Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold975.1
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: 629503
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.30
Warning! 36095 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:6076 original size:12 final size:12
Alignment explanation
Indices: 6059--6085 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6049 ATTCCGAAGT
6059 ATATATATATAC
1 ATATATATATAC
6071 ATATATATATAC
1 ATATATATATAC
6083 ATA
1 ATA
6086 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:6528 original size:106 final size:106
Alignment explanation
Indices: 6343--6553 Score: 413
Period size: 106 Copynumber: 2.0 Consensus size: 106
6333 TCATTAAGCA
6343 TGTAGTTGGTATTATTTCAAATGGTCATAATGTTTATGTATTGATGCTGAATGGAATGAATAAAT
1 TGTAGTTGGTATTATTTCAAATGGTCATAATGTTTATGTATTGATGCTGAATGGAATGAATAAAT
6408 ATACATATATATATATGCATGTACGTATGTGATGATGAAAT
66 ATACATATATATATATGCATGTACGTATGTGATGATGAAAT
*
6449 TGTAGTTGGTATTATTTCAAATGGTCATAATGTTTATGTATTGATGCTGAATGGAATGAATATAT
1 TGTAGTTGGTATTATTTCAAATGGTCATAATGTTTATGTATTGATGCTGAATGGAATGAATAAAT
6514 ATACATATATATATATGCATGTACGTATGTGATGATGAAA
66 ATACATATATATATATGCATGTACGTATGTGATGATGAAA
6554 CTGTTGAATG
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 104 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.40
Consensus pattern (106 bp):
TGTAGTTGGTATTATTTCAAATGGTCATAATGTTTATGTATTGATGCTGAATGGAATGAATAAAT
ATACATATATATATATGCATGTACGTATGTGATGATGAAAT
Found at i:6704 original size:27 final size:27
Alignment explanation
Indices: 6673--6850 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
6663 TAAGTTGTAC
6673 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
6700 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
6726 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
6754 GGTACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
6782 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
6809 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
6836 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
6851 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 106 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:6843 original size:82 final size:81
Alignment explanation
Indices: 6670--6850 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
6660 GATTAAGTTG
* *
6670 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
6735 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
6751 TGCGGTACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
6815 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
6833 TATAGCACTAAGTGTGCG
1 TACAGCACTAAGTGTGCG
6851 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:6861 original size:27 final size:27
Alignment explanation
Indices: 6757--6861 Score: 68
Period size: 27 Copynumber: 3.9 Consensus size: 27
6747 ACCATGCGGT
* * * *
6757 ACTAAGTGTGCGAGTTTGACTATGTAGC
1 ACTAAGTGTGCGAG-CTCAATATATAGC
** * * **
6785 ACTAAGTGTGCGATTTGATTACGTAGC
1 ACTAAGTGTGCGAGCTCAATATATAGC
* * *
6812 ACTAAGTGTGCGAGTTGATTATATAGC
1 ACTAAGTGTGCGAGCTCAATATATAGC
6839 ACTAAGTGTGCG-GACTCAATATA
1 ACTAAGTGTGCGAG-CTCAATATA
6862 CATTCGTGAA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 53 0.79
28 13 0.19
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (27 bp):
ACTAAGTGTGCGAGCTCAATATATAGC
Found at i:11256 original size:26 final size:26
Alignment explanation
Indices: 11227--11331 Score: 183
Period size: 26 Copynumber: 4.0 Consensus size: 26
11217 TGGTACAAAT
11227 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11253 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11279 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11305 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11331 T
1 T
11332 TATGGACATT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:13041 original size:54 final size:54
Alignment explanation
Indices: 12959--13097 Score: 226
Period size: 54 Copynumber: 2.6 Consensus size: 54
12949 GAAGCGTCCA
*
12959 GGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTACCACATATATCTATTCT
1 GGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTATTCT
* *
13013 GGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCT
1 GGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTATTCT
*
13067 GGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GGTGGCTATGCCACAATTATCTG-ATCTGGTG
13098 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 6 0.08
54 74 0.93
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
GGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTATTCT
Found at i:13108 original size:27 final size:27
Alignment explanation
Indices: 12959--13115 Score: 171
Period size: 27 Copynumber: 5.8 Consensus size: 27
12949 GAAGCGTCCA
* *
12959 GGTGGCTATGCCACAATTATCT-AATCT
1 GGTGGCTCTGCCACAA-TATCTGTATCT
* *
12986 GGTGGCTCTACCACATATATCTAT-TCT
1 GGTGGCTCTGCCACA-ATATCTGTATCT
*
13013 GGTGGCTATGCCACAATTATCTG-ATCT
1 GGTGGCTCTGCCACAA-TATCTGTATCT
13040 GGTGGCTCTGCCACATATATCTGT-TCT
1 GGTGGCTCTGCCACA-ATATCTGTATCT
13067 GGTGGCTCTGCCACAATATCTGTATCT
1 GGTGGCTCTGCCACAATATCTGTATCT
* *
13094 GGTGACT-TCGTCACAATATCTG
1 GGTGGCTCT-GCCACAATATCTG
13116 GCAGCCTCGC
Statistics
Matches: 113, Mismatches: 9, Indels: 16
0.82 0.07 0.12
Matches are distributed among these distances:
26 10 0.09
27 101 0.89
28 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATATCTGTATCT
Found at i:13109 original size:81 final size:80
Alignment explanation
Indices: 12959--13115 Score: 194
Period size: 81 Copynumber: 1.9 Consensus size: 80
12949 GAAGCGTCCA
*
12959 GGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTACCACATATATCTATTCTGGTGGCTATGC
1 GGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTACCACATATATCTATTCTGGTGACTATGC
13024 CACAATTATCTGATCT
66 CACAA-TATCTGATCT
* ** * *
13040 GGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT-T
1 GGTGGCTATGCCACAAT-TATCTAATCTGGTGGCTCTACCACATATATCTAT-TCTGGTGACTAT
*
13102 CGTCACAATATCTG
64 -GCCACAATATCTG
13116 GCAGCCTCGC
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
80 16 0.24
81 50 0.76
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (80 bp):
GGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTACCACATATATCTATTCTGGTGACTATGC
CACAATATCTGATCT
Found at i:15455 original size:42 final size:40
Alignment explanation
Indices: 15295--15447 Score: 128
Period size: 42 Copynumber: 3.7 Consensus size: 40
15285 TGAGTTTACG
* * * **
15295 TGTAAGACCATATTTGGGATACGACATCGTTATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGA--TCA
* * * * *
15337 TGTAAAACCATGTCTGGGACATGGAATCAATATGAGAATCG
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAG-ATCA
* *
15378 TTTAAGACCAT-TGCTGGGCTATTGGCATCAATATGAGATCCCA
1 TGTAAGACCATAT-CTGGGATA-TGGCATCAATATGAGAT--CA
15421 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
15448 TGGTATGATT
Statistics
Matches: 87, Mismatches: 18, Indels: 12
0.74 0.15 0.10
Matches are distributed among these distances:
40 1 0.01
41 19 0.22
42 47 0.54
43 19 0.22
44 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (40 bp):
TGTAAGACCATATCTGGGATATGGCATCAATATGAGATCA
Found at i:16540 original size:30 final size:30
Alignment explanation
Indices: 16506--16576 Score: 142
Period size: 30 Copynumber: 2.4 Consensus size: 30
16496 ACACAGGTAT
16506 GAGACACGGCCATGTGTCTCGACCGTGTGA
1 GAGACACGGCCATGTGTCTCGACCGTGTGA
16536 GAGACACGGCCATGTGTCTCGACCGTGTGA
1 GAGACACGGCCATGTGTCTCGACCGTGTGA
16566 GAGACACGGCC
1 GAGACACGGCC
16577 TTAGGACATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.21, C:0.28, G:0.34, T:0.17
Consensus pattern (30 bp):
GAGACACGGCCATGTGTCTCGACCGTGTGA
Found at i:17496 original size:43 final size:43
Alignment explanation
Indices: 17421--17502 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
17411 AATGGCATAT
* * *
17421 CCCAGATATGGTCTTACATGTGATCTTGTATCGATGCCAATAG
1 CCCAGATATGGTCTTACACGAGATCTTATATCGATGCCAATAG
*
17464 CCCAGTTATGGTCTTACACGA-AGTCTTATATCGATGCCA
1 CCCAGATATGGTCTTACACGAGA-TCTTATATCGATGCCA
17503 TATACTTGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 1 0.03
43 33 0.97
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (43 bp):
CCCAGATATGGTCTTACACGAGATCTTATATCGATGCCAATAG
Found at i:20843 original size:6 final size:6
Alignment explanation
Indices: 20825--20884 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
20815 AAGAAACATT
* *
20825 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
*
20874 ATCAGT ATCAG
1 ATCAGA ATCAG
20885 GTAACATAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
5 2 0.05
6 38 0.86
7 3 0.07
8 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:20870 original size:25 final size:25
Alignment explanation
Indices: 20839--20933 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 25
20829 GAACTAGAAT
* *
20839 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
20864 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* * * *
20889 CATAATCAAAATCAAAATC-GGTAT
1 CAGAATCAGAATCAGAATCAGGTAA
*
20913 CAGGTAA-CAGAATCAAAATCA
1 CA-G-AATCAGAATCAGAATCA
20934 AAATGTGAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
24 6 0.11
25 49 0.86
26 2 0.04
ACGTcount: A:0.47, C:0.16, G:0.17, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:20902 original size:31 final size:31
Alignment explanation
Indices: 20867--20937 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
20857 TAGGTGACAG
* *
20867 AATCAGAATCAGTATCAGGTAACATAATCAA
1 AATCAAAATCAGTATCAGGTAACAGAATCAA
*
20898 AATCAAAATCGGTATCAGGTAACAGAATCAA
1 AATCAAAATCAGTATCAGGTAACAGAATCAA
20929 AATCAAAAT
1 AATCAAAAT
20938 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.51, C:0.15, G:0.13, T:0.21
Consensus pattern (31 bp):
AATCAAAATCAGTATCAGGTAACAGAATCAA
Found at i:21475 original size:54 final size:54
Alignment explanation
Indices: 21366--21516 Score: 164
Period size: 54 Copynumber: 2.8 Consensus size: 54
21356 TACCCCACAA
* * * * **
21366 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACAATACAG
21420 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACAA-ATCAG
