Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 66 of 170
Found at i:19635334 original size:3 final size:3
Alignment explanation
Indices: 19635326--19635378 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
19635316 AACTAATACA
* * * * * *
19635326 AAT AAT AAT ACT AAT AAT TAT AGT AAC ATT AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19635374 AAT AA
1 AAT AA
19635379 AGAAAATAGT
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19636084 original size:18 final size:18
Alignment explanation
Indices: 19636063--19636101 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19636053 AACTAATATT
*
19636063 GAAGAAA-CAGAAAATAAA
1 GAAGAAATC-GAAAAGAAA
19636081 GAAGAAATCGAAAAGAAA
1 GAAGAAATCGAAAAGAAA
19636099 GAA
1 GAA
19636102 AAGAATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.69, C:0.05, G:0.21, T:0.05
Consensus pattern (18 bp):
GAAGAAATCGAAAAGAAA
Found at i:19636867 original size:41 final size:40
Alignment explanation
Indices: 19636804--19637077 Score: 242
Period size: 41 Copynumber: 6.6 Consensus size: 40
19636794 CTTTGAATGT
* * * * *
19636804 AAGGGGTTGCTAAGTACAGATTCCTCGAATCATTGATCAAA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAT-TAA
* * * *
19636845 AAAGGGTTGCTATGTGCTGATTCCCCGTATCATTTATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
* *
19636885 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGA-T-TAA
* **
19636929 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTGT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
* * * * * *
19636969 AAGGTGGCTGCTAAGTCCTGATTCCATCGCATCCTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGA-T-TAA
* * *
19637013 AAGGGGTTGCTATGTGCTGATTCCCTGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
*
19637053 AAGGTGGTTGCCAAGTGCTGATTCC
1 AAGG-GGTTGCTAAGTGCTGATTCC
19637078 ACCGGGATCC
Statistics
Matches: 188, Mismatches: 36, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
40 15 0.08
41 86 0.46
42 38 0.20
43 38 0.20
44 11 0.06
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (40 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
Found at i:19636948 original size:84 final size:84
Alignment explanation
Indices: 19636848--19637081 Score: 396
Period size: 84 Copynumber: 2.8 Consensus size: 84
19636838 GATCAAAAAA
*
19636848 GGGTTGCTATGTGCTGATTCCCCGTATCATTTATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
1 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
*
19636913 GTATCCTTGATTGTGAAAG
66 GCATCCTTGATTGTGAAAG
* * * *
19636932 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTGTAAGGTGGCTGCTAAGTCCTGATTCCATC
1 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
19636997 GCATCCTTGATTGTGAAAG
66 GCATCCTTGATTGTGAAAG
* *
19637016 GGGTTGCTATGTGCTGATTCCCTGTATCATTGATTATAAGGTGGTTGCCAAGTGCTGATTCCACC
1 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
19637081 G
66 G
19637082 GGATCCTTTG
Statistics
Matches: 138, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 138 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (84 bp):
GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
GCATCCTTGATTGTGAAAG
Found at i:19646707 original size:20 final size:20
Alignment explanation
Indices: 19646682--19646720 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
19646672 TACTTTCTTC
19646682 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
19646702 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
19646721 AAATAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:19647047 original size:50 final size:50
Alignment explanation
Indices: 19646930--19647164 Score: 195
Period size: 50 Copynumber: 4.6 Consensus size: 50
19646920 ACATGCAAAA
* * ** * * * * *
19646930 GCCATGTCCCAAACATGGTCTTATATGGGATGTTTCCTGT-ACTACCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
* * **
19646979 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCAGTGCCCAA-
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTG-CCAAT
** * *
19647029 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
* * *
19647079 GCCATGTCCCAGACATAGTCTTACGTGGGACCTCTCATAACCTCAATAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---AGTGCCAAT
* *
19647135 GCCATGTCCTAGACATGGTCTTACAGGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
19647165 TCTCATTCCC
Statistics
Matches: 149, Mismatches: 28, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
49 35 0.23
50 75 0.50
51 4 0.03
53 2 0.01
56 33 0.22
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
Found at i:19666590 original size:27 final size:28
Alignment explanation
Indices: 19666548--19666617 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
19666538 ATTTTTAATG
19666548 CATG-TTTTAATATGTCAT-GGCTAGTA
1 CATGTTTTTAATATGTCATAGGCTAGTA
* * * *
19666574 CATGTTTTTAATTTGTCTTAGTCTATTA
1 CATGTTTTTAATATGTCATAGGCTAGTA
19666602 CATGTTTTTAATATGT
1 CATGTTTTTAATATGT
19666618 TCTTGTTTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.11
27 12 0.32
28 21 0.57
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.51
Consensus pattern (28 bp):
CATGTTTTTAATATGTCATAGGCTAGTA
Found at i:19671984 original size:25 final size:25
Alignment explanation
Indices: 19671950--19672003 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
19671940 TGAACCTCTG
19671950 ACCTCCTTACCACACCTATGACGCC
1 ACCTCCTTACCACACCTATGACGCC
*
19671975 ACCTCCTTACCACACCTATGTCGCC
1 ACCTCCTTACCACACCTATGACGCC
19672000 ACCT
1 ACCT
19672004 TGCCACTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.48, G:0.07, T:0.22
Consensus pattern (25 bp):
ACCTCCTTACCACACCTATGACGCC
Found at i:19674545 original size:19 final size:19
Alignment explanation
Indices: 19674521--19674605 Score: 79
Period size: 19 Copynumber: 4.6 Consensus size: 19
19674511 AATAAATTAC
19674521 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTGAGT
19674540 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTGAGT
** * * *
19674559 TGC-T-GGAATAAATT-A-C
1 T-CATCTTAGTTAATTGAGT
19674575 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTGAGT
*
19674594 TCACCTTAGTTA
1 TCATCTTAGTTA
19674606 CTTAAGTTGC
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
15 1 0.02
16 2 0.04
17 7 0.14
18 7 0.14
19 32 0.64
20 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (19 bp):
TCATCTTAGTTAATTGAGT
Found at i:19674668 original size:54 final size:54
Alignment explanation
Indices: 19674502--19674670 Score: 250
Period size: 54 Copynumber: 3.1 Consensus size: 54
19674492 ATAAGTATTT
* * * *
19674502 AGTTGTTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTG
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCAACTTAGTTACTTA
*
19674556 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCACCTTAGTTACTTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCAACTTAGTTACTTA
* * *
19674610 AGTTGCTGGAATAAATTGCTCATCTTAGCTAATTAAGTTCAACTTAGTTCACTT-
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCAACTTAGTT-ACTTA
19674664 AGTTGCT
1 AGTTGCT
19674671 AGATTAAACT
Statistics
Matches: 106, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 102 0.96
55 4 0.04
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (54 bp):
AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCAACTTAGTTACTTA
Found at i:19680713 original size:50 final size:50
Alignment explanation
Indices: 19680640--19680880 Score: 270
Period size: 50 Copynumber: 4.8 Consensus size: 50
19680630 ACATTAGCAT
*
19680640 CACCAAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGG
1 CACCAAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
* *
19680690 CACTAAGATGAGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGG
1 CACCAAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
* * * ** *
19680740 CACCGAGATGAGAGGTCCCACGGAAGACCATGTCTGCAACATGGCATAGG
1 CACCAAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
* * ** * *
19680790 CACCGATATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 CACCAAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
** * ** *
19680840 CAGTACAGA--AAACATCCCATGTAAGACTATGTCTGGGACAT
1 CACCA-AGATGAGAGGTCCCATGTAAGACCATGTCTGGGACAT
19680881 AGTTTTGGCA
Statistics
Matches: 159, Mismatches: 31, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
49 26 0.16
50 131 0.82
51 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (50 bp):
CACCAAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
Found at i:19682107 original size:31 final size:30
Alignment explanation
Indices: 19682042--19682107 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
19682032 TTGCCCAAGA
* **
19682042 GTAAATACACAAAATTTAAGGGATTAAAGT
1 GTAAATACAAAAAATTTAAGGGACCAAAGT
19682072 GTAAATACAAAAAATTTGAA-GGACCAATAGT
1 GTAAATACAAAAAATTT-AAGGGACCAA-AGT
19682103 GTAAA
1 GTAAA
19682108 CATTTTAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 21 0.68
31 10 0.32
ACGTcount: A:0.52, C:0.08, G:0.17, T:0.24
Consensus pattern (30 bp):
GTAAATACAAAAAATTTAAGGGACCAAAGT
Found at i:19685721 original size:18 final size:18
Alignment explanation
Indices: 19685687--19685724 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
19685677 AGGCCATTTT
*
19685687 GGGCTGTGTGGGTCACAC
1 GGGCTGTGTGAGTCACAC
19685705 GGGC-GTGTGAGTCCACAC
1 GGGCTGTGTGAGT-CACAC
19685723 GG
1 GG
19685725 CCATGCAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.13, C:0.24, G:0.45, T:0.18
Consensus pattern (18 bp):
GGGCTGTGTGAGTCACAC
Found at i:19688025 original size:54 final size:51
Alignment explanation
Indices: 19687956--19688088 Score: 142
Period size: 51 Copynumber: 2.6 Consensus size: 51
19687946 TGAACAAATG
* *
19687956 AGTTACTTAATGCATGACTTAATTTAATGATGCAAACTTTAAACTAACATGCC
1 AGTTACATAATGCATGACTTAATTTAATGATGCAAAC-TT-AACTAACATGAC
* * * * * *
19688009 AGTTACATAAATGCATGTCATAATTT-AGGATGCAAACTTAATTAACATTAG
1 AGTTACAT-AATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGAC
* *
19688060 AGTTACATAATGCATGACTTCATTAAATG
1 AGTTACATAATGCATGACTTAATTTAATG
19688089 CAGAACACAT
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
50 13 0.20
51 18 0.28
52 2 0.03
53 17 0.26
54 15 0.23
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (51 bp):
AGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGAC
Found at i:19695697 original size:39 final size:40
Alignment explanation
Indices: 19695654--19695915 Score: 282
Period size: 40 Copynumber: 6.6 Consensus size: 40
19695644 TCCTCGTTCA
* * * * *
19695654 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
19695693 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
19695733 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
19695773 AATGCCTTCGGGACTTAACCCGGATTTAAT-ACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
19695812 AAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
** * * * *
19695852 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
