Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 50 of 199
Found at i:19851689 original size:72 final size:73
Alignment explanation
Indices: 19851574--19851729 Score: 170
Period size: 72 Copynumber: 2.2 Consensus size: 73
19851564 ATATAACTTA
* * ** * * *
19851574 AATAAACGGTTTTACTTAATATCGTAACTCAATGAATTGAACTAAA-ATAGCATTTTTAAAAACA
1 AATAAACGGTTCTAATTAATATCAAAACTCAATAAATTCAACTAAATATAACATTTTTAAAAACA
*
19851638 CATAATTG
66 CACAATTG
* * * * * *
19851646 AATAAACGGTTCTAATTAATATCAAAATTTAATAAATTCAACTAAATTTAACTTTTTTTAAAACG
1 AATAAACGGTTCTAATTAATATCAAAACTCAATAAATTCAACTAAATATAACATTTTTAAAAACA
19851711 CACAATTG
66 CACAATTG
*
19851719 AATAAGCGGTT
1 AATAAACGGTT
19851730 TTACTATGTA
Statistics
Matches: 68, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
72 38 0.56
73 30 0.44
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (73 bp):
AATAAACGGTTCTAATTAATATCAAAACTCAATAAATTCAACTAAATATAACATTTTTAAAAACA
CACAATTG
Found at i:19853927 original size:28 final size:23
Alignment explanation
Indices: 19853868--19853917 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
19853858 TTCCTTTCCT
19853868 TGTTCTTTTGAGTTTTGTTTAAA
1 TGTTCTTTTGAGTTTTGTTTAAA
19853891 TGTTCTTTTGAGTTTTGTTTAAA
1 TGTTCTTTTGAGTTTTGTTTAAA
19853914 TGTT
1 TGTT
19853918 TGATTCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.16, C:0.04, G:0.18, T:0.62
Consensus pattern (23 bp):
TGTTCTTTTGAGTTTTGTTTAAA
Found at i:19855107 original size:2 final size:2
Alignment explanation
Indices: 19855100--19855126 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19855090 CATCAAACAA
19855100 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
19855127 AAAAAAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:19857350 original size:16 final size:16
Alignment explanation
Indices: 19857329--19857367 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
19857319 TTTTAATAAA
19857329 ATTAAAACTAATTGTT
1 ATTAAAACTAATTGTT
* *
19857345 ATTAAAATTGATTGTT
1 ATTAAAACTAATTGTT
*
19857361 AGTAAAA
1 ATTAAAA
19857368 TTATCAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (16 bp):
ATTAAAACTAATTGTT
Found at i:19857368 original size:16 final size:16
Alignment explanation
Indices: 19857339--19857369 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19857329 ATTAAAACTA
*
19857339 ATTGTTATTAAAATTG
1 ATTGTTAGTAAAATTG
19857355 ATTGTTAGTAAAATT
1 ATTGTTAGTAAAATT
19857370 ATCAAATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (16 bp):
ATTGTTAGTAAAATTG
Found at i:19857440 original size:66 final size:59
Alignment explanation
Indices: 19857373--19857493 Score: 190
Period size: 59 Copynumber: 2.1 Consensus size: 59
19857363 TAAAATTATC
* * * *
19857373 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATATAACATTTGATTAGTA
*
19857431 AATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATATAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATATAACATTTGATTAGTA
19857490 AAAT
1 AAAT
19857494 AAACTTGATG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
58 6 0.11
59 50 0.89
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATATAACATTTGATTAGTA
Found at i:19857586 original size:23 final size:22
Alignment explanation
Indices: 19857558--19857600 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
19857548 AAATAAACTT
19857558 AAAATAAAAAATATTATATTTTA
1 AAAATAAAAAATA-TATATTTTA
19857581 AAAATAAAAAATATATATTT
1 AAAATAAAAAATATATATTT
19857601 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAATAAAAAATATATATTTTA
Found at i:19875376 original size:20 final size:20
Alignment explanation
Indices: 19875335--19875378 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
19875325 GAAGGTGGAA
*
19875335 TTAGGTATTTTGACTTCCAT
1 TTAGGTATTTTGACTTCAAT
19875355 TTAGGTATTTTG-CTTTCAAT
1 TTAGGTATTTTGAC-TTCAAT
19875375 TTAG
1 TTAG
19875379 ACATGTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.20, C:0.11, G:0.16, T:0.52
Consensus pattern (20 bp):
TTAGGTATTTTGACTTCAAT
Found at i:19888641 original size:41 final size:41
Alignment explanation
Indices: 19888576--19888759 Score: 180
Period size: 41 Copynumber: 4.5 Consensus size: 41
19888566 CAATGTTTTG
* * **
19888576 CACACTAAATGCCATCGCATAGCCGAAGCTAT-TATAATCCCA
1 CACACTAAGTGCCAT-ACATAGCCGAAGCTATCTCCAAT-CCA
* *
19888618 CACACTAAGTGCCTTACATAGCCGAAGCTATCT-CAGTCTCA
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCCAATC-CA
* **
19888659 CACACTAAGTGCCATATATAGATGAAGCTATCTCCAATCGCA
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCCAATC-CA
* *
19888701 CACA--AAGTGCCATAAATAGCCGAAGCTATCTCGAAT-CA
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCCAATCCA
* *
19888739 CACACTAAGTGCTAAACATAG
1 CACACTAAGTGCCATACATAG
19888760 TCGATTAATC
Statistics
Matches: 119, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 6 0.05
40 41 0.34
41 48 0.40
42 24 0.20
ACGTcount: A:0.36, C:0.28, G:0.14, T:0.22
Consensus pattern (41 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATCTCCAATCCA
Found at i:19888712 original size:40 final size:40
Alignment explanation
Indices: 19888594--19888750 Score: 147
Period size: 40 Copynumber: 3.9 Consensus size: 40
19888584 ATGCCATCGC
** * * *
19888594 ATAGCCGAAGCTAT-TATAATCCCACACACTAAGTGCCTTAC
1 ATAGCCGAAGCTATCTCCAAT--CACACACAAAGTGCCATAA
* * *
19888635 ATAGCCGAAGCTATCT-CAGTCTCACACACTAAGTGCCATAT
1 ATAGCCGAAGCTATCTCCA--ATCACACACAAAGTGCCATAA
** *
19888676 ATAGATGAAGCTATCTCCAATCGCACACAAAGTGCCATAA
1 ATAGCCGAAGCTATCTCCAATCACACACAAAGTGCCATAA
* *
19888716 ATAGCCGAAGCTATCTCGAATCACACACTAAGTGC
1 ATAGCCGAAGCTATCTCCAATCACACACAAAGTGC
19888751 TAAACATAGT
Statistics
Matches: 97, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
40 47 0.48
41 46 0.47
42 3 0.03
43 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (40 bp):
ATAGCCGAAGCTATCTCCAATCACACACAAAGTGCCATAA
Found at i:19892652 original size:123 final size:123
Alignment explanation
Indices: 19892433--19892784 Score: 550
Period size: 123 Copynumber: 2.9 Consensus size: 123
19892423 TTAAACAGAT
** * * *
19892433 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA-CACCGGCACTT-AGCCTGCTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTATCACCGGCA-TTAAGCCTGCTA
* * *
19892495 GACATATAGTCTGAAATGTATCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATATA
63 GACTTAAAGTCTGAAATATATCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATATA
*
19892556 TCACCGGCATTAAGCCTGTTAGACTTAAAGTCTGAAATGTATCACCGGCATTAAGCCTGCTAGAC
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTATCACCGGCATTAAGCCTGCTAGAC
19892621 TTAAAGTCTGAAATATATCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATATA
66 TTAAAGTCTGAAATATATCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATATA
19892679 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTATCACCGGCATTAAGCCTGCTAGAC
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTATCACCGGCATTAAGCCTGCTAGAC
*
19892744 TTAAAGTCTGAATTACT-TCACCGGCATTAAGCCTGCTAGAC
66 TTAAAGTCTGAAATA-TATCACCGGCATTAAGCCTGCTAGAC
19892785 GTAACGTCCG
Statistics
Matches: 214, Mismatches: 11, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
122 5 0.02
123 206 0.96
124 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (123 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTATCACCGGCATTAAGCCTGCTAGAC
TTAAAGTCTGAAATATATCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATATA
Found at i:19892800 original size:41 final size:41
Alignment explanation
Indices: 19892433--19892784 Score: 496
Period size: 41 Copynumber: 8.6 Consensus size: 41
19892423 TTAAACAGAT
** * *
19892433 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATT-A-TA
* * * *
19892475 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAATTATA
*
19892515 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATATA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTATA
* * *
19892556 TCACCGGCATTAAGCCTGTTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTATA
*
19892597 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATATA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTATA
*
19892638 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATATA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTATA
* *
19892679 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTATA
19892720 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTACT-
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTA-TA
19892761 TCACCGGCATTAAGCCTGCTAGAC
1 TCACCGGCATTAAGCCTGCTAGAC
19892785 GTAACGTCCG
Statistics
Matches: 288, Mismatches: 17, Indels: 11
0.91 0.05 0.03
Matches are distributed among these distances:
40 4 0.01
41 279 0.97
42 5 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTATA
Found at i:19894369 original size:13 final size:13
Alignment explanation