1 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACAATA-CAG
* ** *
21474 GGGTATTTTGGTAATTT-TA-CAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCGGT-ATTTCTACCCTA-CAAGGGTATTTCGGTAATT
21517 TTATTGATCG
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
53 3 0.04
54 77 0.92
55 4 0.05
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (54 bp):
GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACAATACAG
Found at i:21477 original size:27 final size:27
Alignment explanation
Indices: 21348--21489 Score: 178
Period size: 27 Copynumber: 5.3 Consensus size: 27
21338 GGGGCAAAAT
* * * *
21348 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
21375 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
21402 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
21429 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
21456 GGTAATTCTA-CAAATCAGGGGTATTTT
1 GGTAATTCTACCCTA-CAGGGGTATTTC
21483 GGTAATT
1 GGTAATT
21490 TTACAAACCA
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.02
27 99 0.98
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:21505 original size:81 final size:80
Alignment explanation
Indices: 21352--21519 Score: 187
Period size: 81 Copynumber: 2.1 Consensus size: 80
21342 CAAAATGGTA
** **
21352 ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTA
1 ATTTTACCCCACAAGGGTATCTCGGTAATTCTACAATACAGGGGTATTTCAGTAATTCTACCAAA
*
21417 CAGGGGTATTTCGGT
66 CAAGGGTATTTCGGT
* * ** *
21432 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACAA-ATCAGGGGTATTTTGGTAATTTTA-CA
1 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACAATA-CAGGGGTATTTCAGTAATTCTACCA
*
21495 AACCAAGGGTATTTTGGT
64 AA-CAAGGGTATTTCGGT
21513 AATTTTA
1 -ATTTTA
21520 TTGATCGAGG
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
80 7 0.10
81 62 0.85
82 4 0.05
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (80 bp):
ATTTTACCCCACAAGGGTATCTCGGTAATTCTACAATACAGGGGTATTTCAGTAATTCTACCAAA
CAAGGGTATTTCGGT
Found at i:21532 original size:54 final size:54
Alignment explanation
Indices: 21444--21586 Score: 171
Period size: 54 Copynumber: 2.6 Consensus size: 54
21434 TTCTACCCTA
* * *
21444 CAAGGGTATTTCGGTAATTCTACAAATC-AGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCAGTAATTTTATAAATCGA-GGGTATTTTGGTAATTTTACAAAC
** ** **
21498 CAAGGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAAC
* *
21552 TAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTA
1 CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTA
21587 AAATGGTAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
54 74 0.99
55 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAAC
Found at i:21584 original size:27 final size:27
Alignment explanation
Indices: 21446--21640 Score: 126
Period size: 27 Copynumber: 7.2 Consensus size: 27
21436 CTACCCTACA
* **
21446 AGGGTATTTCGGTAATTCTACAAATC-
1 AGGGTATTTCGGTAATTTTGTAAATCG
* ** * *
21472 AGGGGTATTTTGGTAATTTTACAAACCA
1 A-GGGTATTTCGGTAATTTTGTAAATCG
* * **
21500 AGGGTATTTTGGTAATTTTATTGATCG
1 AGGGTATTTCGGTAATTTTGTAAATCG
* *
21527 AGGGTATTTTGGTAATTTTGTAAA-CTA
1 AGGGTATTTCGGTAATTTTGTAAATC-G
*
21554 AGGGTATTTCAGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTGTAAATCG
** * *
21581 AGGGTAAAAT-GGTAATTCTGTAAATTG
1 AGGGT-ATTTCGGTAATTTTGTAAATCG
*** * *
21608 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTATTTCGGTAATTTTGTAAATCG
21635 AGGGTA
1 AGGGTA
21641 AAATGATAAT
Statistics
Matches: 140, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
26 5 0.04
27 131 0.94
28 4 0.03
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTGTAAATCG
Found at i:21594 original size:54 final size:54
Alignment explanation
Indices: 21482--21651 Score: 169
Period size: 54 Copynumber: 3.1 Consensus size: 54
21472 AGGGGTATTT
** * ** * ** ***
21482 TGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATTGATCGAGGGTATTT
1 TGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAA
21536 TGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAA
1 TGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAA
* * * *** *
21590 TGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAA
*
21644 TGATAATT
1 TGGTAATT
21652 CTATCTTATT
Statistics
Matches: 97, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 97 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.37
Consensus pattern (54 bp):
TGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAA
Found at i:21650 original size:27 final size:27
Alignment explanation
Indices: 21566--21653 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
21556 GGTATTTCAG
* *
21566 TAATTTTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGA
* *
21593 TAATTCTGTAAATTGAGGGTAAAA-CA
1 TAATTCTGTAAATCGAGGGTAAAATGA
21619 GTAATTCTGTAAATCGAGGGTAAAATGA
1 -TAATTCTGTAAATCGAGGGTAAAATGA
21647 TAATTCT
1 TAATTCT
21654 ATCTTATTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.33
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAATGA
Found at i:21729 original size:54 final size:54
Alignment explanation
Indices: 21666--21894 Score: 271
Period size: 54 Copynumber: 4.2 Consensus size: 54
21656 CTTATTTCGA
* * * *** * * *
21666 TAATTTTACAAATCGAAGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGG
1 TAATTTTACAAACCGAGGGTATTTCAATAATTTCACAAATCAGGGGTACTTTGG
* *
21720 TAATTTTACAAGCCGAGGGTATTTCAATAATTTCACAAATCGGGGGTACTTTGG
1 TAATTTTACAAACCGAGGGTATTTCAATAATTTCACAAATCAGGGGTACTTTGG
* *
21774 TAATTTTACAAGCCGAGGGTATTTCAATAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACCGAGGGTATTTCAATAATTTCACAAATCAGGGGTACTTTGG
* ** * * *
21828 TAATTTTACAAA-CTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCGA-GGGTATTTCAATAATTTCACAAATCAGGGGTACTTTGG
21882 TAATTTTACAAAC
1 TAATTTTACAAAC
21895 TAGGGGTATT
Statistics
Matches: 156, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
53 2 0.01
54 154 0.99
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (54 bp):
TAATTTTACAAACCGAGGGTATTTCAATAATTTCACAAATCAGGGGTACTTTGG
Found at i:21793 original size:27 final size:28
Alignment explanation
Indices: 21666--21940 Score: 237
Period size: 27 Copynumber: 10.2 Consensus size: 28
21656 CTTATTTCGA
* * * *
21666 TAATTTTACAAATCGA-AGATATTTGGG
1 TAATTTTACAAACCGAGGGGTATTTTGG
* * *
21693 TAATTTTATAAATCG-GGGGTACTTTGG
1 TAATTTTACAAACCGAGGGGTATTTTGG
* ***
21720 TAATTTTACAAGCCGA-GGGTATTTCAA
1 TAATTTTACAAACCGAGGGGTATTTTGG
* * *
21747 TAATTTCACAAATCG-GGGGTACTTTGG
1 TAATTTTACAAACCGAGGGGTATTTTGG
* ***
21774 TAATTTTACAAGCCGA-GGGTATTTCAA
1 TAATTTTACAAACCGAGGGGTATTTTGG
* *
21801 TAATTTCACAAATC-AGGGGTATTTTGG
1 TAATTTTACAAACCGAGGGGTATTTTGG
* *
21828 TAATTTTACAAA-CTAGGGGTATTTTGA
1 TAATTTTACAAACCGAGGGGTATTTTGG
21855 TAATTTTACAAACC-AGGGGTATTTTGG
1 TAATTTTACAAACCGAGGGGTATTTTGG
*
21882 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTACAAACCGAGGGGTATTTTGG
** **
21909 TAATTTTGTAAACC-AAAGGTATTTTGG
1 TAATTTTACAAACCGAGGGGTATTTTGG
21936 TAATT
1 TAATT
21941 CTATCCTACA
Statistics
Matches: 200, Mismatches: 39, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
26 3 0.01
27 195 0.98
28 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (28 bp):
TAATTTTACAAACCGAGGGGTATTTTGG
Found at i:21913 original size:54 final size:54
Alignment explanation
Indices: 21666--21940 Score: 268
Period size: 54 Copynumber: 5.1 Consensus size: 54
21656 CTTATTTCGA
* * * * * * *
21666 TAATTTTACAAATC-GAAGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGG
1 TAATTTTACAAA-CAGAGGGTATTTCGATAATTTTACAAATCAGGGGTATTTTGG
* * * * * *
21720 TAATTTTACAAGCCGAGGGTATTTCAATAATTTCACAAATCGGGGGTACTTTGG
1 TAATTTTACAAACAGAGGGTATTTCGATAATTTTACAAATCAGGGGTATTTTGG
* * * *
21774 TAATTTTACAAGCCGAGGGTATTTCAATAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACAGAGGGTATTTCGATAATTTTACAAATCAGGGGTATTTTGG
* *
21828 TAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAAC-AGAGGGTATTTCGATAATTTTACAAATCAGGGGTATTTTGG
* * ** * **
21882 TAATTTTACAAACTAG-GGGTATTTTGGTAATTTTGTAAACCAAAGGTATTTTGG
1 TAATTTTACAAAC-AGAGGGTATTTCGATAATTTTACAAATCAGGGGTATTTTGG
21936 TAATT
1 TAATT
21941 CTATCCTACA
Statistics
Matches: 198, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
53 1 0.01
54 196 0.99
55 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
TAATTTTACAAACAGAGGGTATTTCGATAATTTTACAAATCAGGGGTATTTTGG
Found at i:21966 original size:81 final size:81
Alignment explanation
Indices: 21794--21966 Score: 188
Period size: 81 Copynumber: 2.1 Consensus size: 81
21784 AGCCGAGGGT
* * **
21794 ATTTCAATAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAAT
1 ATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAAGGTATTTTGATAAT
* *
21859 TTTACAAACCAGGGGT
66 TCTACAAACCAGGGGC
** * ** *
21875 ATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTGTAAACCAAAGGTATTTTGGTAA
1 ATTTCAGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAACCAAAGGTATTTTGATAA
**
21939 TTCTATCCTA-CAGGGGC
65 TTCTA-CAAACCAGGGGC
21956 ATTTCAGTAAT
1 ATTTCAGTAAT
21967 GCTAGTCTAT
Statistics
Matches: 74, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
80 1 0.01
81 71 0.96
82 2 0.03
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (81 bp):
ATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAAGGTATTTTGATAAT
TCTACAAACCAGGGGC
Found at i:25669 original size:64 final size:64
Alignment explanation
Indices: 25589--25716 Score: 229
Period size: 64 Copynumber: 2.0 Consensus size: 64
25579 CTAGTAGAAC
* *
25589 TAGGGGATTAGTTTTTCTATATAATAAGTATTTTTTGTATTTAACTAATTTAATCAAGATTCTT
1 TAGGGGACTAGTTTTTCTATATAATAAGTATTTTTTGTATTCAACTAATTTAATCAAGATTCTT
*
25653 TAGGGGACTAGTTTTTCTATCTAATAAGTATTTTTTGTATTCAACTAATTTAATCAAGATTCTT
1 TAGGGGACTAGTTTTTCTATATAATAAGTATTTTTTGTATTCAACTAATTTAATCAAGATTCTT
25717 CGATCTCACC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.48
Consensus pattern (64 bp):
TAGGGGACTAGTTTTTCTATATAATAAGTATTTTTTGTATTCAACTAATTTAATCAAGATTCTT
Found at i:31569 original size:23 final size:23
Alignment explanation
Indices: 31539--31586 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
31529 AATTTGGCAC
31539 TTAGTGTGCGATTTGAGATAGCT
1 TTAGTGTGCGATTTGAGATAGCT