19695892 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19695916 CAGCATTCAA
Statistics
Matches: 193, Mismatches: 23, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
39 68 0.35
40 117 0.61
41 8 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:19695755 original size:79 final size:79
Alignment explanation
Indices: 19695652--19695915 Score: 284
Period size: 79 Copynumber: 3.3 Consensus size: 79
19695642 GCTCCTCGTT
* * * *
19695652 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACTTAACCCGG
19695716 ATTTAATAACTCGCA
66 ATTTAAT-ACTCGCA
* *
19695731 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACTTAACCCGG
19695796 ATTTAATACTCGCA
66 ATTTAATACTCGCA
* * * * * * * **
19695810 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCACACGAATGCCTTCGGGA-CTTAACCC
* * *
19695873 GGATATATTCACTTAGCA
64 GGATTTAAT-AC-TCGCA
*
19695891 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
19695916 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
78 3 0.02
79 96 0.60
80 53 0.33
81 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACTTAACCCGG
ATTTAATACTCGCA
Found at i:19695829 original size:119 final size:119
Alignment explanation
Indices: 19695654--19695915 Score: 298
Period size: 119 Copynumber: 2.2 Consensus size: 119
19695644 TCCTCGTTCA
* * * * *
19695654 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGG-AT
1 AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAAGGCCTTCGGGACTTAACCCGGAAC
* * *
19695718 TTAATAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
66 TT-ATAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAATAACTTAGCAC
* * *
19695772 GAATGCCTTCGGGACTTAACCCGGATTTAAT-ACTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AAGGCCTTCGGGACTTAACCCGGA
* * ** * *
19695836 ACTTGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCAC
64 ACTTATAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
*
19695892 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
19695916 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
118 10 0.08
119 102 0.85
120 8 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAAGGCCTTCGGGACTTAACCCGGAAC
TTATAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
Found at i:19695924 original size:41 final size:41
Alignment explanation
Indices: 19695847--19695924 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
19695837 CTTGTATCTC
* * *
19695847 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
19695888 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
19695925 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:19703308 original size:39 final size:40
Alignment explanation
Indices: 19703265--19703525 Score: 282
Period size: 40 Copynumber: 6.6 Consensus size: 40
19703255 TCCTCGTTCA
* * * * *
19703265 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
19703304 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
19703344 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
19703384 AATGCCTTCGGGACTTAACCCGGATTTAAT-ACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
19703423 AAGGCCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
** * * * *
19703462 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
19703502 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19703526 CAGCATTCAA
Statistics
Matches: 193, Mismatches: 21, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
38 13 0.07
39 74 0.38
40 98 0.51
41 8 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:19703366 original size:79 final size:79
Alignment explanation
Indices: 19703263--19703525 Score: 284
Period size: 79 Copynumber: 3.3 Consensus size: 79
19703253 GCTCCTCGTT
* * * *
19703263 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACTTAACCCGG
19703327 ATTTAATAACTCGCA
66 ATTTAAT-ACTCGCA
* *
19703342 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACTTAACCCGG
19703407 ATTTAATACTCGCA
66 ATTTAATACTCGCA
* * * * * * **
19703421 CAAAGGCCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCACACGAATGCCTTCGGGA-CTTAACCC
* * *
19703483 GGATATATTCACTTAGCA
64 GGATTTAAT-AC-TCGCA
*
19703501 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
19703526 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
77 3 0.02
78 41 0.26
79 69 0.43
80 47 0.29
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACTTAACCCGG
ATTTAATACTCGCA
Found at i:19703458 original size:118 final size:119
Alignment explanation
Indices: 19703265--19703525 Score: 298
Period size: 118 Copynumber: 2.2 Consensus size: 119
19703255 TCCTCGTTCA
* * * * *
19703265 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAAGGCCTTCGGGACTTAACCCGGACT
* * *
19703330 TAATAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAATAACTTAGCAC
* *
19703383 GAATGCCTTCGGGACTTAACCCGGATTTAAT-ACTCGCACAAAGGCCTTCGGG-CTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AAGGCCTTCGGGACTTAACCCGG-
* * ** * *
19703446 ACTT-GTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCAC
63 ACTTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
*
19703502 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
19703526 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
117 3 0.03
118 72 0.60
119 45 0.38
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAAGGCCTTCGGGACTTAACCCGGACT
TAATAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
Found at i:19703534 original size:41 final size:41
Alignment explanation
Indices: 19703457--19703534 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
19703447 CTTGTATCTC
* * *
19703457 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
19703498 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
19703535 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:19708980 original size:19 final size:19
Alignment explanation
Indices: 19708956--19709091 Score: 51
Period size: 19 Copynumber: 7.0 Consensus size: 19
19708946 AATATGCAAT
19708956 TAGGGGTACCAAAGTACAA
1 TAGGGGTACCAAAGTACAA
* * * ***
19708975 TAGGGGCACGAATGTGTGA
1 TAGGGGTACCAAAGTACAA
**
19708994 TCAGGGGTACTGAAGTACAA
1 T-AGGGGTACCAAAGTACAA
* * * * *
19709014 CAGGGGCA-CATATGTGCGA
1 TAGGGGTACCA-AAGTACAA
*
19709033 TCAGGGGTACCAAAGTACAG
1 T-AGGGGTACCAAAGTACAA
* * *
19709053 TAAGGGCA-CATATGTACAA
1 TAGGGGTACCA-AAGTACAA
*
19709072 TTAGGGGTACCGAAGTACAA
1 -TAGGGGTACCAAAGTACAA
19709092 CAGTGGCACG
Statistics
Matches: 76, Mismatches: 34, Indels: 13
0.62 0.28 0.11
Matches are distributed among these distances:
18 2 0.03
19 36 0.47
20 35 0.46
21 3 0.04
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (19 bp):
TAGGGGTACCAAAGTACAA
Found at i:19709013 original size:78 final size:77
Alignment explanation
Indices: 19708918--19709155 Score: 271
Period size: 78 Copynumber: 3.1 Consensus size: 77
19708908 AGTGAAAATT
* * *
19708918 AGGGGTACTAAAGTACAACAGGGGCATGAATATGCAATTAGGGGTACCAAAGTACAATAGGGGCA
1 AGGGGTACTGAAGTACAACAGGGGCA-GAATGTGCAATCAGGGGTACCAAAGTACAATAGGGGCA
19708983 CGAATGTGTGATC
65 CGAATGTGTGATC
* * * *
19708996 AGGGGTACTGAAGTACAACAGGGGCACATATGTGCGATCAGGGGTACCAAAGTACAGTAAGGGCA
1 AGGGGTACTGAAGTACAACAGGGGCAGA-ATGTGCAATCAGGGGTACCAAAGTACAATAGGGGCA
*** *
19709061 C-ATATGTACAATT
65 CGA-ATGTGTGATC
* * * * * *
19709074 AGGGGTACCGAAGTACAACAGTGGCACGTATGTGTAATCAGGGGTATCGAAGTACAATAGGGGCA
1 AGGGGTACTGAAGTACAACAGGGGCA-GAATGTGCAATCAGGGGTACCAAAGTACAATAGGGGCA
*
19709139 CGTATGTGTGATC
65 CGAATGTGTGATC
19709152 AGGG
1 AGGG
19709156 AATAATTACA
Statistics
Matches: 130, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
77 2 0.02
78 128 0.98
ACGTcount: A:0.33, C:0.15, G:0.32, T:0.20
Consensus pattern (77 bp):
AGGGGTACTGAAGTACAACAGGGGCAGAATGTGCAATCAGGGGTACCAAAGTACAATAGGGGCAC
GAATGTGTGATC
Found at i:19709139 original size:39 final size:39
Alignment explanation
Indices: 19708900--19709155 Score: 233
Period size: 39 Copynumber: 6.5 Consensus size: 39
19708890 ATGTAATCAA
* * * **
19708900 GGCACGTAAGTGAAAATTAGGGGTACTAAAGTACAACAGG
1 GGCACGTATGTG-CAATCAGGGGTACCGAAGTACAACAGG
* * * * * *
19708940 GGCATGAATATGCAATTAGGGGTACCAAAGTACAATAGG
1 GGCACGTATGTGCAATCAGGGGTACCGAAGTACAACAGG
* ** *
19708979 GGCACGAATGTGTGATCAGGGGTACTGAAGTACAACAGG
1 GGCACGTATGTGCAATCAGGGGTACCGAAGTACAACAGG
* * * ** *
19709018 GGCACATATGTGCGATCAGGGGTACCAAAGTACAGTAAG
1 GGCACGTATGTGCAATCAGGGGTACCGAAGTACAACAGG
* * * *
19709057 GGCACATATGTACAATTAGGGGTACCGAAGTACAACAGT
1 GGCACGTATGTGCAATCAGGGGTACCGAAGTACAACAGG
* * *
19709096 GGCACGTATGTGTAATCAGGGGTATCGAAGTACAATAGG
1 GGCACGTATGTGCAATCAGGGGTACCGAAGTACAACAGG
**
19709135 GGCACGTATGTGTGATCAGGG
1 GGCACGTATGTGCAATCAGGG
19709156 AATAATTACA
Statistics
Matches: 177, Mismatches: 39, Indels: 1
0.82 0.18 0.00
Matches are distributed among these distances:
39 169 0.95
40 8 0.05
ACGTcount: A:0.34, C:0.15, G:0.32, T:0.20
Consensus pattern (39 bp):
GGCACGTATGTGCAATCAGGGGTACCGAAGTACAACAGG
Found at i:19714666 original size:27 final size:27
Alignment explanation
Indices: 19714635--19714812 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19714625 TAAATTGTAC
19714635 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
19714662 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19714688 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
19714716 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
19714744 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19714771 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19714798 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19714813 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19714749 original size:82 final size:81
Alignment explanation
Indices: 19714636--19714791 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19714626 AAATTGTACA
* *
19714636 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
19714700 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
19714717 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
19714782 TGCGAGTTGA
65 TGCGAATTGA
19714792 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:19714803 original size:82 final size:81
Alignment explanation
Indices: 19714632--19714812 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
19714622 GATTAAATTG
* *
19714632 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19714697 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
19714713 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19714777 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19714795 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19714813 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19726160 original size:27 final size:27
Alignment explanation
Indices: 19726129--19726306 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19726119 TAAATTGTAC
19726129 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
