Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 68 of 187
Found at i:20060026 original size:85 final size:85
Alignment explanation
Indices: 20059864--20060027 Score: 240
Period size: 85 Copynumber: 1.9 Consensus size: 85
20059854 AATAAACGCC
* * *
20059864 CTAAAGGTCATGTTCTTTAGCGGCACTTAGAAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGG
1 CTAAAGATCATGTTCTTTAGCGGCACTTAGAAAAAAACGCCGCAAAAGATCATGTTCTTTAGCGG
*
20059929 CGCTTAAAAAAAAGACGTCG
66 CACTTAAAAAAAAGACGTCG
* *
20059949 CTAAAGATCATGTTCTTTAGCGGCGC-TCGAAGAAAAACGCCGCAAAAGATCATGTTCTTTAGCG
1 CTAAAGATCATGTTCTTTAGCGGCACTTAGAA-AAAAACGCCGCAAAAGATCATGTTCTTTAGCG
*
20060013 GCACTTGATAAAAAA
65 GCACTT-AAAAAAAA
20060028 CTCCGCTATA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
84 4 0.06
85 59 0.84
86 7 0.10
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (85 bp):
CTAAAGATCATGTTCTTTAGCGGCACTTAGAAAAAAACGCCGCAAAAGATCATGTTCTTTAGCGG
CACTTAAAAAAAAGACGTCG
Found at i:20060072 original size:85 final size:86
Alignment explanation
Indices: 20059983--20060147 Score: 228
Period size: 86 Copynumber: 1.9 Consensus size: 86
20059973 GCTCGAAGAA
* *
20059983 AAACGCCGC-AAAAGATCATGTTCTTTAGCGGCAC-TTGATAAAAAAC-TCCGCTATAGAACATG
1 AAACGCCGCTAAAAGA-AATGTTCTTTAGCGGCACTTTCATAAAAAACGT-CGCTATAGAACATG
20060045 ACTTTTAGCGACGCTTTCTTCAC
64 ACTTTTAGCGACGCTTTCTTCAC
* * * *
20060068 AAACGCCGCTAAAAGAAATGTTCTTTAGCGGCGCTTTCATCACAAACGTTGCTATAGAACATGAC
1 AAACGCCGCTAAAAGAAATGTTCTTTAGCGGCACTTTCATAAAAAACGTCGCTATAGAACATGAC
*
20060133 TTTTAGCGGCGCTTT
66 TTTTAGCGACGCTTT
20060148 TATAAAAATG
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
85 25 0.36
86 44 0.63
87 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (86 bp):
AAACGCCGCTAAAAGAAATGTTCTTTAGCGGCACTTTCATAAAAAACGTCGCTATAGAACATGAC
TTTTAGCGACGCTTTCTTCAC
Found at i:20060138 original size:43 final size:43
Alignment explanation
Indices: 20060025--20060147 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 43
20060015 ACTTGATAAA
* * *
20060025 AAACTCCGCTATAGAACATGACTTTTAGCGACGCTTTCTTCAC
1 AAACGCCGCTATAGAACATGACTTTTAGCGGCGCTTTCATCAC
* *
20060068 AAACGCCGCTAAAAGAA-ATG-TTCTTTAGCGGCGCTTTCATCAC
1 AAACGCCGCT-ATAGAACATGACT-TTTAGCGGCGCTTTCATCAC
**
20060111 AAACGTTGCTATAGAACATGACTTTTAGCGGCGCTTT
1 AAACGCCGCTATAGAACATGACTTTTAGCGGCGCTTT
20060148 TATAAAAATG
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
42 6 0.09
43 55 0.82
44 6 0.09
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGACTTTTAGCGGCGCTTTCATCAC
Found at i:20060557 original size:21 final size:21
Alignment explanation
Indices: 20060533--20060604 Score: 92
Period size: 21 Copynumber: 3.4 Consensus size: 21
20060523 TTCTTTTGAA
*
20060533 CCTCTGCTTCTCTTGCTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
*
20060554 CCTCTGCTTCTCTCACTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
* *
20060575 CCTTTGCTTCCCTCGCTG-ACG
1 CCTCTGCTTCTCTCGCTGCA-G
20060596 CCTCTGCTT
1 CCTCTGCTT
20060605 TAAGTTGTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
20 1 0.02
21 43 0.98
ACGTcount: A:0.06, C:0.42, G:0.17, T:0.36
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:20063387 original size:25 final size:25
Alignment explanation
Indices: 20063353--20063444 Score: 87
Period size: 25 Copynumber: 3.5 Consensus size: 25
20063343 TGGAACAACT
20063353 TGTAAGTTATGTATTAAGTAAATTA
1 TGTAAGTTATGTATTAAGTAAATTA
*
20063378 TGTAAGTTATGTATATATTA-TAAAAGATA
1 TGTAAGTTATGTAT-TA--AGT-AAA-TTA
* *
20063407 TGTAAGTTATGTATTATGTAAGTTA
1 TGTAAGTTATGTATTAAGTAAATTA
* *
20063432 TATAAGCTATGTA
1 TGTAAGTTATGTA
20063445 AGTTATTATG
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
25 27 0.49
26 4 0.07
27 2 0.04
28 6 0.11
29 16 0.29
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.43
Consensus pattern (25 bp):
TGTAAGTTATGTATTAAGTAAATTA
Found at i:20063426 original size:16 final size:15
Alignment explanation
Indices: 20063405--20063542 Score: 63
Period size: 16 Copynumber: 8.8 Consensus size: 15
20063395 TTATAAAAGA
20063405 TATGTAAGTTATGTAT
1 TATGTAAGTTAT-TAT
*
20063421 TATGTAAGTTATATAAGC
1 TATGTAAGTTAT-T-A-T
20063439 TATGTAAG---TTAT
1 TATGTAAGTTATTAT
20063451 TATGTAAGTTAATATAT
1 TATGTAAGTT-AT-TAT
* * *
20063468 AATATATGTTGATTAT
1 TATGTAAGTT-ATTAT
*
20063484 GTAT-TAAG-TA-AAT
1 -TATGTAAGTTATTAT
* *
20063497 TAGGTAAGTTATGCAT
1 TATGTAAGTTAT-TAT
20063513 TATGTAAGTTATATAAGT
1 TATGTAAGTTAT-T-A-T
20063531 TATGTAAGTTAT
1 TATGTAAGTTAT
20063543 ATAAGCTACG
Statistics
Matches: 93, Mismatches: 15, Indels: 26
0.69 0.11 0.19
Matches are distributed among these distances:
12 10 0.11
13 7 0.08
14 4 0.04
15 2 0.02
16 33 0.35
17 16 0.17
18 21 0.23
ACGTcount: A:0.37, C:0.01, G:0.17, T:0.45
Consensus pattern (15 bp):
TATGTAAGTTATTAT
Found at i:20063443 original size:34 final size:34
Alignment explanation
Indices: 20063395--20063597 Score: 115
Period size: 34 Copynumber: 6.1 Consensus size: 34
20063385 TATGTATATA
* *
20063395 TTATAAAAGATATGTAAGTTATGTATTATGTAAG
1 TTATATAAGTTATGTAAGTTATGTATTATGTAAG
*
20063429 TTATATAAGCTATGTAAG---T-TATTATGTAAG
1 TTATATAAGTTATGTAAGTTATGTATTATGTAAG
* * *
20063459 TTA-ATATA-TAATATATG-T-TG-ATTATGT-A-
1 TTATATA-AGTTATGTAAGTTATGTATTATGTAAG
* * *
20063487 TTA-AGTAAATTAGGTAAGTTATGCATTATGTAAG
1 TTATA-TAAGTTATGTAAGTTATGTATTATGTAAG
* * *
20063521 TTATATAAGTTATGTAAGTTATATAAGCTACGTAAG
1 TTATATAAGTTATGTAAGTTATGT-A-TTATGTAAG
* * * *
20063557 TTATTATGTAAGTCATGTAGGCTATGTCTTATGTAAG
1 TTA-TA--TAAGTTATGTAAGTTATGTATTATGTAAG
20063594 TTAT
1 TTAT
20063598 TATAGGTAAG
Statistics
Matches: 130, Mismatches: 23, Indels: 30
0.71 0.13 0.16
Matches are distributed among these distances:
28 5 0.04
29 16 0.12
30 24 0.18
31 3 0.02
32 7 0.05
33 1 0.01
34 34 0.26
35 2 0.02
36 11 0.08
37 12 0.09
39 15 0.12
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.43
Consensus pattern (34 bp):
TTATATAAGTTATGTAAGTTATGTATTATGTAAG
Found at i:20063508 original size:25 final size:25
Alignment explanation
Indices: 20063480--20063536 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
20063470 TATATGTTGA
*
20063480 TTATGTATTAAGTAAATTAGGTAAG
1 TTATGTATTAAGTAAATTAGATAAG
* * * *
20063505 TTATGCATTATGTAAGTTATATAAG
1 TTATGTATTAAGTAAATTAGATAAG
20063530 TTATGTA
1 TTATGTA
20063537 AGTTATATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.44
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTAGATAAG
Found at i:20063597 original size:9 final size:9
Alignment explanation
Indices: 20063353--20063560 Score: 101
Period size: 9 Copynumber: 23.1 Consensus size: 9
20063343 TGGAACAACT
20063353 TGTAAGTTA
1 TGTAAGTTA
20063362 TGT-A-TTA
1 TGTAAGTTA
* *
20063369 AGTAAATTA
1 TGTAAGTTA
20063378 TGTAAGTTA
1 TGTAAGTTA
*
20063387 TGTATATATTA
1 TGTA-A-GTTA
** *
20063398 TAAAAGATA
1 TGTAAGTTA
20063407 TGTAAGTTA
1 TGTAAGTTA
20063416 TGT-A-TTA
1 TGTAAGTTA
20063423 TGTAAGTTA
1 TGTAAGTTA
* *
20063432 TATAAGCTA
1 TGTAAGTTA
20063441 TGTAAGTTATTA
1 TGTAAG---TTA
20063453 TGTAAGTTAA
1 TGTAAGTT-A
* *
20063463 TATATAATATA
1 TGTA-AGT-TA
*
20063474 TGT-TGATTA
1 TGTAAG-TTA
20063483 TGT-A-TTA
1 TGTAAGTTA
* *
20063490 AGTAAATTA
1 TGTAAGTTA
*
20063499 GGTAAGTTA
1 TGTAAGTTA
*
20063508 TG-CA-TTA
1 TGTAAGTTA
20063515 TGTAAGTTA
1 TGTAAGTTA
*
20063524 TATAAGTTA
1 TGTAAGTTA
20063533 TGTAAGTTA
1 TGTAAGTTA
* *
20063542 TATAAGCTA
1 TGTAAGTTA
*
20063551 CGTAAGTTA
1 TGTAAGTTA
20063560 T
1 T
20063561 TATGTAAGTC
Statistics
Matches: 147, Mismatches: 35, Indels: 34
0.68 0.16 0.16
Matches are distributed among these distances:
7 21 0.14
8 7 0.05
9 93 0.63
10 7 0.05
11 10 0.07
12 9 0.06
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.43
Consensus pattern (9 bp):
TGTAAGTTA
Found at i:20063714 original size:13 final size:13
Alignment explanation
Indices: 20063641--20063770 Score: 67
Period size: 12 Copynumber: 10.1 Consensus size: 13
20063631 ATATATAAGT
20063641 TATGTAAGTTAT-
1 TATGTAAGTTATG
20063653 TATGTAAGTTAACTG
1 TATGTAAGTT-A-TG
*
20063668 TTGTGTAAGTT-TG
1 -TATGTAAGTTATG
* *
20063681 TATATAAATT-T-
1 TATGTAAGTTATG
* *
20063692 AATTTAAGTTATG
1 TATGTAAGTTATG
20063705 TATGTAAGTTATCTG
1 TATGTAAGTTA--TG
*
20063720 TTGTGTAAGTT-TG
1 -TATGTAAGTTATG
* *
20063733 TATATAAATT-T-
1 TATGTAAGTTATG
* *
20063744 AATTTAAGTTATG
1 TATGTAAGTTATG
20063757 TATGTAAGTTATG
1 TATGTAAGTTATG
20063770 T
1 T
20063771 CAGTTGTGTA
Statistics
Matches: 89, Mismatches: 18, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
11 14 0.16
12 28 0.31
13 26 0.29
14 1 0.01
15 2 0.02
16 18 0.20
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.49
Consensus pattern (13 bp):
TATGTAAGTTATG
Found at i:20063721 original size:52 final size:52
Alignment explanation
Indices: 20063645--20063768 Score: 232
Period size: 52 Copynumber: 2.4 Consensus size: 52
20063635 ATAAGTTATG
*
20063645 TAAGTTAT-TATGTAAGTTAACTGTTGTGTAAGTTTGTATATAAATTTAATT
1 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
20063696 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
1 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
20063748 TAAGTTATGTATGTAAGTTAT
1 TAAGTTATGTATGTAAGTTAT
20063769 GTCAGTTGTG
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
51 8 0.11
52 63 0.89
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (52 bp):
TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
Found at i:20063734 original size:28 final size:29
Alignment explanation
Indices: 20063643--20063735 Score: 85
Period size: 28 Copynumber: 3.5 Consensus size: 29
20063633 ATATAAGTTA
*
20063643 TGTAAGTTAT-TATGTAAGTTAACTGTTG
1 TGTAAGTTATGTATGTAAGTTATCTGTTG
* **
20063671 TGTAAGTT-TGTATATAA---AT-T-TAA
1 TGTAAGTTATGTATGTAAGTTATCTGTTG
*
20063694 TTTAAGTTATGTATGTAAGTTATCTGTTG
1 TGTAAGTTATGTATGTAAGTTATCTGTTG
20063723 TGTAAGTT-TGTAT
1 TGTAAGTTATGTAT
20063736 ATAAATTTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
23 8 0.16
24 9 0.18
25 1 0.02
27 3 0.06
28 20 0.41
29 8 0.16
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.49
Consensus pattern (29 bp):
TGTAAGTTATGTATGTAAGTTATCTGTTG
Found at i:20063775 original size:9 final size:9
Alignment explanation
Indices: 20063757--20063837 Score: 71
Period size: 9 Copynumber: 9.4 Consensus size: 9
20063747 TTAAGTTATG
20063757 TATGTAAGT
1 TATGTAAGT
*
20063766 TATGTCAGT
1 TATGTAAGT
*
20063775 TGTGT-A-T
1 TATGTAAGT
*
20063782 AATGTAAGT
1 TATGTAAGT
* *
20063791 TATGAAATT
1 TATGTAAGT
20063800 TATGT-A-T
1 TATGTAAGT
20063807 TATGTAAGT
1 TATGTAAGT
*
20063816 TATTTAAGT
1 TATGTAAGT
*
20063825 TATTTAAGT
1 TATGTAAGT
20063834 TATG
1 TATG
20063838 AAATATAGAG
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
7 10 0.17
8 4 0.07
9 44 0.76
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (9 bp):
TATGTAAGT
Found at i:20063791 original size:25 final size:25
Alignment explanation
Indices: 20063758--20063827 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
20063748 TAAGTTATGT
** *
20063758 ATGTAAGTTATGTCAGTTGTGTATA
1 ATGTAAGTTATGAAAGTTATGTATA
* *
20063783 ATGTAAGTTATGAAATTTATGTATT
1 ATGTAAGTTATGAAAGTTATGTATA
**
20063808 ATGTAAGTTATTTAAGTTAT
1 ATGTAAGTTATGAAAGTTAT
20063828 TTAAGTTATG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (25 bp):
ATGTAAGTTATGAAAGTTATGTATA
Found at i:20064010 original size:28 final size:29
Alignment explanation