Indices: 19894351--19894375 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19894341 CAATCAAATG
19894351 CACACAAAATAAA
1 CACACAAAATAAA
19894364 CACACAAAATAA
1 CACACAAAATAA
19894376 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:19896230 original size:14 final size:17
Alignment explanation
Indices: 19896211--19896248 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
19896201 ATTTATTTCT
19896211 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
19896225 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
19896242 TAATATA
1 TAATATA
19896249 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:19896266 original size:11 final size:11
Alignment explanation
Indices: 19896228--19896266 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
19896218 ATATTTATAA
19896228 TATAATTAATT
1 TATAATTAATT
*
19896239 TAATAATATACTT
1 T-ATAAT-TAATT
19896252 TATAATTAATT
1 TATAATTAATT
19896263 TATA
1 TATA
19896267 TATATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:19896818 original size:34 final size:34
Alignment explanation
Indices: 19896780--19896902 Score: 106
Period size: 34 Copynumber: 3.6 Consensus size: 34
19896770 TTTTGCTAGT
* *
19896780 GTATTGATTTGTTATCAGCATATTAAATG-TCACC
1 GTATTGATCTGTTATAAGCATATTAAATGCT-ACC
** **
19896814 GTATTGATCCATTATAAGCATATTATTTGCTACC
1 GTATTGATCTGTTATAAGCATATTAAATGCTACC
* * * *
19896848 GTATTGAACTGTTATGAGCATA-TAAATTTCTATC
1 GTATTGATCTGTTATAAGCATATTAAA-TGCTACC
* *
19896882 ATATTGATCTGTAATAAGCAT
1 GTATTGATCTGTTATAAGCAT
19896903 GCCATATTAC
Statistics
Matches: 69, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
33 2 0.03
34 66 0.96
35 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (34 bp):
GTATTGATCTGTTATAAGCATATTAAATGCTACC
Found at i:19898855 original size:28 final size:31
Alignment explanation
Indices: 19898806--19898862 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
19898796 TTTAATAAAA
19898806 ATATAAAAAATAATATTATT-AATATTTTAT
1 ATATAAAAAATAATATTATTAAATATTTTAT
**
19898836 ATATAAAATGTAA-ATT-TTAAATATTTT
1 ATATAAAAAATAATATTATTAAATATTTT
19898863 TAAGCATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 11 0.46
30 11 0.46
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (31 bp):
ATATAAAAAATAATATTATTAAATATTTTAT
Found at i:19900990 original size:18 final size:18
Alignment explanation
Indices: 19900964--19901005 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
19900954 TTGATATGGT
*
19900964 TGGTGGTGAAGAAGAATG
1 TGGTGGTGAAGAAGAAGG
*
19900982 TGGTTGTGAAGAAGAAGG
1 TGGTGGTGAAGAAGAAGG
19901000 TGGTGG
1 TGGTGG
19901006 CGATCATTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.24
Consensus pattern (18 bp):
TGGTGGTGAAGAAGAAGG
Found at i:19902787 original size:23 final size:24
Alignment explanation
Indices: 19902747--19902793 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
19902737 TAAAATTAAT
19902747 TTATTAATTTAGTGTGTTTTTTTA
1 TTATTAATTTAGTGTGTTTTTTTA
* *
19902771 TTATTATTTTTGT-TGTTTTTTTA
1 TTATTAATTTAGTGTGTTTTTTTA
19902794 CTTTTTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.72
Consensus pattern (24 bp):
TTATTAATTTAGTGTGTTTTTTTA
Found at i:19902789 original size:20 final size:21
Alignment explanation
Indices: 19902761--19902803 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
19902751 TAATTTAGTG
*
19902761 TGTTTTTTTATTA-TTATTTT
1 TGTTGTTTTATTACTTATTTT
* *
19902781 TGTTGTTTTTTTACTTTTTTT
1 TGTTGTTTTATTACTTATTTT
19902802 TG
1 TG
19902804 ATATATTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.09, C:0.02, G:0.09, T:0.79
Consensus pattern (21 bp):
TGTTGTTTTATTACTTATTTT
Found at i:19902840 original size:27 final size:28
Alignment explanation
Indices: 19902804--19902871 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
19902794 CTTTTTTTTG
*
19902804 ATATATTTTGGTAAAT-AAAAAATTTAT
1 ATATATTTTGGTAAATAAAAAAAATTAT
*
19902831 ATATTTTTTGGTAAATAAAAAAAATTAT
1 ATATATTTTGGTAAATAAAAAAAATTAT
19902859 A-ATATTTTGGTAA
1 ATATATTTTGGTAA
19902872 TTTTTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 26 0.70
28 11 0.30
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAATTAT
Found at i:19902940 original size:19 final size:19
Alignment explanation
Indices: 19902903--19902954 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
19902893 TTTAAAACCC
** *
19902903 ATAATAAAACGTTACAAAA
1 ATAATAAAATATTAAAAAA
19902922 ATAATAAAATATTAAAAAA
1 ATAATAAAATATTAAAAAA
**
19902941 ATACCAAAATATTA
1 ATAATAAAATATTA
19902955 TATATATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (19 bp):
ATAATAAAATATTAAAAAA
Found at i:19903709 original size:10 final size:10
Alignment explanation
Indices: 19903637--19903792 Score: 76
Period size: 10 Copynumber: 15.7 Consensus size: 10
19903627 AATTACCTTA
*
19903637 TTTTCTTT-T
1 TTTTCTTTCC
*
19903646 TTTTCCTTCC
1 TTTTCTTTCC
*
19903656 TTTCCTCTT-C
1 TTTTCT-TTCC
*
19903666 TTCTTCTTTCTT
1 TT-TTCTTTC-C
*
19903678 TTTTTTTTCTC
1 TTTTCTTTC-C
*
19903689 TTCTCCTTTCC
1 TT-TTCTTTCC
19903700 TTTTCTTTCC
1 TTTTCTTTCC
19903710 TTATT-TTT-C
1 TT-TTCTTTCC
19903719 -TTTCTTTCC
1 TTTTCTTTCC
***
19903728 TCCCCTTTCC
1 TTTTCTTTCC
19903738 TTTTCTTTCC
1 TTTTCTTTCC
19903748 TTCTT-TTT-C
1 TT-TTCTTTCC
19903757 -TTTCTTTCC
1 TTTTCTTTCC
* *
19903766 TCTCCTTTCC
1 TTTTCTTTCC
* *
19903776 TTTTCCTTCT
1 TTTTCTTTCC
19903786 TTTTCTT
1 TTTTCTT
19903793 GCTTCCTTTC
Statistics
Matches: 109, Mismatches: 24, Indels: 27
0.68 0.15 0.17
Matches are distributed among these distances:
7 4 0.04
8 8 0.07
9 11 0.10
10 58 0.53
11 21 0.19
12 7 0.06
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTCTTTCC
Found at i:19903763 original size:28 final size:28
Alignment explanation
Indices: 19903732--19903811 Score: 76
Period size: 34 Copynumber: 2.8 Consensus size: 28
19903722 CTTTCCTCCC
*
19903732 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
1 CTTTCCTTTTCTTTCCTTCTTTTTCTTG
19903760 CTTTCCTCTCCTTTCCTTTTCCTTCTTTTTCTTG
1 CTTT-C-CT--TTT-C-TTTCCTTCTTTTTCTTG
19903794 C-TTCC-TTTCTTT-CTTCTT
1 CTTTCCTTTTCTTTCCTTCTT
19903812 CTTCCCCTCT
Statistics
Matches: 45, Mismatches: 1, Indels: 15
0.74 0.02 0.25
Matches are distributed among these distances:
25 6 0.13
26 3 0.07
27 1 0.02
28 7 0.16
29 1 0.02
30 2 0.04
31 1 0.02
32 4 0.09
33 3 0.07
34 17 0.38
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCCTTCTTTTTCTTG
Found at i:19903771 original size:76 final size:76
Alignment explanation
Indices: 19903632--19903780 Score: 189
Period size: 76 Copynumber: 2.0 Consensus size: 76
19903622 ATAAAAATTA
* * * *
19903632 CCTTATTTTCTTTTTTTTCCTTCCTTTCCTCTTCTTCTTCTTTCTTTTTTTTTTCTCTTCTCCTT
1 CCTTATTTTCTTTTCTTTCCTCCCTTTCCTCTTCTTCTTCCTTCTTTTTTTTTTCTCCTCTCCTT
19903697 TCCTTTTCTTT
66 TCCTTTTCTTT
*
19903708 CCTTATTTT-TCTTTCTTTCCTCCCCTTTCCTTTTC-T-TTCCTTCTTTTTCTTTCTT-TCCTCT
1 CCTTATTTTCT-TTTCTTTCCT-CCCTTTCCTCTTCTTCTTCCTTCTTTTT-TTT-TTCTCCTCT
19903769 CCTTTCCTTTTC
62 CCTTTCCTTTTC
19903781 CTTCTTTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
75 12 0.19
76 39 0.61
77 13 0.20
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.66
Consensus pattern (76 bp):
CCTTATTTTCTTTTCTTTCCTCCCTTTCCTCTTCTTCTTCCTTCTTTTTTTTTTCTCCTCTCCTT
TCCTTTTCTTT
Found at i:19903802 original size:38 final size:38
Alignment explanation
Indices: 19903637--19903784 Score: 167
Period size: 38 Copynumber: 3.9 Consensus size: 38
19903627 AATTACCTTA
* * *
19903637 TTTTCTTTTTTTTCCT-TCCTTTCCTCTTCTTCTTCTTTCT
1 TTTTC-TTTCTTTCCTCTCCTTTCCT-TT-TCCTTCCTTCT
* * *
19903677 TTTT-TTT-TTCTCTTCTCCTTTCCTTTTCTTTCCTTAT
1 TTTTCTTTCTT-TCCTCTCCTTTCCTTTTCCTTCCTTCT
* *
19903714 TTTTCTTTCTTTCCTCCCCTTTCCTTTTCTTTCCTTCT
1 TTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTTCCTTCT
19903752 TTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTTC
1 TTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTTC
19903785 TTTTTCTTGC
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
37 13 0.14
38 66 0.70
39 11 0.12
40 4 0.04
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (38 bp):
TTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTTCCTTCT
Found at i:19903807 original size:22 final size:23
Alignment explanation
Indices: 19903772--19903814 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
19903762 TTCCTCTCCT
*
19903772 TTCCTTTTCCTTCTTTTTCTTGC
1 TTCCTTTTCCTTCTTCTTCTTGC
*
19903795 TTCC-TTTCTTTCTTCTTCTT
1 TTCCTTTTCCTTCTTCTTCTT
19903815 CCCCTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.67
Consensus pattern (23 bp):
TTCCTTTTCCTTCTTCTTCTTGC
Found at i:19903812 original size:28 final size:30
Alignment explanation
Indices: 19903734--19903815 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 30
19903724 TTCCTCCCCT
*
19903734 TTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCC
1 TTCC-TTTCTTT-CTTCTTCTTCTTTCTTTCC
* *