19726156 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19726182 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
19726210 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
19726238 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19726265 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19726292 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19726307 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19726243 original size:82 final size:81
Alignment explanation
Indices: 19726130--19726285 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19726120 AAATTGTACA
* *
19726130 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
19726194 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
19726211 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
19726276 TGCGAGTTGA
65 TGCGAATTGA
19726286 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:19726297 original size:82 final size:81
Alignment explanation
Indices: 19726126--19726306 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
19726116 GATTAAATTG
* *
19726126 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19726191 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
19726207 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19726271 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19726289 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19726307 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19739763 original size:30 final size:30
Alignment explanation
Indices: 19739729--19739786 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
19739719 TTCGAGCTTG
19739729 GGGAC-AAATATGTAATTATACAAAAGTTTA
1 GGGACAAAAT-TGTAATTATACAAAAGTTTA
* *
19739759 GGGACAAAATTGTAATTTTATAAAAGTT
1 GGGACAAAATTGTAATTATACAAAAGTT
19739787 GAGTCGAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (30 bp):
GGGACAAAATTGTAATTATACAAAAGTTTA
Found at i:19740152 original size:51 final size:51
Alignment explanation
Indices: 19740076--19740572 Score: 202
Period size: 51 Copynumber: 9.7 Consensus size: 51
19740066 GATGAACACG
** *
19740076 TGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAA-TAATGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAACT-ATGGTCACA
* * * * *
19740127 TGTGTAGTACTAAGTGAAAGCTACTATGTGTA-CCA-AAATTCTTTGAG-CACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAA--CTATG-GTCACA
** * * * * *
19740178 TGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGTAAACTACGGTTACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAACTATGGTCACA
* * * * * *
19740229 TGTGTAGTACTAAGTGAAGGCTACAATGGGTACCGA-AAAGCTTTGGTGCTTTGGGCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAA-CTAT-G-G---T---CACA
** * * * * * * *
19740288 TGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGTAGACTACGATTACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAACTATGGTCACA
* * * * * *
19740339 TGTGTAGTACTAAGTGAAGGCTACAATGGGTACCGA-AAAGCTTTGGTCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAA-CTATGGTCACA
* * * * *
19740390 TATGTAGTACTATGTGAAGGCTACTACGTG-AGCCG-TAAAACT-TGATCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTA-TCGAT-AAACTATGGTCACA
* * * * **
19740440 TGTGTAATACTATGTGAAGGCTACTACGTG-AACTG-TAAA--ACTGATCATG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATC-GATAAACTA-TGGTCACA
* * * * *
19740489 TGTGTAGTACTATGTGAA-GCTACTATGTG-AACTG-TAAAACTA--ATCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATC-GAT-AAACTATGGTCACA
* *
19740537 TGTGTAGTATTATGTGAAGGCTACTACGTGTATCGA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGA
19740573 ATGATAAAAA
Statistics
Matches: 338, Mismatches: 78, Indels: 61
0.71 0.16 0.13
Matches are distributed among these distances:
48 38 0.11
49 45 0.13
50 49 0.14
51 159 0.47
52 7 0.02
53 4 0.01
54 1 0.00
56 1 0.00
58 1 0.00
59 31 0.09
60 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAACTATGGTCACA
Found at i:19740252 original size:102 final size:102
Alignment explanation
Indices: 19740072--19740419 Score: 441
Period size: 102 Copynumber: 3.3 Consensus size: 102
19740062 TGTCGATGAA
* * * * *
19740072 CACGTGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGGATCGGTAAACT-ACGGTTACATGTGTAGTA
* * *
19740136 CTAAGTGAAAGCTACTATGTGTACC-AAAATTCTTTGAG
65 CTAAGTGAAGGCTACAATGGGTACCGAAAATTCTTTG-G
*
19740174 CACGTGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGTAAACTACGGTTACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGGATCGGTAAACTACGGTTACATGTGTAGTAC
19740239 TAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGTGCTTTGGG
66 TAAGTGAAGGCTACAATGGGTACCGAAAA----T--T-CTTT-GG
* * *
19740284 CACGTGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGTAGACTACGATTACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGGATCGGTAAACTACGGTTACATGTGTAGTAC
*
19740349 TAAGTGAAGGCTACAATGGGTACCGAAAA-GCTTTGG
66 TAAGTGAAGGCTACAATGGGTACCGAAAATTCTTTGG
* *
19740385 TCACGTATGTAGTACTATGTGAAGGCTACTACGTG
1 -CACGTGTGTAGTACTGTGTGAAGGCTACTACGTG
19740420 AGCCGTAAAA
Statistics
Matches: 220, Mismatches: 15, Indels: 22
0.86 0.06 0.09
Matches are distributed among these distances:
101 2 0.01
102 113 0.51
103 5 0.02
107 1 0.00
109 1 0.00
110 97 0.44
111 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGGATCGGTAAACTACGGTTACATGTGTAGTAC
TAAGTGAAGGCTACAATGGGTACCGAAAATTCTTTGG
Found at i:19740360 original size:110 final size:110
Alignment explanation
Indices: 19740167--19740385 Score: 411
Period size: 110 Copynumber: 2.0 Consensus size: 110
19740157 TACCAAAATT
*
19740167 CTTTGAGCACGTGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGTAAACTACGGTTACATGT
1 CTTTGAGCACGTGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGTAAACTACGATTACATGT
19740232 GTAGTACTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGTG
66 GTAGTACTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGTG
* *
19740277 CTTTGGGCACGTGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGTAGACTACGATTACATGT
1 CTTTGAGCACGTGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGTAAACTACGATTACATGT
19740342 GTAGTACTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGT
66 GTAGTACTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGT
19740386 CACGTATGTA
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 106 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (110 bp):
CTTTGAGCACGTGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGTAAACTACGATTACATGT
GTAGTACTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGTG
Found at i:19740540 original size:48 final size:49
Alignment explanation
Indices: 19740284--19740566 Score: 284
Period size: 51 Copynumber: 5.7 Consensus size: 49
19740274 GTGCTTTGGG
* * * * *
19740284 CACGTGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGT-AGACTACGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGT-GAACTGTAAAACT--GAT
* * * * * * * * *
19740335 TACATGTGTAGTACTAAGTGAAGGCTACAATGGGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAA-C--TGAT
* * *
19740386 CACGTATGTAGTACTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAAC-TGAT
*
19740436 CACGTGTGTAATACTATGTGAAGGCTACTACGTGAACTGTAAAACTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGAT
* * *
19740485 CATGTGTGTAGTACTATGTGAA-GCTACTATGTGAACTGTAAAACTAAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGAT
*
19740533 CACGTGTGTAGTATTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
19740567 TATCGAATGA
Statistics
Matches: 192, Mismatches: 34, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
48 44 0.23
49 34 0.18
50 50 0.26
51 59 0.31
52 4 0.02
53 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (49 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGAT
Found at i:19740605 original size:99 final size:97
Alignment explanation
Indices: 19740393--19740605 Score: 252
Period size: 99 Copynumber: 2.2 Consensus size: 97
19740383 GGTCACGTAT
* *
19740393 GTAGTACTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACGTGTGTAATACTATGTGAA
1 GTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTAATCACGTGTGTAATACTATGTGAA
* * * *
19740458 GGCTACTACGTGAACTGTAAAACTGATCATGTGT
66 GGCTACTACGTGAAATGTAAAAC--ATAATATGA
* * * *
19740492 GTAGTACTATGTGAA-GCTACTATGTGAACTGTAAAAC-TAATCACGTGTGTAGTATTATGTGAA
1 GTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTAATCACGTGTGTAATACTATGTGAA
19740555 GGCTACTACGTGTATCGAATGATAAAA-ATAATATGA
66 GGCTACTACGTG-A---AATG-TAAAACATAATATGA
19740591 GTAGTACTATGTGAA
1 GTAGTACTATGTGAA
19740606 AAGCTCCGAA
Statistics
Matches: 99, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
97 35 0.35
98 20 0.20
99 36 0.36
101 3 0.03
102 5 0.05
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (97 bp):
GTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTAATCACGTGTGTAATACTATGTGAA
GGCTACTACGTGAAATGTAAAACATAATATGA
Found at i:19741432 original size:16 final size:16
Alignment explanation
Indices: 19741389--19741422 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
19741379 ATCAATTACA
19741389 TACATACTTACTAAGC
1 TACATACTTACTAAGC
19741405 TACATACTTACTAAGC
1 TACATACTTACTAAGC
19741421 TA
1 TA
19741423 TAAGCTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (16 bp):
TACATACTTACTAAGC
Found at i:19747937 original size:51 final size:49
Alignment explanation
Indices: 19747857--19748195 Score: 224
Period size: 51 Copynumber: 6.7 Consensus size: 49
19747847 TGTCGATGAA
* * * *
19747857 CACGTGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACT-AGTGAAGGCTACTACGTGTACCG-TAAATATTGGT
* * *
19747908 CACATGTGTAGTACTGAGTGAAGGCTACTATGTGTACCG-AAATGCTTTGAG-
1 CACGTGTGTAGTACT-AGTGAAGGCTACTACGTGTACCGTAAAT--ATTG-GT
* * * ** *
19747959 CACGCGTGTAGTACTTTGTGAATGCTACTACGTGTATTGGTAAACTA-CGGT
1 CACGTGTGTAGTAC-TAGTGAAGGCTACTACGTGTA-CCGTAAA-TATTGGT
* * * * * *
19748010 TACATGTGTAGTACTAAGTGAAGGCTACAATGGGTACCGAAAAGCT-TTGGT
1 CACGTGTGTAGTACT-AGTGAAGGCTACTACGTGTACCGTAAA--TATTGGT
* *
19748061 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAA-ACTTGAT
1 CACGTGTGTAGTACTA-GTGAAGGCTACTACGTGTA-CCGTAAATA-TTGGT
* * * * *
19748111 CACGTGTGTAGTACTATCTGAAGGCTACTACGTGGACTGTAAA-ACTGAT
1 CACGTGTGTAGTACTA-GTGAAGGCTACTACGTGTACCGTAAATATTGGT
* *
19748160 CACGTGTGTAGTACTACGTAAAGGCTACTAAGTGTA
1 CACGTGTGTAGTACTA-GTGAAGGCTACTACGTGTA
19748196 TCGAATGATA
Statistics
Matches: 227, Mismatches: 45, Indels: 34
0.74 0.15 0.11
Matches are distributed among these distances:
49 39 0.17
50 51 0.22
51 130 0.57
52 3 0.01
53 3 0.01
54 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (49 bp):
CACGTGTGTAGTACTAGTGAAGGCTACTACGTGTACCGTAAATATTGGT
Found at i:19748047 original size:102 final size:102
Alignment explanation
Indices: 19747857--19748199 Score: 319
Period size: 102 Copynumber: 3.4 Consensus size: 102
19747847 TGTCGATGAA
