Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 87 of 120
Found at i:26007691 original size:19 final size:18
Alignment explanation
Indices: 26007653--26007697 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
26007643 TACGATACGC
26007653 TTCTTTTC-TTCTCACAT
1 TTCTTTTCTTTCTCACAT
26007670 TTCTTTTCTTTTCTC-CATT
1 TTCTTTTC-TTTCTCACA-T
26007689 TTCTTTTCT
1 TTCTTTTCT
26007698 CCAGATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTTCTTTCTCACAT
Found at i:26010819 original size:41 final size:40
Alignment explanation
Indices: 26010774--26010859 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 40
26010764 TTTAATTAAA
26010774 TTATATT-TAATAATAATTATGTTAA-AATATGATTAAAATAT
1 TTATATTATAAT-AT-ATTATGTTAATAATATGATTAAAAT-T
* * * *
26010815 TTATATTATATTATATTATTTTAATAATCTTATTAAAATT
1 TTATATTATAATATATTATGTTAATAATATGATTAAAATT
26010855 TTATA
1 TTATA
26010860 ACAAAACAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
40 15 0.38
41 21 0.54
42 3 0.08
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (40 bp):
TTATATTATAATATATTATGTTAATAATATGATTAAAATT
Found at i:26011787 original size:18 final size:18
Alignment explanation
Indices: 26011727--26011792 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
26011717 TTTTAACTTT
26011727 TTTTAATATATTTTT-TAA
1 TTTTAA-ATATTTTTATAA
**
26011745 TTTTAAA-ATTTTTATTC
1 TTTTAAATATTTTTATAA
* * *
26011762 GTTAAAATATTTTTAGAA
1 TTTTAAATATTTTTATAA
26011780 TTTTAAATTATTT
1 TTTTAAA-TATTT
26011793 GTTAATGTAG
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
16 6 0.17
17 7 0.19
18 18 0.50
19 5 0.14
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTAAATATTTTTATAA
Found at i:26016257 original size:3 final size:3
Alignment explanation
Indices: 26016249--26016275 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
26016239 GAATCTGCAA
26016249 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
26016276 TAGCATGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:26018969 original size:18 final size:18
Alignment explanation
Indices: 26018942--26018976 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26018932 TAATCTATTT
*
26018942 AAGTAGTATATATAAAAG
1 AAGTAATATATATAAAAG
26018960 AAGTAATATATATAAAA
1 AAGTAATATATATAAAA
26018977 TGAGGAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (18 bp):
AAGTAATATATATAAAAG
Found at i:26019310 original size:15 final size:16
Alignment explanation
Indices: 26019290--26019323 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
26019280 AAAGAGGAAT
*
26019290 TTTAAA-ATAAATTAA
1 TTTAAAGATAAATAAA
26019305 TTTAAAGATAAATAAA
1 TTTAAAGATAAATAAA
26019321 TTT
1 TTT
26019324 TGAAATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TTTAAAGATAAATAAA
Found at i:26020199 original size:7 final size:7
Alignment explanation
Indices: 26020175--26020212 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
26020165 AAAAGATGAA
*
26020175 TTTCCTT
1 TTTCTTT
26020182 TTTCTTCT
1 TTTCTT-T
26020190 TTTCTTT
1 TTTCTTT
26020197 TTTC-TT
1 TTTCTTT
26020203 TTTCTTT
1 TTTCTTT
26020210 TTT
1 TTT
26020213 TTGTTGCCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 6 0.21
7 15 0.54
8 7 0.25
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTCTTT
Found at i:26020214 original size:15 final size:15
Alignment explanation
Indices: 26020175--26020212 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
26020165 AAAAGATGAA
*
26020175 TTTCCTTTTTCTTCT
1 TTTCTTTTTTCTTCT
26020190 TTTCTTTTTTC-T-T
1 TTTCTTTTTTCTTCT
26020203 TTTCTTTTTT
1 TTTCTTTTTT
26020213 TTGTTGCCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.50
14 1 0.05
15 10 0.45
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTCTTTTTTCTTCT
Found at i:26025876 original size:18 final size:19
Alignment explanation
Indices: 26025853--26025888 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
26025843 ATATTTTTTA
26025853 TTTTTTA-TTTTAAAATAC
1 TTTTTTATTTTTAAAATAC
26025871 TTTTTTATTTTTAAAATA
1 TTTTTTATTTTTAAAATA
26025889 AATTTTGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTTATTTTTAAAATAC
Found at i:26025894 original size:19 final size:18
Alignment explanation
Indices: 26025854--26025894 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
26025844 TATTTTTTAT
**
26025854 TTTTTATTTTAAAATACT
1 TTTTTATTTTAAAATAAA
26025872 TTTTTATTTTTAAAATAAA
1 TTTTTA-TTTTAAAATAAA
26025891 TTTT
1 TTTT
26025895 GGTGTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTATTTTAAAATAAA
Found at i:26026586 original size:13 final size:14
Alignment explanation
Indices: 26026570--26026611 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
26026560 TTTAAATTTT
26026570 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
26026583 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
26026598 ATTTTAAATAATAT
1 ATTTT-AATAATAT
26026612 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:26026596 original size:16 final size:16
Alignment explanation
Indices: 26026574--26026610 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
26026564 AATTTTATTT
26026574 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
26026591 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
26026606 TAATA
1 TAATA
26026611 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:26027791 original size:21 final size:21
Alignment explanation
Indices: 26027761--26027811 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
26027751 GGCAGCCTGT
26027761 TGAGTTGGGGTA-CTCTCTTGC
1 TGAGTTGGGGTAGCT-TCTTGC
* *
26027782 TGATTTGGGGTAGCTTGTTGC
1 TGAGTTGGGGTAGCTTCTTGC
26027803 TGAGTTGGG
1 TGAGTTGGG
26027812 ACACCAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.10, C:0.12, G:0.39, T:0.39
Consensus pattern (21 bp):
TGAGTTGGGGTAGCTTCTTGC
Found at i:26028508 original size:28 final size:28
Alignment explanation
Indices: 26028468--26028521 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
26028458 CACACACCTA
* * *
26028468 AAAAAATAGTCACTATATGCATATTATT
1 AAAAAATACTCACTACAAGCATATTATT
26028496 AAAAAATACTCACTACAAGCATATTA
1 AAAAAATACTCACTACAAGCATATTA
26028522 AAAAATAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.30
Consensus pattern (28 bp):
AAAAAATACTCACTACAAGCATATTATT
Found at i:26030747 original size:6 final size:6
Alignment explanation
Indices: 26030732--26030813 Score: 92
Period size: 6 Copynumber: 13.7 Consensus size: 6
26030722 AACCAAACCG
* * * * * **
26030732 AAATCC AAATCA AAATCT AAATCA AAATCT AAATCG AGATCA AAATTG
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
*