19903766 TCTCCTTTCCTTT-TCCTTCTT-TTTC-TTGC
1 T-TCCTTT-CTTTCTTCTTCTTCTTTCTTTCC
19903795 TTCCTTTCTTTCTTCTTCTTC
1 TTCCTTTCTTTCTTCTTCTTC
19903816 CCCTCTCCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
27 4 0.10
28 13 0.31
29 4 0.10
30 4 0.10
31 6 0.14
32 4 0.10
33 7 0.17
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (30 bp):
TTCCTTTCTTTCTTCTTCTTCTTTCTTTCC
Found at i:19903967 original size:18 final size:18
Alignment explanation
Indices: 19903943--19903978 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
19903933 TCAGTTCAGG
*
19903943 TTTTTTTTTCTGTTTTTTA
1 TTTTTTTGT-TGTTTTTTA
19903962 TTTTTTTGTTGTTTTTT
1 TTTTTTTGTTGTTTTTT
19903979 TTGATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.03, C:0.03, G:0.08, T:0.86
Consensus pattern (18 bp):
TTTTTTTGTTGTTTTTTA
Found at i:19903971 original size:15 final size:16
Alignment explanation
Indices: 19903943--19903980 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
19903933 TCAGTTCAGG
19903943 TTTTTTTTTCTGTT-T
1 TTTTTTTTTCTGTTGT
19903958 TTTATTTTTT-TGTTGT
1 TTT-TTTTTTCTGTTGT
19903974 TTTTTTT
1 TTTTTTT
19903981 GATATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.03, C:0.03, G:0.08, T:0.87
Consensus pattern (16 bp):
TTTTTTTTTCTGTTGT
Found at i:19904060 original size:31 final size:30
Alignment explanation
Indices: 19903982--19904075 Score: 94
Period size: 27 Copynumber: 3.3 Consensus size: 30
19903972 GTTTTTTTTG
*
19903982 ATATATTTTGGTAAAT---AAAAAAATTAT
1 ATATATTTTGATAAATAAAAAAAAAATTAT
* *
19904009 ATATTTTTTGGTAAAT---AAAAAAATTAT
1 ATATATTTTGATAAATAAAAAAAAAATTAT
19904036 ATATATTTTGATAAATAAAAAAAAAAGTTAT
1 ATATATTTTGATAAATAAAAAAAAAA-TTAT
*
19904067 A-ACATTTTG
1 ATATATTTTG
19904076 GTAATTTTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
27 40 0.68
30 14 0.24
31 5 0.08
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (30 bp):
ATATATTTTGATAAATAAAAAAAAAATTAT
Found at i:19904067 original size:27 final size:27
Alignment explanation
Indices: 19903982--19904058 Score: 136
Period size: 27 Copynumber: 2.9 Consensus size: 27
19903972 GTTTTTTTTG
19903982 ATATATTTTGGTAAATAAAAAAATTAT
1 ATATATTTTGGTAAATAAAAAAATTAT
*
19904009 ATATTTTTTGGTAAATAAAAAAATTAT
1 ATATATTTTGGTAAATAAAAAAATTAT
*
19904036 ATATATTTTGATAAATAAAAAAA
1 ATATATTTTGGTAAATAAAAAAA
19904059 AAAGTTATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (27 bp):
ATATATTTTGGTAAATAAAAAAATTAT
Found at i:19906847 original size:31 final size:31
Alignment explanation
Indices: 19906812--19906909 Score: 81
Period size: 31 Copynumber: 3.2 Consensus size: 31
19906802 TTCAATTTAG
19906812 TCACTAACGTTTTCA-ATCATTTTTATTTTGA
1 TCACTAACGTTTT-AGATCATTTTTATTTTGA
* * * *
19906843 TCACTCATGTTTTAGATTATTTTTATTTTGG
1 TCACTAACGTTTTAGATCATTTTTATTTTGA
* * * * * * *
19906874 TCGCTCATGTTTTACATCGTTTCTATTTTGG
1 TCACTAACGTTTTAGATCATTTTTATTTTGA
19906905 TCACT
1 TCACT
19906910 CTCCATTAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
30 1 0.02
31 55 0.98
ACGTcount: A:0.19, C:0.16, G:0.11, T:0.53
Consensus pattern (31 bp):
TCACTAACGTTTTAGATCATTTTTATTTTGA
Found at i:19911321 original size:18 final size:18
Alignment explanation
Indices: 19911290--19911325 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
19911280 GGGTTCTCAC
19911290 TTTTTTTTTCTTTTTTCA
1 TTTTTTTTTCTTTTTTCA
19911308 TTTTTGTTTT-TTTTTTCA
1 TTTTT-TTTTCTTTTTTCA
19911326 ATATTCTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.06, C:0.08, G:0.03, T:0.83
Consensus pattern (18 bp):
TTTTTTTTTCTTTTTTCA
Found at i:19915903 original size:18 final size:18
Alignment explanation
Indices: 19915880--19915914 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
19915870 CACAGAAATA
19915880 AAAATAA-ATAATAATAAT
1 AAAATAATA-AATAATAAT
19915898 AAAATAATAAATAATAA
1 AAAATAATAAATAATAA
19915915 AACGAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAATAATAAATAATAAT
Found at i:19923595 original size:2 final size:2
Alignment explanation
Indices: 19923590--19923622 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
19923580 AAATATATTT
19923590 TA TA TA TA TA TA TA TA TA TA TA TGA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
19923623 ATTATTTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:19939664 original size:19 final size:19
Alignment explanation
Indices: 19939634--19939673 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
19939624 TTAAAAATTC
19939634 AAAATAATAAAAATATTATA
1 AAAATAATAAAAATATT-TA
*
19939654 AAAATAA-AAAAGTATTTA
1 AAAATAATAAAAATATTTA
19939672 AA
1 AA
19939674 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 8 0.42
20 7 0.37
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAATAATAAAAATATTTA
Found at i:19947547 original size:15 final size:16
Alignment explanation
Indices: 19947516--19947551 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
19947506 AAATTTTGTT
19947516 AATTTTAAATATATAA
1 AATTTTAAATATATAA
*
19947532 AATTTT-AATATTTAA
1 AATTTTAAATATATAA
19947547 AATTT
1 AATTT
19947552 AAACTCCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTTTAAATATATAA
Found at i:19947888 original size:36 final size:36
Alignment explanation
Indices: 19947822--19947891 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
19947812 ATAATTTTAG
** *
19947822 ATTATTAAGAATAAAATTATATGTGGAAGTGTATTT
1 ATTATTAAGAATAAAATTATATCCGAAAGTGTATTT
19947858 ATTATTAAGAATAAAATTATATCCGAAAGTGTAT
1 ATTATTAAGAATAAAATTATATCCGAAAGTGTAT
19947892 ATAAATTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.44, C:0.03, G:0.14, T:0.39
Consensus pattern (36 bp):
ATTATTAAGAATAAAATTATATCCGAAAGTGTATTT
Found at i:19952946 original size:14 final size:14
Alignment explanation
Indices: 19952927--19952953 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19952917 CTCTCTAATA
19952927 TTTTCTTAATTTTT
1 TTTTCTTAATTTTT
19952941 TTTTCTTAATTTT
1 TTTTCTTAATTTT
19952954 ACATCTTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTCTTAATTTTT
Found at i:19953165 original size:18 final size:20
Alignment explanation
Indices: 19953123--19953169 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
19953113 TAAACATTAA
*
19953123 AATATATAAAAATGGAAATT
1 AATATATAAAAATAGAAATT
19953143 AATATATAAAAATAGAAA-T
1 AATATATAAAAATAGAAATT
19953162 -ATATATAA
1 AATATATAA
19953170 TCTGAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 8 0.31
19 1 0.04
20 17 0.65
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (20 bp):
AATATATAAAAATAGAAATT
Found at i:19953195 original size:18 final size:18
Alignment explanation
Indices: 19953174--19953218 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
19953164 ATATAATCTG
* *
19953174 AAAAAAATATAATTTATA
1 AAAAAAATAAAATTTACA
*
19953192 AAAAATATAAAATTTACA
1 AAAAAAATAAAATTTACA
19953210 AAAAAAATA
1 AAAAAAATA
19953219 CGATAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAAAAATAAAATTTACA
Found at i:19956491 original size:22 final size:22
Alignment explanation
Indices: 19956455--19956508 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
19956445 ATTATTAGAA
19956455 AATAT-AAAAATAGAAATAAAT
1 AATATAAAAAATAGAAATAAAT
*
19956476 -ATATAAAAAATCAGAAATATAT
1 AATATAAAAAAT-AGAAATAAAT
*
19956498 AATCTAAAAAA
1 AATATAAAAAA
19956509 CATATAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 9 0.32
23 9 0.32
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (22 bp):
AATATAAAAAATAGAAATAAAT
Found at i:19956497 original size:20 final size:19
Alignment explanation
Indices: 19956456--19956498 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
19956446 TTATTAGAAA
19956456 ATATAAAAATAGAAATAAAT
1 ATATAAAAATAGAAAT-AAT
19956476 ATATAAAAAATCAGAAAT-AT
1 ATAT-AAAAAT-AGAAATAAT
19956496 ATA
1 ATA
19956499 ATCTAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 6 0.29
22 6 0.29
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (19 bp):
ATATAAAAATAGAAATAAT
Found at i:19956528 original size:11 final size:11
Alignment explanation
Indices: 19956512--19956538 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
19956502 TAAAAAACAT
19956512 ATAATTTATAA
1 ATAATTTATAA
19956523 ATAATTTATAA
1 ATAATTTATAA
19956534 ATAAT
1 ATAAT
19956539 AAAATTTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATAATTTATAA
Found at i:19958396 original size:39 final size:39
Alignment explanation
Indices: 19958309--19958447 Score: 170
Period size: 39 Copynumber: 3.5 Consensus size: 39
19958299 TACAGTATCG
*
19958309 GTGGCATGCTTTACATGCAATCAATATGTACGTTAATATTCA
1 GTGGCATGC-TTACATGCAATCAATA--TACGGTAATATTCA
*
19958351 GTGGCATGCTTACATGCAATCAATATACGGTAATATTTA
1 GTGGCATGCTTACATGCAATCAATATACGGTAATATTCA
* * * *
19958390 TTGGCATGCTTACATGCAATCAATATACGATAACAGTCA
1 GTGGCATGCTTACATGCAATCAATATACGGTAATATTCA
* *
19958429 ATGACATGCTTTACATGCA
1 GTGGCATGC-TTACATGCA
19958448 GATTATTTGC