* * *
19747857 CACGTGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAACGGTCACATGTGTAGTAC
* * * *
19747922 TGAGTGAAGGCTACTATGTGTACCGAAATGCTTTGAG-
66 TAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTG-GT
* * * * * *
19747959 CACGCGTGTAGTACTTTGTGAATGCTACTACGTGTATTGGTAAACT-ACGGTTACATGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TAACGGTCACATGTGTAGTA
19748023 CTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGT
65 CTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGT
* * * *
19748061 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCG-T-AA-AACTTGATCACGTGTGTAG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-TCGATAAATAAC--GGTCACATGTGTAG
** * * * *
19748122 TACTATCTGAAGGCTACTACGTGG-ACTGTAAAA-C--TGAT
63 TACTAAGTGAAGGCTACAATG-GGTACCG-AAAAGCTTTGGT
* * *
19748160 CACGTGTGTAGTACTACGTAAAGGCTACTAAGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
19748200 ATGATAAAAA
Statistics
Matches: 199, Mismatches: 32, Indels: 22
0.79 0.13 0.09
Matches are distributed among these distances:
99 37 0.19
100 3 0.02
101 35 0.18
102 123 0.62
103 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAACGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGT
Found at i:19751037 original size:136 final size:138
Alignment explanation
Indices: 19750773--19751040 Score: 450
Period size: 136 Copynumber: 2.0 Consensus size: 138
19750763 AAGGAATTAC
* * *
19750773 ATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGGCCAAAATTAATTAATATAAC
1 ATTCTGTCCAAAAGAATACTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAATATAAC
* *
19750838 ATTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATTAAATTCATATA
66 ATTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTACGAATCAAATTCATATA
19750903 TTTATTGT
131 TTTATTGT
* *
19750911 ATTCTGTCCAAAAGAATACTAATTTCCATGTCTTTTATATTTT-ACCGAAATTAGTTAATATAAC
1 ATTCTGTCCAAAAGAATACTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAATATAAC
*
19750975 -TTTTTTATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTACGAATCAAATTCATATA
66 ATTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTACGAATCAAATTCATATA
19751039 TT
131 TT
19751041 AATTATATCT
Statistics
Matches: 122, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
136 63 0.52
137 18 0.15
138 41 0.34
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (138 bp):
ATTCTGTCCAAAAGAATACTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAATATAAC
ATTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTACGAATCAAATTCATATA
TTTATTGT
Found at i:19753044 original size:13 final size:13
Alignment explanation
Indices: 19753026--19753056 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
19753016 TGGATGATTA
19753026 ATTCATGAACAAT
1 ATTCATGAACAAT
*
19753039 ATTCATGAATAAT
1 ATTCATGAACAAT
19753052 ATTCA
1 ATTCA
19753057 AAGGAGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (13 bp):
ATTCATGAACAAT
Found at i:19753817 original size:15 final size:17
Alignment explanation
Indices: 19753785--19753817 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
19753775 GGTTTGTTCT
19753785 TCAACATTAGTCTAAAC
1 TCAACATTAGTCTAAAC
19753802 TCAAC-TTAGT-TAAAC
1 TCAACATTAGTCTAAAC
19753817 T
1 T
19753818 ATCCATCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.33
Consensus pattern (17 bp):
TCAACATTAGTCTAAAC
Found at i:19754426 original size:22 final size:23
Alignment explanation
Indices: 19754401--19754452 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
19754391 AAATCCAAGT
*
19754401 TAAATAAAATAATTAAATTA-AA
1 TAAATAAAATAATTAAAATAGAA
**
19754423 TAAATAAGGTAATTAAAATAGAA
1 TAAATAAAATAATTAAAATAGAA
19754446 T-AATAAA
1 TAAATAAA
19754453 TATACGATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (23 bp):
TAAATAAAATAATTAAAATAGAA
Found at i:19756293 original size:27 final size:27
Alignment explanation
Indices: 19756240--19756293 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
19756230 TAATTAAAAG
* *
19756240 AAACACTTATTAAATAAAGTTTAATGA
1 AAACACTTATTAAATAAAGCTAAATGA
*
19756267 AAACACTTATTAATTAAA-CTAAGATGA
1 AAACACTTATTAAATAAAGCTAA-ATGA
19756294 GTTTAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.31
Consensus pattern (27 bp):
AAACACTTATTAAATAAAGCTAAATGA
Found at i:19756501 original size:50 final size:52
Alignment explanation
Indices: 19756376--19756506 Score: 126
Period size: 50 Copynumber: 2.6 Consensus size: 52
19756366 TGAACAAATG
* * * *
19756376 AGTTACTTAATGCAAT-ACTTAATTTAATGATGCAGACTTAAACTAATATGGG
1 AGTTACATAATGC-ATGACTTTATTTAATGATGCAGACTTAAACTAACATGGA
* * * *
19756428 AGTTACATAATACATGTCATTATTT-ATGATGC-GTACTT-AACTAGCATGGA
1 AGTTACATAATGCATGACTTTATTTAATGATGCAG-ACTTAAACTAACATGGA
* *
19756478 AGTTGCATAATGCATGACTTTATTGAATG
1 AGTTACATAATGCATGACTTTATTTAATG
19756507 TAGAACAGAC
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
50 30 0.48
51 16 0.25
52 17 0.27
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (52 bp):
AGTTACATAATGCATGACTTTATTTAATGATGCAGACTTAAACTAACATGGA
Found at i:19762275 original size:39 final size:39
Alignment explanation
Indices: 19762161--19762276 Score: 153
Period size: 39 Copynumber: 3.0 Consensus size: 39
19762151 ATTTTAGTTT
* * *
19762161 GAGTCTTTAATTATGTCAGAATTTGAACATCAATAATAT
1 GAGTCTTTAATTATGTCATAATTTGAACATCATTAATAA
* *
19762200 GAGTTTTTAATTATGTCATAATCTGAACATCATTAATAA
1 GAGTCTTTAATTATGTCATAATTTGAACATCATTAATAA
* *
19762239 GAGTCTTTAATTATGTCATAGTTTGGACAT-ATTTAATA
1 GAGTCTTTAATTATGTCATAATTTGAACATCA-TTAATA
19762277 CATGTTTTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
38 1 0.01
39 66 0.99
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.41
Consensus pattern (39 bp):
GAGTCTTTAATTATGTCATAATTTGAACATCATTAATAA
Found at i:19764575 original size:53 final size:49
Alignment explanation
Indices: 19764452--19764580 Score: 132
Period size: 50 Copynumber: 2.5 Consensus size: 49
19764442 ATGTGTTCTG
* **
19764452 TATTTAATAAGTCATGCATTATGTTACTCTTATGTTAGTTAAGATTGCA
1 TATTTAATAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGATTGCA
* * * *
19764501 TAATAAATTATGTCATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCA
1 TATTTAA-TAAGTCATGCATTATGTAACTCCCATGTTAGTT-AAGATTGCA
* *
19764552 TTTTTTTAATGAAGTCATGCATTAAGTAA
1 --TATTTAAT-AAGTCATGCATTATGTAA
19764581 TTCATTGTTC
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
49 5 0.08
50 29 0.46
51 8 0.13
52 1 0.02
53 20 0.32
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.43
Consensus pattern (49 bp):
TATTTAATAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGATTGCA
Found at i:19768841 original size:19 final size:20
Alignment explanation
Indices: 19768817--19768856 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
19768807 CGAGTTGGTT
*
19768817 GGAGCTGGAA-TAAGCTAAA
1 GGAGCTGAAATTAAGCTAAA
*
19768836 GGAGCTGAAATTGAGCTAAA
1 GGAGCTGAAATTAAGCTAAA
19768856 G
1 G
19768857 TCAGCCTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.40, C:0.10, G:0.33, T:0.17
Consensus pattern (20 bp):
GGAGCTGAAATTAAGCTAAA
Found at i:19772133 original size:17 final size:18
Alignment explanation
Indices: 19772096--19772144 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
19772086 AACACTTCAC
*
19772096 TTTTTTTTAATACTTGAAT
1 TTTTTTTTAAT-TTTGAAT
19772115 TTTTTTTTAATTTTG-AT
1 TTTTTTTTAATTTTGAAT
19772132 TTTTTTTTCAATT
1 TTTTTTTT-AATT
19772145 ACAATAGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 10 0.36
18 7 0.25
19 11 0.39
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (18 bp):
TTTTTTTTAATTTTGAAT
Found at i:19775154 original size:39 final size:39
Alignment explanation
Indices: 19775100--19775196 Score: 131
Period size: 39 Copynumber: 2.5 Consensus size: 39
19775090 TATTTTAGTT
* * *
19775100 TGAGTCTTTAATTATGTCATAATTTGAACATCATTAATA
1 TGAGTTTTTAATTATGTCATAATCTAAACATCATTAATA
*
19775139 TGAGTTTTTAATTATGTCATAATCTAAACATCATTGATA
1 TGAGTTTTTAATTATGTCATAATCTAAACATCATTAATA
** *
19775178 AAAATTTTTAATTATGTCA
1 TGAGTTTTTAATTATGTCA
19775197 AAGTTTGGAC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (39 bp):
TGAGTTTTTAATTATGTCATAATCTAAACATCATTAATA
Found at i:19776620 original size:41 final size:40
Alignment explanation
Indices: 19776557--19776746 Score: 200
Period size: 41 Copynumber: 4.6 Consensus size: 40
19776547 CTTTAAATGT
* * *
19776557 AAGGGGTTGCTAAGTGCAGATTCCTCGAATCATTTATCAAA
1 AAGGGGTTGCTAAGTGCTGATTCCTCGAATCATTGAT-TAA
* * *
19776598 AAGGGGTTGCTATGTGCTGATTCCTCGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCTCGAATCATTGATTAA
* * * *
19776638 AAGGTGGTTGCTAAGTGCTGATTCCACCATATCCTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCCTCGA-ATCATTGA-T-TAA
* * * *
19776682 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCTCGAATCATTGATTAA
19776722 AAGGTGGTTGCTAAGTGCTGATTCC
1 AAGG-GGTTGCTAAGTGCTGATTCC
19776747 ACCGATATCC
Statistics
Matches: 123, Mismatches: 21, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
40 10 0.08
41 73 0.59
42 14 0.11
43 21 0.17
44 5 0.04
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (40 bp):
AAGGGGTTGCTAAGTGCTGATTCCTCGAATCATTGATTAA
Found at i:19776700 original size:84 final size:85
Alignment explanation
Indices: 19776597--19776758 Score: 308
Period size: 84 Copynumber: 1.9 Consensus size: 85
19776587 CATTTATCAA
*
19776597 AAAGGGGTTGCTATGTGCTGATTCCTCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
19776662 CACC-ATATCCTTGATTGTG
66 CACCGATATCCTTGATTGTG
19776681 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
19776746 CACCGATATCCTT
66 CACCGATATCCTT
19776759 TGAACATGAG
Statistics
Matches: 76, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
84 68 0.89
85 8 0.11
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.36
Consensus pattern (85 bp):
AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
CACCGATATCCTTGATTGTG
Found at i:19776777 original size:44 final size:43
Alignment explanation
Indices: 19776602--19776794 Score: 227
Period size: 41 Copynumber: 4.6 Consensus size: 43
19776592 ATCAAAAAGG
* * * *
19776602 GGTTGCTATGTGCTGATTCC-TCG-TATCATTGATTATAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGATATCCTTGATTATGAGGT
*
19776643 GGTTGCTAAGTGCTGATTCCACC-ATATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGATATCCTTGATTATG--AGGT
* * *
19776686 GGTTGCTATGTGCTGATTCC-CCG-TATCATTGATTATAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGATATCCTTGATTATGAGGT
**
19776727 GGTTGCTAAGTGCTGATTCCACCGATATCCTTTGAACATGAGGT
1 GGTTGCTAAGTGCTGATTCCACCGATATCC-TTGATTATGAGGT
19776771 GGTTGCTAAGTGCTGATTCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
19776795 TGTAACGATT
Statistics
Matches: 129, Mismatches: 14, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
40 3 0.02
41 38 0.29
42 28 0.22
43 23 0.18
44 37 0.29
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGATATCCTTGATTATGAGGT
Found at i:19779949 original size:29 final size:29
Alignment explanation
Indices: 19779852--19779966 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 29
19779842 GTGGAATCAC
* *
19779852 GATGGTTGTCACCATCCTTTTTCATAATA
1 GATGGTCGTCACCATCCTTTTTCATAATT
* * * *
19779881 GATAGTCG-AAGCTAT-CTCTTTCATAATT
1 GATGGTCGTCA-CCATCCTTTTTCATAATT
* *
19779909 CGATGGTTGTCACCATCCTTTTTCATAGTT
1 -GATGGTCGTCACCATCCTTTTTCATAATT
* *
19779939 GATGGTCGTCATCATCCCTTTTCATAAT
1 GATGGTCGTCACCATCCTTTTTCATAAT
19779967 CGATAGTATA
Statistics
Matches: 66, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
28 12 0.18
29 42 0.64
30 12 0.18
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.41
Consensus pattern (29 bp):
GATGGTCGTCACCATCCTTTTTCATAATT
Found at i:19780985 original size:132 final size:132
Alignment explanation
Indices: 19780748--19781017 Score: 495
Period size: 132 Copynumber: 2.0 Consensus size: 132
19780738 AGCTATTAAG
*
19780748 ACTAAAAAAAATTAAATGAGCTAAAGACAACTGAAATTGCTGCAGTAATTTAGACAAATTAAATG
1 ACTAAAAAAAATTAAATGAGCTAAAGACAACTAAAATTGCTGCAGTAATTTAGACAAATTAAATG
19780813 ACTTAGACCTATTAATGTCGAAAGTACTTAGACAAATTAAATGGCTTAAAAACACATTTAACACT
66 ACTTAGACCTATTAATGTCGAAAGTACTTAGACAAATTAAATGGCTTAAAAACACATTTAACACT
19780878 TA
131 TA
* * *
19780880 ACTAAAACAAATTAAATGAGCTAAAGACAATTAAAATTGCTGTAGTAATTTAGACAAATTAAATG
1 ACTAAAAAAAATTAAATGAGCTAAAGACAACTAAAATTGCTGCAGTAATTTAGACAAATTAAATG
*
19780945 ACTTAGACCTATTAATGTCGAAAGTACTTAGATAAATTAAATGGCTTAAAAACACATTTAACACT
66 ACTTAGACCTATTAATGTCGAAAGTACTTAGACAAATTAAATGGCTTAAAAACACATTTAACACT
19781010 TA
131 TA
19781012 ACTAAA
1 ACTAAA
19781018 TTAATTAAAT
Statistics
Matches: 133, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 133 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.28
Consensus pattern (132 bp):
ACTAAAAAAAATTAAATGAGCTAAAGACAACTAAAATTGCTGCAGTAATTTAGACAAATTAAATG
ACTTAGACCTATTAATGTCGAAAGTACTTAGACAAATTAAATGGCTTAAAAACACATTTAACACT
TA
Found at i:19781038 original size:22 final size:21
Alignment explanation
Indices: 19781007--19781048 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
19780997 CACATTTAAC
*
19781007 ACTTAACTAAATTAATTAAAT
1 ACTTAACTAAATTAACTAAAT
19781028 ACTTAAACTAAATTAACTAAA
1 ACTT-AACTAAATTAACTAAA
19781049 ATTTATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTTAACTAAATTAACTAAAT
Found at i:19791370 original size:12 final size:12
Alignment explanation
Indices: 19791353--19791377 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19791343 GGCAGATGAA
19791353 TGATCACTTTCT
1 TGATCACTTTCT
19791365 TGATCACTTTCT
1 TGATCACTTTCT
19791377 T
1 T
19791378 CATAGGGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.08, T:0.52
Consensus pattern (12 bp):
TGATCACTTTCT
Found at i:19793673 original size:20 final size:20
Alignment explanation
Indices: 19793623--19793681 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
19793613 CCAAGTCAAA
*
19793623 CAAATTTTA-AAAAATAAGAT
1 CAAATATTAGAAAAATAA-AT
*
19793643 -AAATAAATAGAAAAATAAAT
1 CAAAT-ATTAGAAAAATAAAT
*
19793663 CAAATATTAGAATAATAAA
1 CAAATATTAGAAAAATAAA
19793682 GAAGAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 4 0.12
20 16 0.50
21 12 0.38
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.25
Consensus pattern (20 bp):
CAAATATTAGAAAAATAAAT
Found at i:19796253 original size:21 final size:22
Alignment explanation
Indices: 19796217--19796262 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
19796207 TATTTGCTAG
19796217 AATAAAATTAGTTTAAGTATTT
1 AATAAAATTAGTTTAAGTATTT
* *
19796239 AATAAATTTAG-TTAAGTGTTT
1 AATAAAATTAGTTTAAGTATTT
19796260 AAT
1 AAT
19796263 TTGTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (22 bp):
AATAAAATTAGTTTAAGTATTT
Found at i:19796334 original size:20 final size:20
Alignment explanation
Indices: 19796311--19796364 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
19796301 CAATTTGTCT
*
19796311 TGTCTTAATTAAATTAAATG
1 TGTCTTAATTAAATTAAATA
* ** *
19796331 TGTCTTGATTTTATTAAGTA
1 TGTCTTAATTAAATTAAATA
19796351 TGTCTTAAATTAAA
1 TGTCTT-AATTAAA
19796365 ACATGAATTA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (20 bp):
TGTCTTAATTAAATTAAATA
Found at i:19798834 original size:37 final size:37
Alignment explanation
Indices: 19798773--19798851 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 37
19798763 TTATTACGAA
*
19798773 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTCATCGG
*
19798810 GTCTTACCCGGACGA-AAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCGGAC-ATAATCT-CCACACGAAGTCATCGG
19798847 GTCTT
1 GTCTT
19798852 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 1 0.03
37 36 0.95
38 1 0.03
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGAAGTCATCGG
Found at i:19799048 original size:47 final size:47
Alignment explanation
Indices: 19798970--19799271 Score: 459
Period size: 47 Copynumber: 6.5 Consensus size: 47
19798960 CCCTTCGGGA
* * * * * * *
19798970 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
19799017 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19799064 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19799111 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19799158 CTTAT----TACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19799201 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19799248 CTTATCACATATATGCACTTTCAC
1 CTTATCACATATATACACTTTCAC
19799272 CACACATATA
Statistics
Matches: 234, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
43 42 0.18
47 192 0.82
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19799218 original size:90 final size:90
Alignment explanation
Indices: 19798985--19799258 Score: 413
Period size: 90 Copynumber: 3.0 Consensus size: 90
19798975 CACATTTATG
* * * * * ***
19798985 CACTTTCACATCCATCACGTTGGCCACTCGGCCCCGTCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
*
19799050 ATCGGCCATTAGGCCTTATCACATATATA
66 ATCGGCCATTAGGCCTTAT----TACATA
19799079 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
19799144 ATCGGCCATTAGGCCTTATTACATA
66 ATCGGCCATTAGGCCTTATTACATA
19799169 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
* *
19799234 ATCGGCTATTAGGCCTTATCACATA
66 ATCGGCCATTAGGCCTTATTACATA
19799259 TATGCACTTT
Statistics
Matches: 169, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
90 93 0.55
94 76 0.45
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (90 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCTTATTACATA
Found at i:19799280 original size:19 final size:19
Alignment explanation
Indices: 19799253--19799290 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
19799243 TAGGCCTTAT
* *
19799253 CACATATATGCACTTTCAC
1 CACACATATACACTTTCAC
19799272 CACACATATACACTTTCAC
1 CACACATATACACTTTCAC
19799291 ATTCATCACA
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:0.34, C:0.34, G:0.03, T:0.29
Consensus pattern (19 bp):
CACACATATACACTTTCAC
Found at i:19799291 original size:66 final size:66
Alignment explanation
Indices: 19799206--19799337 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 66
19799196 TAGGCCTTAT
* * *
19799206 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATGCACTTTCA
1 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCA
19799271 C
66 C
19799272 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCA
1 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCA
19799337 C
66 C
19799338 ATTCATCACA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.32
Consensus pattern (66 bp):
CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCA
C
Found at i:19799292 original size:113 final size:113
Alignment explanation
Indices: 19799166--19799374 Score: 391
Period size: 113 Copynumber: 1.8 Consensus size: 113
19799156 GCCTTATTAC
*
19799166 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT
*
19799231 CACATCGGCTATTAGGCCTTATCACATATATGCACTTTCACCACACAT
66 CACATCGGCCATTAGGCCTTATCACATATATGCACTTTCACCACACAT
*
19799279 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT
19799344 CACATCGGCCATTAGGCCTTATCACATATAT
66 CACATCGGCCATTAGGCCTTATCACATATAT
19799375 ATACACTTTC
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 93 1.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (113 bp):
ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT
CACATCGGCCATTAGGCCTTATCACATATATGCACTTTCACCACACAT
Found at i:19799325 original size:137 final size:134
Alignment explanation
Indices: 19799029--19799279 Score: 407
Period size: 137 Copynumber: 1.9 Consensus size: 134
19799019 CGTCACATAT
19799029 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
* * *
19799094 CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
66 CACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC--TCATCACATAGACCATTA-GCA
*
19799159 TTATTAC
128 TTATCAC
19799166 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
* *
19799231 CACATCGGCTATTAGGCCTTATCACATATATGCACTTTCAC-CA-CACATA
66 CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACTCATCACATA
19799280 TACACTTTCA
Statistics
Matches: 111, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
133 5 0.05
134 2 0.02
137 104 0.94
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (134 bp):
ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACTCATCACATAGACCATTAGCATTA
TCAC
Found at i:19799386 original size:96 final size:96
Alignment explanation
Indices: 19799277--19799460 Score: 350
Period size: 96 Copynumber: 1.9 Consensus size: 96
19799267 TTCACCACAC
*
19799277 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTC
19799342 ATCACATCGGCCATTAGGCCTTATCACATAT
66 ATCACATCGGCCATTAGGCCTTATCACATAT
*
19799373 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTC
19799438 ATCACATCGGCCATTAGGCCTTA
66 ATCACATCGGCCATTAGGCCTTA
19799461 CTATCATTTC
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (96 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTC
ATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:19799396 original size:49 final size:47
Alignment explanation
Indices: 19799272--19799460 Score: 333
Period size: 47 Copynumber: 4.0 Consensus size: 47
19799262 GCACTTTCAC
* *
19799272 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
19799319 CACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
19799366 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
19799415 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
19799461 CTATCATTTC
Statistics
Matches: 138, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
47 92 0.67
49 46 0.33
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (47 bp):
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
Found at i:19807223 original size:12 final size:12
Alignment explanation
Indices: 19807206--19807230 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19807196 CTCTGAACAG