Indices: 20063979--20064055 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 29
20063969 AAATTATATG
*
20063979 TTAAAAATAT-ATATATTAATATGTTAAA
1 TTAAAAATATAATATATTAATACGTTAAA
* *
20064007 TT-AAATTTTAATATATTAATACGTTAAA
1 TTAAAAATATAATATATTAATACGTTAAA
* * *
20064035 TTATATATATTAATACATTAA
1 TTAAAAATA-TAATATATTAA
20064056 GTAACTACCG
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
27 5 0.13
28 21 0.55
29 2 0.05
30 10 0.26
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (29 bp):
TTAAAAATATAATATATTAATACGTTAAA
Found at i:20064042 original size:22 final size:23
Alignment explanation
Indices: 20064006--20064055 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
20063996 AATATGTTAA
*
20064006 ATTAAATTTTAATATATTAATAC
1 ATTAAATTATAATATATTAATAC
*
20064029 GTTAAATTAT-ATATATTAATAC
1 ATTAAATTATAATATATTAATAC
20064051 ATTAA
1 ATTAA
20064056 GTAACTACCG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (23 bp):
ATTAAATTATAATATATTAATAC
Found at i:20064110 original size:120 final size:120
Alignment explanation
Indices: 20063972--20064567 Score: 946
Period size: 120 Copynumber: 4.9 Consensus size: 120
20063962 TACATTAAAA
* *
20063972 TTATATGTTAAAAATATATATATTAATATGTTAAATTAAATTTTAATATATTAATACGTTAAATT
1 TTATATATTAAAAATATATATATTAATACGTTAAATTAAATTTTAATATATTAATACGTTAAATT
*
20064037 ATATATATTAATACATTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGC
66 ATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGC
20064092 TTATATATTAAAATTATATGTTATAAATATATATTGATACGTTAAATTAAATTTTAATATATTAA
1 TTATATATTAAAA--ATA---TAT--ATAT-TA---ATACGTTAAATTAAATTTTAATATATTAA
20064157 TACGTTAAATTATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAG
55 TACGTTAAATTATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAG
20064222 C
120 C
* *
20064223 TTATATATTAAAAATATATATACTAATACGTTAAATTAAATTTTAATATATTAATACGTTAAGTT
1 TTATATATTAAAAATATATATATTAATACGTTAAATTAAATTTTAATATATTAATACGTTAAATT
*
20064288 ATATATATTTATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGC
66 ATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGC
* *
20064343 TTATATATTAAAAATATATATACTAATACGTTAAATTAAATTTTAATATATTAATACGTTAAGTT
1 TTATATATTAAAAATATATATATTAATACGTTAAATTAAATTTTAATATATTAATACGTTAAATT
*
20064408 ATATATATTTATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGC
66 ATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGC
* *
20064463 TTATATATTAAAAATATATCTATTACTACGTTAAATTAAATTTTAATATATTAATACGTTAAATT
1 TTATATATTAAAAATATATATATTAATACGTTAAATTAAATTTTAATATATTAATACGTTAAATT
* * *
20064528 ATAGATATCAATACGTTAAGT---TACCCAAATTAAGACTAAT
66 ATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAAT
20064568 TCGAACATTT
Statistics
Matches: 451, Mismatches: 14, Indels: 25
0.92 0.03 0.05
Matches are distributed among these distances:
117 18 0.04
120 304 0.67
122 3 0.01
123 2 0.00
124 3 0.01
125 3 0.01
126 3 0.01
127 4 0.01
128 2 0.00
129 3 0.01
131 106 0.24
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.40
Consensus pattern (120 bp):
TTATATATTAAAAATATATATATTAATACGTTAAATTAAATTTTAATATATTAATACGTTAAATT
ATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGC
Found at i:20064140 original size:33 final size:28
Alignment explanation
Indices: 20064120--20064180 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
20064110 TGTTATAAAT
* *
20064120 ATATATTGATACGTTAAATTAAATTTTA
1 ATATATTAATACGTTAAATTATATTTTA
20064148 ATATATTAATACGTTAAATTATATATATTA
1 ATATATTAATACGTTAAATTATAT-T-TTA
20064178 ATA
1 ATA
20064181 CGTTAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 22 0.76
29 1 0.03
30 6 0.21
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (28 bp):
ATATATTAATACGTTAAATTATATTTTA
Found at i:20064176 original size:22 final size:23
Alignment explanation
Indices: 20064138--20064186 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 23
20064128 ATACGTTAAA
*
20064138 TTAAATTTTAATATATTAATACG
1 TTAAATTATAATATATTAATACG
20064161 TTAAATTAT-ATATATTAATACG
1 TTAAATTATAATATATTAATACG
20064183 TTAA
1 TTAA
20064187 GTAACTACCG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (23 bp):
TTAAATTATAATATATTAATACG
Found at i:20066177 original size:82 final size:83
Alignment explanation
Indices: 20066041--20066229 Score: 227
Period size: 83 Copynumber: 2.3 Consensus size: 83
20066031 AGTTTTCTCA
* * ** * *
20066041 AAAAACACCACTATTAAATTATTTTCCAGTACAGAAACAGCGCCGCATAAGG-AAATTTAATTAA
1 AAAAACGCCACTATAAAATT-TTTTCCAACACAGAAACAGCGCCGCATAAGGAAAAGTTAATCAA
* * *
20066105 TCATTGTGGCGTTTTCCTT
65 TCATTGCGGCGTTTCCCCT
* * * **
20066124 AAAAATGCCACTATAAAATTTTTTCCAACACTGAAACGGCGCCGCATTCGGAAAAGTTAATCAAT
1 AAAAACGCCACTATAAAATTTTTTCCAACACAGAAACAGCGCCGCATAAGGAAAAGTTAATCAAT
20066189 CATTGCGGCGTTTCCCCT
66 CATTGCGGCGTTTCCCCT
*
20066207 AAAAACGCCACTATCAAATTTTT
1 AAAAACGCCACTATAAAATTTTT
20066230 ATTACTATTA
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
82 25 0.28
83 64 0.72
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (83 bp):
AAAAACGCCACTATAAAATTTTTTCCAACACAGAAACAGCGCCGCATAAGGAAAAGTTAATCAAT
CATTGCGGCGTTTCCCCT
Found at i:20067049 original size:8 final size:7
Alignment explanation
Indices: 20067009--20067064 Score: 60
Period size: 7 Copynumber: 8.0 Consensus size: 7
20066999 ACTAAAGCGG
20067009 CCTAAAC
1 CCTAAAC
*
20067016 CCCAAAC
1 CCTAAAC
20067023 CC-AAAC
1 CCTAAAC
*
20067029 CTTAAAC
1 CCTAAAC
20067036 CCTAAAC
1 CCTAAAC
20067043 TCCTAAAC
1 -CCTAAAC
*
20067051 CATAAAC
1 CCTAAAC
*
20067058 CCAAAAC
1 CCTAAAC
20067065 ACCAAAACCT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 5 0.12
7 29 0.71
8 7 0.17
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.12
Consensus pattern (7 bp):
CCTAAAC
Found at i:20067579 original size:115 final size:115
Alignment explanation
Indices: 20067372--20067581 Score: 350
Period size: 115 Copynumber: 1.8 Consensus size: 115
20067362 ATGCATGGTT
* *
20067372 AAGACCAAAACAATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGTGCCGCTAATTC
1 AAGACCAAAACAATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCCGCTAATAC
* *
20067437 TATGCTTTAGCGGCGTTTTCTAGTAAGCGCCACTAATTCTAGTATACATC
66 TATGCATTAGCGGCGTTTTCCAGTAAGCGCCACTAATTCTAGTATACATC
**
20067487 AAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCCGCTAATAC
1 AAGACCAAAACAATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCCGCTAATAC
20067552 TATGCATTAGCGGCGTTTTCCCA-TAAGCGC
66 TATGCATTAGCGGCGTTTT-CCAGTAAGCGC
20067582 TGTTGACACC
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
115 86 0.98
116 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (115 bp):
AAGACCAAAACAATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCCGCTAATAC
TATGCATTAGCGGCGTTTTCCAGTAAGCGCCACTAATTCTAGTATACATC
Found at i:20068105 original size:106 final size:107
Alignment explanation
Indices: 20067921--20068235 Score: 442
Period size: 107 Copynumber: 3.0 Consensus size: 107
20067911 ATTAAGATTC
* *
20067921 AAAAGGATATTTGGCTATTTAGTTC-AACGAG-AAATTGAAACCCAGCACATTAGGGCACG-TTT
1 AAAAGGATATTTGGCTATTT-GATCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTT
* *
20067983 CTTCGAATTCCCAAACGC-AAACATTGCCTTATTTTGAATTTTT
65 C-TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
* * * *
20068026 AAAAGGTTATTTGGCTATTTGGTCGAGCGAGAAAATCGAAACCCAGCACCTTAGGGCACGTTTTC
1 AAAAGGATATTTGGCTATTTGATCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTC
*
20068091 TCGAATTTCCAAACGCAAAACATTGCCTTGTTTTGAAATTTT
66 TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
*
20068133 AAAAGGATATTTGGCTATTTGATCGAACGAGAAAATCGAAACCCAGCATATTAGGGCACGTTTTC
1 AAAAGGATATTTGGCTATTTGATCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTC
* * * *
20068198 TC-AAGTTTCCCAACGCTAAATATTGCCTTATTTAGAAA
66 TCGAA-TTTCCAAACGCAAAACATTGCCTTATTTTGAAA
20068236 AAATTCTTTT
Statistics
Matches: 187, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
104 3 0.02
105 24 0.13
106 43 0.23
107 117 0.63
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (107 bp):
AAAAGGATATTTGGCTATTTGATCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTC
TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
Found at i:20068433 original size:24 final size:24
Alignment explanation
Indices: 20068387--20068435 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
20068377 CATTTTAAAG
*
20068387 AATGAACATATAAATAAATAAATA
1 AATGAACATATAAATAAACAAATA
*
20068411 AATGAACAT-TAAGTAAAACAAATA
1 AATGAACATATAAAT-AAACAAATA
20068435 A
1 A
20068436 TAACAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.22
Consensus pattern (24 bp):
AATGAACATATAAATAAACAAATA
Found at i:20070947 original size:44 final size:45
Alignment explanation
Indices: 20070895--20071007 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 45
20070885 ATCTACTCTG
* *
20070895 CTGCAACTTCAGAGAGATAAGATATATT-ATTTCAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGATATATTGACTTCAATCCGCTCCA
* * * *
20070939 CTGCAACTTTAGGGAGATAGGAT-TATTGGCTTCAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATATATTGACTTCAATCCGCTCCA
*
20070983 CTGCAACCTCAGGGAGATAAGATAT
1 CTGCAACTTCAGGGAGATAAGATAT
20071008 GAGATTCTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 4 0.07
44 53 0.91
45 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (45 bp):
CTGCAACTTCAGGGAGATAAGATATATTGACTTCAATCCGCTCCA
Found at i:20071488 original size:14 final size:15
Alignment explanation
Indices: 20071469--20071498 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
20071459 TATTTACGCA
20071469 TAAAGAAA-TTCCTC
1 TAAAGAAATTTCCTC
20071483 TAAAGAAATTTCCTC
1 TAAAGAAATTTCCTC
20071498 T
1 T
20071499 TATTAACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (15 bp):
TAAAGAAATTTCCTC
Found at i:20082858 original size:106 final size:107
Alignment explanation
Indices: 20082673--20082990 Score: 455
Period size: 107 Copynumber: 3.0 Consensus size: 107
20082663 TGGATTAAGA
* *
20082673 TTTAAAAGGATATTTGGCTATTTAGTTC-AACGAG-AAATTGAAACCCAGCACATTAGGGCACG-
1 TTTAAAAGGATATTTGGCTATTT-GGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGT
* *
20082735 TTTCTTCGAATTCCCAAACGC-AAACATTGCCTTATTTTGAATT
65 TTTC-TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAT
* * *
20082778 TTTAAAAGGTTATTTGGCTATTTGGTCGAGCGAGAAAATCGAAACCCAGCACCTTAGGGCACGTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTT
*
20082843 TTCTCGAATTTCCAAACGCAAAACATTGCCTTGTTTTGAAAT
66 TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAT
*
20082885 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTATGGCACGTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTT
* * * * * *
20082950 TTCTCGAGTTTCCCAATGCTAAATATTGCCTTATTTAGAAA
66 TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA
20082991 AAATTCTTTT
Statistics
Matches: 190, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
104 3 0.02
105 27 0.14
106 41 0.22
107 119 0.63
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (107 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTT
TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAT
Found at i:20085218 original size:98 final size:99
Alignment explanation
Indices: 20085038--20085231 Score: 295
Period size: 98 Copynumber: 2.0 Consensus size: 99
20085028 CTCACAAAGC
*
20085038 GCCGCTAATACTATGCGTTAGCGGTGTTTTCCCATAAGCGCCACTAATTCTAATATAGCTCAAGA
1 GCCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATAGCTCAAGA
*
20085103 CCAAACTCTGCGTTTT-GGTTAAGATATTTTGCG
66 CCAAACGCTGCGTTTTGGGTTAAGATATTTTGCG
* * * *
20085136 GCCGCTAATACTATGCTTTAGCTGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATA-CATCAAG
1 GCCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATAGC-TCAAG
20085200 ACCAAAACGCTGCG-TTTGGGTTAAGATATTTT
65 ACC-AAACGCTGCGTTTTGGGTTAAGATATTTT
20085232 TTGGCACTTT
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
97 1 0.01
98 63 0.72
99 23 0.26
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (99 bp):
GCCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATAGCTCAAGA
CCAAACGCTGCGTTTTGGGTTAAGATATTTTGCG
Found at i:20085546 original size:228 final size:228
Alignment explanation
Indices: 20085137--20085615 Score: 760
Period size: 228 Copynumber: 2.1 Consensus size: 228
20085127 TATTTTGCGG
*
20085137 CCGCTAATACTATGCTTTAGCTGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGAC
1 CCGCTAATACT-TGCTTTAGCGGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGAC
* ** * *
20085202 CAAAACGCTGCGTTTGGGTTAAGATATTTTTTGGCACTTTTCACAAAGCGCCGTTAATACTATGC
65 CAAAACGCTGCGTTTGGGTTAAAATATTTTGCGGCACTTTTCACAAAGCACCGCTAATACTATGC
*
20085267 GTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCATTTT
130 GTTAGCGGCGTTTTCCCATAAACGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCATTTT
20085332 GGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
195 GGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
* **
20085366 CCGCTAATAGTTGCTTTAGCGGCGTTTTTTCGTAAGCGCCACTAATTCTAGTATACATCAAGACC
1 CCGCTAATACTTGCTTTAGCGGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACC
* * * ** *
20085431 AAAACGCTGTGTTTTGTTTAAAATATTTTGCGGTGCTTTTCACGAAGCACCGCTAATACTATGCG
66 AAAACGCTGCGTTTGGGTTAAAATATTTTGCGGCACTTTTCACAAAGCACCGCTAATACTATGCG
*
20085496 TTAGCGGCGTTTTCCCATAAACGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTG
131 TTAGCGGCGTTTTCCCATAAACGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCATTTTG
* * *
20085561 GTTAATATATTTTGTGGCGCTTTTCACAAAGCG
196 GTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
*
20085594 CCGCTAATACTTGTTTTAGCGG
1 CCGCTAATACTTGCTTTAGCGG
20085616 ACGATGTGTT
Statistics
Matches: 228, Mismatches: 22, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
228 218 0.96
229 10 0.04
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (228 bp):
CCGCTAATACTTGCTTTAGCGGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACC
AAAACGCTGCGTTTGGGTTAAAATATTTTGCGGCACTTTTCACAAAGCACCGCTAATACTATGCG
TTAGCGGCGTTTTCCCATAAACGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCATTTTG
GTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
Found at i:20085559 original size:114 final size:115
Alignment explanation
Indices: 20085137--20085604 Score: 645
Period size: 114 Copynumber: 4.1 Consensus size: 115
20085127 TATTTTGCGG
* * * *
20085137 CCGCTAATACTATGCTTTAGCTGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGAC
1 CCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGAC
* ** * *
20085202 CAAAACGCTGCGTTTGGGTTAAGATATTTTTTGGCACTTTTCACAAAGCG
66 CAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
* *
20085252 CCGTTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGAC
1 CCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGAC
* *
20085317 C-AAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
66 CAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
* * ** * *
20085366 CCGCTAATAGT-TGCTTTAGCGGCGTTTTTTCGTAAGCGCCACTAATTCTAGTATACATCAAGAC
1 CCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGAC
* * * * *
20085430 CAAAACGCTGTGTTTTGTTTAAAATATTTTGCGGTGCTTTTCACGAAGCA
66 CAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
* *
20085480 CCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAACGCCACTAATTCTAATATACCTCAAGAC
1 CCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGAC
* * * *
20085545 C-AAACTCTGCGTTTTGGTTAATATATTTTGTGGCGCTTTTCACAAAGCG
66 CAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
20085594 CCGCTAATACT
1 CCGCTAATACT
20085605 TGTTTTAGCG
Statistics
Matches: 307, Mismatches: 44, Indels: 5
0.86 0.12 0.01
Matches are distributed among these distances:
113 48 0.16
114 152 0.50
115 107 0.35
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (115 bp):
CCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGAC
CAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
Found at i:20089011 original size:96 final size:96
Alignment explanation
Indices: 20088863--20089049 Score: 239
Period size: 96 Copynumber: 1.9 Consensus size: 96
20088853 ACTACCGACG
* * * * * *
20088863 ATAAAAATATTGGTTGATAAACCATCTATCGGTGTAGATAAAAGTTGTTAGTACATTGTGGATGA
1 ATAAAAATACTGGTGGATAAACCATCCATCGGTGAAGATAAAAGCTGCTAGTACATTGTGGATGA
** *
20088928 ATTACTAATTGTTGTAGATGAATTGCTAACA
66 ACCACTAATTGTTGTAGATAAATTGCTAACA
* * * *
20088959 ATAAAAATACTGGTGGATGAACCATCCATTGGTGAAGATAAAAGCTGCTAGTACGTTTTGGATGA
1 ATAAAAATACTGGTGGATAAACCATCCATCGGTGAAGATAAAAGCTGCTAGTACATTGTGGATGA
**
20089024 ACCACTGGTTGTTGTAGATAAATTGC
66 ACCACTAATTGTTGTAGATAAATTGC
20089050 CAACTGAAAT
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 76 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (96 bp):
ATAAAAATACTGGTGGATAAACCATCCATCGGTGAAGATAAAAGCTGCTAGTACATTGTGGATGA
ACCACTAATTGTTGTAGATAAATTGCTAACA
Found at i:20089072 original size:49 final size:49
Alignment explanation
Indices: 20089010--20089176 Score: 235
Period size: 49 Copynumber: 3.4 Consensus size: 49
20089000 AAGCTGCTAG
* * *
20089010 TACGTTTTGGATGAACCACTGGTTGTTGTAGATAAATTGCCAACTGAAA
1 TACGTTGTGGATGAACCACTGGTCGTTGTAGATAAATTGCCGACTGAAA
* * *
20089059 TATGTTGTGGATGAAACACTGGTCGTTGTAGGTAAATTGCCGACTGAAA
1 TACGTTGTGGATGAACCACTGGTCGTTGTAGATAAATTGCCGACTGAAA
* * * * *
20089108 TACATTATGGATGAACCACTAGTCGTTGTAGATAAACTGCCGACTAAAA
1 TACGTTGTGGATGAACCACTGGTCGTTGTAGATAAATTGCCGACTGAAA
20089157 TACGTTGTGGATGAACCACT
1 TACGTTGTGGATGAACCACT
20089177 AGTCATTCCA
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 102 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (49 bp):
TACGTTGTGGATGAACCACTGGTCGTTGTAGATAAATTGCCGACTGAAA
Found at i:20089177 original size:49 final size:49
Alignment explanation
Indices: 20089010--20089201 Score: 231
Period size: 49 Copynumber: 3.9 Consensus size: 49
20089000 AAGCTGCTAG
* * * * *
20089010 TACGTTTTGGATGAACCACTGGTTGTTGTAGATAAATTGCCAACTGAAA
1 TACGTTGTGGATGAACCACTAGTCGTTGTAGATAAACTGCCGACTGAAA
* * * * *
20089059 TATGTTGTGGATGAAACACTGGTCGTTGTAGGTAAATTGCCGACTGAAA
1 TACGTTGTGGATGAACCACTAGTCGTTGTAGATAAACTGCCGACTGAAA
* * *
20089108 TACATTATGGATGAACCACTAGTCGTTGTAGATAAACTGCCGACTAAAA
1 TACGTTGTGGATGAACCACTAGTCGTTGTAGATAAACTGCCGACTGAAA
* ** *
20089157 TACGTTGTGGATGAACCACTAGTCATTCCAGATAAACTGCTGACT
1 TACGTTGTGGATGAACCACTAGTCGTTGTAGATAAACTGCCGACT
20089202 CTTCCTCCGT
Statistics
Matches: 123, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 123 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (49 bp):
TACGTTGTGGATGAACCACTAGTCGTTGTAGATAAACTGCCGACTGAAA
Found at i:20092666 original size:16 final size:16
Alignment explanation
Indices: 20092647--20092683 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
20092637 AAAAAATCAA
*
20092647 TTTAGGAAACTGTTAT
1 TTTAGGAAACTGTTAG
20092663 TTTAGGAAACTGTTAG
1 TTTAGGAAACTGTTAG
20092679 TTTAG
1 TTTAG
20092684 TAAATTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (16 bp):
TTTAGGAAACTGTTAG
Found at i:20093875 original size:28 final size:28
Alignment explanation
Indices: 20093843--20093900 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
20093833 TTTGGTAAGT
20093843 ATAATTATTATGAGAATTAGAAGATGGA
1 ATAATTATTATGAGAATTAGAAGATGGA
20093871 ATAATTATTATGAGAATTAGAAGATGGA
1 ATAATTATTATGAGAATTAGAAGATGGA
20093899 AT
1 AT
20093901 TTTGGATGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.33
Consensus pattern (28 bp):
ATAATTATTATGAGAATTAGAAGATGGA
Found at i:20094424 original size:114 final size:113
Alignment explanation
Indices: 20094146--20094818 Score: 843
Period size: 114 Copynumber: 5.9 Consensus size: 113
20094136 ATAAGCATTG
* *
20094146 GCGGCGTTTTTGGGAAAGCGCCGCAAAAGACTTCAGCCCAACGACGCCGTTTTTTGAGCTGAGAA
1 GCGGCGTTTTTGGGAAAGCGCCGCAAAATACTTCAGCCCAACGACGCCGTTTTCTGAGCTGAGAA
* *
20094211 GGATTTAGTGGCGATTTTACGAAAGCGCCGCTAATGCTC-AGTCTTTA
66 GGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCTTTA
* ** * * * **
20094258 GCGGCATTTTTCAGAAAGCGCCGTAAAAACACTTCAGCCCAACAACGCCGTTTTCTGAGCTTTCG
1 GCGGCGTTTTTGGGAAAGCGCCG-CAAAATACTTCAGCCCAACGACGCCGTTTTCTGAGC-TGAG
* *
20094323 -GGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCCTTA
64 AAGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCTTTA
* **
20094372 GCGGCGTTTTTGGGAAAGCGCCGCAAAAGTGCTTCAGCCCAACGACGCCGTTTTCTGAGCTTTCG
1 GCGGCGTTTTTGGGAAAGCGCCGCAAAA-TACTTCAGCCCAACGACGCCGTTTTCTGAGC-TGAG
* * * * * *
20094437 -GGGATTTAGTGGTGTTTTTATTAAAGCGCCGCTAATACTCAGGGCTTTA
64 AAGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCTTTA
* * * *
20094486 GCGGCGTTTGTGGGAAAGCGCCACAACAATACTTCAGCCCAACGATGCCATTTTCTGAGCTGAGA
1 GCGGCGTTTTTGGGAAAGCGCCGCAA-AATACTTCAGCCCAACGACGCCGTTTTCTGAGCTGAGA
* * * *
20094551 AGGATTTAGTGGCGTTTTTATGTAGGCGCCGCTAAAGCTCAGGTCTTTA
65 AGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCTTTA
* * *
20094600 GCGGCGTTTTTGGGAAAGCGCTGCAAGAATACTTCAGCCCAACGACGCAGTTTTTTGAGCTGAGA
1 GCGGCGTTTTTGGGAAAGCGCCGCAA-AATACTTCAGCCCAACGACGCCGTTTTCTGAGCTGAGA
* *
20094665 AGGATTTAGTGGCGTTTTTATGTAAGCGCTGCTAATGCTCAAGTCTTTA
65 AGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCTTTA
** * **
20094714 GCGGCGTTTTTGAAAAAGCGCCGCAAAAATACTTCAACCCAACGACGCCGTTTTCTGAGCTTTCG
1 GCGGCGTTTTTGGGAAAGCGCCGC-AAAATACTTCAGCCCAACGACGCCGTTTTCTGAGC-TGAG
* * *
20094779 -GGGATTTAGTGGCGTTTTTATG-AAGCGCCACTAATACTCA
64 AAGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCA
20094819 GGGATATAAA
Statistics
Matches: 488, Mismatches: 65, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
112 20 0.04
113 90 0.18
114 372 0.76
115 6 0.01
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (113 bp):
GCGGCGTTTTTGGGAAAGCGCCGCAAAATACTTCAGCCCAACGACGCCGTTTTCTGAGCTGAGAA
GGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCTTTA
Found at i:20094799 original size:342 final size:339
Alignment explanation
Indices: 20094146--20094821 Score: 994
Period size: 342 Copynumber: 2.0 Consensus size: 339
20094136 ATAAGCATTG
* * * *
20094146 GCGGCGTTTTTGGGAAAGCGCCGCAAAAGACTTCAGCCCAACGACGCCGTTTTTTGAGCTGAGAA
1 GCGGCGTTTGTGGGAAAGCGCCACAAAAGACTTCAGCCCAACGACGCCATTTTCTGAGCTGAGAA
*
20094211 GGATTTAGTGGCGATTTTACGAAAGCGCCGCTAATGCTCAGTCTTTAGCGGCATTTTTCAGAAAG
66 GGATTTAGTGGCGATTTTACGAAAGCGCCGCTAAAGCTCAGTCTTTAGCGGCATTTTTCAGAAAG
* * ** *
20094276 CGCCGTAAAAACACTTCAGCCCAACAACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTT
131 CGCCGCAAAAACACTTCAGCCCAACAACGCAGTTTTCTGAGCTTGAGAGGATTTAGTGGCGTTTT
** * *
20094341 TATGAAAGCGCCGCTAATGCTCAAGTCCTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAGTGCTT
196 TATGAAAGCGCCGCTAATGCTCAAGTCCTTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAATACTT
* * *
20094406 CAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGTGTTTTTATTAAAGCGCCGCTA
261 CAACCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTA-TAAAGCGCCACTA
20094471 ATACTCAGGGCTTTA