26030780 AAATGA AAATCA AAATCA AAATCA AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
26030814 TGAAATTGAA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.60, C:0.15, G:0.05, T:0.21
Consensus pattern (6 bp):
AAATCA
Found at i:26030825 original size:18 final size:18
Alignment explanation
Indices: 26030730--26030825 Score: 79
Period size: 18 Copynumber: 5.3 Consensus size: 18
26030720 ATAACCAAAC
* **
26030730 CGAAATCCAAATCAAAAT
1 CGAAATCAAAATTGAAAT
*
26030748 CTAAATCAAAATCT-AAAT
1 CGAAATCAAAAT-TGAAAT
*
26030766 CGAGATCAAAATTGAAAT
1 CGAAATCAAAATTGAAAT
**
26030784 -GAAAATCAAAATCAAAAT
1 CG-AAATCAAAATTGAAAT
*
26030802 CAAAATCAAAATTGAAAT
1 CGAAATCAAAATTGAAAT
*
26030820 TGAAAT
1 CGAAAT
26030826 AACCCTAAAT
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
17 2 0.03
18 59 0.97
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.22
Consensus pattern (18 bp):
CGAAATCAAAATTGAAAT
Found at i:26031310 original size:21 final size:21
Alignment explanation
Indices: 26031286--26031325 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
26031276 AATGTGGCAA
26031286 GTTAACTTGCCACATCAGCTG
1 GTTAACTTGCCACATCAGCTG
*
26031307 GTTAACTTGCCACGTCAGC
1 GTTAACTTGCCACATCAGC
26031326 GGTCCCGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (21 bp):
GTTAACTTGCCACATCAGCTG
Found at i:26031878 original size:9 final size:9
Alignment explanation
Indices: 26031864--26031890 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
26031854 CTTTAGAGTT
26031864 TTTTTAAAA
1 TTTTTAAAA
26031873 TTTTTAAAA
1 TTTTTAAAA
26031882 TTTTTAAAA
1 TTTTTAAAA
26031891 ATACAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:26033215 original size:5 final size:5
Alignment explanation
Indices: 26033205--26033231 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
26033195 AATATGAGAT
26033205 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
26033232 TTTATTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:26034020 original size:19 final size:19
Alignment explanation
Indices: 26033996--26034034 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
26033986 AGGAAAAAAT
*
26033996 AAATAAATAAA-TAAATAAG
1 AAATAAA-AAAGTAAACAAG
26034015 AAATAAAAAAGTAAACAAG
1 AAATAAAAAAGTAAACAAG
26034034 A
1 A
26034035 TCTACCTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (19 bp):
AAATAAAAAAGTAAACAAG
Found at i:26034689 original size:45 final size:44
Alignment explanation
Indices: 26034583--26034694 Score: 111
Period size: 45 Copynumber: 2.5 Consensus size: 44
26034573 TCGTTCTAAC
* * * *
26034583 CCGCTGCTACTTCAGGGAGATGAGACTTGTGGTTTTAGCCTACT
1 CCGCTGCAACTTCAGGGAGATAAGACTCGTGATTTTAGCCTACT
** * *
26034627 CCATTGCAACCTT-AGGGAGATAAGACTCGCT-ATCTTTAGTCTGCT
1 CCGCTGCAA-CTTCAGGGAGATAAGACTCG-TGAT-TTTAGCCTACT
26034672 CCGCTGCAACTTCAGGGAGATAA
1 CCGCTGCAACTTCAGGGAGATAA
26034695 AGTTGGTGGC
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
44 24 0.44
45 30 0.56
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (44 bp):
CCGCTGCAACTTCAGGGAGATAAGACTCGTGATTTTAGCCTACT
Found at i:26035082 original size:143 final size:143
Alignment explanation
Indices: 26034640--26035083 Score: 604
Period size: 143 Copynumber: 3.1 Consensus size: 143
26034630 TTGCAACCTT
* * * * * *
26034640 AGGGAGATAAGACTCGCTATCTTTAGTCTGCTCCGCTGCAACTTCAGGGAGATAAAGTTGGTGGC
1 AGGGAAATAAGATTCTCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGGTGGC
* *
26034705 TTCAATCTGCTCCACTGTAACTTCATGAAGATAAGATCTACCGTAACTTGTAGCTTTAATCTGTT
66 TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTACCGTAACTTGTAGCTTTAATCTGTT
*
26034770 CCACTACAACGCC
131 CCACTGCAACGCC
* *
26034783 AGGGAAATAAGA-TCTGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGGCTGGTGG
1 AGGGAAATAAGATTCT-CTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGGTGG
* * * * *
26034847 CTTTAATCTACTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGCTTTAATCTGT
65 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTACCGTAACTTGTAGCTTTAATCTGT
* * *
26034912 TCTACTGCAACACT
130 TCCACTGCAACGCC
*
26034926 AGGGAAAGAAGATTCAT-TGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGGTGG
1 AGGGAAATAAGATTC-TCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGGTGG
* * * * * * *
26034990 CTTCAATCTGCTTCGCTACAACCTCAGGAAAATAAGATTTACCGTAACTTGTAACTTTAATCTGT
65 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTACCGTAACTTGTAGCTTTAATCTGT
*
26035055 TCCACTGCAATGCC
130 TCCACTGCAACGCC
26035069 AGGGAAATAAGATTC
1 AGGGAAATAAGATTC
26035084 GCCATAATGA
Statistics
Matches: 260, Mismatches: 38, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
142 2 0.01
143 255 0.98
144 2 0.01
145 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (143 bp):
AGGGAAATAAGATTCTCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGGTGGC
TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTACCGTAACTTGTAGCTTTAATCTGTT
CCACTGCAACGCC
Found at i:26038643 original size:47 final size:47
Alignment explanation
Indices: 26038476--26038797 Score: 380
Period size: 47 Copynumber: 6.6 Consensus size: 47
26038466 TAGGACGCCA
* * * * *
26038476 ATGCCATATCCTAGATATGGTCTTACA-TGGGA-TCACATATCGGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACT--GACTCTCATATC-GAGCCG
* * *
26038524 ATGCCATGTCCCAGACATGGTCTTACACTGGCACTCAAAACTAATCTCGAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACT-G-ACT-----CTCATATCGAGCCG
*
26038578 ATGCCATGTCCCAAACATGGTCTTACACTGACTCTCATATCGAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATCGAGCCG
*
26038625 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATCTCGAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATCGAGCCG
*
26038672 ATGCCATGTCCCAGACATGGTCTTACATTGACTCTCATATCGA-CCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATCGAGCCG
* * *
26038718 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTCTGTCCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCT-C-ATAT-CGAGCCG
26038768 ATGCCATGTCCCAGACATGGTCTTACACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTG
26038798 GCACACTCAC
Statistics
Matches: 242, Mismatches: 20, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
46 37 0.15
47 98 0.40
48 28 0.12
49 4 0.02
50 34 0.14
52 3 0.01
53 1 0.00
54 32 0.13
55 5 0.02
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATCGAGCCG
Found at i:26051932 original size:9 final size:9
Alignment explanation
Indices: 26051918--26051962 Score: 72
Period size: 9 Copynumber: 5.0 Consensus size: 9
26051908 ATTTTAGAAT
26051918 TCGAATAAC
1 TCGAATAAC
*
26051927 TCGAATAAT
1 TCGAATAAC
26051936 TCGAATAAC
1 TCGAATAAC
*
26051945 TCGAATAAT
1 TCGAATAAC
26051954 TCGAATAAC