19807206 TTTAGAAAGAGC
1 TTTAGAAAGAGC
19807218 TTTAGAAAGAGC
1 TTTAGAAAGAGC
19807230 T
1 T
19807231 CGCGAGCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (12 bp):
TTTAGAAAGAGC
Found at i:19808336 original size:132 final size:132
Alignment explanation
Indices: 19808027--19808612 Score: 618
Period size: 132 Copynumber: 4.4 Consensus size: 132
19808017 AGCTGCAGTT
* * ** *
19808027 TTAAACCAAAGAGTTGTTCATAGTTGCGATATGAGATCAACTAACTTAAATAAAATTTGTTCATA
1 TTAAATCAATGAGTTGTTCGGAGTTGCGATATGAGATCAACTAACTTAAATAAAATTTGTTCACA
* * * * * * * *
19808092 ATCTTAAATCGAATGAAATTAGTTTTGTGATCTTAAATCAACGAGCCTTAATAATATCAATTGCG
66 ATCTTAAATCGAATGAACTTAG-GTTGCGATATTAAATCAGCGAACCTTAACAATATCAACTGCG
19808157 ATC
130 ATC
* * * * *
19808160 TTAAATCAATGAGTTGTTCGAAGTTTCTAT-TCGAGATCAGCTAACTTAATTAAAATTTGTTCAC
1 TTAAATCAATGAGTTGTTCGGAGTTGCGATAT-GAGATCAACTAACTTAAATAAAATTTGTTCAC
* * * * * * **
19808224 GATTTTAAATTGAATGAACTTAGGTTGCTATATTAAATCAGCAAACATTAACAATATCATTTGCG
65 AATCTTAAATCGAATGAACTTAGGTTGCGATATTAAATCAGCGAACCTTAACAATATCAACTGCG
19808289 ATC
130 ATC
* * * * * *
19808292 TTAAATCAGTGAGCTGTTTGGAGTTGTGATATGAAATCAACTAACTCAAATAAAATTTGTTCACA
1 TTAAATCAATGAGTTGTTCGGAGTTGCGATATGAGATCAACTAACTTAAATAAAATTTGTTCACA
* * * * *
19808357 ATCTTAAATCAAATGAACTTAGGTTACGATATTAAATCAGTGAACTTTAACAATATCAACTGTGA
66 ATCTTAAATCGAATGAACTTAGGTTGCGATATTAAATCAGCGAACCTTAACAATATCAACTGCGA
19808422 TC
131 TC
* * * * **
19808424 TTAAATCAACGAGTTGTTCAGAGTTGCAATATGAGATCAGCTAACTTAAATAAAATTTGTTCATG
1 TTAAATCAATGAGTTGTTCGGAGTTGCGATATGAGATCAACTAACTTAAATAAAATTTGTTCACA
* * *
19808489 AT-TCTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAGCGAGCCTTAACAATATCAGCTGCG
66 ATCT-TAAATCGAATGAACTTAGGTTGCGATATTAAATCAGCGAACCTTAACAATATCAACTGCG
*
19808553 ATA
130 ATC
** ** * * * * * *
19808556 TTAAATCAACAAACTGTTCAGAGTTACGATCTAAGATCAGCTAACTCAAATAAAATT
1 TTAAATCAATGAGTTGTTCGGAGTTGCGATATGAGATCAACTAACTTAAATAAAATT
19808613 ATTCATAAAA
Statistics
Matches: 375, Mismatches: 75, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
131 1 0.00
132 301 0.80
133 73 0.19
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (132 bp):
TTAAATCAATGAGTTGTTCGGAGTTGCGATATGAGATCAACTAACTTAAATAAAATTTGTTCACA
ATCTTAAATCGAATGAACTTAGGTTGCGATATTAAATCAGCGAACCTTAACAATATCAACTGCGA
TC
Found at i:19808481 original size:264 final size:265
Alignment explanation
Indices: 19808048--19808612 Score: 706
Period size: 264 Copynumber: 2.1 Consensus size: 265
19808038 AGTTGTTCAT
* * * *
19808048 AGTTGCGATATGAGATCAACTAACTTAAATAAAATTTGTTCATAATCTTAAATCGAATGAAATTA
1 AGTTGCGATATGAAATCAACTAACTCAAATAAAATTTGTTCACAATCTTAAATCAAATGAAATTA
* ** * * * * *
19808113 GTTTTGTGATCTTAAATCAACGAGCCTTAATAATATCAATTGCGATCTTAAATCAATGAGTTGTT
66 GTGTTACGATATTAAATCAACGAACCTTAACAATATCAACTGCGATCTTAAATCAACGAGTTGTT
* * * * *
19808178 CGAAGTTTCTATTCGAGATCAGCTAACTTAATTAAAATTTGTTCACGATTTTAAATTGAATGAAC
131 CGAAGTTGCAATTCGAGATCAGCTAACTTAAATAAAATTTGTTCACGATTCTAAATCGAATGAAC
* ** *
19808243 TTAGGTTGCTATATTAAATCAGCAAACATTAACAATATCATTTGCGATCTTAAATCAGTGAGCTG
196 TTAGGTTGCGATATTAAATCAGCAAACATTAACAATATCAGCTGCGATATTAAATCAGTGAGCTG
19808308 TTTGG
261 TTTGG
* *
19808313 AGTTGTGATATGAAATCAACTAACTCAAATAAAATTTGTTCACAATCTTAAATCAAATGAACTTA
1 AGTTGCGATATGAAATCAACTAACTCAAATAAAATTTGTTCACAATCTTAAATCAAATGAAATTA
** * *
19808378 G-GTTACGATATTAAATCAGTGAACTTTAACAATATCAACTGTGATCTTAAATCAACGAGTTGTT
66 GTGTTACGATATTAAATCAACGAACCTTAACAATATCAACTGCGATCTTAAATCAACGAGTTGTT
*
19808442 C-AGAGTTGCAATAT-GAGATCAGCTAACTTAAATAAAATTTGTTCATGATTCTAAATCGAATGA
131 CGA-AGTTGCAAT-TCGAGATCAGCTAACTTAAATAAAATTTGTTCACGATTCTAAATCGAATGA
* * * * *** *
19808505 ACTTAGGTTGCGATCTTAAATCAGCGAGCCTTAACAATATCAGCTGCGATATTAAATCAACAAAC
194 ACTTAGGTTGCGATATTAAATCAGCAAACATTAACAATATCAGCTGCGATATTAAATCAGTGAGC
**
19808570 TGTTCAG
259 TGTTTGG
* * *
19808577 AGTTACGATCT-AAGATCAGCTAACTCAAATAAAATT
1 AGTTGCGATATGAA-ATCAACTAACTCAAATAAAATT
19808613 ATTCATAAAA
Statistics
Matches: 255, Mismatches: 42, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
263 3 0.01
264 191 0.75
265 61 0.24
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (265 bp):
AGTTGCGATATGAAATCAACTAACTCAAATAAAATTTGTTCACAATCTTAAATCAAATGAAATTA
GTGTTACGATATTAAATCAACGAACCTTAACAATATCAACTGCGATCTTAAATCAACGAGTTGTT
CGAAGTTGCAATTCGAGATCAGCTAACTTAAATAAAATTTGTTCACGATTCTAAATCGAATGAAC
TTAGGTTGCGATATTAAATCAGCAAACATTAACAATATCAGCTGCGATATTAAATCAGTGAGCTG
TTTGG
Found at i:19809700 original size:12 final size:12
Alignment explanation
Indices: 19809683--19809710 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
19809673 GTTTGGTAAC
19809683 CTTGTTTAAGAA
1 CTTGTTTAAGAA
19809695 CTTGTTTAAGAA
1 CTTGTTTAAGAA
19809707 CTTG
1 CTTG
19809711 CCAATGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.43
Consensus pattern (12 bp):
CTTGTTTAAGAA
Found at i:19818585 original size:20 final size:21
Alignment explanation
Indices: 19818560--19818600 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
19818550 AATAGAAAGA
19818560 TGGAAACGAGCTC-ATTGAGC
1 TGGAAACGAGCTCAATTGAGC
*
19818580 TGGAAATGAGCTCAATTGAGC
1 TGGAAACGAGCTCAATTGAGC
19818601 ACAACAAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (21 bp):
TGGAAACGAGCTCAATTGAGC
Found at i:19831256 original size:19 final size:19
Alignment explanation
Indices: 19831234--19831274 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
19831224 TTTTTTCAAA
19831234 TTTTTT-TAATTTT-AATT
1 TTTTTTATAATTTTGAATT
19831251 TTTTTTATAATTTTGAATT
1 TTTTTTATAATTTTGAATT
19831270 TTTTT
1 TTTTT
19831275 ATACTTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.27
18 7 0.32
19 9 0.41
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTTATAATTTTGAATT
Found at i:19836966 original size:17 final size:19
Alignment explanation
Indices: 19836932--19836966 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19836922 CCATGTTAGT
19836932 TTAAGTCTGTGTCATTAAA
1 TTAAGTCTGTGTCATTAAA
19836951 TTAAGTCT-TG-CATTAA
1 TTAAGTCTGTGTCATTAA
19836967 GTAACTCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.43
Consensus pattern (19 bp):
TTAAGTCTGTGTCATTAAA
Found at i:19845137 original size:21 final size:21
Alignment explanation
Indices: 19845113--19845175 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
19845103 ACTTAGTTTC
19845113 AATTTTTAGACTTTATGAATA
1 AATTTTTAGACTTTATGAATA
* ** *
19845134 AATTTCT--A--TTA-GTTTT
1 AATTTTTAGACTTTATGAATA
19845150 AATTTTTAGACTTTATGAATA
1 AATTTTTAGACTTTATGAATA
19845171 AATTT
1 AATTT
19845176 CTATGTAAGA
Statistics
Matches: 29, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
16 8 0.28
17 3 0.10
18 1 0.03
19 1 0.03
20 3 0.10
21 13 0.45
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (21 bp):
AATTTTTAGACTTTATGAATA
Found at i:19845146 original size:37 final size:37
Alignment explanation
Indices: 19845105--19845179 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
19845095 CTTTAAATAC
19845105 TTAGTTTCAATTTTTAGACTTTATGAATAAATTTCTA
1 TTAGTTTCAATTTTTAGACTTTATGAATAAATTTCTA
*
19845142 TTAGTTTTAATTTTTAGACTTTATGAATAAATTTCTA
1 TTAGTTTCAATTTTTAGACTTTATGAATAAATTTCTA
19845179 T
1 T
19845180 GTAAGAATTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.07, G:0.08, T:0.53
Consensus pattern (37 bp):
TTAGTTTCAATTTTTAGACTTTATGAATAAATTTCTA
Found at i:19846662 original size:50 final size:52
Alignment explanation
Indices: 19846536--19846667 Score: 146
Period size: 50 Copynumber: 2.6 Consensus size: 52
19846526 ATGAACAAAC
* *
19846536 GAGTTACTTAATGCA-AGACTTAATTTAATGATGCACACTTAAACTAACATGG
1 GAGTTACATAATGCATA-ACTTTATTTAATGATGCACACTTAAACTAACATGG
** * * *
19846588 GAGTTACATAATGCATTTCATTATTT-ATGATGCATACTT-AACTAGCAT-G
1 GAGTTACATAATGCATAACTTTATTTAATGATGCACACTTAAACTAACATGG
*
19846637 GACGTTACATAATGCATAACTTTATTAAATG
1 GA-GTTACATAATGCATAACTTTATTTAATG
19846668 TAGAACACAC
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
49 3 0.05
50 28 0.42
51 15 0.23
52 20 0.30
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (52 bp):
GAGTTACATAATGCATAACTTTATTTAATGATGCACACTTAAACTAACATGG
Found at i:19848526 original size:6 final size:6
Alignment explanation
Indices: 19848517--19848627 Score: 50
Period size: 6 Copynumber: 18.0 Consensus size: 6
19848507 TCAATATCAA
* * *
19848517 TTTCTT TTTCAATT TTCTCTT TTTCGTT TTT-TT CTTTCACT TCTCCT
1 TTTCTT TTTC--TT TT-TCTT TTTC-TT TTTCTT -TTTC-TT TTTCTT
* * **
19848564 TTTCTT TTCTCTT TTTCAT TCTCTT TTTC-- -TTCTT TTTCTT TTTCAC
1 TTTCTT TT-TCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* *
19848610 TTGCCT TTTCTT TTTCTT
1 TTTCTT TTTCTT TTTCTT
19848628 ATTTTTCAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
3 3 0.04
5 2 0.03
6 49 0.62
7 18 0.23
8 5 0.06
9 2 0.03
ACGTcount: A:0.05, C:0.23, G:0.02, T:0.70
Consensus pattern (6 bp):
TTTCTT
Found at i:19848567 original size:13 final size:12
Alignment explanation
Indices: 19848551--19848600 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
19848541 CGTTTTTTTC
*
19848551 TTTCACTTCTCCT
1 TTTCA-TTCTCTT
*
19848564 TTTCTTTTCTCTT
1 TTTC-ATTCTCTT
19848577 TTTCATTCTCTT
1 TTTCATTCTCTT
19848589 TTTC-TTCT-TT
1 TTTCATTCTCTT
19848599 TT
1 TT
19848601 CTTTTTCACT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
10 4 0.12
11 4 0.12
12 11 0.33
13 14 0.42
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTCATTCTCTT
Found at i:19848600 original size:51 final size:50
Alignment explanation
Indices: 19848517--19848627 Score: 136
Period size: 51 Copynumber: 2.1 Consensus size: 50
19848507 TCAATATCAA
*
19848517 TTTCTTTTTCAATTTTCTCTTTTTCGTTTTTTTC-TTTCACTTCTCCTTTTCTT
1 TTTCTTTTTC-A--TTCTCTTTTTCGTTTTTTTCTTTTCACTT-GCCTTTTCTT
19848570 TTCTCTTTTTCATTCTCTTTTTC-TTCTTTTTCTTTTTCACTTGCCTTTTCTT
1 TT-TCTTTTTCATTCTCTTTTTCGTT-TTTTTC-TTTTCACTTGCCTTTTCTT
19848622 TTTCTT
1 TTTCTT
19848628 ATTTTTCAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
50 2 0.04
51 21 0.40
52 11 0.21
53 11 0.21
54 8 0.15
ACGTcount: A:0.05, C:0.23, G:0.02, T:0.70
Consensus pattern (50 bp):
TTTCTTTTTCATTCTCTTTTTCGTTTTTTTCTTTTCACTTGCCTTTTCTT
Found at i:19848621 original size:27 final size:27
Alignment explanation
Indices: 19848517--19848608 Score: 86
Period size: 26 Copynumber: 3.4 Consensus size: 27
19848507 TCAATATCAA
19848517 TTTCTTTTTCAATTTTCTCTTTTTCGTT-TT
1 TTTCTTTTTC-A--TTCTCTTTTTC-TTCTT
*
19848547 TTTC--TTTCACTTCTCCTTTTC-T-TT
1 TTTCTTTTTCA-TTCTCTTTTTCTTCTT
*
19848571 TCTCTTTTTCATTCTCTTTTTCTTCTT
1 TTTCTTTTTCATTCTCTTTTTCTTCTT
19848598 TTTCTTTTTCA
1 TTTCTTTTTCA
19848609 CTTGCCTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
24 6 0.11
25 10 0.19
26 16 0.30
27 13 0.25
28 4 0.08
30 4 0.08
ACGTcount: A:0.05, C:0.23, G:0.01, T:0.71
Consensus pattern (27 bp):
TTTCTTTTTCATTCTCTTTTTCTTCTT
Found at i:19848632 original size:27 final size:26
Alignment explanation