325 ATACTCAGGGCTTTA
* *
20094486 GCGGCGTTTGTGGGAAAGCGCCACAACAATACTTCAGCCCAACGATGCCATTTTCTGAGCTGAGA
1 GCGGCGTTTGTGGGAAAGCGCCACAA-AAGACTTCAGCCCAACGACGCCATTTTCTGAGCTGAGA
* * * * * **
20094551 AGGATTTAGTGGCGTTTTTATGTAGGCGCCGCTAAAGCTCAGGTCTTTAGCGGCGTTTTTGGGAA
65 AGGATTTAGTGGCGATTTTACGAAAGCGCCGCTAAAGCTCA-GTCTTTAGCGGCATTTTTCAGAA
* * * * *
20094616 AGCGCTGCAAGAATACTTCAGCCCAACGACGCAGTTTTTTGAGC-TGAGAAGGATTTAGTGGCGT
129 AGCGCCGCAAAAACACTTCAGCCCAACAACGCAGTTTTCTGAGCTTGAG-AGGATTTAGTGGCGT
* * *
20094680 TTTTATGTAAGCGCTGCTAATGCTCAAGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAATA
193 TTTTATGAAAGCGCCGCTAATGCTCAAGTCCTTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAATA
*
20094745 CTTCAACCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTATGAAGCGCCAC
258 CTTCAACCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTATAAAGCGCCAC
20094810 TAATACTCAGGG
323 TAATACTCAGGG
20094822 ATATAAAATA
Statistics
Matches: 298, Mismatches: 35, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
340 24 0.08
341 93 0.31
342 181 0.61
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (339 bp):
GCGGCGTTTGTGGGAAAGCGCCACAAAAGACTTCAGCCCAACGACGCCATTTTCTGAGCTGAGAA
GGATTTAGTGGCGATTTTACGAAAGCGCCGCTAAAGCTCAGTCTTTAGCGGCATTTTTCAGAAAG
CGCCGCAAAAACACTTCAGCCCAACAACGCAGTTTTCTGAGCTTGAGAGGATTTAGTGGCGTTTT
TATGAAAGCGCCGCTAATGCTCAAGTCCTTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAATACTT
CAACCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTATAAAGCGCCACTAA
TACTCAGGGCTTTA
Found at i:20095083 original size:14 final size:15
Alignment explanation
Indices: 20095054--20095087 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
20095044 TAAGTTTTAT
20095054 AGATTATGGAATTAG
1 AGATTATGGAATTAG
20095069 AGATTATGG-ATTAG
1 AGATTATGGAATTAG
20095083 AGATT
1 AGATT
20095088 CTGGTTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:20095129 original size:14 final size:14
Alignment explanation
Indices: 20095110--20095180 Score: 74
Period size: 14 Copynumber: 5.2 Consensus size: 14
20095100 TTAATGTGAT
* *
20095110 TTAAGGTTTATAGG
1 TTAAGGGTTAGAGG
20095124 TTAAGGGTTAGAGG
1 TTAAGGGTTAGAGG
* *
20095138 TTAGGGGTTAGGGG
1 TTAAGGGTTAGAGG
*
20095152 TTAAGGGTTAGGGG
1 TTAAGGGTTAGAGG
*
20095166 TT-A-GGTTAGGGG
1 TTAAGGGTTAGAGG
20095178 TTA
1 TTA
20095181 GATGTTAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
12 11 0.22
13 1 0.02
14 39 0.76
ACGTcount: A:0.23, C:0.00, G:0.44, T:0.34
Consensus pattern (14 bp):
TTAAGGGTTAGAGG
Found at i:20095177 original size:33 final size:33
Alignment explanation
Indices: 20095135--20095197 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
20095125 TAAGGGTTAG
* *
20095135 AGGTTAGGGGTTAGGGGTTAAGGGTTAGGGGTT
1 AGGTTAGGGGTTAGAGGTTAAGAGTTAGGGGTT
*
20095168 AGGTTAGGGGTTAGATGTTAAGAGTTAGGG
1 AGGTTAGGGGTTAGAGGTTAAGAGTTAGGG
20095198 ATTTAGGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.48, T:0.30
Consensus pattern (33 bp):
AGGTTAGGGGTTAGAGGTTAAGAGTTAGGGGTT
Found at i:20095181 original size:7 final size:7
Alignment explanation
Indices: 20095122--20095181 Score: 79
Period size: 7 Copynumber: 8.9 Consensus size: 7
20095112 AAGGTTTATA
*
20095122 GGTTAAG
1 GGTTAGG
*
20095129 GGTTAGA
1 GGTTAGG
20095136 GGTTAGG
1 GGTTAGG
20095143 GGTTAGG
1 GGTTAGG
*
20095150 GGTTAAG
1 GGTTAGG
20095157 GGTTAGG
1 GGTTAGG
20095164 GGTTA--
1 GGTTAGG
20095169 GGTTAGG
1 GGTTAGG
20095176 GGTTAG
1 GGTTAG
20095182 ATGTTAAGAG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
5 5 0.11
7 41 0.89
ACGTcount: A:0.20, C:0.00, G:0.50, T:0.30
Consensus pattern (7 bp):
GGTTAGG
Found at i:20095187 original size:19 final size:20
Alignment explanation
Indices: 20095121--20095197 Score: 66
Period size: 21 Copynumber: 3.8 Consensus size: 20
20095111 TAAGGTTTAT
*
20095121 AGGTTAAGGGTTAGAGGTTAG
1 AGGTTAA-GGTTAGGGGTTAG
* * *
20095142 GGGTTAGGGGTTAAGGGTTAG
1 AGGTTA-AGGTTAGGGGTTAG
*
20095163 GGGTT-AGGTTAGGGGTTAG
1 AGGTTAAGGTTAGGGGTTAG
*
20095182 ATGTTAAGAGTTAGGG
1 AGGTTAAG-GTTAGGG
20095198 ATTTAGGGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
19 15 0.33
20 2 0.04
21 28 0.62
ACGTcount: A:0.23, C:0.00, G:0.47, T:0.30
Consensus pattern (20 bp):
AGGTTAAGGTTAGGGGTTAG
Found at i:20095187 original size:26 final size:26
Alignment explanation
Indices: 20095122--20095196 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
20095112 AAGGTTTATA
20095122 GGTTAAGGGTT-AGAGGTTAGGGGTTAGG
1 GGTTAAGGGTTAAGA-GTTA--GGTTAGG
* *
20095150 GGTTAAGGGTTAGGGGTTAGGTTAGG
1 GGTTAAGGGTTAAGAGTTAGGTTAGG
*
20095176 GGTT-AGATGTTAAGAGTTAGG
1 GGTTAAG-GGTTAAGAGTTAGG
20095197 GATTTAGGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 2 0.05
26 22 0.55
28 15 0.38
29 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.47, T:0.31
Consensus pattern (26 bp):
GGTTAAGGGTTAAGAGTTAGGTTAGG
Found at i:20095302 original size:14 final size:14
Alignment explanation
Indices: 20095275--20095328 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
20095265 ATATATTAAA
*
20095275 TAAGGTTTAGGGGT
1 TAAGGGTTAGGGGT
* *
20095289 TATGGGTCAGGGGT
1 TAAGGGTTAGGGGT
*
20095303 TAAGGGTTAAGGGT
1 TAAGGGTTAGGGGT
*
20095317 TAGGGGTTAGGG
1 TAAGGGTTAGGG
20095329 ATTGGGTTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.20, C:0.02, G:0.48, T:0.30
Consensus pattern (14 bp):
TAAGGGTTAGGGGT
Found at i:20095326 original size:7 final size:7
Alignment explanation
Indices: 20095281--20095328 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
20095271 TAAATAAGGT
20095281 TTAGGGG
1 TTAGGGG
*
20095288 TTATGGG
1 TTAGGGG
*
20095295 TCAGGGG
1 TTAGGGG
*
20095302 TTAAGGG
1 TTAGGGG
*
20095309 TTAAGGG
1 TTAGGGG
20095316 TTAGGGG
1 TTAGGGG
20095323 TTAGGG
1 TTAGGG
20095329 ATTGGGTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.19, C:0.02, G:0.50, T:0.29
Consensus pattern (7 bp):
TTAGGGG
Found at i:20095398 original size:96 final size:99
Alignment explanation
Indices: 20095297--20095490 Score: 227
Period size: 103 Copynumber: 1.9 Consensus size: 99
20095287 GTTATGGGTC
* * * *
20095297 AGGGGTTAAGGG-TTAAGGG-TTAGGGGTTAG--GGA-TTGGGTTATGGTTTAGGGTTTAGATTA
1 AGGGGTT-AGGGCTT-AGGGCTTAGGGGTTAGGTGGAGTCGGGTTAGGGTTTAAGATTTAGATTA
** *
20095357 ATTAGTGTTTTTTAATTTATATATTAAATAAAGTTT
64 ATTAGTACTTTTTAATTTACATATTAAATAAAGTTT
*
20095393 AGGGGTTAGGGCTTAGGGCTTAGGGGTTATGGATTTGGAGTCGGGTTAGGGTTTAAGATTTGGAT
1 AGGGGTTAGGGCTTAGGGCTTAGGGGTTA-GG---TGGAGTCGGGTTAGGGTTTAAGATTTAGAT
20095458 TAATTAGTACTTTTTAATTTACATATTAAATAA
62 TAATTAGTACTTTTTAATTTACATATTAAATAA
20095491 GTTCTTTATA
Statistics
Matches: 81, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
95 8 0.10
96 19 0.23
97 1 0.01
102 3 0.04
103 50 0.62
ACGTcount: A:0.27, C:0.03, G:0.30, T:0.41
Consensus pattern (99 bp):
AGGGGTTAGGGCTTAGGGCTTAGGGGTTAGGTGGAGTCGGGTTAGGGTTTAAGATTTAGATTAAT
TAGTACTTTTTAATTTACATATTAAATAAAGTTT
Found at i:20095592 original size:21 final size:21
Alignment explanation
Indices: 20095539--20095592 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
20095529 TAAAGCTTAT
20095539 TAATTTAAAA-TTGATATGCAA
1 TAATTTAAAATTTGATAT-CAA
*
20095560 T-ATATAATAATTTGAATAT-AA
1 TAATTTAA-AATTTG-ATATCAA
20095581 TAATTTAAAATT
1 TAATTTAAAATT
20095593 GTAAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 8 0.30
23 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATTTAAAATTTGATATCAA
Found at i:20095608 original size:17 final size:16
Alignment explanation
Indices: 20095576--20095616 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
20095566 ATAATTTGAA
*
20095576 TATAATAATTTAAAAT
1 TATAAAAATTTAAAAT
*
20095592 TGTAAAAATTGTAAAAT
1 TATAAAAATT-TAAAAT
20095609 TATAAAAA
1 TATAAAAA
20095617 AATTGTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (16 bp):
TATAAAAATTTAAAAT
Found at i:20095619 original size:19 final size:20
Alignment explanation
Indices: 20095595--20095635 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
20095585 TTAAAATTGT
*
20095595 AAAAATTGT-AAAATTATAA
1 AAAAATTGTCAAAATTACAA
20095614 AAAAATTGTCAAAATTACAA
1 AAAAATTGTCAAAATTACAA
20095634 AA
1 AA
20095636 TAAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAATTGTCAAAATTACAA
Found at i:20095645 original size:28 final size:28
Alignment explanation
Indices: 20095587--20095647 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
20095577 ATAATAATTT
** *
20095587 AAAATTGTAAAAATTGTAAAATTATAAA
1 AAAATTGTAAAAATTACAAAATTAAAAA
* *
20095615 AAAATTGTCAAAATTACAAAA-TAAAAT
1 AAAATTGTAAAAATTACAAAATTAAAAA
20095642 AAAATT
1 AAAATT
20095648 AAAAGAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 10 0.36
28 18 0.64
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (28 bp):
AAAATTGTAAAAATTACAAAATTAAAAA
Found at i:20095717 original size:47 final size:47
Alignment explanation
Indices: 20095665--20095761 Score: 131
Period size: 47 Copynumber: 2.1 Consensus size: 47
20095655 AAAAGAAATA
** * *
20095665 AAAAAACTAAAATTTTTATTTTTACCTAATTTTTATAAATATTACTT
1 AAAAAACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACCT
* * *
20095712 AAAAAACTGAAATTGATAATTTTATCTAATTTTTTTAAATATTACCT
1 AAAAAACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACCT
20095759 AAA
1 AAA
20095762 TTAATAAAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.45
Consensus pattern (47 bp):
AAAAAACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACCT
Found at i:20097449 original size:7 final size:7
Alignment explanation
Indices: 20097437--20097488 Score: 77
Period size: 7 Copynumber: 7.3 Consensus size: 7
20097427 TGTTCCTTTA
20097437 TTTTCTG
1 TTTTCTG
20097444 TTTTCTG
1 TTTTCTG
20097451 TTTTCTG
1 TTTTCTG
20097458 TTTTCTG
1 TTTTCTG
*
20097465 TTTTTTG
1 TTTTCTG
*
20097472 TTTTGCTA
1 TTTT-CTG
20097480 TTTTCTG
1 TTTTCTG
20097487 TT
1 TT
20097489 GAATGAAGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
7 35 0.88
8 5 0.12
ACGTcount: A:0.02, C:0.12, G:0.13, T:0.73
Consensus pattern (7 bp):
TTTTCTG
Found at i:20097880 original size:44 final size:44
Alignment explanation
Indices: 20097825--20097908 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
20097815 AGTTTTTATT
*
20097825 TAACTTATTAATATTAAAAAAGTATATATTGATATATTTTATCA
1 TAACTTATTAATATTAAAAAAATATATATTGATATATTTTATCA
**
20097869 TAACTTATTAATATTAAAAAAATATATATTTTTATATTTT
1 TAACTTATTAATATTAAAAAAATATATATTGATATATTTT
20097909 TACAATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (44 bp):
TAACTTATTAATATTAAAAAAATATATATTGATATATTTTATCA
Found at i:20098083 original size:13 final size:13
Alignment explanation
Indices: 20098061--20098103 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
20098051 ATTTACTCTT
* *
20098061 AATATGTTACTTG
1 AATATATTACTTA
20098074 AATATATTACTTA
1 AATATATTACTTA
*
20098087 AATAAATTACTTA
1 AATATATTACTTA
20098100 AATA
1 AATA
20098104 CAATACTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:20098110 original size:13 final size:13
Alignment explanation
Indices: 20098067--20098112 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
20098057 TCTTAATATG
* *
20098067 TTACTTGAATATA
1 TTACTTAAATAAA
20098080 TTACTTAAATAAA
1 TTACTTAAATAAA
20098093 TTACTTAAATACAA
1 TTACTTAAATA-AA
20098107 -TACTTA
1 TTACTTA
20098113 CTAAAATTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 28 0.93
14 2 0.07
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (13 bp):