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
39 53 0.61
40 9 0.10
41 16 0.18
42 9 0.10
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (39 bp):
GTGGCATGCTTACATGCAATCAATATACGGTAATATTCA
Found at i:19961091 original size:29 final size:29
Alignment explanation
Indices: 19961041--19961099 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
19961031 TGTTTTCCTA
* *
19961041 ACAACAATGGTACTAGGGAGTGATCGAAG
1 ACAACAATGGTACTAAGAAGTGATCGAAG
* *
19961070 ACAACAATGGTATTAATAAGTGATCGAAG
1 ACAACAATGGTACTAAGAAGTGATCGAAG
19961099 A
1 A
19961100 TTAACTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.20
Consensus pattern (29 bp):
ACAACAATGGTACTAAGAAGTGATCGAAG
Found at i:19963702 original size:39 final size:39
Alignment explanation
Indices: 19963622--19963708 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
19963612 ATAAATTTAA
* * * *
19963622 TTTTAATGATTTGGGAATTTAGGTTTTTGTTTTTGTTTT
1 TTTTAATGATTTGAGAATTTAGGTTTTTCTTTTAGTCTT
* *
19963661 TTTTTATGATTTTAGAATTTAGGTTTTTACTTTTAG-CTT
1 TTTTAATGATTTGAGAATTTAGGTTTTT-CTTTTAGTCTT
19963700 TTTTGAATG
1 TTTT-AATG
19963709 TTTTTATTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
39 31 0.79
40 8 0.21
ACGTcount: A:0.18, C:0.02, G:0.17, T:0.62
Consensus pattern (39 bp):
TTTTAATGATTTGAGAATTTAGGTTTTTCTTTTAGTCTT
Found at i:19981951 original size:15 final size:16
Alignment explanation
Indices: 19981928--19981960 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19981918 ATAGTTAATT
19981928 AATTAAAAAA-GTCTA
1 AATTAAAAAATGTCTA
*
19981943 AATTGAAAAATGTCTA
1 AATTAAAAAATGTCTA
19981959 AA
1 AA
19981961 ACTTGCTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.27
Consensus pattern (16 bp):
AATTAAAAAATGTCTA
Found at i:19986590 original size:64 final size:64
Alignment explanation
Indices: 19986485--19986612 Score: 150
Period size: 64 Copynumber: 2.0 Consensus size: 64
19986475 GAGCATCCTA
* * * * * *
19986485 ATCGGTATTAATCCTGCATATGTTGCAGACATATCATAGCTCTTTGTGAA-CGTCCTGTTATATG
1 ATCGGTATTAATCCTGCATATATTACAGACATACCACAGCTCTTTAT-AAGCGTCCTGATATATG
* * * *
19986549 ATCGGTATTGATCCTGTATATATTACGGACATACCGCAGCTCTTTATAAGCGTCCTGATATATG
1 ATCGGTATTAATCCTGCATATATTACAGACATACCACAGCTCTTTATAAGCGTCCTGATATATG
19986613 GCTACCTGGA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
63 2 0.04
64 51 0.96
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (64 bp):
ATCGGTATTAATCCTGCATATATTACAGACATACCACAGCTCTTTATAAGCGTCCTGATATATG
Found at i:19995152 original size:120 final size:111
Alignment explanation
Indices: 19994854--19995360 Score: 474
Period size: 112 Copynumber: 4.6 Consensus size: 111
19994844 GCTGGCCTAT
* * * *
19994854 CAATGGTCGGCACCACCTTTACGGGAAAA-AATAATATTTTTTTTACAATTTGG-GTGTCATTGG
1 CAATGGCCGGCACCACCTTTA-TGTAAAACAAT--T-TTTTTTTTACATTTTGGAGTGTCATTGG
* * *
19994917 CCGGCACCAGTATACGAAAAAATTTAAAAAAAAAATTTTTTGGTGGTGGCCTGT
62 CCGGCACCAGTATACGAAAAAA-TTAAAAAAAAAA---ATTGGTGGCGGCCTGC
* **
19994971 CAATGGTCGGCACCACCTTTATGTAAAA-AA------AATTACATTTTGTG-GTGTCATTGGCCG
1 CAATGGCCGGCACCACCTTTATGTAAAACAATTTTTTTTTTACATTTTG-GAGTGTCATTGGCCG
*** **
19995028 GCACCAGTATACGAAATTTTTTTTAAAAAAAATTACTTTTTTGGTGGCGGCCTGC
65 GCACCAGTATACGAAA---AAATTAAAAAAAA--A---AATTGGTGGCGGCCTGC
* *** * *
19995083 CAATGGCTGGCACCACCTTTATGTAAAATTTTTTATTTTTTTACATTTTGGAGTGTCATTAGCCA
1 CAATGGCCGGCACCACCTTTATGTAAAACAATTT-TTTTTTTACATTTTGGAGTGTCATTGGCCG
*
19995148 GCACCAGTATACGAAAAAATTAAAAAAAAAAATTGGTGGTGGCCTGC
65 GCACCAGTATACGAAAAAATTAAAAAAAAAAATTGGTGGCGGCCTGC
*
19995195 CAATGGCCGGCACCACCTTTATGTAAAACAATTTTTTTTTTACATTTT-GAGGTGTCATTGGTCG
1 CAATGGCCGGCACCACCTTTATGTAAAACAATTTTTTTTTTACATTTTGGA-GTGTCATTGGCCG
* *
19995259 GCACCAGTATACGAAAAAA-TAAAAAAAAAATTTGGTGGTGGCCTGC
65 GCACCAGTATACGAAAAAATTAAAAAAAAAAATTGGTGGCGGCCTGC
* *
19995305 CAATGGCCGGCACCACCTTTA--T---ATAA-TTTTTTTTTACATTTTGGGGTGTCATTGGC
1 CAATGGCCGGCACCACCTTTATGTAAAACAATTTTTTTTTTACATTTTGGAGTGTCATTGGC
19995361 AGGCCATCAC
Statistics
Matches: 334, Mismatches: 36, Indels: 53
0.79 0.09 0.13
Matches are distributed among these distances:
104 26 0.08
105 4 0.01
107 9 0.03
108 31 0.09
110 59 0.18
111 43 0.13
112 85 0.25
115 1 0.00
116 7 0.02
117 31 0.09
119 1 0.00
120 37 0.11
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (111 bp):
CAATGGCCGGCACCACCTTTATGTAAAACAATTTTTTTTTTACATTTTGGAGTGTCATTGGCCGG
CACCAGTATACGAAAAAATTAAAAAAAAAAATTGGTGGCGGCCTGC
Found at i:19995607 original size:105 final size:108
Alignment explanation
Indices: 19995472--19995677 Score: 283
Period size: 105 Copynumber: 1.9 Consensus size: 108
19995462 TTTTTTTTTT
* * * *
19995472 AATTTTTTCGTATTCTAGTGCCGGCTAATGACACTCGAAAATGT-AAAAAAAAAATTAC-ATAAA
1 AATTTTTTCGTATACTAGTGCCGGCCAATGACACCCCAAAATGTAAAAAAAAAAATTACTATAAA
* *
19995535 GGTGGTGC-CGCCATTGACTGGCCACCACCAAAAAAAAATTAA
66 GGTGGTGCTCGCCATTGACAGGCCAACACCAAAAAAAAATTAA
* * *
19995577 AATTTTTTCGTATACTGGTGCCGGCCAATGACACCCCAAAATGTAAAAAAAAAAAATTCCTGTAA
1 AATTTTTTCGTATACTAGTGCCGGCCAATGACACCCCAAAATGT-AAAAAAAAAAATTACTATAA
* *
19995642 AGGTGGTGCTGGCCATTGACAGGCCAACACCCAAAA
65 AGGTGGTGCTCGCCATTGACAGGCCAACACCAAAAA
19995678 TTTTTTTTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
105 39 0.45
107 13 0.15
108 12 0.14
109 22 0.26
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (108 bp):
AATTTTTTCGTATACTAGTGCCGGCCAATGACACCCCAAAATGTAAAAAAAAAAATTACTATAAA
GGTGGTGCTCGCCATTGACAGGCCAACACCAAAAAAAAATTAA
Found at i:19997925 original size:66 final size:66
Alignment explanation
Indices: 19997843--19997971 Score: 222
Period size: 66 Copynumber: 2.0 Consensus size: 66
19997833 AAAACTTTTA
**
19997843 AGTAATTGAAGTATGCGTAAAACGCGTGATATGCGTGGAACAATAAAGGAATGAGGTTGTAGTTT
1 AGTAATTGAAAAATGCGTAAAACGCGTGATATGCGTGGAACAATAAAGGAATGAGGTTGTAGTTT
19997908 G
66 G
* *
19997909 AGTAATTGAAAAATGCGTGAAACGCGTGATATGTGTGGAACAATAAAGGAATGAGGTTGTAGT
1 AGTAATTGAAAAATGCGTAAAACGCGTGATATGCGTGGAACAATAAAGGAATGAGGTTGTAGT
19997972 CACAGACACG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.36, C:0.07, G:0.30, T:0.26
Consensus pattern (66 bp):
AGTAATTGAAAAATGCGTAAAACGCGTGATATGCGTGGAACAATAAAGGAATGAGGTTGTAGTTT
G
Found at i:20005609 original size:22 final size:23
Alignment explanation
Indices: 20005584--20005636 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
20005574 AAAAATATTC
20005584 TTATTTTACA-AAATA-AATTATA
1 TTATTTTA-AGAAATATAATTATA
* *
20005606 TTATTTTAAGAAATATAATTTTT
1 TTATTTTAAGAAATATAATTATA
20005629 TTATTTTA
1 TTATTTTA
20005637 TATCACGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 13 0.48
23 13 0.48
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TTATTTTAAGAAATATAATTATA
Found at i:20008528 original size:26 final size:26
Alignment explanation
Indices: 20008475--20008528 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
20008465 AGTAATTGTT
* *
20008475 TTTATTAATTTTAAATATTATATTAA
1 TTTATTAATTTTAAATATTAAATAAA
*
20008501 TTTATT-ATTGTTAAATGTTAAATAAA
1 TTTATTAATT-TTAAATATTAAATAAA
20008527 TT
1 TT
20008529 ATTGAAAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (26 bp):
TTTATTAATTTTAAATATTAAATAAA
Found at i:20008745 original size:22 final size:21
Alignment explanation
Indices: 20008715--20008755 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
20008705 AAATACAATT
*
20008715 CAAAATTATTAAATATTATTA
1 CAAAATTATAAAATATTATTA
20008736 CAAACATTATAAAATATTAT
1 CAAA-ATTATAAAATATTAT
20008756 GGATTATGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (21 bp):
CAAAATTATAAAATATTATTA
Found at i:20037132 original size:31 final size:31
Alignment explanation
Indices: 20037094--20037164 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
20037084 AATTTGGATC
20037094 AGGACTAAA-AT-ATCAAATTTAAAAAAGTAAA
1 AGGACTAAAGATGATC-AA-TTAAAAAAGTAAA
* * *
20037125 AGGACTAAAGTTGATCAATTGAAAAAGTACA
1 AGGACTAAAGATGATCAATTAAAAAAGTAAA
20037156 AGGACTAAA
1 AGGACTAAA
20037165 TCAAAAACTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 29 0.83
32 3 0.09
33 3 0.09
ACGTcount: A:0.55, C:0.08, G:0.15, T:0.21
Consensus pattern (31 bp):
AGGACTAAAGATGATCAATTAAAAAAGTAAA
Found at i:20044828 original size:31 final size:31
Alignment explanation
Indices: 20044790--20044852 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
20044780 AAGGTGAAAG
20044790 CATGATTAATTAAGTTAATTAACAAATTAAC
1 CATGATTAATTAAGTTAATTAACAAATTAAC
20044821 CATGATTAATTAAGTTAATTAACAAATTAAC
1 CATGATTAATTAAGTTAATTAACAAATTAAC
20044852 C
1 C
20044853 TTAGTATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (31 bp):
CATGATTAATTAAGTTAATTAACAAATTAAC
Found at i:20045668 original size:19 final size:18
Alignment explanation
Indices: 20045644--20045679 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
20045634 TGTTGTGTTA
20045644 TATGATAAATTGATGATTT
1 TATGATAAATTGA-GATTT
20045663 TATGATAAATTGAGATT
1 TATGATAAATTGAGATT