31562 TTAGTGTGCGATTTGAGATAGCT
1 TTAGTGTGCGATTTGAGATAGCT
31585 TT
1 TT
31587 GGCTATGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.08, G:0.29, T:0.42
Consensus pattern (23 bp):
TTAGTGTGCGATTTGAGATAGCT
Found at i:31658 original size:28 final size:28
Alignment explanation
Indices: 31627--31704 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
31617 TCAAATATGA
31627 CACTTAGTGTGCGAAATATTGAGAATGG
1 CACTTAGTGTGCGAAATATTGAGAATGG
31655 CACTTAGTGTGCGAAATATTGAGAATGG
1 CACTTAGTGTGCGAAATATTGAGAATGG
*
31683 CA-TTCAGTGTGCAAAATATTGA
1 CACTT-AGTGTGCGAAATATTGA
31705 ATGACTCAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
27 2 0.04
28 46 0.96
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (28 bp):
CACTTAGTGTGCGAAATATTGAGAATGG
Found at i:34555 original size:24 final size:24
Alignment explanation
Indices: 34522--34610 Score: 101
Period size: 24 Copynumber: 3.7 Consensus size: 24
34512 TCTTACTTAT
*
34522 TCGCAGACATAGTGCCACGTTTTC
1 TCGCACACATAGTGCCACGTTTTC
* **
34546 TCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCACGTTTTC
34570 TCGCACACATAGTGCCACTTAGTTTT-
1 TCGCACACATAGTGCCAC---GTTTTC
34596 T-GCACACATAGTGCC
1 TCGCACACATAGTGCC
34611 GCATAACCTT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
24 37 0.67
25 14 0.25
26 1 0.02
27 3 0.05
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (24 bp):
TCGCACACATAGTGCCACGTTTTC
Found at i:34601 original size:49 final size:48
Alignment explanation
Indices: 34522--34633 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 48
34512 TCTTACTTAT
* ** *
34522 TCGCAGACATAGTGCCACGTTTTCTCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCACGTTTTCTCGCACACATAGTGCCACATAACC
*
34570 TCGCACACATAGTGCCACTTAGTTTT-T-GCACACATAGTGCCGCATAACC
1 TCGCACACATAGTGCCAC---GTTTTCTCGCACACATAGTGCCACATAACC
*
34619 TTGCACACATAGTGC
1 TCGCACACATAGTGC
34634 TGAAATTTCT
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
48 17 0.31
49 32 0.58
50 1 0.02
51 5 0.09
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
TCGCACACATAGTGCCACGTTTTCTCGCACACATAGTGCCACATAACC
Found at i:36555 original size:15 final size:15
Alignment explanation
Indices: 36535--36564 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
36525 AAAATGTGTT
36535 GGTGATGAGTTGAAA
1 GGTGATGAGTTGAAA
36550 GGTGATGAGTTGAAA
1 GGTGATGAGTTGAAA
36565 ATCATAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.40, T:0.27
Consensus pattern (15 bp):
GGTGATGAGTTGAAA
Found at i:47200 original size:20 final size:20
Alignment explanation
Indices: 47155--47201 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
47145 AAGATGACAT
*
47155 CAAATTAACTTTTTGTTTTA
1 CAAATTAACTTTTTATTTTA
**
47175 TTAATTAACTTTTTATTTTA
1 CAAATTAACTTTTTATTTTA
47195 CAAATTA
1 CAAATTA
47202 CCTTAATAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (20 bp):
CAAATTAACTTTTTATTTTA
Found at i:56119 original size:42 final size:42
Alignment explanation
Indices: 56056--56140 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
56046 ACACGCAAAG
*
56056 TAAGCTTTCAAAAGCTTAGTAAGCCATATACAAATAAACTTA
1 TAAGCTTTCAAAAGCTCAGTAAGCCATATACAAATAAACTTA
56098 TAAGCTTTCAAAAGCTCAGTAAGCCATATACAAATAAACTTA
1 TAAGCTTTCAAAAGCTCAGTAAGCCATATACAAATAAACTTA
56140 T
1 T
56141 CACATAACAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (42 bp):
TAAGCTTTCAAAAGCTCAGTAAGCCATATACAAATAAACTTA
Found at i:56461 original size:43 final size:42
Alignment explanation
Indices: 56400--56508 Score: 112
Period size: 43 Copynumber: 2.6 Consensus size: 42
56390 AATGCCAACG
* * * **
56400 TCCCAGACGTGGTTTTACATGTAATCAAATATCGATGTC-ACTA
1 TCCCAGACATGGTCTTACATGTAATCAAATA-CAATACCGA-TA
* * *
56443 TCCCAGACATGGTCTTACACGAAATCAAATACAATACCGATG
1 TCCCAGACATGGTCTTACATGTAATCAAATACAATACCGATA
*
56485 TCCCAAACATGGTCTTACATGTAA
1 TCCCAGACATGGTCTTACATGTAA
56509 ATCTCAAATC
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
42 26 0.48
43 28 0.52
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACATGTAATCAAATACAATACCGATA
Found at i:59662 original size:11 final size:11
Alignment explanation
Indices: 59646--59670 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
59636 CAAAATAAAA
59646 ATGATTATTTT
1 ATGATTATTTT
59657 ATGATTATTTT
1 ATGATTATTTT
59668 ATG
1 ATG
59671 GTCCATGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (11 bp):
ATGATTATTTT
Found at i:63556 original size:42 final size:43
Alignment explanation
Indices: 63448--63578 Score: 151
Period size: 43 Copynumber: 3.0 Consensus size: 43
63438 AGCTTCTACA
** * * *
63448 ATGCCAACGTCCCAGATGTGGTGTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAATCAAACATCG
* *
63491 ATGCC-ACTGTCCCAAACAGGGTCTTACATGAAATCAAACA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGAAATCAAACATCG
63533 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCATAA-ATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATG-AAATCA-AACATCG
63577 AT
1 AT
63579 ACGAACGTTG
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
42 29 0.39
43 39 0.53
44 6 0.08
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAAATCAAACATCG
Found at i:76245 original size:40 final size:40
Alignment explanation
Indices: 76201--76297 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
76191 AAAACATCAT
* *
76201 TATAGATCGAGCATTAGTGACAATTTTTGAAAAACA-CCGC
1 TATAGATCGAGCATTAGAGACAATTTTT-AAAAAAAGCCGC
* * *
76241 TATAGATAGAGCATTAGAGGCACTTTTTAAAAAAAGCCGC
1 TATAGATCGAGCATTAGAGACAATTTTTAAAAAAAGCCGC
* *
76281 TATAGGTCGACCATTAG
1 TATAGATCGAGCATTAG
76298 CGGTGCTTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 6 0.12
40 42 0.88
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (40 bp):
TATAGATCGAGCATTAGAGACAATTTTTAAAAAAAGCCGC
Found at i:76463 original size:40 final size:41
Alignment explanation
Indices: 76377--76554 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 41
76367 ATTAGTGGCT
* **
76377 CTTTTTGAAAAACGCCGCTATAGATCGAAGCATTAGCGGTG
1 CTTTTTAAAAAACGCCGCTATAGATCGAAGCATTAGCGACG
* *
76418 C-TTTTAAAAAAAGCAGCTAT-GAATC-AAGCATTAGCGACG
1 CTTTTTAAAAAACGCCGCTATAG-ATCGAAGCATTAGCGACG
* * *
76457 CTTTTTAAAAAACGCCGCTATAGGTC-AATG-ATTAGCGGCA
1 CTTTTTAAAAAACGCCGCTATAGATCGAA-GCATTAGCGACG
* * * * *
76497 CTTTTTGAAAAACGCCACTATAGATCG-AGCTTTAGCGGCA
1 CTTTTTAAAAAACGCCGCTATAGATCGAAGCATTAGCGACG
* *
76537 CTTTATCAAAAACGCCGC
1 CTTTTTAAAAAACGCCGC
76555 AAAAAACATT
Statistics
Matches: 114, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
39 15 0.13
40 96 0.84
41 3 0.03
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (41 bp):
CTTTTTAAAAAACGCCGCTATAGATCGAAGCATTAGCGACG
Found at i:76532 original size:80 final size:80
Alignment explanation
Indices: 76377--76554 Score: 184
Period size: 80 Copynumber: 2.2 Consensus size: 80
76367 ATTAGTGGCT
* **
76377 CTTTTTGAAAAACGCCGCTATAGATCGAAGCATTAGCGGTGCTTTTAAAAAAAGCAGCTATGAAT
1 CTTTTTAAAAAACGCCGCTATAGATCGAAGCATTAGCGGCACTTTTAAAAAAAGCAGCTATGAAT
*
76442 CAAGCATTAGCGACG
66 CAAGCATTAGCGACA
* * *
76457 CTTTTTAAAAAACGCCGCTATAGGTC-AATG-ATTAGCGGCACTTTTTGAAAAACGCCA-CTAT-
1 CTTTTTAAAAAACGCCGCTATAGATCGAA-GCATTAGCGGCAC-TTTTAAAAAAAG-CAGCTATG
* * *
76518 AGATCGAGCTTTAGCGGCA
63 A-ATCAAGCATTAGCGACA
* *
76537 CTTTATCAAAAACGCCGC
1 CTTTTTAAAAAACGCCGC
76555 AAAAAACATT
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
79 12 0.15
80 68 0.83
81 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (80 bp):
CTTTTTAAAAAACGCCGCTATAGATCGAAGCATTAGCGGCACTTTTAAAAAAAGCAGCTATGAAT
CAAGCATTAGCGACA
Found at i:79159 original size:14 final size:14
Alignment explanation
Indices: 79140--79167 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
79130 AATATGGTAT
79140 TAATATCATATACA
1 TAATATCATATACA
79154 TAATATCATATACA
1 TAATATCATATACA
79168 CAATCTCGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (14 bp):
TAATATCATATACA
Found at i:86311 original size:50 final size:43
Alignment explanation
Indices: 86280--86361 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
86270 CGGTTAGCGG
*
86280 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCATTAGCTA
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCTA
**
86323 CGTTTGTGGGAAAAGCGCCGCTAAAATTCATGTTCTTTA
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTA
86362 ACCGAGTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCTA
Found at i:93586 original size:26 final size:26
Alignment explanation
Indices: 93548--93606 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
93538 GCCATTAGGG
*
93548 TGTAGCAGGCTTTG-GATCGGTGTATA
1 TGTAGCAAGCTTTGTG-TCGGTGTATA
* *
93574 TTTAGCAAGCTTTGTGTCTGTGTATA
1 TGTAGCAAGCTTTGTGTCGGTGTATA
93600 TGTAGCA
1 TGTAGCA
93607 GACTTAGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 27 0.96
27 1 0.04
ACGTcount: A:0.20, C:0.12, G:0.29, T:0.39
Consensus pattern (26 bp):
TGTAGCAAGCTTTGTGTCGGTGTATA
Found at i:96785 original size:96 final size:96
Alignment explanation
Indices: 96625--96960 Score: 410
Period size: 96 Copynumber: 3.5 Consensus size: 96
96615 GAAGCCATAC
** * * ** *
96625 TCCAAACATGGTCTTATGCTGGCTCACATGTCGA-GGCTGATGCCATGTCCTAGACATGGCCTTA
1 TCCAAACATGGTCTTACACTGGCTCTCATATC-ATGGCCAATGCCATGTCCTAGACATGGTCTTA
* *
96689 CACTAGCTCTC-TTCTCAATGCCGATGCCATGT
65 CACTAGCTCTCATT-ACATTGCCGATGCCATGT
* * * * * * * *
96721 CCCAGACATGGTATTACACTAGCGCACATATCAAT-GCCGATGCCATGTCCTAGACATAGTCTTA
1 TCCAAACATGGTCTTACACTGGCTCTCATATC-ATGGCCAATGCCATGTCCTAGACATGGTCTTA
*
96785 CACTGGCTCTCATTACATTGCCGATGCCATGT
65 CACTAGCTCTCATTACATTGCCGATGCCATGT
* *
96817 TCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCAATGCCATGT-CTCGGACATGGTCTTA
1 TCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATGCCATGTCCT-AGACATGGTCTTA
* *
96881 GACTAGCTCTCATTACATTGTCGATGCCATGT
65 CACTAGCTCTCATTACATTGCCGATGCCATGT
96913 TCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATGCCATGT
1 TCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATGCCATGT
96961 AACACCCCGT
Statistics
Matches: 207, Mismatches: 29, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
95 3 0.01
96 202 0.98
97 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (96 bp):
TCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATGCCATGTCCTAGACATGGTCTTAC
ACTAGCTCTCATTACATTGCCGATGCCATGT
Found at i:96886 original size:144 final size:145
Alignment explanation
Indices: 96625--96960 Score: 353
Period size: 144 Copynumber: 2.3 Consensus size: 145
96615 GAAGCCATAC
* ** * * * *
96625 TCCAAACATGGTCTTATGCTGGCTCACATGTCGA-GGCTGATGCCATG-TCCTAGACATGGCCTT
1 TCCAAACATAGTCTTACACTGGCTCTCATATC-ATGGCCGATGCCATGTTCCTAAACATGGCCTT
* * *
96688 ACACTAGCTCTCTTCTCAATGCCGATGCCATGTCCCAGACATGGTATTACACTAGCGCACA-TAT
65 ACACTAGCTCTCATATCAATGCCAATGCCATGTCCCAGACATGGTATTACACTAGCGCACATTA-
96752 CAATGCCGATGCCATG-
129 CAATGCCGATGCCATGT
* * *
96768 TCCTAGACATAGTCTTACACTGGCTCTCAT-TACATTGCCGATGCCATGTTCC-AAACATGGTCT
1 TCC-AAACATAGTCTTACACTGGCTCTCATAT-CATGGCCGATGCCATGTTCCTAAACATGGCCT
* * * * * * * *
96831 TACACTGGCTCTCATATC-GTGGCCAATGCCATGTCTCGGACATGGTCTTAGACTAGCTCTCATT
64 TACACTAGCTCTCATATCAAT-GCCAATGCCATGTCCCAGACATGGTATTACACTAGCGCACATT
* *
96895 ACATTGTCGATGCCATGT
128 ACAATGCCGATGCCATGT
* *
96913 TCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATGCCATGT
1 TCCAAACATAGTCTTACACTGGCTCTCATATCATGGCCGATGCCATGT
96961 AACACCCCGT
Statistics
Matches: 159, Mismatches: 26, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
143 6 0.04
144 144 0.91
145 9 0.06
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (145 bp):
TCCAAACATAGTCTTACACTGGCTCTCATATCATGGCCGATGCCATGTTCCTAAACATGGCCTTA
CACTAGCTCTCATATCAATGCCAATGCCATGTCCCAGACATGGTATTACACTAGCGCACATTACA
ATGCCGATGCCATGT
Found at i:96940 original size:48 final size:47
Alignment explanation
Indices: 96663--96960 Score: 289
Period size: 48 Copynumber: 6.2 Consensus size: 47
96653 TGTCGAGGCT
* * *
96663 GATGCCATGTCCTAGACATGGCCTTACACTAGCTCTC-TTCTCAATGCC
1 GATGCCATGTCC-AGACATGGTCTTACACTAGCTCTCATT-ACATTGCC
* * * *
96711 GATGCCATGTCCCAGACATGGTATTACACTAGCGCACA-TATCAATGCC
1 GATGCCATGT-CCAGACATGGTCTTACACTAGCTCTCATTA-CATTGCC
* *
96759 GATGCCATGTCCTAGACATAGTCTTACACTGGCTCTCATTACATTGCC
1 GATGCCATGTCC-AGACATGGTCTTACACTAGCTCTCATTACATTGCC
* * * *
96807 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCA-TATCGTGGCC
1 GATGCCATG-TCCAGACATGGTCTTACACTAGCTCTCATTA-CATTGCC
* * * *
96855 AATGCCATGTCTCGGACATGGTCTTAGACTAGCTCTCATTACATTGTC
1 GATGCCATGTC-CAGACATGGTCTTACACTAGCTCTCATTACATTGCC
* * *
96903 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCA-TATCATGGCC
1 GATGCCATG-TCCAGACATGGTCTTACACTAGCTCTCATTA-CATTGCC
*
96951 AATGCCATGT
1 GATGCCATGT
96961 AACACCCCGT
Statistics
Matches: 208, Mismatches: 31, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
47 9 0.04
48 188 0.90
49 11 0.05
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCAGACATGGTCTTACACTAGCTCTCATTACATTGCC
Found at i:98401 original size:40 final size:40
Alignment explanation
Indices: 98331--98498 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
98321 CGGGGTTTAG
** * * **
98331 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTTTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAAC
* * *
98370 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAAC
** **
98410 CCGGATATAGTTGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGA-CTTAAC
* * * *
98450 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGACTTAAC
98491 CCGGATAT
1 CCGGATAT
98499 CATTCAAGTA
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
39 18 0.17
40 58 0.55
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAAC
Found at i:98481 original size:41 final size:40
Alignment explanation
Indices: 98354--98498 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
98344 CTCGCACAAG
** * * * *
98354 GCCTTCGGGTTTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
98394 GCCTTCGGGACTTAGCCCGGATATAGTTGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
98434 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
98475 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
98499 CATTCAAGTA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.03
40 56 0.63
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:99729 original size:38 final size:38
Alignment explanation
Indices: 99687--99801 Score: 230
Period size: 38 Copynumber: 3.0 Consensus size: 38
99677 CAAGAACTCC
99687 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
99725 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
99763 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
99801 T
1 T
99802 AATTTTCTCA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 77 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:109061 original size:43 final size:43
Alignment explanation
Indices: 109014--109109 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 43
109004 GCTAGGCTTA
* *
109014 AAGCCCGATATCATTTCACAGGCATTATAGCCTACTAGGCCCG
1 AAGCCCGATATCATCTCACAGGCATTATAGCCTACTACGCCCG
* * *
109057 AAGCCCGATATTATCTCACCGGCATTATAGCCTACTACGCTCG
1 AAGCCCGATATCATCTCACAGGCATTATAGCCTACTACGCCCG
109100 AAGCCCGATA
1 AAGCCCGATA
109110 ATATTATTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (43 bp):
AAGCCCGATATCATCTCACAGGCATTATAGCCTACTACGCCCG
Found at i:114113 original size:48 final size:48
Alignment explanation
Indices: 114052--114182 Score: 174
Period size: 48 Copynumber: 2.7 Consensus size: 48
114042 TATGCCATGA
* * *
114052 CATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAGG-CTGATGC
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATGTCAAGGTC-GATGC
* * *
114100 CATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATGTCGATGC
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATGTCAAGGTCGATGC
* *
114148 CATGTCCCAGACATGGTCTTACACTGGCTCACATG
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATG
114183 CTCACATAAC
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
48 71 0.99
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
CATGTCCCAAACATGGTCTTACACTAGCTCACATGTCAAGGTCGATGC
Found at i:116789 original size:20 final size:21
Alignment explanation
Indices: 116746--116789 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
116736 AAACTTGTAT
* *
116746 ATATATCAACAAGCATTCATA
1 ATATATCAACAAACATTCAAA
*
116767 ATATATCAATAAAC-TTCAAA
1 ATATATCAACAAACATTCAAA
116787 ATA
1 ATA
116790 CACATTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.52, C:0.16, G:0.02, T:0.30
Consensus pattern (21 bp):
ATATATCAACAAACATTCAAA
Found at i:120564 original size:46 final size:45
Alignment explanation
Indices: 120511--120683 Score: 197
Period size: 46 Copynumber: 3.8 Consensus size: 45
120501 TTGGGCATCC
120511 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCT
*** * * *
120557 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCT
* *
120604 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCT
*
120650 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
120684 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.61
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCT
Found at i:120663 original size:93 final size:93
Alignment explanation
Indices: 120504--120675 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
120494 AGGATATTTG
* *
120504 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAG
120569 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
120597 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAG
120662 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
120676 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:127502 original size:10 final size:10
Alignment explanation
Indices: 127487--127515 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
127477 TTAAACTCTA
127487 AAAGATAAAT
1 AAAGATAAAT
127497 AAAGATAAAT
1 AAAGATAAAT
127507 AAAGATAAA
1 AAAGATAAA
127516 AGCTGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:129526 original size:26 final size:25
Alignment explanation
Indices: 129464--129537 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 25
129454 TCGATTTTCC
129464 TATATATAAGAAGAGAGAATAAAAATTA
1 TATATATAAGAA-A-A-AATAAAAATTA
*
129492 T-TAACATAAGAAAAAATAGAAAATTA
1 TAT-ATATAAGAAAAAATA-AAAATTA
*
129518 TATATATAA-ATAAAATAAAA
1 TATATATAAGAAAAAATAAAA
129538 TAAACATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
24 3 0.08
25 11 0.28
26 14 0.35
27 3 0.08
28 9 0.22
ACGTcount: A:0.65, C:0.01, G:0.08, T:0.26
Consensus pattern (25 bp):
TATATATAAGAAAAAATAAAAATTA
Found at i:130812 original size:21 final size:21
Alignment explanation
Indices: 130788--130833 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
130778 AAAATCTTTT
*
130788 GTTTCCTAATGGAAATCAAGA
1 GTTTCCTAATGGAAATCAACA
* **
130809 GTTTGCTGTTGGAAATCAACA
1 GTTTCCTAATGGAAATCAACA
130830 GTTT
1 GTTT
130834 ATCGTTGTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (21 bp):
GTTTCCTAATGGAAATCAACA
Found at i:137788 original size:33 final size:33
Alignment explanation
Indices: 137751--137817 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
137741 CATTTTGCAC
137751 CATAAATCTTTCTTTCCTTTTCTCCAAATGATT
1 CATAAATCTTTCTTTCCTTTTCTCCAAATGATT
137784 CATAAATCTTTCTTTCCTTTTCTCCAAATGATT
1 CATAAATCTTTCTTTCCTTTTCTCCAAATGATT
137817 C
1 C
137818 GTGTCTGTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.25, G:0.03, T:0.48
Consensus pattern (33 bp):
CATAAATCTTTCTTTCCTTTTCTCCAAATGATT
Found at i:141468 original size:45 final size:45
Alignment explanation
Indices: 141404--141494 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
141394 TATGGTTCTC
*
141404 TTTTCTAAATTTAAAATGTTGAGAAAAATAAATATCCTTAAATGT
1 TTTTCTAAATTTAAAATGTTGAGAAAAATAAATATCCTCAAATGT
* * *
141449 TTTTCTAAATTTCAAATGTTGATAAAATTAAATATCCTCAAATGT
1 TTTTCTAAATTTAAAATGTTGAGAAAAATAAATATCCTCAAATGT
141494 T
1 T
141495 GAGAAAGATG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.42
Consensus pattern (45 bp):
TTTTCTAAATTTAAAATGTTGAGAAAAATAAATATCCTCAAATGT
Found at i:141769 original size:8 final size:8
Alignment explanation
Indices: 141756--141781 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
141746 AATGCTTAGC
141756 TTTTTTAT
1 TTTTTTAT
141764 TTTTTTAT
1 TTTTTTAT
141772 TTTTTTAT
1 TTTTTTAT
141780 TT
1 TT
141782 CAGTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTAT
Found at i:141933 original size:113 final size:109
Alignment explanation
Indices: 141810--142010 Score: 242
Period size: 110 Copynumber: 1.8 Consensus size: 109
141800 CCAAGTAAAA
* * * *
141810 TTCAAATTAATCCCCTCCTCATCTATTAGAAAATCAAAGCTACTTTTAATATTTTGA-TCAAATA
1 TTCAAATTAATCCCCTCCTCATCT-CT-G-AAACCAAAACTACTTTTAAT-TTTTGATTCAAAGA
141874 AAAAAAAACAATTATTTCAATTATTTTTTTCCTTTATTCCTAATGCAAC
62 AAAAAAAACAATTATTTCAATT-TTTTTTTCCTTTATTCCTAATGCAAC
*** * *
141923 TTCAAATTAATTGGCTCCTCATCTCTGGAACCAAAACTACTTTTAATTTTTTATTCAAAGAAAAA
1 TTCAAATTAATCCCCTCCTCATCTCTGAAACCAAAACTACTTTTAATTTTTGATTCAAAGAAAAA
* * *
141988 GAAACCATTTTTTCAATTTTTTT
66 AAAACAATTATTTCAATTTTTTT
142011 CCCTGTTTGT
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
109 10 0.13
110 42 0.56
111 1 0.01
112 1 0.01
113 21 0.28
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (109 bp):
TTCAAATTAATCCCCTCCTCATCTCTGAAACCAAAACTACTTTTAATTTTTGATTCAAAGAAAAA
AAAACAATTATTTCAATTTTTTTTTCCTTTATTCCTAATGCAAC
Found at i:144094 original size:37 final size:37
Alignment explanation
Indices: 144035--144136 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
144025 AGCTCAGACG
* *
144035 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
144072 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
144109 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
144137 TAGAGCTCGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:144342 original size:47 final size:47
Alignment explanation
Indices: 144255--144661 Score: 616
Period size: 47 Copynumber: 8.6 Consensus size: 47
144245 CCCTTCGGGA
* * * * * *
144255 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
144302 CCTGTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
144349 CTTATCACATATATACACTTTCATATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
144396 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTACGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
144443 CTTATCACATATATATACACTTTCACATTCAGCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
144492 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
144541 CTTATCACATATACACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
144588 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
144635 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
144662 TATTCAAATA
Statistics
Matches: 328, Mismatches: 30, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
47 238 0.73
49 90 0.27
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:144591 original size:192 final size:190
Alignment explanation
Indices: 144255--144661 Score: 642
Period size: 192 Copynumber: 2.2 Consensus size: 190
144245 CCCTTCGGGA
* * * * * *
144255 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCATATATATAC
1 CTTATCACATATATATACACTTTCACATTCAGCACATCGGCCACTAGGCCCTATCATATATATAC
* *
144318 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCATATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCACA
*
144383 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTTATCACATCGGCCATTACGC
131 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTACGC
* *
144443 CTTATCACATATATATACACTTTCACATTCAGCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCAGCACATCGGCCACTAGGCCCTAT--CATATATAT
* *
144508 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCA
*
144573 CATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 CATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTACGC
144635 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
144662 TATTCAAATA
Statistics
Matches: 201, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
188 10 0.05
189 1 0.00
190 52 0.26
192 138 0.69
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATATACACTTTCACATTCAGCACATCGGCCACTAGGCCCTATCATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCACA
TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTACGC
Found at i:154386 original size:44 final size:42
Alignment explanation
Indices: 154244--154399 Score: 167
Period size: 42 Copynumber: 3.7 Consensus size: 42
154234 AGCTCGTACA
* * *
154244 ATGCCAACGTCCCAGACGTGGTCTCAC-TATAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAA-GTCG
* *
154286 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGGAATC-AAGTACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAAGT-CG
*
154328 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACCATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCA-AAGTCG
*
154372 ATGCCAACGTCCCAGATGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
154400 CAAAAACACA
Statistics
Matches: 96, Mismatches: 9, Indels: 16
0.79 0.07 0.13
Matches are distributed among these distances:
41 4 0.04
42 49 0.51
43 10 0.10
44 29 0.30
45 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAAGTCG
Found at i:156890 original size:30 final size:30
Alignment explanation
Indices: 156855--156923 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
156845 ATGGGGCTAA
*
156855 CCGTGTGTCACACATGGCCTAGACACACGC
1 CCGTGTGTCACACACGGCCTAGACACACGC
*
156885 CCGTGTGTCACACACGGCCTAGACGCACGC
1 CCGTGTGTCACACACGGCCTAGACACACGC
156915 CCGTGTGTC
1 CCGTGTGTC
156924 TACCCATGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.19, C:0.38, G:0.26, T:0.17
Consensus pattern (30 bp):
CCGTGTGTCACACACGGCCTAGACACACGC
Found at i:173041 original size:13 final size:13
Alignment explanation
Indices: 173023--173047 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
173013 TACCCTGTTT
173023 TTGCACGGCCGTC
1 TTGCACGGCCGTC
173036 TTGCACGGCCGT
1 TTGCACGGCCGT
173048 GTTTCCGTCC
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:0.08, C:0.36, G:0.32, T:0.24
Consensus pattern (13 bp):
TTGCACGGCCGTC
Found at i:175247 original size:39 final size:40
Alignment explanation
Indices: 175202--175312 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
175192 CGGGGTTTAG
* * *
175202 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
175241 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * *
175281 CCGGATATAGTCGCTAGCACAAATGCCTTCGG
1 CCGGATATAACCACTAGCATAAAGGCCTTCGG
175313 ATCTTAGTCC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:175272 original size:40 final size:40
Alignment explanation
Indices: 175225--175369 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
175215 CTCGCACAAG
* * * * *
175225 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
175265 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
175305 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
175346 GCCTTCAGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
175370 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:180674 original size:20 final size:21
Alignment explanation
Indices: 180635--180674 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
180625 GTTATAATGA
180635 CCACACGGGCGTGTTACCCTT
1 CCACACGGGCGTGTTACCCTT
*
180656 CCACATGGGCGTG-TACCCT
1 CCACACGGGCGTGTTACCCT
180675 GTTTCAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.15, C:0.38, G:0.25, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTACCCTT
Found at i:187100 original size:46 final size:46
Alignment explanation
Indices: 186932--187102 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 46
186922 TATGTGTGCT
* *
186932 AGTGTAAGACATGTCTGGGACATGCATCAGCCA--CA-ACATGATGGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCATTGAGACATGA--GCC
* * * *
186978 AGTGTAAGGCATGTCTGGGACATGCATCGGCCTTGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACA--TGAGCC
* * * * ** *
187026 AGTGCAAAACTTGTCTGGGACATACATCGGCATTGAGACGGGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACATGAGCC
187072 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
187103 CTTGCAATAT
Statistics
Matches: 99, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
45 2 0.02
46 57 0.58
47 1 0.01
48 37 0.37
50 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACATGAGCC
Found at i:188433 original size:20 final size:21
Alignment explanation
Indices: 188394--188433 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
188384 GTTATAATGA
*
188394 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGAGTGTTGCCCTT
188415 CCACACGGGAGTG-TGCCCT
1 CCACACGGGAGTGTTGCCCT
188434 GTTTCAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.38, G:0.30, T:0.20
Consensus pattern (21 bp):
CCACACGGGAGTGTTGCCCTT
Found at i:190024 original size:79 final size:79
Alignment explanation
Indices: 189940--190100 Score: 322
Period size: 79 Copynumber: 2.0 Consensus size: 79
189930 AAAATTCTAA
189940 TTAATCTAAACAAGAAATTCTTTTAAACAAAACTTTTTTGTTAACATAAAACTCCTAAAAAACTT
1 TTAATCTAAACAAGAAATTCTTTTAAACAAAACTTTTTTGTTAACATAAAACTCCTAAAAAACTT
190005 AAAATACTTAATAC
66 AAAATACTTAATAC
190019 TTAATCTAAACAAGAAATTCTTTTAAACAAAACTTTTTTGTTAACATAAAACTCCTAAAAAACTT
1 TTAATCTAAACAAGAAATTCTTTTAAACAAAACTTTTTTGTTAACATAAAACTCCTAAAAAACTT
190084 AAAATACTTAATAC
66 AAAATACTTAATAC
190098 TTA
1 TTA
190101 TAAAAAATTA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (79 bp):
TTAATCTAAACAAGAAATTCTTTTAAACAAAACTTTTTTGTTAACATAAAACTCCTAAAAAACTT
AAAATACTTAATAC
Found at i:191797 original size:38 final size:38
Alignment explanation
Indices: 191746--191821 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
191736 AAGTTAGTTC
*
191746 ACAATTTCTTACTTCTTTAAAACATTTTCTATGGCATT
1 ACAATTTCTTACTTCTTTAAAACATTTCCTATGGCATT
*
191784 ACAATTTCTTACTTCTTTAAAACATTTCCTGTGGCATT
1 ACAATTTCTTACTTCTTTAAAACATTTCCTATGGCATT
191822 CTAATTGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.46
Consensus pattern (38 bp):
ACAATTTCTTACTTCTTTAAAACATTTCCTATGGCATT
Found at i:193136 original size:24 final size:24
Alignment explanation
Indices: 193109--193156 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
193099 TATGCATTTG
193109 CCTAGACTCACATTTTGTGAGGTT
1 CCTAGACTCACATTTTGTGAGGTT
193133 CCTAGACTCACATTTTGTGAGGTT
1 CCTAGACTCACATTTTGTGAGGTT
193157 TGCCCGTCAT
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:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (24 bp):
CCTAGACTCACATTTTGTGAGGTT
Found at i:195557 original size:9 final size:9