TTACTTAAATAAA
Found at i:20098212 original size:53 final size:53
Alignment explanation
Indices: 20098080--20098214 Score: 198
Period size: 53 Copynumber: 2.5 Consensus size: 53
20098070 CTTGAATATA
** * *
20098080 TTACTTAAATAAATTACTTAAATACAATACTTACTAAAATTTCGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTAATTACTAAAATTTCGTTAAATTTT
* * *
20098133 TTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTAATTACTAAAATTTCGTTAAATTTT
*
20098186 TTACTTAAATATGTTACTTGAATACATTA
1 TTACTTAAATATGTTACTTAAATACATTA
20098215 CCCGCTATAA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 72 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.44
Consensus pattern (53 bp):
TTACTTAAATATGTTACTTAAATACATTAATTACTAAAATTTCGTTAAATTTT
Found at i:20098384 original size:9 final size:9
Alignment explanation
Indices: 20098360--20098516 Score: 141
Period size: 9 Copynumber: 18.1 Consensus size: 9
20098350 TATGTACAAG
20098360 AACTTACAT
1 AACTTACAT
* *
20098369 AATTTACAC
1 AACTTACAT
20098378 AACTTACAT
1 AACTTACAT
*
20098387 AACCTACAT
1 AACTTACAT
20098396 AACTTACAT
1 AACTTACAT
20098405 AA--TACA-
1 AACTTACAT
*
20098411 AAGCTTACAC
1 AA-CTTACAT
20098421 AACTTACAT
1 AACTTACAT
20098430 AACTTACAT
1 AACTTACAT
20098439 AACTTACAT
1 AACTTACAT
*
20098448 AAC-TA-AC
1 AACTTACAT
20098455 AACTTA-AGT
1 AACTTACA-T
*
20098464 AACATACAT
1 AACTTACAT
* **
20098473 TACTTTGAT
1 AACTTACAT
20098482 AACTTACAT
1 AACTTACAT
*
20098491 AAGTTACAT
1 AACTTACAT
*
20098500 AA--TACAC
1 AACTTACAT
20098507 AACTTACAT
1 AACTTACAT
20098516 A
1 A
20098517 GTTTACTTAA
Statistics
Matches: 119, Mismatches: 20, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
6 2 0.02
7 14 0.12
8 5 0.04
9 95 0.80
10 3 0.03
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.30
Consensus pattern (9 bp):
AACTTACAT
Found at i:20098514 original size:25 final size:25
Alignment explanation
Indices: 20098482--20098535 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
20098472 TTACTTTGAT
20098482 AACTTACATAAG-TTACATAATACAC
1 AACTTACAT-AGTTTACATAATACAC
* *
20098507 AACTTACATAGTTTACTTAATACAT
1 AACTTACATAGTTTACATAATACAC
20098532 AACT
1 AACT
20098536 CATTTATACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (25 bp):
AACTTACATAGTTTACATAATACAC
Found at i:20098515 original size:43 final size:42
Alignment explanation
Indices: 20098363--20098516 Score: 143
Period size: 43 Copynumber: 3.5 Consensus size: 42
20098353 GTACAAGAAC
*
20098363 TTACATAATTTACACAACTTACATAACCTACATAACTTACATAA
1 TTACA-AA-TTACACAACTTACATAACTTACATAACTTACATAA
20098407 -TACAAAGCTTACACAACTTACATAACTTACATAACTTACATAA
1 TTACAAA--TTACACAACTTACATAACTTACATAACTTACATAA
* * * * * **
20098450 CTAACAACTTA-AGTAACATACATTACTTTGATAACTTACATAA
1 -TTACAAATTACA-CAACTTACATAACTTACATAACTTACATAA
20098493 GTTACATAA-TACACAACTTACATA
1 -TTACA-AATTACACAACTTACATA
20098517 GTTTACTTAA
Statistics
Matches: 89, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 3 0.03
43 80 0.90
44 2 0.02
45 4 0.04
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (42 bp):
TTACAAATTACACAACTTACATAACTTACATAACTTACATAA
Found at i:20099526 original size:15 final size:15
Alignment explanation
Indices: 20099506--20099536 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
20099496 CATGTCGTCG
20099506 AAGACAGCGGAGTCT
1 AAGACAGCGGAGTCT
20099521 AAGACAGCGGAGTCT
1 AAGACAGCGGAGTCT
20099536 A
1 A
20099537 TTCAAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.32, T:0.13
Consensus pattern (15 bp):
AAGACAGCGGAGTCT
Found at i:20101781 original size:21 final size:21
Alignment explanation
Indices: 20101755--20101825 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
20101745 CTACAACTTA
*
20101755 AAGCAGAGGCGGCAGCAAGGG
1 AAGCAGAGGCTGCAGCAAGGG
* *
20101776 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCAAGGG
** *
20101797 AAGCAGAGGCTGCAATAAGAG
1 AAGCAGAGGCTGCAGCAAGGG
20101818 AAGCAGAG
1 AAGCAGAG
20101826 TAGAGCAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.35, C:0.18, G:0.42, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCAAGGG
Found at i:20102252 original size:42 final size:42
Alignment explanation
Indices: 20102162--20102354 Score: 253
Period size: 42 Copynumber: 4.6 Consensus size: 42
20102152 AGAACATGCA
* * * *
20102162 GCTAAAAAACATGTTCTTTAGCTGCGTTTAG-AAAAAACGCC
1 GCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCC
* *
20102203 GTTAAAGACCATGTTCTTTAGCGACGCTTAGAAAAAAACGCC
1 GCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCC
* * * *
20102245 TCTAAAGAACATGGTCTTTAGCGGCGCTAAGAAAAAAACGCC
1 GCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCC
* * *
20102287 GCTAAAGACCATGTTCTTTAGAGGCGCTTACAGAAAAACGCC
1 GCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCC
*
20102329 GCTAAAGATCATGTTCTTTAGCGGCG
1 GCTAAAGACCATGTTCTTTAGCGGCG
20102355 TTTTTGTTTG
Statistics
Matches: 130, Mismatches: 21, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
41 25 0.19
42 105 0.81
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (42 bp):
GCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCC
Found at i:20108698 original size:35 final size:35
Alignment explanation
Indices: 20108659--20108729 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 35
20108649 GGATTCCTTG
20108659 TTTTT-CTATCTTAATTATTTGTTTTATTTGATAAA
1 TTTTTACT-TCTTAATTATTTGTTTTATTTGATAAA
20108694 TTTTTACTTCTTAATTATTTGTTTTATTTGATAAA
1 TTTTTACTTCTTAATTATTTGTTTTATTTGATAAA
20108729 T
1 T
20108730 CTCACTTGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 33 0.94
36 2 0.06
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.63
Consensus pattern (35 bp):
TTTTTACTTCTTAATTATTTGTTTTATTTGATAAA
Found at i:20113909 original size:16 final size:16
Alignment explanation
Indices: 20113888--20113919 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20113878 AGTATGTTTT
20113888 AAATGAAAATTTTGAA
1 AAATGAAAATTTTGAA
*
20113904 AAATGAATATTTTGAA
1 AAATGAAAATTTTGAA
20113920 CTAGCATGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.34
Consensus pattern (16 bp):
AAATGAAAATTTTGAA
Found at i:20118017 original size:62 final size:62
Alignment explanation
Indices: 20117868--20118090 Score: 212
Period size: 62 Copynumber: 3.6 Consensus size: 62
20117858 GTGTGGCTCC
* * * * ** *
20117868 ACACGGCCTGGACACACACCCATGTGTTAGCCCGTGTGTCTCAGATCCGTAGTCAGTAAGTT
1 ACACGGCCTAGACACACACCCGTGTGTTAGCCCGTGTGTTTCAAATCCAAAGTCAGTGAGTT
* * * * * ** * *
20117930 ACAAGGCTTGGACATACGCTTGTGTGTTAGCCCGTGTGTTTCATATCCAAAGTCAGTGATTT
1 ACACGGCCTAGACACACACCCGTGTGTTAGCCCGTGTGTTTCAAATCCAAAGTCAGTGAGTT
* ** * *
20117992 ACACGGCCTAGACACACACCCGTGTGTTAGCCCGGGTAATACAAATCCAAATTCAGTGAGTT
1 ACACGGCCTAGACACACACCCGTGTGTTAGCCCGTGTGTTTCAAATCCAAAGTCAGTGAGTT
* ** * *
20118054 ACATGGCCTAGATGCACGCCCGTGTGTCAGCCCGTGT
1 ACACGGCCTAGACACACACCCGTGTGTTAGCCCGTGT
20118091 AACATCTATA
Statistics
Matches: 128, Mismatches: 33, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
62 128 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (62 bp):
ACACGGCCTAGACACACACCCGTGTGTTAGCCCGTGTGTTTCAAATCCAAAGTCAGTGAGTT
Found at i:20127467 original size:936 final size:936
Alignment explanation
Indices: 20125653--20127529 Score: 3747
Period size: 936 Copynumber: 2.0 Consensus size: 936
20125643 ATCTTTCCCA
20125653 TTCA-TATCATCATTTATCGAGTTCATACTTTATAACCCTTATTAACCAAAGTCAGACTCGGGAA
1 TTCAGTATCATCATTTATCGAGTTCATACTTTATAACCCTTATTAACCAAAGTCAGACTCGGGAA
20125717 GGGTACATGGATCATCTGACCATCACACCAATTTGGCACTCAGTGCCTCATCGGAATGTCTAAAG
66 GGGTACATGGATCATCTGACCATCACACCAATTTGGCACTCAGTGCCTCATCGGAATGTCTAAAG
20125782 TATACATTGCGCCCAGTGCTCATCGATATAATCGCAGTAAAAAAGTGTACCTAGCACTCATCGGA
131 TATACATTGCGCCCAGTGCTCATCGATATAATCGCAGTAAAAAAGTGTACCTAGCACTCATCGGA
20125847 ACGTCCGAAGTATAATGTGCCCAACACTCATTGACATATAACCGAAGTATAACATGTACTTAATC
196 ACGTCCGAAGTATAATGTGCCCAACACTCATTGACATATAACCGAAGTATAACATGTACTTAATC
20125912 TAATCCTAAGGCATGCCAACTATATCTAACTTTTCCCGAACAGTTAATAGGGTACTAATGATTCA
261 TAATCCTAAGGCATGCCAACTATATCTAACTTTTCCCGAACAGTTAATAGGGTACTAATGATTCA
20125977 ATAACATATTATAACTAATTCATATATCATAATCTCATTTTATTTCATCATCAAATCACATAACA
326 ATAACATATTATAACTAATTCATATATCATAATCTCATTTTATTTCATCATCAAATCACATAACA
20126042 TGCCATTATCAAATTCTTATCATGCTCATTTGTGAAATTGACATTTCAATTCAATTCTTAACACA
391 TGCCATTATCAAATTCTTATCATGCTCATTTGTGAAATTGACATTTCAATTCAATTCTTAACACA
20126107 TTATTCTCCAATACGAATTAATTCATTTGAAAGGAATAAGCTTACCTCGATAGCTAACCATGCAA
456 TTATTCTCCAATACGAATTAATTCATTTGAAAGGAATAAGCTTACCTCGATAGCTAACCATGCAA
20126172 TCAACATATATATGCATATAATTATAATGATCTCGAATCATAAAAGTACGAATCAAAATTGTGAC
521 TCAACATATATATGCATATAATTATAATGATCTCGAATCATAAAAGTACGAATCAAAATTGTGAC
20126237 AATCTGACGTTGTCTTTAGCTATGTTCGATAATACTCTAAAATGTTATACTTTTATATGTTAATT
586 AATCTGACGTTGTCTTTAGCTATGTTCGATAATACTCTAAAATGTTATACTTTTATATGTTAATT
20126302 AAATATATATTTTGAGTATGATCCTACTAATTTAGGATTTTTATGGTCCTTTATCTTGTAGGGAT
651 AAATATATATTTTGAGTATGATCCTACTAATTTAGGATTTTTATGGTCCTTTATCTTGTAGGGAT
20126367 TAAATTGAAGAAAAAAAGAAATTTAGGGGCAAAAAGCATGAATTTAAAGACGAAACAGGTCAGCA
716 TAAATTGAAGAAAAAAAGAAATTTAGGGGCAAAAAGCATGAATTTAAAGACGAAACAGGTCAGCA
20126432 TGCTAAATAGAGAAGAAATGGTGTCGAAAATACAAAATGTGAAAGACTTGGGGCAAAAATTCAAA
781 TGCTAAATAGAGAAGAAATGGTGTCGAAAATACAAAATGTGAAAGACTTGGGGCAAAAATTCAAA
20126497 GAAGAGATTTCTAAACATAATACTTTATTTAAATTTAACTTTTATTTTTAGGATTATTGTTAGGA
846 GAAGAGATTTCTAAACATAATACTTTATTTAAATTTAACTTTTATTTTTAGGATTATTGTTAGGA
20126562 TTACTATGATATTATTTAGATTTAAT
911 TTACTATGATATTATTTAGATTTAAT
20126588 TTCAGTATCATCATTTATCGAGTTCATACTTTATAACCCTTATTAACCAAAGTCAGACTCGGGAA
1 TTCAGTATCATCATTTATCGAGTTCATACTTTATAACCCTTATTAACCAAAGTCAGACTCGGGAA
20126653 GGGTACATGGATCATCTGACCATCACACCAATTTGGCACTCAGTGCCTCATCGGAATGTCTAAAG
66 GGGTACATGGATCATCTGACCATCACACCAATTTGGCACTCAGTGCCTCATCGGAATGTCTAAAG
20126718 TATACATTGCGCCCAGTGCTCATCGATATAATCGCAGTAAAAAAGTGTACCTAGCACTCATCGGA
131 TATACATTGCGCCCAGTGCTCATCGATATAATCGCAGTAAAAAAGTGTACCTAGCACTCATCGGA
20126783 ACGTCCGAAGTATAATGTGCCCAACACTCATTGACATATAACCGAAGTATAACATGTACTTAATC
196 ACGTCCGAAGTATAATGTGCCCAACACTCATTGACATATAACCGAAGTATAACATGTACTTAATC
20126848 TAATCCTAAGGCATGCCAACTATATCTAACTTTTCCCGAACAGTTAATAGGGTACTAATGATTCA
261 TAATCCTAAGGCATGCCAACTATATCTAACTTTTCCCGAACAGTTAATAGGGTACTAATGATTCA
20126913 ATAACATATTATAACTAATTCATATATCATAATCTCATTTTATTTCATCATCAAATCACATAACA
326 ATAACATATTATAACTAATTCATATATCATAATCTCATTTTATTTCATCATCAAATCACATAACA
20126978 TGCCATTATCAAATTCTTATCATGCTCATTTGTGAAATTGACATTTCAATTCAATTCTTAACACA
391 TGCCATTATCAAATTCTTATCATGCTCATTTGTGAAATTGACATTTCAATTCAATTCTTAACACA
20127043 TTATTCTCCAATACGAATTAATTCATTTGAAAGGAATAAGCTTACCTCGATAGCTAACCATGCAA
456 TTATTCTCCAATACGAATTAATTCATTTGAAAGGAATAAGCTTACCTCGATAGCTAACCATGCAA
20127108 TCAACATATATATGCATATAATTATAATGATCTCGAATCATAAAAGTACGAATCAAAATTGTGAC
521 TCAACATATATATGCATATAATTATAATGATCTCGAATCATAAAAGTACGAATCAAAATTGTGAC
20127173 AATCTGACGTTGTCTTTAGCTATGTTCGATAATACTCTAAAATGTTATACTTTTATATGTTAATT
586 AATCTGACGTTGTCTTTAGCTATGTTCGATAATACTCTAAAATGTTATACTTTTATATGTTAATT
20127238 AAATATATATTTTGAGTATGATCCTACTAATTTAGGATTTTTATGGTCCTTTATCTTGTAGGGAT
651 AAATATATATTTTGAGTATGATCCTACTAATTTAGGATTTTTATGGTCCTTTATCTTGTAGGGAT
20127303 TAAATTGAAGAAAAAAAGAAATTTAGGGGCAAAAAGCATGAATTTAAAGACGAAACAGGTCAGCA
716 TAAATTGAAGAAAAAAAGAAATTTAGGGGCAAAAAGCATGAATTTAAAGACGAAACAGGTCAGCA