20045680 GAAAGAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (18 bp):
TATGATAAATTGAGATTT
Found at i:20049619 original size:24 final size:27
Alignment explanation
Indices: 20049580--20049628 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
20049570 TGTTAATATT
*
20049580 ATTTTTTTGTTTAATT-CA-AGTTAAA
1 ATTTTTTTGTTAAATTACATAGTTAAA
20049605 ATTTTTTT-TTAAATTACATAGTTA
1 ATTTTTTTGTTAAATTACATAGTTA
20049629 TCAAGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 10 0.48
26 5 0.24
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (27 bp):
ATTTTTTTGTTAAATTACATAGTTAAA
Found at i:20056053 original size:53 final size:53
Alignment explanation
Indices: 20055982--20056154 Score: 285
Period size: 53 Copynumber: 3.3 Consensus size: 53
20055972 AGCTTCTTTG
* * **
20055982 GATTCAAATATGACAAATTAGA-TCCTAGTTGTCAAGAATTTTTTTTAAATGTT
1 GATTCAAATATGATAAATTA-ATTCATAGTTGTCAAGAACATTTTTTAAATGTT
*
20056035 GAATCAAATATGATAAATTAATTCATAGTTGTCAAGAACATTTTTTAAATGTT
1 GATTCAAATATGATAAATTAATTCATAGTTGTCAAGAACATTTTTTAAATGTT
20056088 GATTCAAATATGATAAATTAATTCATAGTTGTCAAGAACATTTTTTAAATGTT
1 GATTCAAATATGATAAATTAATTCATAGTTGTCAAGAACATTTTTTAAATGTT
20056141 GATTCAAATATGAT
1 GATTCAAATATGAT
20056155 TATTGTTTGT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
52 1 0.01
53 112 0.99
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.40
Consensus pattern (53 bp):
GATTCAAATATGATAAATTAATTCATAGTTGTCAAGAACATTTTTTAAATGTT
Found at i:20056497 original size:46 final size:45
Alignment explanation
Indices: 20056403--20056533 Score: 194
Period size: 46 Copynumber: 2.9 Consensus size: 45
20056393 TATTTTCTAT
* *
20056403 CATGTGCATGATAGAAATGGA-TTTGTTTGTATTAAAGTGAATGA
1 CATGTGCATGATAGAAATGGATTTTTTTTGTATTAAAGTGTATGA
*
20056447 CATGTGCATGATAGAAAT-GATTTTTTTTTTGTATTAAAGTGTATGG
1 CATGTGCATGATAGAAATGGA--TTTTTTTTGTATTAAAGTGTATGA
*
20056493 CATGTGCATGATAGAAATGGATTTTTTTTGTAATAAAGTGT
1 CATGTGCATGATAGAAATGGATTTTTTTTGTATTAAAGTGT
20056534 TTGGTTATTG
Statistics
Matches: 79, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
43 2 0.03
44 18 0.23
45 19 0.24
46 38 0.48
47 2 0.03
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (45 bp):
CATGTGCATGATAGAAATGGATTTTTTTTGTATTAAAGTGTATGA
Found at i:20058477 original size:33 final size:33
Alignment explanation
Indices: 20058395--20058478 Score: 80
Period size: 33 Copynumber: 2.5 Consensus size: 33
20058385 TGGTCCAACC
* * ** * *
20058395 ATGGTCTTACGTTCAAGGTGTCATAACCTAGTT
1 ATGGTCTTACATTTAAAATGTCATAACCCAGCT
* *
20058428 ATGGTCTTTTCA-TTAAAATGTCATAGCCCAGCT
1 ATGGTC-TTACATTTAAAATGTCATAACCCAGCT
20058461 ATGGTCTTACATTTAAAA
1 ATGGTCTTACATTTAAAA
20058479 ATTTTCAGGG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
32 4 0.10
33 33 0.82
34 3 0.08
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.37
Consensus pattern (33 bp):
ATGGTCTTACATTTAAAATGTCATAACCCAGCT
Found at i:20058980 original size:27 final size:27
Alignment explanation
Indices: 20058959--20059013 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
20058949 AAATATTATA
20058959 AGCTATTACACAGCCTTTAATAAATAT
1 AGCTATTACACAGCCTTTAATAAATAT
20058986 AGCTATTACACAGCCTTTAATAAATAT
1 AGCTATTACACAGCCTTTAATAAATAT
20059013 A
1 A
20059014 CTTTACTACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (27 bp):
AGCTATTACACAGCCTTTAATAAATAT
Found at i:20058983 original size:31 final size:30
Alignment explanation
Indices: 20058948--20059012 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 30
20058938 ACACTTTATC
20058948 TAAATATTATAAGCTATTACACAGCCTTTAA
1 TAAATATTAT-AGCTATTACACAGCCTTTAA
20058979 T-AA-A-TATAGCTATTACACAGCCTTTAA
1 TAAATATTATAGCTATTACACAGCCTTTAA
20059006 TAAATAT
1 TAAATAT
20059013 ACTTTACTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
27 21 0.68
28 5 0.16
29 2 0.06
30 2 0.06
31 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.35
Consensus pattern (30 bp):
TAAATATTATAGCTATTACACAGCCTTTAA
Found at i:20075105 original size:27 final size:26
Alignment explanation
Indices: 20075075--20075126 Score: 61
Period size: 27 Copynumber: 1.9 Consensus size: 26
20075065 CATGTGGTAG
20075075 AAGC-TAATATAGAAATTGTAGTTTCAA
1 AAGCATAAT-TAGAAATTG-AGTTTCAA
*
20075102 AAGCATTAATTAGGAATTGAGTTTC
1 AAGCA-TAATTAGAAATTGAGTTTC
20075127 CAAGGCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
27 10 0.45
28 8 0.36
29 4 0.18
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (26 bp):
AAGCATAATTAGAAATTGAGTTTCAA
Found at i:20081413 original size:21 final size:21
Alignment explanation
Indices: 20081387--20081438 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
20081377 AACAGCGGTG
* *
20081387 GCGGTGATATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
20081408 GCGGTGAGATTGGATATTGTA
1 GCGGTGAGATTAGATACTGTA
20081429 GCGGTGAGAT
1 GCGGTGAGAT
20081439 AAGAATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.08, G:0.37, T:0.33
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:20081817 original size:17 final size:17
Alignment explanation
Indices: 20081797--20081841 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
20081787 TATTACTAGA
20081797 AATTTTTAATTATAAAT
1 AATTTTTAATTATAAAT
** *
20081814 AATTTAAAATAATAAAT
1 AATTTTTAATTATAAAT
20081831 AATTTTTAATT
1 AATTTTTAATT
20081842 TTTAATTATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTTTTAATTATAAAT
Found at i:20083369 original size:20 final size:21
Alignment explanation
Indices: 20083339--20083380 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
20083329 TATTCTTAAC
*
20083339 TACTCTTTTGAGATTTTTTGT
1 TACTCTTTTGAGATTTTATGT
20083360 TACT-TTTTGAGATTTTATGT
1 TACTCTTTTGAGATTTTATGT
20083380 T
1 T
20083381 GATGTTAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.17, C:0.07, G:0.14, T:0.62
Consensus pattern (21 bp):
TACTCTTTTGAGATTTTATGT
Found at i:20084074 original size:8 final size:8
Alignment explanation
Indices: 20084061--20084098 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
20084051 TAAGTAAATA
20084061 TATTATAT
1 TATTATAT
20084069 TATTATAT
1 TATTATAT
* *
20084077 AATAATA-
1 TATTATAT
20084084 TATTATAT
1 TATTATAT
20084092 TATTATA
1 TATTATA
20084099 ATAAAACAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
7 5 0.20
8 20 0.80
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
TATTATAT
Found at i:20084621 original size:10 final size:11
Alignment explanation
Indices: 20084602--20084655 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
20084592 AAATTTAGGC
20084602 AAATATTTTTA
1 AAATATTTTTA
20084613 AAATATTTTT-
1 AAATATTTTTA
*** *
20084623 TTTTAATTTTA
1 AAATATTTTTA
20084634 AAATATTTTTA
1 AAATATTTTTA
20084645 AAATACTTTTT
1 AAATA-TTTTT
20084656 TTTTAATTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
10 6 0.18
11 22 0.67
12 5 0.15
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
AAATATTTTTA
Found at i:20084638 original size:32 final size:33
Alignment explanation
Indices: 20084602--20084665 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
20084592 AAATTTAGGC
20084602 AAATATTTTTAAAATA-TTTTTTTTTAATTTTA
1 AAATATTTTTAAAATACTTTTTTTTTAATTTTA
20084634 AAATATTTTTAAAATACTTTTTTTTTAATTTT
1 AAATATTTTTAAAATACTTTTTTTTTAATTTT
20084666 TTAATTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (33 bp):
AAATATTTTTAAAATACTTTTTTTTTAATTTTA
Found at i:20084725 original size:41 final size:40
Alignment explanation
Indices: 20084621--20084718 Score: 171
Period size: 41 Copynumber: 2.5 Consensus size: 40
20084611 TAAAATATTT
20084621 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTTAA
1 TTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTTTAA
20084662 TTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTTAA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTAA
*
20084701 TTTTTTATTTTTAAAATA
1 TTTTTTAATTTTAAAATA
20084719 AATTTTTGGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
39 26 0.46
41 30 0.54
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (40 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTAA
Found at i:20087129 original size:10 final size:10
Alignment explanation
Indices: 20087114--20087141 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
20087104 TATAAGGGAC
20087114 ATTATGATTA
1 ATTATGATTA
20087124 ATTATGATTA
1 ATTATGATTA
20087134 ATTATGAT
1 ATTATGAT
20087142 AGTTTCTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (10 bp):
ATTATGATTA
Found at i:20090760 original size:30 final size:30
Alignment explanation
Indices: 20090724--20090786 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
20090714 ATTTATTTTG
20090724 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
20090754 TTGTTAATTTTGTTTTTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
20090784 TTG
1 TTG
20090787 CTTGTTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.03, G:0.16, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:20090880 original size:34 final size:35