Indices: 19848551--19848635 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 26
19848541 CGTTTTTTTC
19848551 TTTCACTTCTCCTTTTC-TTTTC-TCTT
1 TTTCAC-T-TCCTTTTCTTTTTCTTCTT
19848577 TTTCA-TTCTCTTTTTCTTCTTT-TTCTT
1 TTTCACTTC-C-TTTTCTT-TTTCTTCTT
*
19848604 TTTCACTTGCCTTTTCTTTTTCTTATT
1 TTTCACTT-CCTTTTCTTTTTCTTCTT
19848631 TTTCA
1 TTTCA
19848636 AATTTTTTAC
Statistics
Matches: 50, Mismatches: 1, Indels: 15
0.76 0.02 0.23
Matches are distributed among these distances:
23 2 0.04
24 2 0.04
25 5 0.10
26 9 0.18
27 28 0.56
28 3 0.06
29 1 0.02
ACGTcount: A:0.06, C:0.25, G:0.01, T:0.68
Consensus pattern (26 bp):
TTTCACTTCCTTTTCTTTTTCTTCTT
Found at i:19853764 original size:28 final size:28
Alignment explanation
Indices: 19853719--19853789 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
19853709 TTGATGACAC
*
19853719 TCACTTCTTTCTC-ATTTTCTTTTCTT-
1 TCACTTCTTTTTCAATTTTCTTTTCTTA
19853745 TCACTCTCTTTTTCAATTTTCTTTTCTTGA
1 TCACT-TCTTTTTCAATTTTCTTTTCTT-A
19853775 TCACATTCTTTTTCA
1 TCAC-TTCTTTTTCA
19853790 GTCTCAATCT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
26 5 0.13
27 7 0.18
28 13 0.33
30 13 0.33
31 1 0.03
ACGTcount: A:0.13, C:0.25, G:0.01, T:0.61
Consensus pattern (28 bp):
TCACTTCTTTTTCAATTTTCTTTTCTTA
Found at i:19856068 original size:16 final size:16
Alignment explanation
Indices: 19856029--19856070 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
19856019 AATGAGCCAT
* *
19856029 ATCCATGAATTCAGCC
1 ATCCATGTATCCAGCC
19856045 ATCCATGTATCCAGCC
1 ATCCATGTATCCAGCC
*
19856061 ATTCATGTAT
1 ATCCATGTAT
19856071 GCTCCCATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (16 bp):
ATCCATGTATCCAGCC
Found at i:19866392 original size:151 final size:150
Alignment explanation
Indices: 19866058--19866478 Score: 599
Period size: 151 Copynumber: 2.8 Consensus size: 150
19866048 GGTTCGGGAA
* * * * *
19866058 CTGGTCATAAGTTCTACGAGTGGCTGGGTATACCGGCATATGTTACGGATACTTGACAGCGTGTG
1 CTGGTCTTAAGTTCTACCAGTGGCTGGGTATACCGGCATATGTTGCGGATACCTGACAGCTTGTG
* * *
19866123 TGAGTAGCACTGAGTAGTAACGAATGACTGACAGCTTGTGTGAGCAGCTCGTGATGCGAAACTGT
66 TGAGCAGCACTGAGTAGTAACGAATGACTGACAGCTTGTGTGAGCAGCCCGTGATGCGAAACTAT
19866188 GATTAATGTGAACCCAGGTG
131 GATTAATGTGAACCCAGGTG
* *
19866208 CTGGTCTTAAGTTCTACCAGTGGCTGGGTATACCGACATATGTTGTGGATACCTGACAGCTTGTG
1 CTGGTCTTAAGTTCTACCAGTGGCTGGGTATACCGGCATATGTTGCGGATACCTGACAGCTTGTG
* * * *
19866273 TGAGCAGCATTGAGTAGTAACGAATGACTGATAGCTTGTGTGTGTAGGCCCGTGATGCGAAACTA
66 TGAGCAGCACTGAGTAGTAACGAATGACTGACAGCTTGTGTGAGCA-GCCCGTGATGCGAAACTA
* * *
19866338 TGATTACTGTGAACTCGGGTG
130 TGATTAATGTGAACCCAGGTG
* * *
19866359 CTGGTCTTAAGTTCTACCAGTGGCTGGGTATACCGGCATATATTGCAGATATCTGACAGCTTGTG
1 CTGGTCTTAAGTTCTACCAGTGGCTGGGTATACCGGCATATGTTGCGGATACCTGACAGCTTGTG
* * * * *
19866424 TGAGCAGCACTGAGTAGTAACAAAAGATTGAGAGCATGTGTGAGCAGACCCGTGA
66 TGAGCAGCACTGAGTAGTAACGAATGACTGACAGCTTGTGTGAGCAG-CCCGTGA
19866479 AAGTGAATAG
Statistics
Matches: 239, Mismatches: 30, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
150 100 0.42
151 139 0.58
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.28
Consensus pattern (150 bp):
CTGGTCTTAAGTTCTACCAGTGGCTGGGTATACCGGCATATGTTGCGGATACCTGACAGCTTGTG
TGAGCAGCACTGAGTAGTAACGAATGACTGACAGCTTGTGTGAGCAGCCCGTGATGCGAAACTAT
GATTAATGTGAACCCAGGTG
Found at i:19870123 original size:10 final size:10
Alignment explanation
Indices: 19870108--19870169 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
19870098 TTTGAACCAT
*
19870108 TACCAATTCG
1 TACCAATTCA
*
19870118 TACCAAATACCA
1 TACC-AAT-TCA
*
19870130 TACCATTTCA
1 TACCAATTCA
19870140 TACCAATTCCA
1 TACCAATT-CA
* *
19870151 TACCATTTCG
1 TACCAATTCA
19870161 TACCAATTC
1 TACCAATTC
19870170 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:19870153 original size:21 final size:21
Alignment explanation
Indices: 19870108--19870170 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
19870098 TTTGAACCAT
* *
19870108 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
19870130 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
19870151 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
19870171 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:19875554 original size:50 final size:52
Alignment explanation
Indices: 19875429--19875559 Score: 151
Period size: 50 Copynumber: 2.6 Consensus size: 52
19875419 TGAACAAAAG
* * *
19875429 AGTTACTTAATGCA-AGACTTAATTTAATGATGCAGACTTAAACTAACATGGG
1 AGTTACATAATGCATA-ACTTTATTTAATGATGCAGACTTAAACTAACATGGA
** * * *
19875481 AGTTACATAATGCATGTCATTATTT-ATGATGCATACTT-AACTAGCATGGA
1 AGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATGGA
*
19875531 AGTTACATAATGCATAACTTTATTAAATG
1 AGTTACATAATGCATAACTTTATTTAATG
19875560 CAGAACACAC
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
50 31 0.48
51 15 0.23
52 19 0.29
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.34
Consensus pattern (52 bp):
AGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATGGA
Found at i:19880814 original size:28 final size:28
Alignment explanation
Indices: 19880751--19880810 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
19880741 TTTTGTGATA
* * *
19880751 AATGTGTTTTATTTTAATGCATGTTATT
1 AATGTGTCTAATTTTAATACATGTTATT
*
19880779 AATGTGTCTAATTTTATTACATGTT-TT
1 AATGTGTCTAATTTTAATACATGTTATT
19880806 AATGT
1 AATGT
19880811 TGTCCAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.55
Consensus pattern (28 bp):
AATGTGTCTAATTTTAATACATGTTATT
Found at i:19887465 original size:50 final size:52
Alignment explanation
Indices: 19887353--19887484 Score: 135
Period size: 50 Copynumber: 2.6 Consensus size: 52
19887343 ATGAACAAAT
* *
19887353 AAGTTACTTAATGCAAGACTTAATTTAATGATGCAGACTTAAACTAACATGG
1 AAGTTACATAATGCATGACTTAATTTAATGATGCAGACTTAAACTAACATGG
* * * * * *
19887405 GAGTTTCATAATGCATGTCATT-ATTT-ATGGTGCATACTT-AACTAGCATGG
1 AAGTTACATAATGCATGAC-TTAATTTAATGATGCAGACTTAAACTAACATGG
* * *
19887455 AAGTTACATAATGCATAACTTTATTAAATG
1 AAGTTACATAATGCATGACTTAATTTAATG
19887485 CAGAACACAC
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
49 2 0.03
50 28 0.44
51 14 0.22
52 18 0.28
53 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (52 bp):
AAGTTACATAATGCATGACTTAATTTAATGATGCAGACTTAAACTAACATGG
Found at i:19895026 original size:49 final size:47
Alignment explanation
Indices: 19894805--19895259 Score: 685
Period size: 47 Copynumber: 9.6 Consensus size: 47
19894795 CCCTTCGGGA
* * * * * *
19894805 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19894852 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19894899 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19894946 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19894993 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19895042 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19895089 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19895138 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
19895185 CTTATCACATATATATACACTTTAACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19895234 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
19895260 CACAATTATC
Statistics
Matches: 374, Mismatches: 28, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
47 240 0.64
49 134 0.36
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19895043 original size:96 final size:96
Alignment explanation
Indices: 19894805--19895259 Score: 774
Period size: 96 Copynumber: 4.8 Consensus size: 96
19894795 CCCTTCGGGA
* * * * *
19894805 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
19894868 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
19894899 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
19894962 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
19894993 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
19895058 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
19895089 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
19895154 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
19895185 CTTATCACATATATATACACTTTAACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
19895250 ACATTCACAT
66 ACTTTCACAT
19895260 CACAATTATC
Statistics
Matches: 341, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
93 1 0.00
94 89 0.26
96 251 0.74
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19904162 original size:20 final size:20
Alignment explanation
Indices: 19904139--19904180 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
19904129 TAGCTCAACG
*
19904139 AGCTCGTTCCTAGCTCACTT
1 AGCTCATTCCTAGCTCACTT
* *
19904159 AGCTCATTCGTAGCTCATTT
1 AGCTCATTCCTAGCTCACTT
19904179 AG
1 AG
19904181 TTTGCATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.36
Consensus pattern (20 bp):
AGCTCATTCCTAGCTCACTT
Found at i:19906900 original size:23 final size:23
Alignment explanation
Indices: 19906869--19906919 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
19906859 ACCTACTTTC
*
19906869 TTACTGTAGTAATTTTCAGGG-TA
1 TTACAGTAGTAATTTTC-GGGATA
19906892 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
19906915 TTACA
1 TTACA
19906920 TCAGTTGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:19908320 original size:20 final size:22
Alignment explanation
Indices: 19908295--19908343 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
19908285 ATGTAATAAT
*
19908295 CTAAGACAAC-TTTAATT-AAA
1 CTAAGACAACAATTAATTCAAA
19908315 CTAAGAC-ACAATTAATTCAAA
1 CTAAGACAACAATTAATTCAAA
19908336 -TAAGACAA
1 CTAAGACAA
19908344 AGCATATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 19 0.76
21 4 0.16
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.24
Consensus pattern (22 bp):
CTAAGACAACAATTAATTCAAA
Found at i:19913106 original size:28 final size:27
Alignment explanation
Indices: 19913048--19913107 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
19913038 ACTTTGGACA
* * * *
19913048 ACATTAAACCATGCAATAAAATTAGAG
1 ACATTAAAACATGCAATAAAATAAAAC
*
19913075 ACATTAATAACATGCATTAAAATAAAAC
1 ACATTAA-AACATGCAATAAAATAAAAC
19913103 ACATT
1 ACATT
19913108 TATCACAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 7 0.26
28 20 0.74
ACGTcount: A:0.53, C:0.15, G:0.07, T:0.25
Consensus pattern (27 bp):
ACATTAAAACATGCAATAAAATAAAAC
Found at i:19915605 original size:17 final size:16
Alignment explanation
Indices: 19915585--19915627 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
19915575 TTTGCCTTTC
*
19915585 TTCTTTTCTATACTCTT
1 TTCTTTTCTATA-TCAT
*
19915602 TTCTTTCTCTTTATCAT
1 TTCTTT-TCTATATCAT
19915619 TTCTTTTCT
1 TTCTTTTCT
19915628 CTCGCTCTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.13
17 15 0.65
18 5 0.22
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.67
Consensus pattern (16 bp):
TTCTTTTCTATATCAT
Found at i:19919790 original size:27 final size:28
Alignment explanation