20127368 TGCTAAATAGAGAAGAAATGGTGTCGAAAATACAAAATGTGAAAGACTTGGGGCAAAAATTCAAA
781 TGCTAAATAGAGAAGAAATGGTGTCGAAAATACAAAATGTGAAAGACTTGGGGCAAAAATTCAAA
20127433 GAAGAGATTTCTAAACATAATACTTTATTTAAATTTAACTTTTATTTTTAGGATTATTGTTAGGA
846 GAAGAGATTTCTAAACATAATACTTTATTTAAATTTAACTTTTATTTTTAGGATTATTGTTAGGA
20127498 TTACTATGATATTATTTAGATTTAAT
911 TTACTATGATATTATTTAGATTTAAT
20127524 TTCAGT
1 TTCAGT
20127530 TTATATCTTT
Statistics
Matches: 941, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
935 4 0.00
936 937 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (936 bp):
TTCAGTATCATCATTTATCGAGTTCATACTTTATAACCCTTATTAACCAAAGTCAGACTCGGGAA
GGGTACATGGATCATCTGACCATCACACCAATTTGGCACTCAGTGCCTCATCGGAATGTCTAAAG
TATACATTGCGCCCAGTGCTCATCGATATAATCGCAGTAAAAAAGTGTACCTAGCACTCATCGGA
ACGTCCGAAGTATAATGTGCCCAACACTCATTGACATATAACCGAAGTATAACATGTACTTAATC
TAATCCTAAGGCATGCCAACTATATCTAACTTTTCCCGAACAGTTAATAGGGTACTAATGATTCA
ATAACATATTATAACTAATTCATATATCATAATCTCATTTTATTTCATCATCAAATCACATAACA
TGCCATTATCAAATTCTTATCATGCTCATTTGTGAAATTGACATTTCAATTCAATTCTTAACACA
TTATTCTCCAATACGAATTAATTCATTTGAAAGGAATAAGCTTACCTCGATAGCTAACCATGCAA
TCAACATATATATGCATATAATTATAATGATCTCGAATCATAAAAGTACGAATCAAAATTGTGAC
AATCTGACGTTGTCTTTAGCTATGTTCGATAATACTCTAAAATGTTATACTTTTATATGTTAATT
AAATATATATTTTGAGTATGATCCTACTAATTTAGGATTTTTATGGTCCTTTATCTTGTAGGGAT
TAAATTGAAGAAAAAAAGAAATTTAGGGGCAAAAAGCATGAATTTAAAGACGAAACAGGTCAGCA
TGCTAAATAGAGAAGAAATGGTGTCGAAAATACAAAATGTGAAAGACTTGGGGCAAAAATTCAAA
GAAGAGATTTCTAAACATAATACTTTATTTAAATTTAACTTTTATTTTTAGGATTATTGTTAGGA
TTACTATGATATTATTTAGATTTAAT
Found at i:20134375 original size:11 final size:11
Alignment explanation
Indices: 20134346--20134394 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
20134336 TCGGTCACTC
*
20134346 TCAACAAAAAT
1 TCAAAAAAAAT
20134357 TACAAAAAAAAAT
1 T-C-AAAAAAAAT
20134370 TC---AAAAAT
1 TCAAAAAAAAT
20134378 TCAAAAAAAAT
1 TCAAAAAAAAT
20134389 TCAAAA
1 TCAAAA
20134395 TAATTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
8 8 0.25
11 13 0.41
12 2 0.06
13 9 0.28
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.18
Consensus pattern (11 bp):
TCAAAAAAAAT
Found at i:20134385 original size:19 final size:21
Alignment explanation
Indices: 20134350--20134394 Score: 76
Period size: 19 Copynumber: 2.2 Consensus size: 21
20134340 TCACTCTCAA
20134350 CAAAAATTACAAAAAAAAATT
1 CAAAAATTACAAAAAAAAATT
20134371 CAAAAATT-C-AAAAAAAATT
1 CAAAAATTACAAAAAAAAATT
20134390 CAAAA
1 CAAAA
20134395 TAATTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 15 0.62
20 1 0.04
21 8 0.33
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (21 bp):
CAAAAATTACAAAAAAAAATT
Found at i:20134425 original size:19 final size:19
Alignment explanation
Indices: 20134362--20134434 Score: 78
Period size: 19 Copynumber: 3.8 Consensus size: 19
20134352 AAAATTACAA
*
20134362 AAAAAAATTCAAAA-ATTCA
1 AAAAAAATTCAAAATATT-T
20134381 AAAAAAATTCAAAATAATTT
1 AAAAAAATTCAAAAT-ATTT
**
20134401 -TTAAAATTCAAAATATTT
1 AAAAAAATTCAAAATATTT
20134419 AAAAAAATTCCAAAAT
1 AAAAAAATT-CAAAAT
20134435 TTATATAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 4 0.09
19 32 0.71
20 6 0.13
21 3 0.07
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAAAATTCAAAATATTT
Found at i:20138810 original size:30 final size:31
Alignment explanation
Indices: 20138741--20138812 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
20138731 AAAATGTTAA
* * *
20138741 TGAGTGACCGATTTGTCATTTTTCGATAATG
1 TGAGTGACTGATTTATCATTTTTCGATAAGG
* *
20138772 TTAGTGACTGATTTATTATTTTTCGA-AAGG
1 TGAGTGACTGATTTATCATTTTTCGATAAGG
20138802 TGAGTGACTGA
1 TGAGTGACTGA
20138813 ATTGAAATCA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
30 13 0.37
31 22 0.63
ACGTcount: A:0.25, C:0.10, G:0.24, T:0.42
Consensus pattern (31 bp):
TGAGTGACTGATTTATCATTTTTCGATAAGG
Found at i:20144228 original size:16 final size:17
Alignment explanation
Indices: 20144203--20144236 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
20144193 ATATATTTTC
20144203 ATATAATTTATA-AAAA
1 ATATAATTTATATAAAA
*
20144219 ATATATTTTATATAAAA
1 ATATAATTTATATAAAA
20144236 A
1 A
20144237 ATTATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTATATAAAA
Found at i:20144255 original size:19 final size:19
Alignment explanation
Indices: 20144233--20144270 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
20144223 ATTTTATATA
20144233 AAAAATTATAAA-AAAAAAT
1 AAAAATT-TAAATAAAAAAT
*
20144252 AAAACTTTAAATAAAAAAT
1 AAAAATTTAAATAAAAAAT
20144271 CAAATTCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAATTTAAATAAAAAAT
Found at i:20144380 original size:16 final size:15
Alignment explanation
Indices: 20144359--20144390 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20144349 TTTTTTTAGA
20144359 ATATTTTATATTTTTT
1 ATATTTT-TATTTTTT
20144375 ATATTTTTATTTTTT
1 ATATTTTTATTTTTT
20144390 A
1 A
20144391 GATAATAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
ATATTTTTATTTTTT
Found at i:20149518 original size:16 final size:16
Alignment explanation
Indices: 20149482--20149547 Score: 50
Period size: 15 Copynumber: 4.2 Consensus size: 16
20149472 TCCTTTCGCT
20149482 TTTTTGCTCCTTTTTA
1 TTTTTGCTCCTTTTTA
*
20149498 GTTTTG-TCCTATTTTA
1 TTTTTGCTCCT-TTTTA
* *
20149514 TTTTT-AT-TTTCTTTA
1 TTTTTGCTCCTT-TTTA
*
20149529 TTTTTAC-CCTTTTTA
1 TTTTTGCTCCTTTTTA
20149544 TTTT
1 TTTT
20149548 ATTCTTGTGC
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
14 1 0.03
15 22 0.55
16 17 0.43
ACGTcount: A:0.11, C:0.14, G:0.05, T:0.71
Consensus pattern (16 bp):
TTTTTGCTCCTTTTTA
Found at i:20149714 original size:43 final size:43
Alignment explanation
Indices: 20149629--20149715 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
20149619 GATAATGGTG
* * *
20149629 AATCTTATCTCCTGAAGTTGCAGTGGAGTAAGATGAAGCTACA
1 AATCTTATCCCCTAAAGTTGCAGTGGAGTAAGATGAAACTACA
*
20149672 AATCTTATACCCCTAAAGTTGCAGTGG-GTCAGAAT-AAACTACA
1 AATCTTAT-CCCCTAAAGTTGCAGTGGAGTAAG-ATGAAACTACA
20149715 A
1 A
20149716 CAATAAATCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 20 0.53
44 18 0.47
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (43 bp):
AATCTTATCCCCTAAAGTTGCAGTGGAGTAAGATGAAACTACA
Found at i:20150098 original size:15 final size:15
Alignment explanation
Indices: 20150078--20150110 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
20150068 CCTAACCCTA
20150078 AAAGCCCAAACA-CCC
1 AAAGCCC-AACAGCCC
20150093 AAAGCCCAACAGCCC
1 AAAGCCCAACAGCCC
20150108 AAA
1 AAA
20150111 ACCTAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.48, C:0.42, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAGCCCAACAGCCC
Found at i:20151838 original size:17 final size:17
Alignment explanation
Indices: 20151809--20151850 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
20151799 ATAAATAAAT
*
20151809 AATTAAA-TAAATTGGA
1 AATTAAATTAAATTGAA
20151825 AATTAAATTAAATTGAA
1 AATTAAATTAAATTGAA
20151842 AATTAAATT
1 AATTAAATT
20151851 CAGATTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (17 bp):
AATTAAATTAAATTGAA
Found at i:20156623 original size:17 final size:16
Alignment explanation
Indices: 20156569--20156631 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
20156559 TATTATTTTG
20156569 AAAAATATATATAA-TA
1 AAAAATATATA-AATTA
*
20156585 TAAAAT-TATAAATTTA
1 AAAAATATATAAA-TTA
*
20156601 TGAAAATATATACAATTA
1 -AAAAATATATA-AATTA
20156619 AAAAATATATAAA
1 AAAAATATATAAA
20156632 AAAACCTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 2 0.05
15 4 0.10
16 9 0.23
17 15 0.38
18 7 0.18
19 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
AAAAATATATAAATTA
Found at i:20161075 original size:13 final size:14
Alignment explanation
Indices: 20161042--20161076 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
20161032 AATTTATTTT
*
20161042 TTAAAAATTTAAAA
1 TTAATAATTTAAAA
20161056 TTAATAATTTAAAA
1 TTAATAATTTAAAA
20161070 -TAATAAT
1 TTAATAAT
20161077 ATTTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TTAATAATTTAAAA
Found at i:20161103 original size:22 final size:22
Alignment explanation
Indices: 20161078--20161133 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
20161068 AATAATAATA
*
20161078 TTTTTTTAA-AAAAATTCCAAG
1 TTTTTATAATAAAAATTCCAAG
* *
20161099 TTTTTATAATATAAATTCCATG
1 TTTTTATAATAAAAATTCCAAG
20161121 TTTTT-TAAATAAA
1 TTTTTAT-AATAAA
20161134 TTCGAGTGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 9 0.31
22 20 0.69
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (22 bp):
TTTTTATAATAAAAATTCCAAG
Found at i:20162636 original size:11 final size:10
Alignment explanation
Indices: 20162622--20162719 Score: 76
Period size: 11 Copynumber: 9.5 Consensus size: 10
20162612 AAAAATTAAA
20162622 AAAAGTATTTT
1 AAAA-TATTTT
20162633 AAAATTATTTT
1 AAAA-TATTTT
***
20162644 AAAAT-TAAA
1 AAAATATTTT
20162653 AAAAGTATTTT
1 AAAA-TATTTT
20162664 AAAATATTTT
1 AAAATATTTT
20162674 AAAAATATTTT
1 -AAAATATTTT
**
20162685 -AAAT-TTAA
1 AAAATATTTT
20162693 AAAAGTATTTT
1 AAAA-TATTTT
20162704 AAAAATATTTT
1 -AAAATATTTT
20162715 AAAAT
1 AAAAT
20162720 TAAAAAAAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 15
0.73 0.12 0.16
Matches are distributed among these distances:
8 2 0.03
9 12 0.17
10 14 0.20
11 37 0.54
12 4 0.06
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (10 bp):
AAAATATTTT
Found at i:20162642 original size:41 final size:39
Alignment explanation
Indices: 20162591--20162739 Score: 154
Period size: 41 Copynumber: 3.6 Consensus size: 39
20162581 TAAAATACCA
**
20162591 AAAATTTATTTTAAAAATTAAAAAAATTAAAAAAAGTATTTT
1 AAAA-TTATTTT-AAAATTAAAAAAATTTTAAAAA-TATTTT
*
20162633 AAAATTATTTTAAAATTAAAAAAAGTATTTTAAAATATTTT
1 AAAATTATTTTAAAATTAAAAAAA-T-TTTAAAAATATTTT
* *
20162674 AAAAATATTTTAAATTTAAAAAAGTATTTTAAAAATATTTT
1 AAAATTATTTTAAAATTAAAAAA--ATTTTAAAAATATTTT
****
20162715 AAAATTAAAAAAAAATTAAAAAAAT
1 AAAATTATTTTAAAATTAAAAAAAT
20162740 AAATATATTT
Statistics
Matches: 91, Mismatches: 12, Indels: 11
0.80 0.11 0.10
Matches are distributed among these distances:
39 2 0.02
40 13 0.14
41 65 0.71
42 10 0.11
43 1 0.01
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (39 bp):
AAAATTATTTTAAAATTAAAAAAATTTTAAAAATATTTT
Found at i:20162679 original size:31 final size:31
Alignment explanation
Indices: 20162597--20162679 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
20162587 ACCAAAAATT
**
20162597 TATTTTAAAA-ATTAAAAAAATTAAAAAAAG
1 TATTTTAAAATATTTTAAAAATTAAAAAAAG
20162627 TATTTTAAAATTATTTT-AAAATTAAAAAAAG
1 TATTTTAAAA-TATTTTAAAAATTAAAAAAAG
20162658 TATTTTAAAATATTTTAAAAAT
1 TATTTTAAAATATTTTAAAAAT
20162680 ATTTTAAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
30 16 0.33
31 29 0.60
32 3 0.06
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (31 bp):
TATTTTAAAATATTTTAAAAATTAAAAAAAG
Found at i:20162702 original size:30 final size:29
Alignment explanation
Indices: 20162664--20162726 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 29
20162654 AAAGTATTTT
*
20162664 AAAATATTTTAAAAATATTTTAAATTTAA
1 AAAATATTTTAAAAATATTTTAAAATTAA
20162693 AAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAA-TATTTTAAAAATATTTTAAAATTAA
20162723 AAAA
1 AAAA
20162727 AAATTAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (29 bp):
AAAATATTTTAAAAATATTTTAAAATTAA
Found at i:20162738 original size:30 final size:30