Alignment explanation
Indices: 195543--195568 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
195533 GACTAAATCA
195543 GAAACATTT
1 GAAACATTT
195552 GAAACATTT
1 GAAACATTT
195561 GAAACATT
1 GAAACATT
195569 GAGGAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (9 bp):
GAAACATTT
Found at i:197603 original size:26 final size:26
Alignment explanation
Indices: 197557--197625 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
197547 TTTACATTGT
* * * *
197557 TGCTCACACGAGTTGTAAAATGGATC
1 TGCTCACATGAGATGTGAAATGGACC
* *
197583 TGCTCACATGAGCTGTGAAATGGGCC
1 TGCTCACATGAGATGTGAAATGGACC
197609 TGCTCACATGAGATGTG
1 TGCTCACATGAGATGTG
197626 GGTTAGAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (26 bp):
TGCTCACATGAGATGTGAAATGGACC
Found at i:204920 original size:5 final size:5
Alignment explanation
Indices: 204910--204950 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
204900 TATTTTATGA
204910 ATAGG ATAGG ATAGG ATAGG ATAGG ATAGG ATAGG ATAGG A
1 ATAGG ATAGG ATAGG ATAGG ATAGG ATAGG ATAGG ATAGG A
204951 GTGAAGATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.41, C:0.00, G:0.39, T:0.20
Consensus pattern (5 bp):
ATAGG
Found at i:208115 original size:20 final size:20
Alignment explanation
Indices: 208092--208129 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
208082 TTAAATCTAA
208092 TTAATGTA-GTTTAATCAAAC
1 TTAATGTATG-TTAATCAAAC
*
208112 TTAATTTATGTTAATCAA
1 TTAATGTATGTTAATCAA
208130 GCTATTATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (20 bp):
TTAATGTATGTTAATCAAAC
Found at i:209733 original size:10 final size:10
Alignment explanation
Indices: 209704--209739 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
209694 AATAGACATG
209704 AAAATAAATA
1 AAAATAAATA
209714 AAAATGAAATA
1 AAAAT-AAATA
*
209725 AGAATAAATA
1 AAAATAAATA
209735 AAAAT
1 AAAAT
209740 TATACAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (10 bp):
AAAATAAATA
Found at i:210630 original size:23 final size:22
Alignment explanation
Indices: 210604--210650 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
210594 TTTTTTTCCC
* * *
210604 AAAATCAAACTTTTTTTTTAAA
1 AAAAACAAACCTTTATTTTAAA
*
210626 AAAAAGAAACCTTTATTTTAAA
1 AAAAACAAACCTTTATTTTAAA
210648 AAA
1 AAA
210651 GGGGAGGAAA
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:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAAACAAACCTTTATTTTAAA
Found at i:210784 original size:5 final size:5
Alignment explanation
Indices: 210776--210806 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
210766 AAAAAAGTAG
210776 AAGAA AAGAA AAGAA AAGAA AAGAA ATAGAA
1 AAGAA AAGAA AAGAA AAGAA AAGAA A-AGAA
210807 TGCTTCTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.84
6 4 0.16
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.03
Consensus pattern (5 bp):
AAGAA
Found at i:211535 original size:21 final size:22
Alignment explanation
Indices: 211511--211556 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
211501 AAAAAAGTCA
** *
211511 AAACTTTGTTTTAAAA-AATTT
1 AAACTTTCCTTTAAAATAACTT
211532 AAACTTTCCTTTAAAATAACTT
1 AAACTTTCCTTTAAAATAACTT
211554 AAA
1 AAA
211557 AAAAGATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (22 bp):
AAACTTTCCTTTAAAATAACTT
Found at i:211866 original size:156 final size:154
Alignment explanation
Indices: 211463--211916 Score: 518
Period size: 151 Copynumber: 3.0 Consensus size: 154
211453 AAATCATTAC
* * * * * *
211463 TTTTCTTAAAAATCAAAAC-CTTA-TTTCGAATTAGTTAAAAAAAAGTCAAAACTTTGTTTTAAA
1 TTTTCTTAAAAATTAAAGCTTTTACTTT-GAAATAGTTAAAAAAAAATCAAAATTTTGTTTT--A
*
211526 AAATTTAAACTTTCCTTTAAAATAACTTAAAAAAAGATATTTTTATTTTTCAAAATCTAAACTTT
63 AAATTTAAACTTTCCTTTAAAATAACTTAAAAAAAAATATTTTTATTTTTCAAAATCTAAACTTT
* * * *
211591 CTCC-----CTTTTAAAAAAATATTAT
128 CTCCTTTTTTTTTTTAAAAAACACTAT
* * *
211613 TTTTCTTAAAAATTGAAGCTTTTATTTTGAAATAGTTAAAAAAAAATAAAAAATTTTGTTTTAAA
1 TTTTCTTAAAAATTAAAGCTTTTACTTTGAAATAGTTAAAAAAAAAT-CAAAATTTTGTTTTAAA
* * *
211678 ATTTGAAACTTTCCTTTAAAATGAC-TAGAAAAAACATATTTTTATTTTTCAAAATCCAAACTTT
65 ATTT-AAACTTTCCTTTAAAATAACTTA-AAAAAAAATATTTTTATTTTTCAAAATCTAAACTTT
211742 CTCCTTTTTTTTTTTAAAAAACACTAT
128 CTCCTTTTTTTTTTTAAAAAACACTAT
* *
211769 TTTTCTTGAAGATTAAAGCTTTTACTTTGAAATAGTTGAAGAAAAAAAATCAAAATTTTGTTTTA
1 TTTTCTTAAAAATTAAAGCTTTTACTTTGAAATAGTT--A-AAAAAAAATCAAAATTTTGTTTTA
* * * * *
211834 AAATTTTAATTTTCCCTTTAAAATTA-TTAAAAAAAAAGATTTTTA--TGTCAAAATCTAAACTT
63 AAATTTAAACTTT-CCTTTAAAATAACTTAAAAAAAAATATTTTTATTTTTCAAAATCTAAACTT
211896 TCT-CTTTTTTTTTTTAAAAAA
127 TCTCCTTTTTTTTTTTAAAAAA
211917 AATCAAAACT
Statistics
Matches: 262, Mismatches: 27, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
150 25 0.10
151 77 0.29
152 15 0.06
154 18 0.07
155 18 0.07
156 47 0.18
157 19 0.07
158 34 0.13
159 9 0.03
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (154 bp):
TTTTCTTAAAAATTAAAGCTTTTACTTTGAAATAGTTAAAAAAAAATCAAAATTTTGTTTTAAAA
TTTAAACTTTCCTTTAAAATAACTTAAAAAAAAATATTTTTATTTTTCAAAATCTAAACTTTCTC
CTTTTTTTTTTTAAAAAACACTAT
Found at i:211957 original size:21 final size:21
Alignment explanation
Indices: 211933--211972 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
211923 AACTTTTCCC
*
211933 AAAATCAAACCTTT-TTTTAA
1 AAAAACAAACCTTTATTTTAA
*
211953 AAAAAGAAACCTTTATTTTA
1 AAAAACAAACCTTTATTTTA
211973 GAAAGGGGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (21 bp):
AAAAACAAACCTTTATTTTAA
Found at i:223122 original size:36 final size:36
Alignment explanation
Indices: 223082--223156 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
223072 AGTCGATTCT
*
223082 AGTGTAAGTATTCTGTTCTCCCAAGCGATTTTGCTA
1 AGTGTAAGTATTCTGTTCTCCCAAGAGATTTTGCTA
* *
223118 AGTGTAAGTATTCTGTTCTCGCAAGAGATTTTTCTA
1 AGTGTAAGTATTCTGTTCTCCCAAGAGATTTTGCTA
223154 AGT
1 AGT
223157 ATCAATTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (36 bp):
AGTGTAAGTATTCTGTTCTCCCAAGAGATTTTGCTA
Found at i:228351 original size:47 final size:47
Alignment explanation
Indices: 228263--228355 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 47
228253 AGCATAACTA
** *
228263 TAAATGTGATTGGGCCTAATGGCTGTATGAATGTGATTTGGGCCTAG
1 TAAATGTGATTGGGCCTAATGGCCATATGAATGAGATTTGGGCCTAG
228310 TAAATGTGATTGGGCCTAATGGGCCATATGGAA-GAGA-TTGGGCCTA
1 TAAATGTGATTGGGCCTAAT-GGCCATAT-GAATGAGATTTGGGCCTA
228356 ATGGGCTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 29 0.71
48 9 0.22
49 3 0.07
ACGTcount: A:0.26, C:0.12, G:0.32, T:0.30
Consensus pattern (47 bp):
TAAATGTGATTGGGCCTAATGGCCATATGAATGAGATTTGGGCCTAG
Found at i:231332 original size:14 final size:14
Alignment explanation
Indices: 231298--231332 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
231288 CTCTCTGGGC
231298 TTTATGGTTTTTAG
1 TTTATGGTTTTTAG
* *
231312 TTGATGGTTTTTGG
1 TTTATGGTTTTTAG
231326 TTTATGG
1 TTTATGG
231333 ATAATTTGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.29, T:0.60
Consensus pattern (14 bp):
TTTATGGTTTTTAG
Found at i:239031 original size:45 final size:45
Alignment explanation
Indices: 238980--239066 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
238970 CGATATCAGT
* *
238980 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCGGAATAATATC
1 TCACCGGCATTATAGCCTACTAAGCTCAAAGGCCCGAATAATATC
** *
239025 TCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATAAT
1 TCACCGGCATTATAGCCTACTAAGCTCAAAGGCCCGAATAAT
239067 CAAGTCAACA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTACTAAGCTCAAAGGCCCGAATAATATC
Found at i:239442 original size:43 final size:43
Alignment explanation
Indices: 239381--239634 Score: 429
Period size: 43 Copynumber: 5.9 Consensus size: 43
239371 ACATATCATT
* *
239381 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
239424 TCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
239467 TTACCGGCA-TGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACT-AAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
239510 TCACCGGAACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
239553 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
239596 TTACCGGCACTAAGCCTGCTAGGCATGAAGGCCCGAATA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
239635 TAATACCAAC
Statistics
Matches: 199, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
43 198 0.99
44 1 0.01
ACGTcount: A:0.30, C:0.33, G:0.24, T:0.13
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:239680 original size:38 final size:38
Alignment explanation
Indices: 239627--239710 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
239617 GGCATGAAGG
* * *
239627 CCCGAATATAATACCAACACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAACACGAAGCCTGCGGGATTTAA
* *
239665 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAACACGAAGCCTGCGGGATTTAA
239703 CCCGAATA
1 CCCGAATA
239711 CACATCAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAACACGAAGCCTGCGGGATTTAA
Found at i:242910 original size:12 final size:12
Alignment explanation
Indices: 242893--242918 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
242883 TATTTGTTTC
242893 TTGTTTTAATAT
1 TTGTTTTAATAT
242905 TTGTTTTAATAT
1 TTGTTTTAATAT
242917 TT
1 TT
242919 TTAAATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTGTTTTAATAT
Found at i:243632 original size:42 final size:42
Alignment explanation
Indices: 243455--243645 Score: 222
Period size: 42 Copynumber: 4.6 Consensus size: 42
243445 GTGTTACAGG
* * *
243455 ACCT-CGTCTCTAAATGCAATGAAAAGTGAAAGGACCTCTAC
1 ACCTGCGTCTCTAAATGTAATGAAAAGTGAATGGACCTCCAC
* * * * *
243496 ACCCGAGTCTCTAGATGCAATTAAAAGTGAATGGACCTCCAC
1 ACCTGCGTCTCTAAATGTAATGAAAAGTGAATGGACCTCCAC
* * *
243538 TCCTGGGTCTCCAAATGTAATGAAAAGTGAATGGACCTCCAC
1 ACCTGCGTCTCTAAATGTAATGAAAAGTGAATGGACCTCCAC
* * *
243580 ACCTGGGTCTCCAAATGTAATGAAAAGTGAATGGACCCCCAC
1 ACCTGCGTCTCTAAATGTAATGAAAAGTGAATGGACCTCCAC
** *
243622 ACAAGCGTCTCTAGATGTAATGAA
1 ACCTGCGTCTCTAAATGTAATGAA
243646 TGTTTTCCTT
Statistics
Matches: 129, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
41 3 0.02
42 126 0.98
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (42 bp):
ACCTGCGTCTCTAAATGTAATGAAAAGTGAATGGACCTCCAC