1 TCGAATAAC
26051963 ATATTGGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (9 bp):
TCGAATAAC
Found at i:26051936 original size:18 final size:18
Alignment explanation
Indices: 26051915--26051962 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
26051905 TGAATTTTAG
26051915 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
26051933 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
26051951 AATTCGAATAAC
1 AATTCGAATAAC
26051963 ATATTGGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (18 bp):
AATTCGAATAACTCGAAT
Found at i:26052291 original size:14 final size:14
Alignment explanation
Indices: 26052274--26052312 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
26052264 TTAATATTTT
* *
26052274 TAATTTAATTCGAA
1 TAATTTAACTCAAA
26052288 TAATTTAACTCAAA
1 TAATTTAACTCAAA
*
26052302 TAATTTCACTC
1 TAATTTAACTC
26052313 GGTTCAATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (14 bp):
TAATTTAACTCAAA
Found at i:26055396 original size:41 final size:41
Alignment explanation
Indices: 26055351--26055431 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
26055341 AAAGAATATC
* **
26055351 TAAAATTAAAATGTGGTATATATAATTGTTTAAAATTAAAG
1 TAAAATTAAAATGTGATATATATAATTGCATAAAATTAAAG
* *
26055392 TAAAATTTAAATGTTATATATATAATTGCATAAAATTAAA
1 TAAAATTAAAATGTGATATATATAATTGCATAAAATTAAA
26055432 ATTTACGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.40
Consensus pattern (41 bp):
TAAAATTAAAATGTGATATATATAATTGCATAAAATTAAAG
Found at i:26057216 original size:23 final size:23
Alignment explanation
Indices: 26057166--26057229 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
26057156 ATTTACACCA
*
26057166 AAGTGCCACTGTCACTTGCACGG
1 AAGTGCCACTATCACTTGCACGG
*
26057189 GAGTGCCACTATCACTTGCATC-G
1 AAGTGCCACTATCACTTGCA-CGG
*
26057212 AAGTGCCACCATCACTTG
1 AAGTGCCACTATCACTTG
26057230 TGCGCGTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 35 0.97
24 1 0.03
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.23
Consensus pattern (23 bp):
AAGTGCCACTATCACTTGCACGG
Found at i:26058950 original size:301 final size:300
Alignment explanation
Indices: 26058397--26058969 Score: 753
Period size: 301 Copynumber: 1.9 Consensus size: 300
26058387 TATTTATCTA
* *
26058397 TACTATTATTTAAACTTCTGATTGAGTTGGTGTCACAAGTCAACTGAACACCAACTCAGTTAGGA
1 TACTATTAGTTAAACTTCTGATTGAGTTGGTGTCACAAGTCAACTGAACACCAACTCAGTTAGAA
* * *
26058462 AATTATGAGTATGTCCTTCCGTAATTAAACTAAGTAATATTATTTGAGAGGGTATTTTAGTCTTT
66 AATTATGAGTATGCCCTTCCATAATTAAAATAAGTAATATTATTT-AGAGGGTATTTTAGTCTTT
* * * *
26058527 TCACTTAAAAAATTAATAAAAAATTACATTCAGTGGGATTTGAACTCAAGATAATTACATTAGTA
130 TCACTTAAAAAATCAATAAAAAATTACATTCAGTGAGATTTGAACCCAAGACAATTACATTAGTA
* * * *
26058592 AATCCTTTAATTTACTACTCAACTAAAGCTTTATTTTAATCTTTTAATATATTTTAATTTTATTA
195 AATCCTTTAATTTACTACTCAACCAAAGATTTATTTAAATCTTTTAATATATTTTAATTTTATAA
*
26058657 TGTACACTTTATCACCACTATCAGTAGTATATATCTATACT
260 TGCACACTTTATCACCACTATCAGTAGTATATATCTATACT
* * * ** * *
26058698 TACTATTAGTTGAAC-TCTTGATTGATTTGGTGTCACGAGTCAACTGGGCACTAACTCGGTTAGA
1 TACTATTAGTTAAACTTC-TGATTGAGTTGGTGTCACAAGTCAACTGAACACCAACTCAGTTAGA
* *
26058762 AAATTGT-AGGTATGCCCTTCCATAATTAAAATAAGTAATATTATTT-GAGGGTATTTTCGTCTT
65 AAATTATGA-GTATGCCCTTCCATAATTAAAATAAGTAATATTATTTAGAGGGTATTTTAGTCTT
* * * * *
26058825 TTCACTTAAAAAATCAATTAAAATTTGCATTTAGTGAGATTTGAACCCACA-CCAATTACATTAG
129 TTCACTTAAAAAATCAATAAAAAATTACATTCAGTGAGATTTGAACCCA-AGACAATTACATTAG
* * *
26058889 TAAAAT-CTTTAATTTAGTACTCAACCAAA-ATTCTATATTAAATTTTTTTTATATATTTTAATT
193 T-AAATCCTTTAATTTACTACTCAACCAAAGATT-TAT-TTAAA-TCTTTTAATATATTTTAATT
26058952 TTATAATGCACACTTTAT
254 TTATAATGCACACTTTAT
26058970 TACTTCCATA
Statistics
Matches: 234, Mismatches: 31, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
298 2 0.01
299 94 0.40
300 12 0.05
301 126 0.54
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (300 bp):
TACTATTAGTTAAACTTCTGATTGAGTTGGTGTCACAAGTCAACTGAACACCAACTCAGTTAGAA
AATTATGAGTATGCCCTTCCATAATTAAAATAAGTAATATTATTTAGAGGGTATTTTAGTCTTTT
CACTTAAAAAATCAATAAAAAATTACATTCAGTGAGATTTGAACCCAAGACAATTACATTAGTAA
ATCCTTTAATTTACTACTCAACCAAAGATTTATTTAAATCTTTTAATATATTTTAATTTTATAAT
GCACACTTTATCACCACTATCAGTAGTATATATCTATACT
Found at i:26058990 original size:2 final size:2
Alignment explanation
Indices: 26058983--26059140 Score: 217
Period size: 2 Copynumber: 79.0 Consensus size: 2
26058973 TTCCATAAGT
26058983 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
26059025 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TG TG TG TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
26059067 TA TA AA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
26059109 TA TA TA CA TA TA TG CA TA TA TC TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26059141 GCTGTGTGTC
Statistics
Matches: 142, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 142 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:26063555 original size:21 final size:21
Alignment explanation
Indices: 26063514--26063555 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
26063504 ATTTTAGAAA
**
26063514 AAAAACAAAAATTAGTTGTCG
1 AAAAACAAAAATTAGGAGTCG
*
26063535 AAAAACAAAAATTGGGAGTCG
1 AAAAACAAAAATTAGGAGTCG
26063556 CAACCAATCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (21 bp):
AAAAACAAAAATTAGGAGTCG
Found at i:26065353 original size:21 final size:19
Alignment explanation
Indices: 26065316--26065390 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
26065306 AATCATATCT
26065316 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
26065335 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
*
26065356 TCTAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
26065375 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
26065391 CTTGAAGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 35 0.66
21 18 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:26065985 original size:89 final size:89
Alignment explanation
Indices: 26065737--26066015 Score: 429
Period size: 89 Copynumber: 3.2 Consensus size: 89
26065727 AAGACTTGTA
* *
26065737 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTACCTTTGATCTATTTCATGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTATTTCACGCC
*
26065802 AATACATGAAGACAAGATCTGCTT
66 AATACATGAAGAAAAGATCTGCTT
*** *
26065826 TCTTCGATCTACTTCGCCA--A-TACATGAAGACAAGATCTGCTATCTTTGATCTATTTCGCGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTATTTCACGCC
*
26065888 AATACATGAAGATAAGATCTGCTT
66 AATACATGAAGAAAAGATCTGCTT
* *
26065912 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACACC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTATTTCACGCC
*
26065977 AATACATGAAGAAAAAATCTGCTT
66 AATACATGAAGAAAAGATCTGCTT
*
26066001 TCTTCGATCCACTTC
1 TCTTCGATCTACTTC
26066016 ACGACAACCC
Statistics
Matches: 171, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
86 78 0.46
87 1 0.01
88 1 0.01
89 91 0.53
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (89 bp):
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTATTTCACGCC
AATACATGAAGAAAAGATCTGCTT
Found at i:26066016 original size:44 final size:44
Alignment explanation
Indices: 26065737--26066017 Score: 278
Period size: 44 Copynumber: 6.4 Consensus size: 44
26065727 AAGACTTGTA
* * *** *
26065737 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTC-ACACCAATACATGAAGACAAGATCTGCTT
* * * **
26065782 CCTTTGATCTATTTCATGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTT
* *
26065826 TCTTCGATCTACTT--CGCCAATACATGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTT
* * * * *
26065868 TCTTTGATCTATTTCGCGCCAATACATGAAGATAAGATCTGCTT
1 TCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTT
* * *** *
26065912 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTC-ACACCAATACATGAAGACAAGATCTGCTT
* * *
26065957 TCTTTGATCTACTTCACACCAATACATGAAGAAAAAATCTGCTT
1 TCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTT
*
26066001 TCTTCGATCCACTTCAC
1 TCTTCGATCTACTTCAC
26066018 GACAACCCAG
Statistics
Matches: 192, Mismatches: 41, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
42 38 0.20
44 107 0.56
45 47 0.24
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (44 bp):
TCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTT
Found at i:26066079 original size:44 final size:44
Alignment explanation
Indices: 26066025--26066168 Score: 146
Period size: 44 Copynumber: 3.3 Consensus size: 44
26066015 CACGACAACC
* *
26066025 CAGGGAGGCAAGGCTGGTATTTTTGATCTGCTTCACTGTCGGTA
1 CAGGAAGGCAAGGCTGGTATCTTTGATCTGCTTCACTGTCGGTA
* * ** * * ****
26066069 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTTCACT-ACAACC
1 CAGGAAGGCAAG-GCTGGTATCTTTGATCTGCTTCACTGTCGGTA
* *
26066113 CAGGGAGGCAAGGCTGGTATCTTTGATCTGCTTCACTGTCGGTG
1 CAGGAAGGCAAGGCTGGTATCTTTGATCTGCTTCACTGTCGGTA
26066157 CAGGAAGGCAAG
1 CAGGAAGGCAAG
26066169 ATCTGCTATC
Statistics
Matches: 74, Mismatches: 24, Indels: 4
0.73 0.24 0.04
Matches are distributed among these distances:
43 20 0.27
44 35 0.47
45 19 0.26
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (44 bp):
CAGGAAGGCAAGGCTGGTATCTTTGATCTGCTTCACTGTCGGTA
Found at i:26066103 original size:45 final size:45
Alignment explanation
Indices: 26066052--26066194 Score: 155
Period size: 45 Copynumber: 3.2 Consensus size: 45
26066042 TATTTTTGAT
26066052 CTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAAC
1 CTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAAC
* **** * * * ** *
26066097 CTGCTTCACT-ACAACCCAGGGAGGCAAG-GCTGGTATCTTTGAT
1 CTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAAC
*
26066140 CTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATCTTCAAC
1 CTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAAC
*
26066185 CTGCTCCACT
1 CTGCTTCACT
26066195 ACAACCCAGG
Statistics
Matches: 73, Mismatches: 23, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
43 20 0.27
44 24 0.33
45 29 0.40
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (45 bp):
CTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAAC
Found at i:26066111 original size:88 final size:88
Alignment explanation
Indices: 26066012--26066211 Score: 364
Period size: 88 Copynumber: 2.3 Consensus size: 88
26066002 CTTCGATCCA
* *
26066012 CTTCACGACAACCCAGGGAGGCAAGGCTGGTATTTTTGATCTGCTTCACTGTCGGTACAGGAAGG
1 CTTCACTACAACCCAGGGAGGCAAGGCTGGTATCTTTGATCTGCTTCACTGTCGGTACAGGAAGG
26066077 CAAGATCTGCTATCTTCAACCTG
66 CAAGATCTGCTATCTTCAACCTG
*
26066100 CTTCACTACAACCCAGGGAGGCAAGGCTGGTATCTTTGATCTGCTTCACTGTCGGTGCAGGAAGG
1 CTTCACTACAACCCAGGGAGGCAAGGCTGGTATCTTTGATCTGCTTCACTGTCGGTACAGGAAGG
26066165 CAAGATCTGCTATCTTCAACCTG
66 CAAGATCTGCTATCTTCAACCTG
*
26066188 CTCCACTACAACCCAGGGAGGCAA
1 CTTCACTACAACCCAGGGAGGCAA
26066212 TCAGTGCAGG
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 108 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (88 bp):
CTTCACTACAACCCAGGGAGGCAAGGCTGGTATCTTTGATCTGCTTCACTGTCGGTACAGGAAGG
CAAGATCTGCTATCTTCAACCTG
Found at i:26066144 original size:43 final size:43
Alignment explanation
Indices: 26066012--26066149 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 43
26066002 CTTCGATCCA
* *
26066012 CTTCACGACAACCCAGGGAGGCAAGGCTGGTATTTTTGATCTG
1 CTTCACTACAACCCAGGGAGGCAAGGCTGGTATCTTTGATCTG
* **** * * * ** *
26066055 CTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTG
1 CTTCACT-ACAACCCAGGGAGGCAAG-GCTGGTATCTTTGATCTG
26066100 CTTCACTACAACCCAGGGAGGCAAGGCTGGTATCTTTGATCTG
1 CTTCACTACAACCCAGGGAGGCAAGGCTGGTATCTTTGATCTG
26066143 CTTCACT
1 CTTCACT
26066150 GTCGGTGCAG
Statistics
Matches: 69, Mismatches: 24, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
43 26 0.38
44 24 0.35
45 19 0.28
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (43 bp):
CTTCACTACAACCCAGGGAGGCAAGGCTGGTATCTTTGATCTG
Found at i:26066210 original size:44 final size:44
Alignment explanation
Indices: 26066069--26066211 Score: 153
Period size: 44 Copynumber: 3.2 Consensus size: 44
26066059 ACTGTCGGTA
26066069 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTTCACTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTTCACTACAACC
* * * ** * * ****
26066113 CAGGGAGGCAAG-GCTGGTATCTTTGATCTGCTTCACTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTTCACT-ACAACC
*
26066157 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTTCACTACAACC
*
26066201 CAGGGAGGCAA
1 CAGGAAGGCAA
26066212 TCAGTGCAGG
Statistics
Matches: 73, Mismatches: 24, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
43 20 0.27
44 34 0.47
45 19 0.26
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTTCACTACAACC
Found at i:26066249 original size:61 final size:61
Alignment explanation
Indices: 26066154--26066272 Score: 229
Period size: 61 Copynumber: 2.0 Consensus size: 61
26066144 TTCACTGTCG
*
26066154 GTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAATCA
1 GTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCACGGAGGCAATCA
26066215 GTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCACGGAGGCAA
1 GTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCACGGAGGCAA
26066273 GGTTGGTATC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.29, C:0.30, G:0.23, T:0.18
Consensus pattern (61 bp):
GTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCACGGAGGCAATCA
Found at i:26066342 original size:149 final size:149
Alignment explanation
Indices: 26066069--26066356 Score: 486
Period size: 149 Copynumber: 1.9 Consensus size: 149
26066059 ACTGTCGGTA
* *
26066069 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTTCACTACAACCCAGGGAGGCAAGGCTGGTATC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCACGGAGGCAAGGCTGGTATC
* * *
26066134 TTTGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAA
66 TTCGATCTGCTTCACTGTCGATGCAGGAAGACAAGATCTGCTATCTTCAACCTGCTCCACTACAA
26066199 CCCAGGGAGGCAATCAGTG
131 CCCAGGGAGGCAATCAGTG
*
26066218 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCACGGAGGCAAGGTTGGTATC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCACGGAGGCAAGGCTGGTATC
** *
26066283 TTCGATCTGCTTCGTTGTCGATGCAGGAAGACAAGATCTGCTATCTTCAACCTGTTCCACTACAA
66 TTCGATCTGCTTCACTGTCGATGCAGGAAGACAAGATCTGCTATCTTCAACCTGCTCCACTACAA
*
26066348 CCTAGGGAG
131 CCCAGGGAG
26066357 ACAAGGCTGG
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
149 129 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (149 bp):
CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCACGGAGGCAAGGCTGGTATC
TTCGATCTGCTTCACTGTCGATGCAGGAAGACAAGATCTGCTATCTTCAACCTGCTCCACTACAA
CCCAGGGAGGCAATCAGTG
Found at i:26066398 original size:88 final size:88
Alignment explanation
Indices: 26066212--26066428 Score: 274
Period size: 88 Copynumber: 2.5 Consensus size: 88
26066202 AGGGAGGCAA
* * *
26066212 TCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCACGGAGGCAAGGTT
1 TCAGTGCAGGAAGACAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCACGGAGACAAGGCT
* ***
26066277 GGTATCTTCGATCTGCTTCGTTG
66 GGTATCTTCGAGCTGCTTCACCG
* * *
26066300 TC-GATGCAGGAAGACAAGATCTGCTATCTTCAACCTGTTCCACTACAACCTAGGGAGACAAGGC
1 TCAG-TGCAGGAAGACAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCACGGAGACAAGGC
26066364 TGGTATCTTCGAGCTGCTTCACCG
65 TGGTATCTTCGAGCTGCTTCACCG
* * * * * *
26066388 TCAGTACAGGAAGTCAAGATCTGTTATTTTTAACCTACTCC
1 TCAGTGCAGGAAGACAAGATCTGCTATCTTCAACCTGCTCC
26066429 GCTGCAAACC
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
87 1 0.01
88 108 0.98
89 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (88 bp):
TCAGTGCAGGAAGACAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCACGGAGACAAGGCT
GGTATCTTCGAGCTGCTTCACCG
Found at i:26068642 original size:25 final size:26
Alignment explanation
Indices: 26068591--26068651 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
26068581 AAGAAAGTCC
* **
26068591 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
26068617 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
26068642 AAAATGAATG
1 AAAA-GAATG
26068652 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:26071657 original size:21 final size:21
Alignment explanation
Indices: 26071616--26071657 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
26071606 ATTTTGGAAA
**
26071616 AAAAACAAAAATTAGTTGTCG
1 AAAAACAAAAATTAGGAGTCG
*
26071637 AAAAACAAAAATTGGGAGTCG
1 AAAAACAAAAATTAGGAGTCG
26071658 CCACCAATCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (21 bp):
AAAAACAAAAATTAGGAGTCG
Found at i:26073359 original size:21 final size:19
Alignment explanation
Indices: 26073319--26073393 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
26073309 AATCATATCT
26073319 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
26073338 TCCAAGATTGCATATATAATA
1 TCCAAGATTGC--ATATCATA
*
26073359 TCTAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
26073378 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
26073394 CTTGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 34 0.67
21 17 0.33
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:26073580 original size:18 final size:18
Alignment explanation
Indices: 26073567--26073600 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
26073557 TAATAATTGC
26073567 ATTTT-AAAT-TATAATT
1 ATTTTGAAATATATAATT
26073583 ATTTTGAAATATATAATT
1 ATTTTGAAATATATAATT
26073601 CTCACAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 4 0.25
18 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
ATTTTGAAATATATAATT
Found at i:26074847 original size:22 final size:22
Alignment explanation
Indices: 26074817--26074859 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
26074807 ACAACAAAAC
*
26074817 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
26074839 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
26074860 AGCGCCAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:26075018 original size:43 final size:43
Alignment explanation
Indices: 26074931--26075377 Score: 508
Period size: 43 Copynumber: 10.3 Consensus size: 43
26074921 TCGTCGCTAA
* * * *
26074931 CTTTAACGGCGCTTCCAGTA-AAAAACGCCGCTAAAGGCCGAGAC
1 CTTTAGCGGCGCTTCCA--ACACAAACGCCGCTAAAGACCAAGAC
*
26074975 CTTTAGCGGCGCTTCCAACACAAACGCCGCCAAAGACCAAGAC
1 CTTTAGCGGCGCTTCCAACACAAACGCCGCTAAAGACCAAGAC
* *
26075018 CTTTAGCGGAGCTTTCC-ACATAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGC-TTCCAACACAAACGCCGCTAAAGACCAAGAC
* *
26075061 CTTTAGCGGCGCTTTTC-ATACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGC-TTCCAACACAAACGCCGCTAAAGACCAAGAC
* *
26075104 CTTTAGCGGCACTTCCAACACAAACGCCGCCAAAAGACCAAGAC
1 CTTTAGCGGCGCTTCCAACACAAACGCCG-CTAAAGACCAAGAC
** * *
26075148 CTTTAGCGGCGCTTTTAATACAAACGCTGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTCCAACACAAACGCCGCTAAAGACCAAGAC
* *
26075191 CTTTAGCGGCGCTTCCCACACAAACGCCGCTATAGACCAAGAC
1 CTTTAGCGGCGCTTCCAACACAAACGCCGCTAAAGACCAAGAC
*
26075234 CTTTAGCGGCGCTTCCCACACAAACGCCGCTAAAGA-CAACGAC
1 CTTTAGCGGCGCTTCCAACACAAACGCCGCTAAAGACCAA-GAC
* * * *
26075277 CATTTAGCGGCGCTTAC-ACGACAAATGCCGCTAAAGATCGAGAC
1 C-TTTAGCGGCGCTTCCAAC-ACAAACGCCGCTAAAGACCAAGAC
* * **** * *
26075321 CTTTAGCGACGTTTTTTTCACAAATGCCGCTAAAGATCAAGAC
1 CTTTAGCGGCGCTTCCAACACAAACGCCGCTAAAGACCAAGAC
*
26075364 CTTTAGCAGCGCTT
1 CTTTAGCGGCGCTT
26075378 TTCCCAAAAA
Statistics
Matches: 353, Mismatches: 41, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
42 7 0.02
43 252 0.71
44 92 0.26
45 2 0.01
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (43 bp):
CTTTAGCGGCGCTTCCAACACAAACGCCGCTAAAGACCAAGAC
Found at i:26075173 original size:173 final size:173
Alignment explanation
Indices: 26074953--26075396 Score: 574
Period size: 173 Copynumber: 2.6 Consensus size: 173
26074943 TTCCAGTAAA
* ** * *
26074953 AAACGCCGCTAAAGGCCGAGACCTTTAGCGGCGCTTCCAACACAAACGCCGCCAAAGACCAAGAC
1 AAACGCCGCTAAAGACCGAGACCTTTAGCGGCGCTTTTAATACAAACGCCGCTAAAGACCAAGAC