Alignment explanation
Indices: 20162674--20162740 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
20162664 AAAATATTTT
* ** **
20162674 AAAAATATTTTAAATTTAAAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAAAATTAA
20162704 AAAAATATTTTAAAATTAAAAAAAAATTAA
1 AAAAATATTTTAAAATTAAAAAAAAATTAA
20162734 AAAAATA
1 AAAAATA
20162741 AATATATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (30 bp):
AAAAATATTTTAAAATTAAAAAAAAATTAA
Found at i:20165972 original size:17 final size:17
Alignment explanation
Indices: 20165950--20165983 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20165940 ATGTCATATA
*
20165950 CTTAAAATAAAATAGTG
1 CTTAAAACAAAATAGTG
20165967 CTTAAAACAAAATAGTG
1 CTTAAAACAAAATAGTG
20165984 GAGATAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (17 bp):
CTTAAAACAAAATAGTG
Found at i:20166432 original size:29 final size:29
Alignment explanation
Indices: 20166355--20166433 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
20166345 CGTAGGATAT
* *
20166355 ACAGAAATAGTACCGAAGTGCTATAACAGA
1 ACAG-AATAGCACCGAAGTGCCATAACAGA
* * **
20166385 ACAGAATAGCACTGGAGTGCCATGTCAGA
1 ACAGAATAGCACCGAAGTGCCATAACAGA
* *
20166414 ATAGAATATCACCGAAGTGC
1 ACAGAATAGCACCGAAGTGC
20166434 TTAATCAAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 35 0.90
30 4 0.10
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.18
Consensus pattern (29 bp):
ACAGAATAGCACCGAAGTGCCATAACAGA
Found at i:20169028 original size:177 final size:176
Alignment explanation
Indices: 20168588--20169109 Score: 721
Period size: 176 Copynumber: 3.0 Consensus size: 176
20168578 TTGAGGCATC
* * *
20168588 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTCAAATTTGTGCGAAATATGGGGAGCAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTCAAATTTGAGCAAAATATAGGGAGCAAAA
* *
20168653 CTAAAATTTAGCTATTCTTATATACTCTTTAAAAAGTTGATGGATTAGAACTGAAATTTAGCCAT
66 ATAAAATTTAGCCATTCTTATATA-TCTTTAAAAAGTTGATGGATTAGAACTGAAATTTAGCCAT
* * *
20168718 AATTTTCTATGACAATAGAAAA-GAAAAAAAGAATGGATATGTGTCT
130 AATTTTCTATGTCAAAAGAAAAGGAAAAAAAGAATGGACATGTGTCT
* *
20168764 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTCAAATTTAAGCTAAATATAGGGAGCAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTCAAATTTGAGCAAAATATAGGGAGCAAAA
* * *
20168829 ATGAAATTTAGCCATTCTTATATCATCTTTAAAAATTTGATGGATTAGAATTGAAATTTAGCCAT
66 ATAAAATTTAGCCATTCTTATAT-ATCTTTAAAAAGTTGATGGATTAGAACTGAAATTTAGCCAT
*
20168894 AATTTTCTATGTCAAAAGAAAAGGAAAAAAAGAATGGCCATGTGTCT
130 AATTTTCTATGTCAAAAGAAAAGGAAAAAAAGAATGGACATGTGTCT
* * * *
20168941 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTTAAATTTGAGCAAAATACAGAGATCAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTCAAATTTGAGCAAAATATAGGGAGCAAAA
* * * * *
20169006 TTAAAATTT-GACCATACTTATATAATC-TTAAAAAGGTAGAGGGATTAGAACTAAAATTTAGCC
66 ATAAAATTTAG-CCATTCTTATAT-ATCTTTAAAAA-GTTGATGGATTAGAACTGAAATTTAGCC
* * *
20169069 ACTATTTTTTTATGTCAAAAAAAAAGG--AAAAAGAATGGACA
128 A-TAATTTTCTATGTCAAAAGAAAAGGAAAAAAAGAATGGACA
20169110 AGTATAGAAA
Statistics
Matches: 309, Mismatches: 32, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
176 160 0.52
177 127 0.41
178 22 0.07
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (176 bp):
AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTCAAATTTGAGCAAAATATAGGGAGCAAAA
ATAAAATTTAGCCATTCTTATATATCTTTAAAAAGTTGATGGATTAGAACTGAAATTTAGCCATA
ATTTTCTATGTCAAAAGAAAAGGAAAAAAAGAATGGACATGTGTCT
Found at i:20169240 original size:151 final size:150
Alignment explanation
Indices: 20168958--20169240 Score: 360
Period size: 151 Copynumber: 1.9 Consensus size: 150
20168948 GTCAAAATTA
* * * *
20168958 AAGTATAGAGATTAAATCTTAAATTTGAGCAAAATACAGAGATCAAAATTAAAATTTGACCATAC
1 AAGTATAGAAATTAAATATCAAATTTGAGCAAAATACAGAGATCAAAATTAAAATTTAACCATAC
* * *** *
20169023 TTATATAATCTTAAAAAGGTAGAGGGATTAGAACTAAAATTTAGCCACTATTTTTTTATGTCAAA
66 TTATATAATCTTAAAAA-GTAGAGGGATTAAAACTAAAATTTAACCACTATTTTAACATGTAAAA
20169088 AAAAAAGGAAAAAGAATGGAC
130 AAAAAAGGAAAAAGAATGGAC
* *
20169109 AAGTATAGAAATTAAATATCAAATTTGAGTGAAATATA-AGA-ATTAAAATTAAAATTTAACCAT
1 AAGTATAGAAATTAAATATCAAATTTGAG-CAAA-ATACAGAGATCAAAATTAAAATTTAACCAT
* *
20169172 TCTTATATAAT-TCTAAAAA-TAGAAGGG-TTAAAACTAAAATTTAACCATTATTTTAACATGTA
64 ACTTATATAATCT-TAAAAAGTAG-AGGGATTAAAACTAAAATTTAACCACTATTTTAACATGTA
20169234 AAAAAAA
127 AAAAAAA
20169241 GGAATCGACA
Statistics
Matches: 114, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
149 38 0.33
150 5 0.04
151 62 0.54
152 6 0.05
153 3 0.03
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (150 bp):
AAGTATAGAAATTAAATATCAAATTTGAGCAAAATACAGAGATCAAAATTAAAATTTAACCATAC
TTATATAATCTTAAAAAGTAGAGGGATTAAAACTAAAATTTAACCACTATTTTAACATGTAAAAA
AAAAAGGAAAAAGAATGGAC
Found at i:20171632 original size:30 final size:30
Alignment explanation
Indices: 20171597--20171666 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
20171587 ACCAAAAAAA
*
20171597 GCCGATTTTTTTCAAAATTTATCGAAATGG
1 GCCGATTTTTTTCAAAATTTACCGAAATGG
* ** *
20171627 GCCGATTTTTTTGATTATTTACCGGAATGG
1 GCCGATTTTTTTCAAAATTTACCGAAATGG
20171657 GCC-ATTTTTT
1 GCCGATTTTTT
20171667 GGGAAATCGC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 7 0.20
30 28 0.80
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (30 bp):
GCCGATTTTTTTCAAAATTTACCGAAATGG
Found at i:20171751 original size:13 final size:13
Alignment explanation
Indices: 20171733--20171759 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20171723 ACGTCAGCGC
20171733 GACCTGCTGACGT
1 GACCTGCTGACGT
20171746 GACCTGCTGACGT
1 GACCTGCTGACGT
20171759 G
1 G
20171760 GATGCGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GACCTGCTGACGT
Found at i:20171933 original size:22 final size:22
Alignment explanation
Indices: 20171906--20171956 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
20171896 CTCTCTAATC
20171906 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
20171928 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
20171950 CTCTCAA
1 CTCTCAA
20171957 ACCCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:20171989 original size:51 final size:51
Alignment explanation
Indices: 20171928--20172040 Score: 199
Period size: 51 Copynumber: 2.2 Consensus size: 51
20171918 TTCCAAAATT
20171928 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
* *
20171979 CTCTTAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
*
20172030 CCCTCAATTTC
1 CTCTCAATTTC
20172041 ATTTTTTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.28, C:0.29, G:0.00, T:0.42
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
Found at i:20172075 original size:30 final size:30
Alignment explanation
Indices: 20172041--20172105 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
20172031 CCTCAATTTC
20172041 ATTTTTT-AAAATAATTTTAATTTTTTTTAT
1 ATTTTTTAAAAATAATTTTAA-TTTTTTTAT
20172071 ATTTTTTAAAAATAATTTTAATTTTTTTAT
1 ATTTTTTAAAAATAATTTTAATTTTTTTAT
20172101 ATTTT
1 ATTTT
20172106 CATCAATGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 21 0.62
31 13 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (30 bp):
ATTTTTTAAAAATAATTTTAATTTTTTTAT
Found at i:20179398 original size:126 final size:125
Alignment explanation
Indices: 20179077--20179423 Score: 619
Period size: 126 Copynumber: 2.8 Consensus size: 125
20179067 NNNNNNNNNN
20179077 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
1 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
*
20179142 GGCGATTTTATACTATTTGCTCAAAAACGTC--AAAAAAATTATTTCTTACATGACCTAC
66 GGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGACCTAC
20179200 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
1 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
20179265 GGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAATTATTTCTTACATGACCTAC
66 GGCGATTTTATACTATTTGCTCAGAAACGTC-AAAAAAAAATTATTTCTTACATGACCTAC
*
20179326 TGTAGCAAAATCGCGTCCACGAGGGCGGGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
1 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
* *
20179391 AGCGATTTTATATTATTTGAC-CAGAAACGTCAA
66 GGCGATTTTATACTATTTG-CTCAGAAACGTCAA
20179424 CTCGAAATAA
Statistics
Matches: 216, Mismatches: 4, Indels: 6
0.96 0.02 0.03
Matches are distributed among these distances:
123 95 0.44
125 2 0.01
126 118 0.55
127 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (125 bp):
TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
GGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGACCTAC
Found at i:20179471 original size:10 final size:9
Alignment explanation
Indices: 20179446--20179471 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
20179436 TATTCCGGGA
20179446 CCTAAAAAC
1 CCTAAAAAC
20179455 CCTAAAAAC
1 CCTAAAAAC
20179464 CCTAAAAA
1 CCTAAAAA
20179472 TCCTGAACCC
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:0.58, C:0.31, G:0.00, T:0.12
Consensus pattern (9 bp):
CCTAAAAAC
Found at i:20179704 original size:29 final size:29
Alignment explanation
Indices: 20179644--20179703 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
20179634 GATTTCCCGG
*
20179644 AAAAT-GGCCCATTCCGGTAAATAATAAA
1 AAAATCGGCCCATTCCGATAAATAATAAA
* *
20179672 AAAATCGGCCCATTTCGATAAAT-TTAAA
1 AAAATCGGCCCATTCCGATAAATAATAAA
20179700 AAAA
1 AAAA
20179704 AACGGCTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.23
Consensus pattern (29 bp):
AAAATCGGCCCATTCCGATAAATAATAAA
Found at i:20182629 original size:80 final size:80
Alignment explanation
Indices: 20182527--20182683 Score: 314
Period size: 80 Copynumber: 2.0 Consensus size: 80
20182517 TTAATACTAA
20182527 AACATACATAACATAGAAACAATAACCCTAAGCCTTAAACCTACCTAATATTTCTAACCATATAA
1 AACATACATAACATAGAAACAATAACCCTAAGCCTTAAACCTACCTAATATTTCTAACCATATAA
20182592 TTAGTCCACATACAT
66 TTAGTCCACATACAT
20182607 AACATACATAACATAGAAACAATAACCCTAAGCCTTAAACCTACCTAATATTTCTAACCATATAA
1 AACATACATAACATAGAAACAATAACCCTAAGCCTTAAACCTACCTAATATTTCTAACCATATAA
20182672 TTAGTCCACATA
66 TTAGTCCACATA
20182684 ATTTGTGCAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.45, C:0.25, G:0.04, T:0.26
Consensus pattern (80 bp):
AACATACATAACATAGAAACAATAACCCTAAGCCTTAAACCTACCTAATATTTCTAACCATATAA
TTAGTCCACATACAT
Found at i:20184065 original size:41 final size:41
Alignment explanation
Indices: 20184019--20184130 Score: 157
Period size: 34 Copynumber: 2.9 Consensus size: 41
20184009 ATAATTGCAT
*
20184019 TAATAATTTTTTGATAAATTAAGCTACTTTCTTTGTAATTC
1 TAATAATTTTTTGAGAAATTAAGCTACTTTCTTTGTAATTC
*
20184060 TAATAATTTTTTGAGAAATTAAGCTA----C-TT-T-ATTT
1 TAATAATTTTTTGAGAAATTAAGCTACTTTCTTTGTAATTC
20184094 TAATAATTTTTTGAGAAATTAAGCTACTTTCTTTGTA
1 TAATAATTTTTTGAGAAATTAAGCTACTTTCTTTGTA
20184131 TCAATACTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
34 29 0.47
35 1 0.02
36 2 0.03
37 1 0.02
38 1 0.02
39 2 0.03
40 1 0.02
41 25 0.40
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.50
Consensus pattern (41 bp):
TAATAATTTTTTGAGAAATTAAGCTACTTTCTTTGTAATTC
Found at i:20186200 original size:4 final size:4
Alignment explanation
Indices: 20186191--20186293 Score: 134
Period size: 4 Copynumber: 25.5 Consensus size: 4
20186181 AACATAAATG
* * * * * *
20186191 TGTA TGTA TGTA TGTA TGCA TGTA TGCA TGCA TGCA TGCA TGCA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
20186239 TGTA TGTA TGGA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTAA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT-A