Found at i:246062 original size:17 final size:19
Alignment explanation
Indices: 245965--246055 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
245955 ATAATCTTCA
*
245965 ATGATATACAATCTTAGAT
1 ATGATATGCAATCTTAGAT
245984 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
246003 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
246020 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
246038 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
246056 AGATATGATT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 36 0.53
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:246343 original size:17 final size:17
Alignment explanation
Indices: 246319--246353 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
246309 TGTTTCCTTG
*
246319 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
246337 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
246354 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:254547 original size:89 final size:87
Alignment explanation
Indices: 254418--254580 Score: 193
Period size: 89 Copynumber: 1.9 Consensus size: 87
254408 ATTCGACGGA
* * *
254418 GAGCAGATCAAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGATGTAGATCCAAGATG
1 GAGCAGATCAAAGACATAGCAGATCTAACCTTCCGATG-TTT-ACATCGAAGGAGATCCAAGATG
254483 ATTTGGCATCTTTATGATGACAAG
64 ATTTGGCATCTTTATGATGACAAG
* * ** * * * *
254507 GAGCAGATCGAAGACATAGCAGATTTGGCTTTCACG-TGTTTACGTTGAAGGAGATCTAAGATGA
1 GAGCAGATCAAAGACATAGCAGATCTAACCTTC-CGATGTTTACATCGAAGGAGATCCAAGATGA
254571 TTTGGCATCT
65 TTTGGCATCT
254581 CTGTACTGTC
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
87 28 0.45
88 3 0.05
89 30 0.48
90 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (87 bp):
GAGCAGATCAAAGACATAGCAGATCTAACCTTCCGATGTTTACATCGAAGGAGATCCAAGATGAT
TTGGCATCTTTATGATGACAAG
Found at i:254714 original size:78 final size:78
Alignment explanation
Indices: 254612--254905 Score: 385
Period size: 78 Copynumber: 3.8 Consensus size: 78
254602 CAAAGAAACA
* ** * ** * *
254612 GATTTTGCATCTCCATATTCGACGGAGATTAGATCGAAGACATAGCAGATCTGACTTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
*
254677 GCAGATCTAAGAT
66 GCAGATCCAAGAT
* * *
254690 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACACAACAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
*
254755 GTAGATCCAAGAT
66 GCAGATCCAAGAT
*
254768 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGA
*
254832 AGCAGATCGAAGAT
65 AGCAGATCCAAGAT
** * *
254846 GATTTGGCATCTCTGTATTAGAC-GAGGAATAGATCGAAGACATAGCAGATCTGAACTTCA
1 GATTTGGCATCTCTGTATTAGACGGA-GAGCAGATCGAAGACATAACAGATCTGACCTTCA
254906 AATGTTTACA
Statistics
Matches: 191, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
77 2 0.01
78 188 0.98
79 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:255001 original size:45 final size:45
Alignment explanation
Indices: 254937--255030 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
254927 CCAAGATGAG
*
254937 AGATTTGACATCTATGTATTAGACGGGGAGCAAATCGGAGATAAC
1 AGATTTGACATCTATGTATTAGACGGGGAGCAAATCGAAGATAAC
* * * * *
254982 AGATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGATAGC
1 AGATTTGACATCTATGTATTAGACGGGGAGCAAATCGAAGATAAC
255027 AGAT
1 AGAT
255031 ATCGCCTTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.26
Consensus pattern (45 bp):
AGATTTGACATCTATGTATTAGACGGGGAGCAAATCGAAGATAAC
Found at i:261385 original size:46 final size:48
Alignment explanation
Indices: 261145--261396 Score: 184
Period size: 46 Copynumber: 5.3 Consensus size: 48
261135 GGTATGATGT
* * * *
261145 CGATGCCATGTCCCAGACATGGTCTTCCACTGGC-T-CATTCATC-AAGT
1 CGATGCCATGTCCCAGACATGGTCATACACTGGCTTACA-TC-TCGAGGC
* * * * **
261192 CGATGCCCTGTCCCAAACATGGTCTTACACTGAC-TATCGAAATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCATACACTGGCTTA-C-ATCTCGAGGC
* * * * *
261241 CGACGCCATGTCCCAGACATGGTTATACACTAGCTCTCACATATCCG-TGC
1 CGATGCCATGTCCCAGACATGGTCATACACTGGCT-T-ACATCT-CGAGGC
* * * *
261291 TGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTC-ATAGC
1 CGATGCCATGTCCCAGACATGGTCATACACTGGCTTACATCTCGA-GGC
261337 CGATG-CATGTCCCAGACAT-GTCATACACTGGCTTACATCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCATACACTGGCTTACATCTCGAGGC
261383 CGATG-CATGTCCCA
1 CGATGCCATGTCCCA
261397 AAATTCTCAT
Statistics
Matches: 163, Mismatches: 29, Indels: 27
0.74 0.13 0.12
Matches are distributed among these distances:
44 11 0.07
45 15 0.09
46 34 0.21
47 32 0.20
48 2 0.01
49 30 0.18
50 34 0.21
51 4 0.02
52 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCATACACTGGCTTACATCTCGAGGC
Found at i:263276 original size:42 final size:42
Alignment explanation
Indices: 263229--263308 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
263219 GTACTTGGTG
263229 TTCGGCTTTCACTTGTTGACAAATTAGACACCTAGAAATGAA
1 TTCGGCTTTCACTTGTTGACAAATTAGACACCTAGAAATGAA
*
263271 TTCGGCTTTCACTTGTTGACAAATTAGACACTTAGAAA
1 TTCGGCTTTCACTTGTTGACAAATTAGACACCTAGAAA
263309 CGAACTCTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (42 bp):
TTCGGCTTTCACTTGTTGACAAATTAGACACCTAGAAATGAA
Found at i:284439 original size:46 final size:46
Alignment explanation
Indices: 284299--284512 Score: 163
Period size: 46 Copynumber: 4.6 Consensus size: 46
284289 CTATACGTTT
* *
284299 CGATGCCATGTCCCAGACATGGTCTTACA-TTGAC--ACATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTACATCTC-AAGGC
* * **
284345 CGATGCATGTCCCAGA-TTGTCTTACACTGGCTTACATCTTGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAGGC
* * *
284390 CGATGCATGTCCCAGACATGTGTTACACTAGCTCT-CGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTCAAGGC
* * * **
284436 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTTTCATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACAT-CTCAAGGC
* *
284484 CGATGCTTGTCCCAGACATGCCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
284513 GGCACACAAA
Statistics
Matches: 137, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
43 9 0.07
44 4 0.03
45 35 0.26
46 39 0.28
47 27 0.20
48 22 0.16
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAGGC
Found at i:284485 original size:94 final size:91
Alignment explanation
Indices: 284343--284512 Score: 223
Period size: 94 Copynumber: 1.8 Consensus size: 91
284333 ACATCTCGTA
* * **
284343 GCCGATGCATGTCCCAGATTGTCTTACACTGGCTTACATCTTGAGGCCGATGCATGTCCCAGACA
1 GCCGATGCATGTCCCAGATGGTCTTACACTAGCTTACATAATGAGGCCGATGCATGTCCCAGACA
**
284408 TGTGTTACACTAGCTCTCGTCTCAAT
66 TGCCTTACACTAGCTCTCGTCTCAAT
* * * *
284434 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTTTCATAATGTGGCCGATGCTTGTCCCAG
1 GCCGATG-CATGTCCCAG--ATGGTCTTACACTAGCTTACATAATGAGGCCGATGCATGTCCCAG
284499 ACATGCCTTACACT
63 ACATGCCTTACACT
284513 GGCACACAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
91 7 0.11
92 9 0.14
94 50 0.76
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (91 bp):
GCCGATGCATGTCCCAGATGGTCTTACACTAGCTTACATAATGAGGCCGATGCATGTCCCAGACA
TGCCTTACACTAGCTCTCGTCTCAAT
Found at i:287092 original size:24 final size:24
Alignment explanation
Indices: 287065--287113 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
287055 TCAATCCGGC
287065 AAGTTAGTCATAAATTTTTTAAAT
1 AAGTTAGTCATAAATTTTTTAAAT
*
287089 AAGTTATTCATAAATTTTTTAAAT
1 AAGTTAGTCATAAATTTTTTAAAT
287113 A
1 A
287114 CTTTTCCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (24 bp):
AAGTTAGTCATAAATTTTTTAAAT
Found at i:290591 original size:45 final size:45
Alignment explanation
Indices: 290538--290753 Score: 240
Period size: 45 Copynumber: 4.7 Consensus size: 45
290528 CATGTAAGCT
290538 AGTGTAAGACCATGTTGGACATGGCATCGGCGTGGATTGTGAGTC
1 AGTGTAAGACCATGTTGGACATGGCATCGGCGTGGATTGTGAGTC
* * * *
290583 AATGTAAGACCATGTTGGACATGGCATTGGCATAGATTGTGA-TCC
1 AGTGTAAGACCATGTTGGACATGGCATCGGCGTGGATTGTGAGT-C
* *
290628 AGTGTAAGACCATGTTGGACATGGCATCGGCGTTGATTGTAAG-C
1 AGTGTAAGACCATGTTGGACATGGCATCGGCGTGGATTGTGAGTC
* * *
290672 TAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGGCA-TGTGAGCC
1 -AGTGTAAGACCATGT-T-GGACATGGCATCGGCGT-GG-ATTGTGAGTC
* *
290721 AGTCTAAGACCATGTCTGGAATATGGCATCGGC
1 AGTGTAAGACCATGT-TGG-ACATGGCATCGGC
290754 AATTCACCCT
Statistics
Matches: 146, Mismatches: 16, Indels: 15
0.82 0.09 0.08
Matches are distributed among these distances:
44 2 0.01
45 91 0.62
46 1 0.01
47 17 0.12
48 33 0.23
49 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (45 bp):
AGTGTAAGACCATGTTGGACATGGCATCGGCGTGGATTGTGAGTC
Found at i:292437 original size:22 final size:23
Alignment explanation
Indices: 292409--292453 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
292399 CGGCCTGAGG
*
292409 ACACGGGC-GTGTCCTTGTGTCC
1 ACACGGGCAGTGACCTTGTGTCC
292431 ACACGGGCATGTGACCTTGTGTC
1 ACACGGGCA-GTGACCTTGTGTC
292454 ATGGAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.13, C:0.29, G:0.31, T:0.27
Consensus pattern (23 bp):
ACACGGGCAGTGACCTTGTGTCC
Found at i:299484 original size:40 final size:40
Alignment explanation
Indices: 299454--299703 Score: 367
Period size: 40 Copynumber: 6.3 Consensus size: 40
299444 GGACTAAGAT
* * * **
299454 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
299494 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
299534 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
299574 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* *
299614 CCGAAGGCATTCGTGCGAGTTATTAAATCTGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* * ** * * *
299654 CCGAAGGCGTT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
299693 CCGAAGGCATT
1 CCGAAGGCATT
299704 TGAACGAGGA
Statistics
Matches: 195, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
39 32 0.16
40 163 0.84
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:299614 original size:120 final size:119
Alignment explanation
Indices: 299401--299703 Score: 365
Period size: 120 Copynumber: 2.5 Consensus size: 119
299391 TTGAATGCTG
* * * ** * * * * *
299401 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
* *
299465 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
64 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
** * *
299521 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* **