Alignment explanation
Indices: 20090836--20090902 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
20090826 CAGTAAAATA
*
20090836 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
20090870 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
20090903 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:20092832 original size:38 final size:39
Alignment explanation
Indices: 20092790--20092899 Score: 116
Period size: 38 Copynumber: 2.8 Consensus size: 39
20092780 TCGGATAGTT
* * *
20092790 CGAAGCAAAGTTGACACCCAATGTCTCATCG-GCCTAAC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAAC
* * * *
20092828 CGAAGTAAAG-TGACACTCAGTATCTCATCGAATCTATC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAAC
*
20092866 CGAAGTAAAATAGTGACACCCAGTGTCTCATCGA
1 CGAAGTAAAGT--TGACACCCAGTGTCTCATCGA
20092900 CTCGAGGTCG
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
37 17 0.29
38 22 0.38
41 19 0.33
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (39 bp):
CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAAC
Found at i:20092895 original size:41 final size:38
Alignment explanation
Indices: 20092790--20092899 Score: 114
Period size: 41 Copynumber: 2.8 Consensus size: 38
20092780 TCGGATAGTT
* * *
20092790 CGAAGCAAAGTTGACACCCAATGTCTCATCG-GCCTAAC
1 CGAAGTAAAG-TGACACCCAGTGTCTCATCGAACCTAAC
* * * *
20092828 CGAAGTAAAGTGACACTCAGTATCTCATCGAATCTATC
1 CGAAGTAAAGTGACACCCAGTGTCTCATCGAACCTAAC
20092866 CGAAGTAAAATAGTGACACCCAGTGTCTCATCGA
1 CGAAGT--AA-AGTGACACCCAGTGTCTCATCGA
20092900 CTCGAGGTCG
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
37 17 0.29
38 19 0.32
40 2 0.03
41 21 0.36
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (38 bp):
CGAAGTAAAGTGACACCCAGTGTCTCATCGAACCTAAC
Found at i:20093037 original size:18 final size:17
Alignment explanation
Indices: 20092991--20093044 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 17
20092981 TTTCCAATTC
20092991 TCAATTCAAATTCACTT
1 TCAATTCAAATTCACTT
* *
20093008 TCATTTCAAAATTTACTT
1 TCAATTC-AAATTCACTT
20093026 TCAATATCAAATTCACTT
1 TCAAT-TCAAATTCACTT
20093044 T
1 T
20093045 TTCATTCACT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 6 0.19
18 23 0.74
19 2 0.06
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.44
Consensus pattern (17 bp):
TCAATTCAAATTCACTT
Found at i:20093777 original size:25 final size:25
Alignment explanation
Indices: 20093738--20093799 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
20093728 CTTATTTCTC
* *
20093738 CTTTCTTTCTT-TCCCTTTTTCTTTT
1 CTTTCTTT-TTCTCCCTGTTTCGTTT
20093763 CTTTCTTTTTCTCCCTGTTTCGTTT
1 CTTTCTTTTTCTCCCTGTTTCGTTT
*
20093788 CTATTCTGTTTC
1 CT-TTCTTTTTC
20093800 GTTTCTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.06
25 22 0.69
26 8 0.25
ACGTcount: A:0.02, C:0.27, G:0.05, T:0.66
Consensus pattern (25 bp):
CTTTCTTTTTCTCCCTGTTTCGTTT
Found at i:20094017 original size:18 final size:18
Alignment explanation
Indices: 20093996--20094040 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
20093986 TAACAACAAC
*
20093996 AATAATTAT-TATTATAAT
1 AATAAATATCTATT-TAAT
20094014 AATAAATATCTATTTAAT
1 AATAAATATCTATTTAAT
*
20094032 AACAAATAT
1 AATAAATAT
20094041 AAATATTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAAATATCTATTTAAT
Found at i:20094292 original size:9 final size:9
Alignment explanation
Indices: 20094271--20094303 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
20094261 ATTTCATAAT
20094271 ATAATAA-A
1 ATAATAACA
20094279 ATAATAACA
1 ATAATAACA
20094288 ATAATAACA
1 ATAATAACA
20094297 ATAATAA
1 ATAATAA
20094304 TATATTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:20094772 original size:24 final size:23
Alignment explanation
Indices: 20094745--20094789 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
20094735 AATCTAATAT
*
20094745 TAATCTAACATTAATCTCTAATGG
1 TAATATAACATTAATC-CTAATGG
* *
20094769 TAATATAATATTTATCCTAAT
1 TAATATAACATTAATCCTAAT
20094790 TTTGTTGTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 5 0.28
24 13 0.72
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (23 bp):
TAATATAACATTAATCCTAATGG
Found at i:20095372 original size:29 final size:27
Alignment explanation
Indices: 20095307--20095375 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 27
20095297 TTGTACGTAG
*
20095307 TTATACAAATAAAAGTAGAGGGATCAA
1 TTATACAAATAAAAGTAGAGGGATAAA
* *
20095334 TTTTGAACAAATAAAAGTAGAGTGACTAAA
1 TTAT--ACAAATAAAAGTAGAGGGA-TAAA
20095364 TTCATACAAATA
1 TT-ATACAAATA
20095376 GATAAGTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 3 0.09
29 25 0.74
30 5 0.15
31 1 0.03
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (27 bp):
TTATACAAATAAAAGTAGAGGGATAAA
Found at i:20100178 original size:6 final size:6
Alignment explanation
Indices: 20100167--20100191 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
20100157 AGTTTGTTAA
20100167 GGCTTG GGCTTG GGCTTG GGCTTG G
1 GGCTTG GGCTTG GGCTTG GGCTTG G
20100192 TAAGTAGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (6 bp):
GGCTTG
Found at i:20112122 original size:4 final size:4
Alignment explanation
Indices: 20112113--20112138 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
20112103 TTTACTATTT
20112113 TGGC TGGC TGGC TGGC TGGC TGGC TG
1 TGGC TGGC TGGC TGGC TGGC TGGC TG
20112139 TCCTGTGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.50, T:0.27
Consensus pattern (4 bp):
TGGC
Found at i:20113206 original size:22 final size:23
Alignment explanation
Indices: 20113169--20113211 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
20113159 ATTAAATCTC
*
20113169 TAAGATTACAAAATCATATCTTG
1 TAAGATTACAAAATCAAATCTTG
*
20113192 TAAGATTAC-ATATCAAATCT
1 TAAGATTACAAAATCAAATCT
20113212 ATGATTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (23 bp):
TAAGATTACAAAATCAAATCTTG
Found at i:20118329 original size:22 final size:21
Alignment explanation
Indices: 20118299--20118356 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
20118289 GAATGGTATC
20118299 TACAAATCAAATCTCTAAGAT
1 TACAAATCAAATCTCTAAGAT
* *
20118320 TACAAAATCATATCTTCTAATAT
1 TAC-AAATCAAATC-TCTAAGAT
*
20118343 TACATATCAAATCT
1 TACAAATCAAATCT
20118357 ACGATTACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.55
23 10 0.32
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (21 bp):
TACAAATCAAATCTCTAAGAT
Found at i:20122894 original size:52 final size:48
Alignment explanation
Indices: 20122832--20123024 Score: 196
Period size: 47 Copynumber: 4.0 Consensus size: 48
20122822 GAAATGTGAT
* * *
20122832 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATTTGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
20122884 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * *
20122931 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * *
20122977 ATCCGTATAAGACCATGGCTGGGCTATGGCCTCG-GTATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAG--TGTGATATGTG
20123025 ACTATGTGCA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
46 27 0.22
47 53 0.43
48 11 0.09
50 1 0.01
51 1 0.01
52 29 0.24
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:20126445 original size:26 final size:29
Alignment explanation
Indices: 20126393--20126450 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 29
20126383 CATGTAAAGG
20126393 TTTTAAAATCGATATATCAAATAATAA-A
1 TTTTAAAATCGATATATCAAATAATAATA
20126421 TTTTAAAAT-G-TATAT-AAATATATAATA
1 TTTTAAAATCGATATATCAAATA-ATAATA
20126448 TTT
1 TTT
20126451 GAAATACAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
25 5 0.18
26 9 0.32
27 5 0.18
28 9 0.32
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (29 bp):
TTTTAAAATCGATATATCAAATAATAATA
Found at i:20127750 original size:13 final size:13
Alignment explanation
Indices: 20127732--20127756 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20127722 TAAGATGAAT
20127732 TTGCTTGTGTTTG
1 TTGCTTGTGTTTG
20127745 TTGCTTGTGTTT
1 TTGCTTGTGTTT
20127757 TAGACCTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.28, T:0.64
Consensus pattern (13 bp):
TTGCTTGTGTTTG
Found at i:20128377 original size:270 final size:270
Alignment explanation
Indices: 20127896--20128407 Score: 1006
Period size: 270 Copynumber: 1.9 Consensus size: 270
20127886 AACTTCATAG
20127896 TGCTTGTAGTCAATCAAGTATGGCAGCACATGTTTCTCTTGGTGAACCACAACAAAAAAATAAAA
1 TGCTTGTAGTCAATCAAGTATGGCAGCACATGTTTCTCTTGGTGAACCACAACAAAAAAATAAAA
20127961 AGGCATATGCAAGCTTTGTATAAAATGCATGAGTTAGAAAATGGTGGTAAGGATAAAACGTCTGA
66 AGGCATATGCAAGCTTTGTATAAAATGCATGAGTTAGAAAATGGTGGTAAGGATAAAACGTCTGA
20128026 ATTGGATAAGTATCTAGCTGAGACTAATGAGAATTTTGTTGAAGATTTTGATATTTTATTATGCT
131 ATTGGATAAGTATCTAGCTGAGACTAATGAGAATTTTGTTGAAGATTTTGATATTTTATTATGCT