* * ** *
26075018 CTTTAGCGGAGCTTTCCACATAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCATACA
66 CTTTAGCGGCGCTTTCCACAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCCCACACA
*
26075083 AACGCCGCTAAAGACCAA-GACC-TTTAGCGGCACTTCCAAC-AC
131 AACGCCGCTAAAGA-CAACGACCATTTAGCGGCACTTAC-ACGAC
* * *
26075125 AAACGCCGCCAAAAGACCAAGACCTTTAGCGGCGCTTTTAATACAAACGCTGCTAAAGACCAAGA
1 AAACGCCG-CTAAAGACCGAGACCTTTAGCGGCGCTTTTAATACAAACGCCGCTAAAGACCAAGA
* * *
26075190 CCTTTAGCGGCGCTTCCCACACAAACGCCGCTATAGACCAAGACCTTTAGCGGCGCTTCCCACAC
65 CCTTTAGCGGCGCTTTCCACAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCCCACAC
*
26075255 AAACGCCGCTAAAGACAACGACCATTTAGCGGCGCTTACACGAC
130 AAACGCCGCTAAAGACAACGACCATTTAGCGGCACTTACACGAC
* * * ** * *
26075299 AAATGCCGCTAAAGATCGAGACCTTTAGCGACG-TTTTTTTCACAAATGCCGCTAAAGATCAAGA
1 AAACGCCGCTAAAGACCGAGACCTTTAGCGGCGCTTTTAAT-ACAAACGCCGCTAAAGACCAAGA
*
26075363 CCTTTAGCAGCGCTTTTCC-CAAAAACGCCGCTAA
65 CCTTTAGCGGCGC-TTTCCACAAAAACGCCGCTAA
26075397 TTTTGGCAGA
Statistics
Matches: 235, Mismatches: 31, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
172 16 0.07
173 193 0.82
174 26 0.11
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.18
Consensus pattern (173 bp):
AAACGCCGCTAAAGACCGAGACCTTTAGCGGCGCTTTTAATACAAACGCCGCTAAAGACCAAGAC
CTTTAGCGGCGCTTTCCACAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCCCACACA
AACGCCGCTAAAGACAACGACCATTTAGCGGCACTTACACGAC
Found at i:26075181 original size:130 final size:129
Alignment explanation
Indices: 26074953--26075377 Score: 559
Period size: 130 Copynumber: 3.3 Consensus size: 129
26074943 TTCCAGTAAA
* *
26074953 AAACGCCGCTAAAGGCCGAGACCTTTAGCGGCGCTTCCAACACAAACGCCGCCAAAGACCAAGAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCCAACACAAACGCCGCCAAAGACCAAGAC
* * *
26075018 CTTTAGCGGAGCTTTCCACATAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCATAC
66 CTTTAGCGGCGCTTTCAACACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCATAC
*
26075082 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTCCAACACAAACGCCGCCAAAAGACCAAGA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCCAACACAAACGCCGCC-AAAGACCAAGA
* * * ** *
26075147 CCTTTAGCGGCGCTTTTAATACAAACGCTGCTAAAGACCAAGACCTTTAGCGGCGCTTCCCACAC
65 CCTTTAGCGGCGCTTTCAACACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCATAC
* * *
26075212 AAACGCCGCTATAGACCAAGACCTTTAGCGGCGCTTCCCACACAAACGCCGCTAAAGA-CAACGA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCCAACACAAACGCCGCCAAAGACCAA-GA
* * * * * **
26075276 CCATTTAGCGGCGCTTAC-ACGACAAATGCCGCTAAAGATCGAGACCTTTAGCGACG-TTTTTTT
65 CC-TTTAGCGGCGCTTTCAAC-ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCAT
26075339 CAC
128 -AC
* * *
26075342 AAATGCCGCTAAAGATCAAGACCTTTAGCAGCGCTT
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTT
26075378 TTCCCAAAAA
Statistics
Matches: 258, Mismatches: 33, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
128 3 0.01
129 62 0.24
130 193 0.75
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (129 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCCAACACAAACGCCGCCAAAGACCAAGAC
CTTTAGCGGCGCTTTCAACACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCATAC
Found at i:26075656 original size:9 final size:9
Alignment explanation
Indices: 26075642--26075705 Score: 101
Period size: 9 Copynumber: 7.1 Consensus size: 9
26075632 GTCTAAGACA
*
26075642 GCGGCTGTT
1 GCGGCTGCT
26075651 GCGGCTGCT
1 GCGGCTGCT
26075660 GCGGCTGCT
1 GCGGCTGCT
26075669 GCGGCTGCT
1 GCGGCTGCT
*
26075678 GCGGCTGTT
1 GCGGCTGCT
26075687 GCGGCTGCT
1 GCGGCTGCT
*
26075696 GCGACTGCT
1 GCGGCTGCT
26075705 G
1 G
26075706 AAACATATTC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.02, C:0.30, G:0.44, T:0.25
Consensus pattern (9 bp):
GCGGCTGCT
Found at i:26081211 original size:22 final size:22
Alignment explanation
Indices: 26081180--26081221 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
26081170 NNNNNNAGTT
*
26081180 ATGTACGTTACGTATCATATTA
1 ATGTAAGTTACGTATCATATTA
* *
26081202 ATGTAAGTTATGTATTATAT
1 ATGTAAGTTACGTATCATAT
26081222 AAGTTATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (22 bp):
ATGTAAGTTACGTATCATATTA
Found at i:26081228 original size:9 final size:9
Alignment explanation
Indices: 26081202--26081296 Score: 81
Period size: 9 Copynumber: 10.6 Consensus size: 9
26081192 TATCATATTA
26081202 ATGTAAGTT
1 ATGTAAGTT
26081211 ATGT-A-TT
1 ATGTAAGTT
*
26081218 ATATAAGTT
1 ATGTAAGTT
*
26081227 ATTTAAGTT
1 ATGTAAGTT
26081236 ATGTAAGTT
1 ATGTAAGTT
*
26081245 GTGTAAGTT
1 ATGTAAGTT
*
26081254 ATGTATAATATT
1 ATG--TAA-GTT
*
26081266 AACGTAAGTT
1 -ATGTAAGTT
26081276 ATGT-A-TT
1 ATGTAAGTT
26081283 ATGTAAGTT
1 ATGTAAGTT
26081292 ATGTA
1 ATGTA
26081297 TAATATTAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
7 11 0.16
8 4 0.06
9 42 0.61
10 2 0.03
11 6 0.09
12 2 0.03
13 2 0.03
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:26081242 original size:18 final size:18
Alignment explanation
Indices: 26081202--26081296 Score: 81
Period size: 16 Copynumber: 5.3 Consensus size: 18
26081192 TATCATATTA
26081202 ATGTAAGTTATGT-A-TT
1 ATGTAAGTTATGTAAGTT
* *
26081218 ATATAAGTTATTTAAGTT
1 ATGTAAGTTATGTAAGTT
*
26081236 ATGTAAGTTGTGTAAGTT
1 ATGTAAGTTATGTAAGTT
* *
26081254 ATGTATAATATTAACGTAAGTT
1 ATG--TAA-GTT-ATGTAAGTT
26081276 ATGT-A-TTATGTAAGTT
1 ATGTAAGTTATGTAAGTT
26081292 ATGTA
1 ATGTA
26081297 TAATATTAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
16 23 0.37
17 3 0.05
18 20 0.32
19 1 0.02
20 4 0.06
21 2 0.03
22 10 0.16
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (18 bp):
ATGTAAGTTATGTAAGTT
Found at i:26081275 original size:22 final size:21
Alignment explanation
Indices: 26081247--26081321 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 21
26081237 TGTAAGTTGT
26081247 GTAAGTTATGTATAATATTAA
1 GTAAGTTATGTATAATATTAA
26081268 CGTAAGTTATGTAT--TA-T--
1 -GTAAGTTATGTATAATATTAA
26081285 GTAAGTTATGTATAATATTAA
1 GTAAGTTATGTATAATATTAA
26081306 TGTGATAGTTATGTAT
1 -GT-A-AGTTATGTAT
26081322 TATGTTAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
16 13 0.29
18 2 0.04
19 2 0.04
20 2 0.04
22 15 0.33
23 1 0.02
24 10 0.22
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.45
Consensus pattern (21 bp):
GTAAGTTATGTATAATATTAA
Found at i:26081398 original size:69 final size:69
Alignment explanation
Indices: 26081323--26081460 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 69
26081313 GTTATGTATT
* *
26081323 ATGTTAATATTTAGAAAATAGCATTTACAATTATTTCTAAAATTATAAAATTTATTATTGAAAAT