299586 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * *
299641 TCTGGGTTAAGTCCCGAAGGCGTTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
299704 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
119 34 0.22
120 119 0.76
121 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:307468 original size:40 final size:39
Alignment explanation
Indices: 307437--307646 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
307427 GGACTAAGAT
* *
307437 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
307477 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
307517 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
307557 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
307597 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
307636 CCGAAGGCATT
1 CCGAAGGCATT
307647 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:307600 original size:120 final size:120
Alignment explanation
Indices: 307384--307646 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
307374 TTGAATGCTG
* *
307384 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
307448 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
307504 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
307567 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
307623 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
307647 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:307666 original size:79 final size:80
Alignment explanation
Indices: 307385--307681 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
307375 TGAATGCTGT
* ** * * * **
307385 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
307448 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
307465 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
307529 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
307545 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
307609 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
307624 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
307682 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:310657 original size:47 final size:47
Alignment explanation
Indices: 310591--311017 Score: 836
Period size: 47 Copynumber: 9.1 Consensus size: 47
310581 GAAATGATAG
310591 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
310638 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
310685 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
310732 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
310779 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
310826 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
310873 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
310920 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
310967 TAAGGCCTAATGGCCGATGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
311014 TAAG
1 TAAG
311018 TCCCGAAGGG
Statistics
Matches: 378, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 378 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:311192 original size:37 final size:37
Alignment explanation
Indices: 311136--311214 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
311126 CCGAGCTCTA
* * *
311136 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
311173 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
311210 AAGAC
1 AAGAC
311215 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:314534 original size:42 final size:41
Alignment explanation
Indices: 314475--314592 Score: 137
Period size: 43 Copynumber: 2.8 Consensus size: 41
314465 TAGGGTTATT
314475 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATT-CGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
314517 TGAGACTTCGTGTAAGACCAAAGCTGGGCTATTGGCATCGATA
1 TGAGA-TTCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * * *
314560 TGAGATCCCATATAAGACCATATCTAGGATATG
1 TGAGAT-TCGTGTAAGACCATATCTGGGATATG
314593 ACATTGGTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
42 28 0.44
43 35 0.56
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (41 bp):
TGAGATTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:324590 original size:47 final size:47
Alignment explanation
Indices: 324521--325399 Score: 1624
Period size: 47 Copynumber: 19.0 Consensus size: 47
324511 GCCCCGAGGA
*
324521 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
324568 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
324615 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
324662 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
324709 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
324756 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
324803 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
324850 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
324897 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
324944 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
324991 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
325038 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
325085 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
325132 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
325179 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
325226 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
325273 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA-G-G-A----
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
*
325313 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA-G-G-A----
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
* *
325353 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
325400 TGCTAGTAAT
Statistics
Matches: 821, Mismatches: 4, Indels: 14
0.98 0.00 0.02
Matches are distributed among these distances:
40 74 0.09
41 1 0.00
42 1 0.00
43 1 0.00
44 1 0.00
45 1 0.00
46 1 0.00
47 741 0.90
ACGTcount: A:0.20, C:0.23, G:0.32, T:0.26
Consensus pattern (47 bp):
GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
Found at i:325406 original size:80 final size:80
Alignment explanation
Indices: 325273--325422 Score: 264
Period size: 80 Copynumber: 1.9 Consensus size: 80
325263 GGAGCATTCG
* *
325273 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTAATATATCCGG
325338 GCTAAGTCCCGAGGA
66 GCTAAGTCCCGAGGA
* *
325353 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATATATCCGT
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTAATATATCCGG
325418 GCTAA
66 GCTAA
325423 ACCTCGAAGA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTAATATATCCGG
GCTAAGTCCCGAGGA
Found at i:325431 original size:40 final size:40
Alignment explanation
Indices: 325273--325433 Score: 216
Period size: 40 Copynumber: 4.0 Consensus size: 40
325263 GGAGCATTCG
* * *
325273 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGA
1 GCATTCGTGCTAGTGATATATCCGGGCTAAGACCCGAAGA
* *
325313 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGA
1 GCATTCGTGCTAGTGATATATCCGGGCTAAGACCCGAAGA
* **
325353 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGA
1 GCATTCGTGCTAGTGATATATCCGGGCTAAGACCCGAAGA
* *
325393 GCATTCGTGCTAGTAATATATCCGTGCTAA-ACCTCGAAGA
1 GCATTCGTGCTAGTGATATATCCGGGCTAAGACC-CGAAGA
325433 G
1 G
325434 TAATCATGCT
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 110 0.99
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
GCATTCGTGCTAGTGATATATCCGGGCTAAGACCCGAAGA
Found at i:332690 original size:43 final size:43
Alignment explanation
Indices: 332519--332691 Score: 154
Period size: 43 Copynumber: 4.0 Consensus size: 43
332509 CATAGGATTT
* * * * *
332519 TCGATATGTGATTTCGTGTAAGATCACGTCTAGGATGTTTGCA
1 TCGATATTTGATTACGTGTAAGACCACGTCTGGGATGTTGGCA
* * * ** *
332562 TCGAT-TTGAGATTTACGTGTAAGACCATGTTTGGGACATTAGCA
1 TCGATATT-TGA-TTACGTGTAAGACCACGTCTGGGATGTTGGCA
* ** *
332606 TCG-TATTTGATTTCGTGTAAGACCTTGTCTGGGACAG-TGGCA
1 TCGATATTTGATTACGTGTAAGACCACGTCTGGGA-TGTTGGCA
*
332648 TCGATATTTGATTACATGTAAGACCACGTCTGGGATGTTGGCA
1 TCGATATTTGATTACGTGTAAGACCACGTCTGGGATGTTGGCA
332691 T
1 T
332692 TGTACGAGCT
Statistics
Matches: 102, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
42 30 0.29
43 43 0.42
44 29 0.28
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (43 bp):
TCGATATTTGATTACGTGTAAGACCACGTCTGGGATGTTGGCA
Found at i:339512 original size:26 final size:26
Alignment explanation
Indices: 339479--339530 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
339469 AAGCTAAATT
339479 TTTTATTATAGATCAAGAAGAACAAA
1 TTTTATTATAGATCAAGAAGAACAAA
339505 TTTTATTATAGATCAAGAAGAACAAA
1 TTTTATTATAGATCAAGAAGAACAAA
339531 ATCCGGAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.31
Consensus pattern (26 bp):
TTTTATTATAGATCAAGAAGAACAAA
Found at i:339713 original size:29 final size:29
Alignment explanation
Indices: 339671--339728 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
339661 CCAGCATGTG
339671 TAAATTTATTTTATGAAATTATTCAAAGA
1 TAAATTTATTTTATGAAATTATTCAAAGA
339700 TAAATTTATTTTATGAAATTATTCAAAGA
1 TAAATTTATTTTATGAAATTATTCAAAGA
339729 AGACTCAAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (29 bp):
TAAATTTATTTTATGAAATTATTCAAAGA
Found at i:339931 original size:55 final size:53
Alignment explanation
Indices: 339872--340067 Score: 197
Period size: 53 Copynumber: 3.7 Consensus size: 53
339862 GCAAGGTTTC
* *
339872 TAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTA
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-C-A
* * * * *
339927 TAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGTTGAGTTCA
1 TAAGGC-AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCA
* * *
339980 TAAGGCAAGGATACCATGTAAAACCATGTCAAGACATGGCAATGGTAAGTT--
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCA
* * *
340031 TCAA---AAGGATACCACGTAAGACCATGACAAGTCATGG
1 T-AAGGCAAGGATACCATGTAAGACCATGTCAAGACATGG
340068 AAATGGTAAG
Statistics
Matches: 120, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
49 29 0.24
51 1 0.01
52 6 0.05
53 40 0.33
54 1 0.01
55 39 0.32
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCA
Done.