20128091 GGAAAGTGAATAGCCCTAGATTTCCAATCTTTCAAAGATGGTTAGAGATGTGTTAGTTATACCAG
196 GGAAAGTGAATAGCCCTAGATTTCCAATCTTTCAAAGATGGTTAGAGATGTGTTAGTTATACCAG
20128156 TTTATACGGT
261 TTTATACGGT
20128166 TGCTTGTAGTCAATCAAGTATGGCAGCACATGTTTCTCTTGGTGAACCACAACAAAAAAATAAAA
1 TGCTTGTAGTCAATCAAGTATGGCAGCACATGTTTCTCTTGGTGAACCACAACAAAAAAATAAAA
*
20128231 AGGCATATGCAAGCTTTGTATAAAATGCATGAGTTAGAAAATGGTGGTAAGGATAAAACGTTTGA
66 AGGCATATGCAAGCTTTGTATAAAATGCATGAGTTAGAAAATGGTGGTAAGGATAAAACGTCTGA
20128296 ATTGGATAAGTATCTAGCTGAGACTAATGAGAATTTTGTTGAAGATTTTGATATTTTATTATGCT
131 ATTGGATAAGTATCTAGCTGAGACTAATGAGAATTTTGTTGAAGATTTTGATATTTTATTATGCT
*
20128361 GGAAAGTGAATAGCCCTAGATTTCCACTCTTTCAAAGATGGTTAGAG
196 GGAAAGTGAATAGCCCTAGATTTCCAATCTTTCAAAGATGGTTAGAG
20128408 TATAGTTGGT
Statistics
Matches: 240, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
270 240 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (270 bp):
TGCTTGTAGTCAATCAAGTATGGCAGCACATGTTTCTCTTGGTGAACCACAACAAAAAAATAAAA
AGGCATATGCAAGCTTTGTATAAAATGCATGAGTTAGAAAATGGTGGTAAGGATAAAACGTCTGA
ATTGGATAAGTATCTAGCTGAGACTAATGAGAATTTTGTTGAAGATTTTGATATTTTATTATGCT
GGAAAGTGAATAGCCCTAGATTTCCAATCTTTCAAAGATGGTTAGAGATGTGTTAGTTATACCAG
TTTATACGGT
Found at i:20133098 original size:23 final size:23
Alignment explanation
Indices: 20133072--20133118 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
20133062 ATAATTATAA
20133072 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
20133095 ATACATTTGTAATTAATATATGT
1 ATACATGTGTAATAAATATATGT
20133118 A
1 A
20133119 CATACATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:20133268 original size:26 final size:27
Alignment explanation
Indices: 20133217--20133273 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
20133207 ACAGAATAGC
* *
20133217 AAAACGAAAACAGGGGAGAAAGGAAAG
1 AAAAAGAAAACAGGGAAGAAAGGAAAG
20133244 AAAAAGAAAA-AGGGAAGGAAA-GAAAG
1 AAAAAGAAAACAGGGAA-GAAAGGAAAG
20133270 AAAA
1 AAAA
20133274 TTTGAGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.67, C:0.04, G:0.30, T:0.00
Consensus pattern (27 bp):
AAAAAGAAAACAGGGAAGAAAGGAAAG
Found at i:20146627 original size:64 final size:64
Alignment explanation
Indices: 20146499--20146628 Score: 163
Period size: 64 Copynumber: 2.0 Consensus size: 64
20146489 GCGAGTATCC
* * * * *
20146499 TGATCGATATTGATTCTGCATGTGTTACGGACATACCGCAGCTCTTTGTGAACGTCCTGTTATA
1 TGATCGATATTGATCCTGCATATATTACGGACATACCGCAGCTCTTTATGAACGTCCTGATATA
* * * *
20146563 TGATCGGTATTGATCCTGCATATATTGCGGATATACCGCAGCTCTTTATGAGCGTTCC-GATATA
1 TGATCGATATTGATCCTGCATATATTACGGACATACCGCAGCTCTTTATGAACG-TCCTGATATA
20146627 TG
1 TG
20146629 GCTCTTCATG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 53 0.95
65 3 0.05
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (64 bp):
TGATCGATATTGATCCTGCATATATTACGGACATACCGCAGCTCTTTATGAACGTCCTGATATA
Found at i:20147105 original size:41 final size:41
Alignment explanation
Indices: 20146990--20147106 Score: 144
Period size: 42 Copynumber: 2.8 Consensus size: 41
20146980 GACCTTTCGA
* *
20146990 GGCTTTAGCGGTGTTTCTGAAAAAGCGCCGCTAATACTCGG
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATACTCGG
** * * *
20147031 GGCTTTAGCAACGTTTTTTGAAAAAGCGTCGCTAATGCTTGG
1 GGCTTTAGCGGCG-TTTTTGAAAAAGCGCCGCTAATACTCGG
* *
20147073 GGTTTTAGTGGCGTTTTTGAAAAAGCGCCGCTAA
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
20147107 AAACATTTTA
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
41 30 0.48
42 33 0.52
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATACTCGG
Found at i:20147493 original size:15 final size:14
Alignment explanation
Indices: 20147455--20147489 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
20147445 ACTAGTTTAA
20147455 GGTTTAGGGAGTAT
1 GGTTTAGGGAGTAT
*
20147469 GGATTTAGGGATTAT
1 GG-TTTAGGGAGTAT
20147484 GGTTTA
1 GGTTTA
20147490 AGGGTGGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (14 bp):
GGTTTAGGGAGTAT
Found at i:20147510 original size:21 final size:20
Alignment explanation
Indices: 20147476--20147515 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
20147466 TATGGATTTA
*
20147476 GGGATTATGGTTTAAGGGTG
1 GGGATTAAGGTTTAAGGGTG
*
20147496 GGGATTAAAGGTTTATGGGT
1 GGGATT-AAGGTTTAAGGGT
20147516 TAGGGGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.23, C:0.00, G:0.42, T:0.35
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTG
Found at i:20148152 original size:16 final size:16
Alignment explanation
Indices: 20148126--20148158 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20148116 TTAGTTTTTT
20148126 TTTATAAAAATA-TAA
1 TTTATAAAAATAGTAA
20148141 TTTATAAAAAATAGTAA
1 TTTAT-AAAAATAGTAA
20148158 T
1 T
20148159 AATAAATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 7 0.44
17 4 0.25
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
TTTATAAAAATAGTAA
Found at i:20150242 original size:47 final size:46
Alignment explanation
Indices: 20150141--20150339 Score: 174
Period size: 47 Copynumber: 4.6 Consensus size: 46
20150131 TTTGAGTACT
* * * * *
20150141 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGCTAGATGTAGCTACACTTA
*
20150187 TCTGATCAAGTGAAAAAGTGATAAGTGCTAGATAAGT-GCTATACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGCTAGAT--GTAGCTACACTTA
20150234 TCTGATCAAGTGAAAAAGTGATAA--G-T-G-T-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGCTAGATGTAGCTACACTTA
* * *
20150270 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCT-TAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGCTAGATGTAGCTACACTTA
* * *
20150315 TTTGATC-AGGGACAAA-TGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
20150340 ATCATACGTA
Statistics
Matches: 132, Mismatches: 9, Indels: 27
0.79 0.05 0.16
Matches are distributed among these distances:
36 28 0.21
38 2 0.02
39 2 0.02
40 1 0.01
41 3 0.02
42 1 0.01
43 11 0.08
44 9 0.07
45 12 0.09
46 29 0.22
47 33 0.25
48 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGCTAGATGTAGCTACACTTA
Found at i:20150258 original size:36 final size:36
Alignment explanation
Indices: 20150217--20150296 Score: 142
Period size: 36 Copynumber: 2.2 Consensus size: 36
20150207 ATAAGTGCTA
20150217 GATAAGTGCTATACTTATCTGATCAAGTGAAAAAGT
1 GATAAGTGCTATACTTATCTGATCAAGTGAAAAAGT
* *
20150253 GATAAGTGTTATACTTATCTGATCAAGTGACAAAGT
1 GATAAGTGCTATACTTATCTGATCAAGTGAAAAAGT
20150289 GATAAGTG
1 GATAAGTG
20150297 GTAGCTTAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (36 bp):
GATAAGTGCTATACTTATCTGATCAAGTGAAAAAGT
Found at i:20155265 original size:43 final size:43
Alignment explanation
Indices: 20155205--20155295 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
20155195 CTTTGAGTTC
* * *
20155205 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
20155247 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
20155290 ATTACC
1 ATTACC
20155296 TTGCAATGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:20164798 original size:31 final size:30
Alignment explanation
Indices: 20164758--20164817 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
20164748 TTTTATTTTA
* *
20164758 TTTATTTTAATATTATATTGTCCTATAAAC
1 TTTATTTTAACATTATATTATCCTATAAAC
*
20164788 TTTATATTTAACATTATATTATCTTATAAA
1 TTTAT-TTTAACATTATATTATCCTATAAA
20164818 AGTTTTACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (30 bp):
TTTATTTTAACATTATATTATCCTATAAAC
Found at i:20168664 original size:21 final size:21
Alignment explanation
Indices: 20168638--20168678 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20168628 ATCTGCTCAA
* *
20168638 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
20168659 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
20168679 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:20184677 original size:9 final size:9
Alignment explanation
Indices: 20184669--20184789 Score: 77
Period size: 10 Copynumber: 12.7 Consensus size: 9
20184659 AAATATTTAG
*
20184669 AAAAATTAG
1 AAAAATTAT
20184678 AAAAATTATT
1 AAAAATTA-T
20184688 AAAAATTAT
1 AAAAATTAT
20184697 ATAAAA-TAT
1 A-AAAATTAT
20184706 AAAATATTAT
1 AAAA-ATTAT
20184716 AAAAA-TAT
1 AAAAATTAT
20184724 AAAAAATTTATT
1 -AAAAA-TTA-T
*
20184736 TAAAATTA-
1 AAAAATTAT
20184744 AAAAATATAT
1 AAAAAT-TAT
* * *
20184754 TAGAATTCTT
1 AAAAATT-AT
*
20184764 AAAAAATATTT
1 -AAAAAT-TAT
20184775 AAAAATTAT
1 AAAAATTAT
20184784 AAAAAT
1 AAAAAT
20184790 ACATTTAAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
8 11 0.12
9 32 0.36
10 33 0.37
11 12 0.13
12 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:20184688 original size:12 final size:10
Alignment explanation
Indices: 20184669--20184807 Score: 75
Period size: 9 Copynumber: 14.4 Consensus size: 10
20184659 AAATATTTAG
*
20184669 AAAAATTA-G
1 AAAAATTATT
20184678 AAAAATTATT
1 AAAAATTATT
20184688 AAAAATTA-T
1 AAAAATTATT
20184697 ATAAAA-TA-T
1 A-AAAATTATT