1 ATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAAATTATTATTGAAAAT
26081388 ATAG
66 ATAG
*
26081392 ATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAAATTATTTTTGAAAAT
1 ATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAAATTATTATTGAAAAT
26081457 ATAG
66 ATAG
26081461 GTTACCATGA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (69 bp):
ATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAAATTATTATTGAAAAT
ATAG
Found at i:26084768 original size:15 final size:15
Alignment explanation
Indices: 26084750--26084804 Score: 69
Period size: 15 Copynumber: 3.6 Consensus size: 15
26084740 ACCCTTGACA
26084750 CCCTAACCCCTAAAT
1 CCCTAACCCCTAAAT
26084765 CCCTAACCCCT-AAT
1 CCCTAACCCCTAAAT
26084779 CCCTAAATCCCCTTAAA-
1 CCCT-AA-CCCC-TAAAT
26084796 CCCTAACCC
1 CCCTAACCC
26084805 TTAATTAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 7 0.19
15 16 0.44
16 6 0.17
17 5 0.14
18 2 0.06
ACGTcount: A:0.31, C:0.49, G:0.00, T:0.20
Consensus pattern (15 bp):
CCCTAACCCCTAAAT
Found at i:26084782 original size:22 final size:22
Alignment explanation
Indices: 26084750--26084856 Score: 99
Period size: 22 Copynumber: 4.6 Consensus size: 22
26084740 ACCCTTGACA
*
26084750 CCCTAACCCCTAAATCCCTAAC
1 CCCTAACCCCTAAATCACTAAC
* * *
26084772 CCCTAATCCCTAAATCCCCTTAAA
1 CCCTAACCCCTAAAT-CAC-TAAC
*
26084796 CCCTAACCCTTAATTAAATCACTAAC
1 CCCTAACCC----CTAAATCACTAAC
*
26084822 CCCTAACCCCTAAATTACTAA-
1 CCCTAACCCCTAAATCACTAAC
26084843 CCCTAACCCCTAAA
1 CCCTAACCCCTAAA
26084857 CATTAATCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
21 14 0.20
22 24 0.34
23 3 0.04
24 11 0.15
26 12 0.17
27 2 0.03
28 5 0.07
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.22
Consensus pattern (22 bp):
CCCTAACCCCTAAATCACTAAC
Found at i:26084862 original size:50 final size:50
Alignment explanation
Indices: 26084760--26084856 Score: 119
Period size: 50 Copynumber: 2.0 Consensus size: 50
26084750 CCCTAACCCC
* * * *
26084760 TAAATCCCTAACCCCTAATCCCTAAATCCCCTTAAACCCTAACCCTTAAT
1 TAAATCACTAACCCCTAACCCCTAAATCCACTTAAACCCTAACCCTAAAT
*
26084810 TAAATCACTAACCCCTAACCCCTAAAT-TAC-T-AACCCTAACCCCTAAA
1 TAAATCACTAACCCCTAACCCCTAAATCCACTTAAACCCTAA-CCCTAAA
26084857 CATTAATCCC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
47 8 0.20
48 7 0.17
49 1 0.02
50 25 0.61
ACGTcount: A:0.37, C:0.39, G:0.00, T:0.24
Consensus pattern (50 bp):
TAAATCACTAACCCCTAACCCCTAAATCCACTTAAACCCTAACCCTAAAT
Found at i:26084876 original size:13 final size:14
Alignment explanation
Indices: 26084750--26084878 Score: 54
Period size: 14 Copynumber: 9.1 Consensus size: 14
26084740 ACCCTTGACA
*
26084750 CCCTAACCCCTAAAT
1 CCCTAAACCCT-AAT
*
26084765 CCCTAACCCCTAAT
1 CCCTAAACCCTAAT
*
26084779 CCCTAAATCCCCTTAAA
1 CCCTAAA--CCC-TAAT
26084796 CCCT-AACCCTTAAT
1 CCCTAAACCC-TAAT
* *
26084810 ---TAAATCACTAAC
1 CCCTAAA-CCCTAAT
*
26084822 CCCTAACCCCTAAAT
1 CCCTAAACCCT-AAT
** *
26084837 TACT-AACCCTAAC
1 CCCTAAACCCTAAT
**
26084850 CCCTAAACATTAAT
1 CCCTAAACCCTAAT
26084864 CCC-AAACCCTAAT
1 CCCTAAACCCTAAT
26084877 CC
1 CC
26084879 ATACCCTTTA
Statistics
Matches: 85, Mismatches: 19, Indels: 22
0.67 0.15 0.17
Matches are distributed among these distances:
11 1 0.01
12 5 0.06
13 16 0.19
14 33 0.39
15 18 0.21
16 5 0.06
17 7 0.08
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.22
Consensus pattern (14 bp):
CCCTAAACCCTAAT
Found at i:26085165 original size:2 final size:2
Alignment explanation
Indices: 26085158--26085189 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
26085148 GACGAACAAC
*
26085158 TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26085190 GCATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:26085548 original size:42 final size:41
Alignment explanation
Indices: 26085501--26085632 Score: 128
Period size: 41 Copynumber: 3.2 Consensus size: 41
26085491 ACTCCAACAT
26085501 TAGCGGCGCTTTACAAACAAACGCCACTAAAAACCTTAACTA
1 TAGCGGCGC-TTACAAACAAACGCCACTAAAAACCTTAACTA
* * * *
26085543 TAGCGGCGCATTATC-AA-AAACGCCGCTAAAAGCCCTAAAGT-
1 TAGCGGCGC-TTA-CAAACAAACGCCACTAAAA-ACCTTAACTA
* * *
26085584 TAGCGGCGCTCAGAAACAAACGCCACTAAAAACCATAAC-A
1 TAGCGGCGCTTACAAACAAACGCCACTAAAAACCTTAACTA
26085624 TTAGCGGCG
1 -TAGCGGCG
26085633 TTTGTTTAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
40 8 0.11
41 43 0.60
42 20 0.28
43 1 0.01
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.16
Consensus pattern (41 bp):
TAGCGGCGCTTACAAACAAACGCCACTAAAAACCTTAACTA
Found at i:26090417 original size:24 final size:24
Alignment explanation
Indices: 26090372--26090417 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
26090362 ATTTAAATAT
*
26090372 AAAATTTAATCCACAACTTAACCG
1 AAAATTTAATCCACAACATAACCG
26090396 AAAATTTAATCC-CTAACATAAC
1 AAAATTTAATCCAC-AACATAAC
26090418 TTCCCCTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATTTAATCCACAACATAACCG
Found at i:26090458 original size:11 final size:11
Alignment explanation
Indices: 26090442--26090467 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
26090432 ATTAGAAAAA
26090442 AAAAAAAAAGG
1 AAAAAAAAAGG
26090453 AAAAAAAAAGG
1 AAAAAAAAAGG
26090464 AAAA
1 AAAA
26090468 CAGTTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGG
Found at i:26091087 original size:71 final size:71
Alignment explanation
Indices: 26091005--26091138 Score: 241
Period size: 71 Copynumber: 1.9 Consensus size: 71
26090995 AACCGCCACA
26091005 AGAGTAAGTAAGAATTTGATTTTATGATATTCTGTCATATATTAAGGAGAAGTTTGTGTTAAGTG
1 AGAGTAAGTAAGAATTTGATTTTATGATATTCTGTCATATATTAAGGAGAAGTTTGTGTTAAGTG
26091070 ATTAAG
66 ATTAAG
* * *
26091076 AGAGTAAGTAAGACTTTGATTTTCTGATATTCTGTCATGTATTAAGGAGAAGTTTGTGTTAAG
1 AGAGTAAGTAAGAATTTGATTTTATGATATTCTGTCATATATTAAGGAGAAGTTTGTGTTAAG
26091139 AAATTAACGT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 60 1.00
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (71 bp):
AGAGTAAGTAAGAATTTGATTTTATGATATTCTGTCATATATTAAGGAGAAGTTTGTGTTAAGTG
ATTAAG
Found at i:26096003 original size:9 final size:10
Alignment explanation
Indices: 26095981--26096040 Score: 58
Period size: 9 Copynumber: 6.4 Consensus size: 10
26095971 TTTACATCTC
*
26095981 AAAAAATTAT
1 AAAAAACTAT
26095991 AAAAAACTA-
1 AAAAAACTAT
26096000 AAAAATA-TAT
1 AAAAA-ACTAT
*
26096010 AATAAACT-T
1 AAAAAACTAT
26096019 AAAAAA-TAT
1 AAAAAACTAT
26096028 AAAAAACTA-
1 AAAAAACTAT
26096037 AAAA
1 AAAA
26096041 CCTTAAACCC
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
8 1 0.02
9 25 0.60
10 16 0.38
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (10 bp):
AAAAAACTAT
Found at i:26096004 original size:18 final size:18