Indices: 19919733--19919802 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
19919723 TGAAACAAGA
19919733 ACATATTAAAAACATGTAATAGACTAAG
1 ACATATTAAAAACATGTAATAGACTAAG
* *
19919761 ACA-ATTTAAAAACATGTACTAGA-TATG
1 ACATA-TTAAAAACATGTAATAGACTAAG
19919788 ACATATT-AAAACATG
1 ACATATTAAAAACATG
19919803 CATTAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 8 0.21
27 9 0.24
28 21 0.55
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.27
Consensus pattern (28 bp):
ACATATTAAAAACATGTAATAGACTAAG
Found at i:19926800 original size:21 final size:21
Alignment explanation
Indices: 19926757--19926802 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
19926747 TCTTTTTCTT
***
19926757 TTTCAATCTCTTTTTCTTTTC
1 TTTCAATCTCTTTTTCCACTC
*
19926778 TTTCAATTTCTTTTTCCACTC
1 TTTCAATCTCTTTTTCCACTC
19926799 TTTC
1 TTTC
19926803 TTTTCCTTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTCAATCTCTTTTTCCACTC
Found at i:19926891 original size:15 final size:15
Alignment explanation
Indices: 19926870--19926907 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
19926860 TTTTGAAATC
19926870 TCATTTTCATATT-TT
1 TCATTTTCAT-TTCTT
*
19926885 TCTTTTTCATTTCTT
1 TCATTTTCATTTCTT
19926900 TCATTTTC
1 TCATTTTC
19926908 GTTATTCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.68
Consensus pattern (15 bp):
TCATTTTCATTTCTT
Found at i:19927983 original size:14 final size:14
Alignment explanation
Indices: 19927966--19927999 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
19927956 TTTAATAATA
19927966 TTTTTTTTCAAATT
1 TTTTTTTTCAAATT
19927980 TTTTTTTTCAAATT
1 TTTTTTTTCAAATT
19927994 TTTTTT
1 TTTTTT
19928000 ACAATCTCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTTTTCAAATT
Found at i:19932416 original size:17 final size:18
Alignment explanation
Indices: 19932394--19932430 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
19932384 TCCAAATTGT
19932394 ATTTGAA-ATATAAAAAA
1 ATTTGAAGATATAAAAAA
19932411 ATTTGAAGTATATAAAAAA
1 ATTTGAAG-ATATAAAAAA
19932430 A
1 A
19932431 AGAAGAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
19 11 0.61
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (18 bp):
ATTTGAAGATATAAAAAA
Found at i:19934562 original size:20 final size:21
Alignment explanation
Indices: 19934517--19934586 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 21
19934507 GCGAAGACAC
*
19934517 AAAAGAAA-AGAAAAATGAGA
1 AAAAGAAAGAAAAAAATGAGA
*
19934537 AGAAGAAAGAAAAAAATGA-A
1 AAAAGAAAGAAAAAAATGAGA
* *
19934557 AAAAGAGAGTGAAAAAAATGTGA
1 AAAAGA-A-AGAAAAAAATGAGA
19934580 GAAAAGA
1 -AAAAGA
19934587 GGGAGATGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 13 0.32
21 10 0.25
22 10 0.25
23 1 0.03
24 6 0.15
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (21 bp):
AAAAGAAAGAAAAAAATGAGA
Found at i:19934584 original size:24 final size:24
Alignment explanation
Indices: 19934545--19934605 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 24
19934535 GAAGAAGAAA
19934545 GAAAAAAATGAAAAAAGA-GAG-T
1 GAAAAAAATGAAAAAAGAGGAGAT
*
19934567 GAAAAAAATGTGAGAAAAGAGGGAGAT
1 GAAAAAAA--TGAAAAAAGA-GGAGAT
19934594 GAAAAAAA-GAAA
1 GAAAAAAATGAAA
19934606 GGGAGTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
22 8 0.25
24 12 0.38
26 3 0.09
27 9 0.28
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.08
Consensus pattern (24 bp):
GAAAAAAATGAAAAAAGAGGAGAT
Found at i:19934603 original size:17 final size:17
Alignment explanation
Indices: 19934581--19934622 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
19934571 AAAATGTGAG
19934581 AAAAG-AGGGAGATGAAA
1 AAAAGAAGGGAG-TGAAA
19934598 AAAAGAAAGGGAGTGAAA
1 AAAAG-AAGGGAGTGAAA
*
19934616 AATAGAA
1 AAAAGAA
19934623 TGTATTTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.32
18 9 0.41
19 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.07
Consensus pattern (17 bp):
AAAAGAAGGGAGTGAAA
Found at i:19934616 original size:18 final size:19
Alignment explanation
Indices: 19934586--19934622 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
19934576 GTGAGAAAAG
19934586 AGGGAGATGAAAAAAAGAA
1 AGGGAGATGAAAAAAAGAA
*
19934605 AGGGAG-TGAAAAATAGAA
1 AGGGAGATGAAAAAAAGAA
19934623 TGTATTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.32, T:0.08
Consensus pattern (19 bp):
AGGGAGATGAAAAAAAGAA
Found at i:19942575 original size:15 final size:15
Alignment explanation
Indices: 19942538--19942588 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
19942528 TCGAGCGAGA
19942538 AAAAGAAAAA-AAT-
1 AAAAGAAAAAGAATG
*
19942551 AAAAGCAAAAAGAGTG
1 AAAAG-AAAAAGAATG
*
19942567 AAAAGAAAAAGAAAG
1 AAAAGAAAAAGAATG
19942582 AAAAGAA
1 AAAAGAA
19942589 TGAAGAAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 5 0.16
14 5 0.16
15 17 0.53
16 5 0.16
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (15 bp):
AAAAGAAAAAGAATG
Found at i:19966467 original size:39 final size:40
Alignment explanation
Indices: 19966306--19966530 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
19966296 GCTCCTCGTT
* *
19966306 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
* *
19966346 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
19966386 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
19966426 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
19966465 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
19966506 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
19966531 CATCATTCAA
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 114 0.71
41 13 0.08
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:19966490 original size:119 final size:120
Alignment explanation
Indices: 19966306--19966530 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
19966296 GCTCCTCGTT
**
19966306 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
*
19966371 ATTTAGTAACTCA-CACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTCAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
19966426 CAAATGCCTTCGGG-CTTAGCCCAGAAT-TAGTATCTCGCACAAATGCCTTCG-GATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCC
* * * *
19966488 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTCAGCACAAAGCCTTCGGGACTTAACCCGGA
19966531 CATCATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
118 2 0.02
119 67 0.74
120 22 0.24
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
ATATAGTAACTCAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:19970569 original size:24 final size:24
Alignment explanation
Indices: 19970542--19970589 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
19970532 GAATTTAATC
*
19970542 ATAAAGTCAAAAAATTGAAACTAA
1 ATAAAGTCAAAAAATTAAAACTAA
*
19970566 ATAAAGTCCAAAAATTAAAACTAA
1 ATAAAGTCAAAAAATTAAAACTAA
19970590 GTATTTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.62, C:0.10, G:0.06, T:0.21
Consensus pattern (24 bp):
ATAAAGTCAAAAAATTAAAACTAA
Found at i:19975706 original size:19 final size:19
Alignment explanation
Indices: 19975679--19975715 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19975669 TAATTTACTA
19975679 CAGTAATTTAAGTTGTCTT
1 CAGTAATTTAAGTTGTCTT
* *
19975698 CAGTCATTTAATTTGTCT
1 CAGTAATTTAAGTTGTCT
19975716 AAATTGTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (19 bp):
CAGTAATTTAAGTTGTCTT
Found at i:19975727 original size:46 final size:47
Alignment explanation
Indices: 19975652--19975758 Score: 153
Period size: 46 Copynumber: 2.3 Consensus size: 47
19975642 ATAATAAGTT
* *
19975652 AAGTCATTTAATTTGTCTAATTTACTACAGTAATTTAAGTTGTCTT-
1 AAGTCATTTAATTTGTCTAAATTACTACAGCAATTTAAGTTGTCTTA
* **
19975698 CAGTCATTTAATTTGTCTAAATTGTTACAGCAATTTAAGTTGTCTTA
1 AAGTCATTTAATTTGTCTAAATTACTACAGCAATTTAAGTTGTCTTA
*
19975745 AATTCATTTAATTT
1 AAGTCATTTAATTT
19975759 TTTTGTTTAC
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
46 41 0.77
47 12 0.23
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.48
Consensus pattern (47 bp):
AAGTCATTTAATTTGTCTAAATTACTACAGCAATTTAAGTTGTCTTA
Found at i:19976110 original size:31 final size:31
Alignment explanation
Indices: 19976072--19976175 Score: 120
Period size: 31 Copynumber: 3.4 Consensus size: 31
19976062 TCGGCTATGG
* *
19976072 TTGTTCACACACCAAGTCTCTTCATTGCTGA
1 TTGTTCACACACAAAGACTCTTCATTGCTGA
* * *
19976103 TTGTTCACAC-CTAGAGGCTCTTCATTGCGGA
1 TTGTTCACACAC-AAAGACTCTTCATTGCTGA
** *
19976134 TTGTTCACACGTAAAGACTCTTCATTACTGA
1 TTGTTCACACACAAAGACTCTTCATTGCTGA
19976165 TTGTTCACACA
1 TTGTTCACACA
19976176 TAAGACTACT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
30 1 0.02
31 60 0.98
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (31 bp):
TTGTTCACACACAAAGACTCTTCATTGCTGA
Found at i:19981106 original size:46 final size:46
Alignment explanation
Indices: 19981050--19981143 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
19981040 CAAAGAAAAG
*
19981050 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
1 ACCTCAACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
*
19981096 ACCTCAACCCACTATCAAGGATGATAGGAACCTTGGTATATGATGA
1 ACCTCAACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
19981142 AC
1 AC
19981144 GCCACATTAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.23
Consensus pattern (46 bp):
ACCTCAACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
Found at i:19981808 original size:21 final size:23
Alignment explanation
Indices: 19981761--19981810 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
19981751 TCACCTGCAA
* *
19981761 TAAACACATTAAAATGAGTTAAT
1 TAAACACATTAAAATCACTTAAT
19981784 TAAACACATTAAAA-CACTT-AT
1 TAAACACATTAAAATCACTTAAT
19981805 TAAACA
1 TAAACA
19981811 TAACACACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.32
22 3 0.12
23 14 0.56
ACGTcount: A:0.54, C:0.14, G:0.04, T:0.28
Consensus pattern (23 bp):
TAAACACATTAAAATCACTTAAT
Found at i:19982502 original size:10 final size:10
Alignment explanation
Indices: 19982457--19982503 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
19982447 ATGATAAAAG
*
19982457 AAATGAGCTG
1 AAATGAGCTT
*
19982467 AAAGTAAGC-T
1 AAA-TGAGCTT
19982477 AAATTGAGCTT
1 AAA-TGAGCTT
19982488 AAATGAGCTT
1 AAATGAGCTT
19982498 AAATGA
1 AAATGA
19982504 TCTCAAGTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 23 0.74
11 8 0.26
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.26
Consensus pattern (10 bp):
AAATGAGCTT
Found at i:19988724 original size:30 final size:29
Alignment explanation
Indices: 19988688--19988745 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
19988678 GTAAGCTAAA
19988688 TTGAGCTTAAAT-GAGCTCAAGTGAGCTGAT
1 TTGAGC-TAAATGGAGCTCAAG-GAGCTGAT
* *
19988718 TTGAGCTGAATGGAGCTCGAGGAGCTGA
1 TTGAGCTAAATGGAGCTCAAGGAGCTGA
19988746 AGATGAGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.26
Consensus pattern (29 bp):
TTGAGCTAAATGGAGCTCAAGGAGCTGAT
Done.