20184706 AAAATATTA-T
1 AAAA-ATTATT
*
20184716 AAAAA-TATA
1 AAAAATTATT
20184725 AAAAATTTATT
1 AAAAA-TTATT
*
20184736 TAAAATTA--
1 AAAAATTATT
20184744 AAAAATATATT
1 AAAAAT-TATT
* *
20184755 -AGAATTCTT
1 AAAAATTATT
*
20184764 AAAAAATATTT
1 AAAAATTA-TT
20184775 AAAAATTA-T
1 AAAAATTATT
*
20184784 AAAAATACATT
1 AAAAAT-TATT
*
20184795 TAAAA-TATT
1 AAAAATTATT
20184804 AAAA
1 AAAA
20184808 TTGAAATAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 28
0.70 0.10 0.19
Matches are distributed among these distances:
8 10 0.10
9 39 0.39
10 31 0.31
11 21 0.21
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (10 bp):
AAAAATTATT
Found at i:20184691 original size:18 final size:17
Alignment explanation
Indices: 20184669--20184760 Score: 67
Period size: 19 Copynumber: 4.9 Consensus size: 17
20184659 AAATATTTAG
**
20184669 AAAAATTAGAAAAATTA
1 AAAAATTATTAAAATTA
20184686 TTAAAAATTATATAAAATATA
1 --AAAAATTAT-TAAAAT-TA
* *
20184707 AAATATTATAAAAATATA
1 AAAAATTATTAAAAT-TA
20184725 AAAAATTTATTTAAAATTA
1 AAAAA-TTA-TTAAAATTA
*
20184744 AAAAATATATTAGAATT
1 AAAAAT-TATTAAAATT
20184761 CTTAAAAAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
18 20 0.33
19 28 0.46
20 11 0.18
21 2 0.03
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAAATTATTAAAATTA
Found at i:20184734 original size:19 final size:18
Alignment explanation
Indices: 20184669--20184749 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 18
20184659 AAATATTTAG
* *
20184669 AAAAATTAGAAAAATTATT
1 AAAAATTATAAAAA-TATA
20184688 AAAAATTATATAAAATATA
1 AAAAATTATA-AAAATATA
*
20184707 AAATATTATAAAAATATA
1 AAAAATTATAAAAATATA
*
20184725 AAAAATTTATTTAAAAT-TA
1 AAAAA-TTA-TAAAAATATA
20184744 AAAAAT
1 AAAAAT
20184750 ATATTAGAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
18 13 0.24
19 31 0.57
20 10 0.19
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (18 bp):
AAAAATTATAAAAATATA
Found at i:20184735 original size:48 final size:46
Alignment explanation
Indices: 20184649--20184752 Score: 124
Period size: 48 Copynumber: 2.2 Consensus size: 46
20184639 TTTTCCATAC
20184649 AAAACAAT-TAAAATATTTAGAAAAATTAGAAAAATTATTAAAAATT
1 AAAA-AATATAAAATATTTAGAAAAATTAGAAAAATTATTAAAAATT
* *
20184695 ATATAAAATATAAAATA-TTATAAAAATATA-AAAAATTTATTTAAAATT
1 A-A-AAAATATAAAATATTTAGAAAAAT-TAGAAAAA-TTATTAAAAATT
20184743 AAAAAATATA
1 AAAAAATATA
20184753 TTAGAATTCT
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
46 9 0.18
47 19 0.37
48 23 0.45
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (46 bp):
AAAAAATATAAAATATTTAGAAAAATTAGAAAAATTATTAAAAATT
Found at i:20184740 original size:38 final size:36
Alignment explanation
Indices: 20184669--20184747 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 36
20184659 AAATATTTAG
*
20184669 AAAAATTAGAAAAATTATTAAAAATTATATAAAATAT
1 AAAAATTAGAAAAATTATAAAAAATTATATAAAAT-T
* *
20184706 AAAATATTATAAAAA-TATAAAAAATTTATTTAAAATT
1 AAAA-ATTAGAAAAATTATAAAAAA-TTATATAAAATT
20184743 AAAAA
1 AAAAA
20184748 ATATATTAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
36 1 0.03
37 17 0.46
38 19 0.51
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (36 bp):
AAAAATTAGAAAAATTATAAAAAATTATATAAAATT
Found at i:20184795 original size:21 final size:21
Alignment explanation
Indices: 20184763--20184804 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20184753 TTAGAATTCT
*
20184763 TAAAAAATATTTAAAA-ATTA
1 TAAAAAACATTTAAAATATTA
20184783 TAAAAATACATTTAAAATATTA
1 TAAAAA-ACATTTAAAATATTA
20184805 AAATTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAAAACATTTAAAATATTA
Found at i:20184806 original size:20 final size:20
Alignment explanation
Indices: 20184679--20184807 Score: 85
Period size: 20 Copynumber: 6.6 Consensus size: 20
20184669 AAAAATTAGA
*
20184679 AAAATTATTAAAAAT-TATAT
1 AAAA-TATTAAAAATATATTT
*
20184699 AAAATA-T-AAAATAT-TATA
1 AAAATATTAAAAATATAT-TT
* *
20184717 AAAATATAAAAAATTTATTT
1 AAAATATTAAAAATATATTT
*
20184737 AAAAT-TAAAAAATATA-TT
1 AAAATATTAAAAATATATTT
* *
20184755 AGAATTCTTAAAAA-ATATTT
1 A-AAATATTAAAAATATATTT
*
20184775 AAAA-ATTATAAAAATACATTT
1 AAAATA-T-TAAAAATATATTT
20184796 AAAATATTAAAA
1 AAAATATTAAAA
20184808 TTGAAATAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
17 6 0.07
18 11 0.13
19 21 0.24
20 36 0.42
21 11 0.13
22 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.36
Consensus pattern (20 bp):
AAAATATTAAAAATATATTT
Found at i:20184820 original size:25 final size:26
Alignment explanation
Indices: 20184786--20184835 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
20184776 AAAATTATAA
* * *
20184786 AAATACATTTA-AAATATTAAAATTG
1 AAATAAATTTATAAAAATAAAAATTG
20184811 AAATAAATTTATAAAAATAAAAATT
1 AAATAAATTTATAAAAATAAAAATT
20184836 TGAACTGGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (26 bp):
AAATAAATTTATAAAAATAAAAATTG
Found at i:20185276 original size:10 final size:9
Alignment explanation
Indices: 20185256--20185455 Score: 54
Period size: 9 Copynumber: 21.6 Consensus size: 9
20185246 TTTTATGTTT
20185256 TTTTTATAA
1 TTTTTATAA
20185265 TTTTTATAAA
1 TTTTTAT-AA
*
20185275 TTTATATTAA
1 TTTTTA-TAA
* **
20185285 CTTCAAT-A
1 TTTTTATAA
* *
20185293 CTTTTA-AT
1 TTTTTATAA
*
20185301 TTTTTATAG
1 TTTTTATAA
*
20185310 TTTTTATAT
1 TTTTTATAA
*
20185319 TTTTTACAAAA
1 TTTTT--ATAA
*
20185330 TTTTAATACA
1 TTTTTATA-A
20185340 TTTTTATAAA
1 TTTTTAT-AA
*
20185350 ATTTTA-AA
1 TTTTTATAA
20185358 TATTTTA-AA
1 T-TTTTATAA
*
20185367 TATTTTAAAA
1 T-TTTTATAA
20185377 TTTTTATAA
1 TTTTTATAA
****
20185386 AAAAT-TAA
1 TTTTTATAA
20185394 TTTATTATAA
1 TTT-TTATAA
*
20185404 TTTATATAA
1 TTTTTATAA
*
20185413 TTATATT-TTA
1 TT-T-TTATAA
20185423 TATTTT-TAA
1 T-TTTTATAA
**
20185432 TATTCAATAA
1 T-TTTTATAA
20185442 TTTTTATAA
1 TTTTTATAA
20185451 TTTTT
1 TTTTT
20185456 CTTTTTTTAA
Statistics
Matches: 141, Mismatches: 34, Indels: 32
0.68 0.16 0.15
Matches are distributed among these distances:
8 15 0.11
9 73 0.52
10 43 0.30
11 10 0.07
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.58
Consensus pattern (9 bp):
TTTTTATAA
Found at i:20191950 original size:19 final size:19
Alignment explanation
Indices: 20191928--20191965 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
20191918 AAAATAAAAA
* *
20191928 TAAAATTTTAATGATTTTT
1 TAAAATTGTAATAATTTTT
20191947 TAAAATTGTAATAATTTTT
1 TAAAATTGTAATAATTTTT
20191966 ATTTAATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
TAAAATTGTAATAATTTTT
Found at i:20192128 original size:29 final size:27
Alignment explanation
Indices: 20192082--20192141 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 27
20192072 AAATTTTTAT
20192082 TATTATAATTTAAGTTTATATATTACATA
1 TATTATAATTTAAGTTTA-ATA-TACATA
* *
20192111 TATTGTAATATTAA-TTTAATATATATA
1 TATTATAAT-TTAAGTTTAATATACATA
20192138 TATT
1 TATT
20192142 TGTACTTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 9 0.32
28 3 0.11
29 12 0.43
30 4 0.14
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (27 bp):
TATTATAATTTAAGTTTAATATACATA
Found at i:20193123 original size:48 final size:48
Alignment explanation
Indices: 20193052--20193147 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
20193042 AACTCTACTA
20193052 ACAATAAATGTGTGTATGGGTAGAGTTAGGTTAAGTTTGGGTTGAACT
1 ACAATAAATGTGTGTATGGGTAGAGTTAGGTTAAGTTTGGGTTGAACT
20193100 ACAATAAATGTGTGTATGGGTAGAGTTAGGTTAAGTTTGGGTTGAACT
1 ACAATAAATGTGTGTATGGGTAGAGTTAGGTTAAGTTTGGGTTGAACT
20193148 CATGTATGTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.35
Consensus pattern (48 bp):
ACAATAAATGTGTGTATGGGTAGAGTTAGGTTAAGTTTGGGTTGAACT
Found at i:20200497 original size:42 final size:42
Alignment explanation
Indices: 20200438--20200522 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
20200428 TGGAATCTTA
20200438 TCATACAAGAACATCAAAGCACT-TATAATCTTATCATACACT
1 TCATACAAGAACATCAAAGCA-TGTATAATCTTATCATACACT
20200480 TCATACAAGAACATCAAAGCATGTATAATCTTATCATACACT
1 TCATACAAGAACATCAAAGCATGTATAATCTTATCATACACT
20200522 T
1 T
20200523 ACTTCTCAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 1 0.02
42 41 0.98
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.29
Consensus pattern (42 bp):
TCATACAAGAACATCAAAGCATGTATAATCTTATCATACACT
Found at i:20205192 original size:2 final size:2
Alignment explanation
Indices: 20205185--20205214 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20205175 TAATAGTAGA
20205185 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20205215 TCATAGATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20206468 original size:2 final size:2
Alignment explanation
Indices: 20206461--20206486 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20206451 AGTTATAAGC
20206461 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
20206487 ACATGATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.