30
Alignment explanation
Indices: 101607771--101607830 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
101607761 ATTTTTGGAC
101607771 TAAAGTTCATACCAGACAATAATATACAAA
1 TAAAGTTCATACCAGACAATAATATACAAA
101607801 TAAAGTTCATACCAGACAATAATATACAAA
1 TAAAGTTCATACCAGACAATAATATACAAA
101607831 GGAAAGAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.53, C:0.17, G:0.07, T:0.23
Consensus pattern (30 bp):
TAAAGTTCATACCAGACAATAATATACAAA
Found at i:101620212 original size:16 final size:16
Alignment explanation
Indices: 101620187--101620225 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
101620177 AATCCAATCG
* *
101620187 AATTTTATTTTTATTT
1 AATTTCATTTATATTT
101620203 AATTTCATTTATATTT
1 AATTTCATTTATATTT
101620219 ATATTTC
1 A-ATTTC
101620226 GTAATTACGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (16 bp):
AATTTCATTTATATTT
Found at i:101621643 original size:26 final size:26
Alignment explanation
Indices: 101621589--101621645 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
101621579 AATTTTATTT
*
101621589 TATTTTTAAATATATTTAAAATATTA
1 TATTTTTAAATATATTTAAAATATAA
*
101621615 TATTTTTCAATAT-TATTAAACATA-AA
1 TATTTTTAAATATAT-TTAAA-ATATAA
101621641 TATTT
1 TATTT
101621646 AATTATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 1 0.04
26 23 0.85
27 3 0.11
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (26 bp):
TATTTTTAAATATATTTAAAATATAA
Found at i:101621708 original size:22 final size:20
Alignment explanation
Indices: 101621667--101621724 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
101621657 TTTAGTCATA
101621667 TAATAAATTATT-AATA---
1 TAATAAATTATTGAATATTT
101621683 TAATAAATATAATTGAATATTT
1 TAATAAAT-T-ATTGAATATTT
*
101621705 TAATAAATTATTTAATATTT
1 TAATAAATTATTGAATATTT
101621725 CAATTTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 8 0.23
17 1 0.03
18 3 0.09
19 4 0.11
20 10 0.29
21 1 0.03
22 8 0.23
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TAATAAATTATTGAATATTT
Found at i:101627825 original size:24 final size:26
Alignment explanation
Indices: 101627796--101627848 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
101627786 AACAACTCTA
101627796 TTATTTATTA-TA-TTTTTAAAATAT
1 TTATTTATTATTATTTTTTAAAATAT
*
101627820 TTATTTATTATTATTTTTTAAAGTAT
1 TTATTTATTATTATTTTTTAAAATAT
101627846 TTA
1 TTA
101627849 CACAATTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 10 0.38
25 2 0.08
26 14 0.54
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (26 bp):
TTATTTATTATTATTTTTTAAAATAT
Found at i:101627856 original size:27 final size:27
Alignment explanation
Indices: 101627800--101627857 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
101627790 ACTCTATTAT
***
101627800 TTATTATATTTTTAAAATATTTATTTA
1 TTATTATATTTTTAAAATATTTAACAA
*
101627827 TTATTAT-TTTTTAAAGTATTTACACAA
1 TTATTATATTTTTAAAATATTTA-ACAA
101627854 TTAT
1 TTAT
101627858 CGAGCTTCTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (27 bp):
TTATTATATTTTTAAAATATTTAACAA
Found at i:101628918 original size:13 final size:14
Alignment explanation
Indices: 101628896--101628931 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
101628886 TTTGATCGAC
*
101628896 TAAATAAAATTAA-
1 TAAATTAAATTAAT
101628909 TAAATTAAATTAAT
1 TAAATTAAATTAAT
101628923 TAAATTAAA
1 TAAATTAAA
101628932 CTCACACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAATTAAATTAAT
Found at i:101629241 original size:29 final size:30
Alignment explanation
Indices: 101629190--101629257 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
101629180 AATGTGTAAT
* *
101629190 TTTATACAT-AAATTTTGATTTTGTAT-AAA
1 TTTATACATAAAAATTTGAATTTG-ATCAAA
101629219 TTTATACATAAAAATTT-AATTTGATCAAA
1 TTTATACATAAAAATTTGAATTTGATCAAA
101629248 TTT-T-CATAAA
1 TTTATACATAAA
101629258 TTATTAACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 6 0.17
28 3 0.09
29 20 0.57
30 6 0.17
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (30 bp):
TTTATACATAAAAATTTGAATTTGATCAAA
Found at i:101631589 original size:29 final size:30
Alignment explanation
Indices: 101631525--101631600 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
101631515 GTTAACATTT
*
101631525 GGACTTAAATTTTGAAATATGAAAAGTAGAA
1 GGAC-TAAATTTTGAAATATGAAAAGTACAA
* *
101631556 TGACTAAATTTCTGAAA-AT-TAAAGTACAA
1 GGACTAAATTT-TGAAATATGAAAAGTACAA
101631585 GGACTAAATTTT-AAAT
1 GGACTAAATTTTGAAAT
101631601 TTTCAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 3 0.08
28 1 0.03
29 18 0.46
30 9 0.23
31 8 0.21
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.32
Consensus pattern (30 bp):
GGACTAAATTTTGAAATATGAAAAGTACAA
Done.