20186288 TGTA TG
1 TGTA TG
20186294 CTGCCCTTAC
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
4 88 0.96
5 4 0.04
ACGTcount: A:0.25, C:0.06, G:0.26, T:0.43
Consensus pattern (4 bp):
TGTA
Found at i:20187299 original size:22 final size:21
Alignment explanation
Indices: 20187247--20187300 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
20187237 AATAAAAATT
* *
20187247 TTATTAATGATATTAAATTAAA
1 TTATTTAT-ATATTAAAATAAA
* *
20187269 ATATGTATATATTAAAAATAAA
1 TTATTTATATATT-AAAATAAA
20187291 TTATTTATAT
1 TTATTTATAT
20187301 TTATATTTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (21 bp):
TTATTTATATATTAAAATAAA
Found at i:20187301 original size:6 final size:6
Alignment explanation
Indices: 20187292--20187328 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
20187282 AAAAATAAAT
20187292 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA T
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA T
20187329 GTTAAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:20188115 original size:19 final size:20
Alignment explanation
Indices: 20188091--20188128 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
20188081 ACTTTCGCCG
*
20188091 CCTCCAACTACCAT-TGTCT
1 CCTCCAACAACCATATGTCT
20188110 CCTCCAACAACCATATGTC
1 CCTCCAACAACCATATGTC
20188129 ATTACCAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.26, C:0.42, G:0.05, T:0.26
Consensus pattern (20 bp):
CCTCCAACAACCATATGTCT
Found at i:20195751 original size:16 final size:17
Alignment explanation
Indices: 20195713--20195756 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
20195703 CATAAACAAG
20195713 TAACATCATTATTGATA
1 TAACATCATTATTGATA
20195730 TAACATCATT-TT-ATA
1 TAACATCATTATTGATA
20195745 TTAACAT-ATTAT
1 -TAACATCATTAT
20195757 ATTGCGTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.24
16 9 0.36
17 10 0.40
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.45
Consensus pattern (17 bp):
TAACATCATTATTGATA
Found at i:20205434 original size:23 final size:23
Alignment explanation
Indices: 20205407--20205482 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
20205397 AATAGTGCCA
20205407 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
20205430 TACTGGA-ATGTAGCCGAAGCTAC
1 CACT-GATATGTAGCCGAAGCTAC
* *
20205453 CACTGAGATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
20205476 CACTGAT
1 CACTGAT
20205483 CAATAACACT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
22 2 0.04
23 43 0.91
24 2 0.04
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:20206220 original size:46 final size:47
Alignment explanation
Indices: 20206167--20206264 Score: 171
Period size: 46 Copynumber: 2.1 Consensus size: 47
20206157 TAAAACTTGT
**
20206167 AATTAACACTTCAAACATTTTTTATCTAACATCACTAATCAATTTA-
1 AATTAACACTTCAAACATTCATTATCTAACATCACTAATCAATTTAC
20206213 AATTAACACTTCAAACATTCATTATCTAACATCACTAATCAATTTAC
1 AATTAACACTTCAAACATTCATTATCTAACATCACTAATCAATTTAC
20206260 AATTA
1 AATTA
20206265 TATCATGAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 44 0.90
47 5 0.10
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (47 bp):
AATTAACACTTCAAACATTCATTATCTAACATCACTAATCAATTTAC
Found at i:20217794 original size:13 final size:13
Alignment explanation
Indices: 20217776--20217852 Score: 93
Period size: 13 Copynumber: 5.9 Consensus size: 13
20217766 AGTTTGGCAA
20217776 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
20217789 TGCTTTTCAAAAG
1 TGCTTTTGAAAAG
* *
20217802 TG-TTGTGGAAATG
1 TGCTT-TTGAAAAG
*
20217815 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
20217828 TGCTTTTGATAAG
1 TGCTTTTGAAAAG
20217841 TGCTTTTGAAAA
1 TGCTTTTGAAAA
20217853 ATTTGGTTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
12 2 0.04
13 49 0.92
14 2 0.04
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:20218355 original size:17 final size:20
Alignment explanation
Indices: 20218333--20218371 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
20218323 ATTGACCTGC
20218333 AAACAA-CA-CAAAAAA-AG
1 AAACAAGCAGCAAAAAACAG
20218350 AAACAAGCAGCAAAAAACAG
1 AAACAAGCAGCAAAAAACAG
20218370 AA
1 AA
20218372 TATCAGCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 2 0.11
19 7 0.37
20 4 0.21
ACGTcount: A:0.72, C:0.18, G:0.10, T:0.00
Consensus pattern (20 bp):
AAACAAGCAGCAAAAAACAG
Found at i:20226127 original size:21 final size:21
Alignment explanation
Indices: 20226102--20226175 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
20226092 AGTGCTAAAT
20226102 TGAAACCCATAAGGGTTGAA-
1 TGAAACCCATAAGGGTTGAAC
* *
20226122 TGGAAACACAT-AGGAGCTGAAC
1 T-GAAACCCATAAGG-GTTGAAC
*
20226144 TGAAACCCATAAGGGTTAAAC
1 TGAAACCCATAAGGGTTGAAC
* *
20226165 AGAAACTCATA
1 TGAAACCCATA
20226176 TGAGTTAAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
20 4 0.09
21 35 0.81
22 4 0.09
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.18
Consensus pattern (21 bp):
TGAAACCCATAAGGGTTGAAC
Found at i:20226295 original size:24 final size:24
Alignment explanation
Indices: 20226261--20226308 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
20226251 TACTTGGGTA
*
20226261 ATTTACTGTCAATTCATCCTTTGC
1 ATTTACCGTCAATTCATCCTTTGC
20226285 ATTTACCGTCAATTCATCCTTTGC
1 ATTTACCGTCAATTCATCCTTTGC
20226309 CATAAGAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.27, G:0.08, T:0.44
Consensus pattern (24 bp):
ATTTACCGTCAATTCATCCTTTGC
Found at i:20228967 original size:51 final size:51
Alignment explanation
Indices: 20228908--20229044 Score: 197
Period size: 51 Copynumber: 2.7 Consensus size: 51
20228898 CAATGTTATC
20228908 CGGTGCACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-ATACCATT
1 CGGTGCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATA-ACCATT
*
20228959 CGGTGCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAACTATT
1 CGGTGCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATT
* * * *
20229010 -GTATACTCATAGTAGCCTGCACATAGTACTACACA
1 CG-GTGCACGTAGTAGCCTGCACATAGTACTACACA
20229045 TGAGTTCTCA
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
50 1 0.01
51 77 0.97
52 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (51 bp):
CGGTGCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATT
Found at i:20231794 original size:51 final size:50
Alignment explanation
Indices: 20231726--20231872 Score: 180
Period size: 51 Copynumber: 3.0 Consensus size: 50
20231716 ATCACATTTA
20231726 TCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCAACCACTTATCACTTG
1 TCACTTGTCACTAATCAGATAAGTGTAGCTAAAGC-ACCACTTATCACTTG
* *
20231777 TCACTTGTCACTAATCAGATAAGTGTAGTTAAAG-----C-TATCACTTA
1 TCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCACCACTTATCACTTG
* * * *
20231821 TTACTTGTCACTGATCAGATAAGTGTATCTAAAGCTACCATTTATCACTTG
1 TCACTTGTCACTAATCAGATAAGTGTAGCTAAAGC-ACCACTTATCACTTG
20231872 T
1 T
20231873 TACTGATCAA
Statistics
Matches: 81, Mismatches: 8, Indels: 14
0.79 0.08 0.14
Matches are distributed among these distances:
44 38 0.47
45 1 0.01
51 42 0.52
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (50 bp):
TCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCACCACTTATCACTTG
Found at i:20231816 original size:44 final size:44
Alignment explanation
Indices: 20231768--20231881 Score: 158
Period size: 44 Copynumber: 2.6 Consensus size: 44
20231758 AGCAACCACT
* *
20231768 TATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGT-TAAAGC
1 TATCACTTATCACTTGTCACTGATCAGATAAGTGTA-TCTAAAGC
*
20231812 TATCACTTATTACTTGTCACTGATCAGATAAGTGTATCTAAAGC
1 TATCACTTATCACTTGTCACTGATCAGATAAGTGTATCTAAAGC
* * *
20231856 TACCATTTATCACTTGTTACTGATCA
1 TATCACTTATCACTTGTCACTGATCA
20231882 AAAGTACTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 1 0.02
44 61 0.98
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (44 bp):
TATCACTTATCACTTGTCACTGATCAGATAAGTGTATCTAAAGC
Found at i:20233706 original size:18 final size:17
Alignment explanation
Indices: 20233673--20233711 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
20233663 TTGTATAAAT
20233673 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
20233691 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
20233708 TGTG
1 TGTG
20233712 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:20233964 original size:23 final size:23
Alignment explanation
Indices: 20233937--20234034 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
20233927 AGTGTTATTG
20233937 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
20233960 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
20233983 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
20234005 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
20234028 ATCAGTG
1 ATCAGTG
20234035 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:20234003 original size:45 final size:45
Alignment explanation
Indices: 20233939--20234027 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
20233929 TGTTATTGAT
* *
20233939 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
20233984 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
20234028 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:20241078 original size:18 final size:17
Alignment explanation
Indices: 20241045--20241083 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
20241035 TTGTATAAAT
20241045 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
20241063 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
20241080 TGTG
1 TGTG
20241084 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:20241336 original size:23 final size:23
Alignment explanation
Indices: 20241309--20241406 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
20241299 AGTGTTATTG
20241309 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
20241332 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
20241355 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
20241377 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
20241400 ATCAGTG
1 ATCAGTG
20241407 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:20241375 original size:45 final size:45
Alignment explanation
Indices: 20241311--20241399 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
20241301 TGTTATTGAT
* *
20241311 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
20241356 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
20241400 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:20245247 original size:9 final size:9
Alignment explanation
Indices: 20245229--20245326 Score: 56
Period size: 9 Copynumber: 10.6 Consensus size: 9
20245219 GAGGCATGCT
20245229 CAGCAACAG
1 CAGCAACAG
20245238 CAGCATCAGCAG
1 CAGCA--A-CAG
* *
20245250 CAACAACAA
1 CAGCAACAG
20245259 CAGCAACAG
1 CAGCAACAG
* *
20245268 C-GACAGCAA
1 CAG-CAACAG
20245277 CAGCAACAG
1 CAGCAACAG
* * *
20245286 CAACAGCAA
1 CAGCAACAG
20245295 CAGCAACAG
1 CAGCAACAG
*
20245304 CCA-CAACAC
1 -CAGCAACAG
*
20245313 CAGCAGCAG
1 CAGCAACAG
20245322 CAGCA
1 CAGCA
20245327 GCAAAGAGAA
Statistics
Matches: 65, Mismatches: 17, Indels: 14
0.68 0.18 0.15
Matches are distributed among these distances:
8 3 0.05
9 50 0.77
10 4 0.06
11 1 0.02
12 7 0.11
ACGTcount: A:0.45, C:0.36, G:0.18, T:0.01
Consensus pattern (9 bp):
CAGCAACAG
Done.