Alignment explanation
Indices: 26095981--26096040 Score: 86
Period size: 18 Copynumber: 3.3 Consensus size: 18
26095971 TTTACATCTC
26095981 AAAAAATTATAAAAAACT
1 AAAAAATTATAAAAAACT
*
26095999 AAAAAATATATAATAAACTT
1 AAAAAAT-TATAAAAAAC-T
26096019 AAAAAA-TATAAAAAACT
1 AAAAAATTATAAAAAACT
26096036 AAAAA
1 AAAAA
26096041 CCTTAAACCC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
17 6 0.16
18 16 0.42
19 9 0.24
20 7 0.18
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAAATTATAAAAAACT
Found at i:26099184 original size:41 final size:41
Alignment explanation
Indices: 26099133--26099298 Score: 192
Period size: 42 Copynumber: 4.0 Consensus size: 41
26099123 GTGCTATCAT
*
26099133 ATATCGATGCCAATAG-CTAG-CTATGGTCTTACACGAATCTC
1 ATATCGATGCCAAT-GCCCAGAC-ATGGTCTTACACGAATCTC
*
26099174 ATATCGATGCCAATGTCCCAGACATGGTCTTACATGAATCTC
1 ATATCGATGCCAATG-CCCAGACATGGTCTTACACGAATCTC
* * * * *
26099216 GTATTGATGCCAATGTCCCAGACATGGTCTTAGATGAATCAC
1 ATATCGATGCCAATG-CCCAGACATGGTCTTACACGAATCTC
*
26099258 ATAACGATGCCAATGTCCCAGACATGGTCTTACACGTAATC
1 ATATCGATGCCAATG-CCCAGACATGGTCTTACACG-AATC
26099299 ACATCTCAGT
Statistics
Matches: 110, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
40 1 0.01
41 14 0.13
42 90 0.82
43 5 0.05
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (41 bp):
ATATCGATGCCAATGCCCAGACATGGTCTTACACGAATCTC
Found at i:26099201 original size:42 final size:42
Alignment explanation
Indices: 26099155--26099298 Score: 216
Period size: 42 Copynumber: 3.4 Consensus size: 42
26099145 ATAGCTAGCT
26099155 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
* * *
26099197 ATGGTCTTACATGAATCTCGTATTGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
* * * *
26099239 ATGGTCTTAGATGAATCACATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
26099281 ATGGTCTTACACGTAATC
1 ATGGTCTTACACG-AATC
26099299 ACATCTCAGT
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 87 0.96
43 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
Found at i:26099589 original size:20 final size:19
Alignment explanation
Indices: 26099558--26099609 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
26099548 ATCTATATAA
* *
26099558 TAACAAAATTTACT-TATT
1 TAACACAATTTACTCAATT
26099576 TAATCACTAATTTACTCAATT
1 TAA-CAC-AATTTACTCAATT
26099597 TAACACAATTTAC
1 TAACACAATTTAC
26099610 ACATTAGAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 3 0.10
19 9 0.31
20 11 0.38
21 6 0.21
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (19 bp):
TAACACAATTTACTCAATT
Found at i:26100553 original size:24 final size:24
Alignment explanation
Indices: 26100521--26100568 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
26100511 AACTTTACGA
26100521 TCCGCTTCCACGTTCATCCACATC
1 TCCGCTTCCACGTTCATCCACATC
26100545 TCCGCTTCCACGTTCATCCACATC
1 TCCGCTTCCACGTTCATCCACATC
26100569 ATTCTTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.46, G:0.08, T:0.29
Consensus pattern (24 bp):
TCCGCTTCCACGTTCATCCACATC
Found at i:26125767 original size:42 final size:42
Alignment explanation
Indices: 26125696--26125837 Score: 187
Period size: 42 Copynumber: 3.4 Consensus size: 42
26125686 CTTTCCATTG
*
26125696 AGCTCTCATGAGCTTCAGTTTAACCCTTATGGGTTTCTGTTT
1 AGCTCTTATGAGCTTCAGTTTAACCCTTATGGGTTTCTGTTT
* * * *
26125738 AGCTTTTTTGAGCTTCAGTTTAACTCTTATGGGTTTCTGTTC
1 AGCTCTTATGAGCTTCAGTTTAACCCTTATGGGTTTCTGTTT
*
26125780 AGCTCTTATGAGCTTCCA-TTCAACCCTTATGGGTTTCTGTTT
1 AGCTCTTATGAGCTT-CAGTTTAACCCTTATGGGTTTCTGTTT
* * *
26125822 GGCACTTATGTGCTTC
1 AGCTCTTATGAGCTTC
26125838 TGTGCAGCCT
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
41 1 0.01
42 83 0.97
43 2 0.02
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.44
Consensus pattern (42 bp):
AGCTCTTATGAGCTTCAGTTTAACCCTTATGGGTTTCTGTTT
Found at i:26125787 original size:21 final size:21
Alignment explanation
Indices: 26125721--26125820 Score: 74
Period size: 21 Copynumber: 4.8 Consensus size: 21
26125711 CAGTTTAACC
* *
26125721 CTTATGGGTTTCTGTTTAGCT
1 CTTATGGGTTTCTGTTCAACT
* * * * * *
26125742 TTTTTGAGCTTCAGTTTAACT
1 CTTATGGGTTTCTGTTCAACT
*
26125763 CTTATGGGTTTCTGTTCAGCT
1 CTTATGGGTTTCTGTTCAACT
* * ** *
26125784 CTTATGAGCTTCCATTCAACC
1 CTTATGGGTTTCTGTTCAACT
26125805 CTTATGGGTTTCTGTT
1 CTTATGGGTTTCTGTT
26125821 TGGCACTTAT
Statistics
Matches: 56, Mismatches: 23, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.14, C:0.19, G:0.19, T:0.48
Consensus pattern (21 bp):
CTTATGGGTTTCTGTTCAACT
Found at i:26151669 original size:20 final size:20
Alignment explanation
Indices: 26151641--26151689 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
26151631 GTGATTTCTT
*
26151641 AATTAAATTAGTTTTCTATA
1 AATTCAATTAGTTTTCTATA
* *
26151661 AATTCAATTCGTTTTCTGTA
1 AATTCAATTAGTTTTCTATA
26151681 AATTCAATT
1 AATTCAATT
26151690 GATCAGACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.49
Consensus pattern (20 bp):
AATTCAATTAGTTTTCTATA
Found at i:26153707 original size:99 final size:98
Alignment explanation
Indices: 26153488--26153832 Score: 279
Period size: 101 Copynumber: 3.4 Consensus size: 98
26153478 TTACTCATTC
* * * *
26153488 TGGTGACTCCATATTGAAGTGGCGGGACCGAAAAA--TTAAAAAAAATATTGGTGCCGCCATATC
1 TGGTGACTCCATA-TGAAGTGGCAGCACCGAAAAATTTTAAAAAAAATATTAGTGTCGCCATATC
* * * * * *
26153551 TGGAGAAAGGACTAGGGAAATTTTATTTTTTTATTGTTT
65 TAGAGTAGGGACCA--GAAA--AT-TTTTTTTATTATTT
*** * * * *
26153590 TGGTGACTTTGTGTGAAGTGGCAGCACTGAAAAATTTTAAAAAAAATACTAGTGTCACCATATCT
1 TGGTGACTCCATATGAAGTGGCAGCACCGAAAAATTTTAAAAAAAATATTAGTGTCGCCATATCT
26153655 AGAGTAGGGACCAGAAAATTTTTTTTATTCATTT
66 AGAGTAGGGACCAGAAAATTTTTTTTATT-ATTT
* * ** *
26153689 TGGTGACTCCATATGAAGTGGCGGGACCGAAAAATTAAAAAAAAAACTTATTAGTGTCGTCATAT
1 TGGTGACTCCATATGAAGTGGCAGCACCGAAAAATTTTAAAAAAAA--TATTAGTGTCGCCATAT
* * *
26153754 CTAGGGTAGGGACCA-AGAGTTTCTTTTTAACTT-TTT
64 CTAGAGTAGGGACCAGAAAATTT-TTTTT-A-TTATTT
* *
26153790 TAGTGACTCCATGTGAAGT-G-ATGACACCGAAAAATTTTAAAAA
1 TGGTGACTCCATATGAAGTGGCA-G-CACCGAAAAATTTTAAAAA
26153833 TGCGGCACCA
Statistics
Matches: 195, Mismatches: 38, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
98 10 0.05
99 41 0.21
100 7 0.04
101 91 0.47
102 10 0.05
103 36 0.18
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (98 bp):
TGGTGACTCCATATGAAGTGGCAGCACCGAAAAATTTTAAAAAAAATATTAGTGTCGCCATATCT
AGAGTAGGGACCAGAAAATTTTTTTTATTATTT
Found at i:26156347 original size:96 final size:97
Alignment explanation
Indices: 26156247--26156429 Score: 239
Period size: 96 Copynumber: 1.9 Consensus size: 97
26156237 AGGTTGAGGG
*
26156247 TTACTTGAGTAATTTAATTA-AAAGTTATTTA-AAAA-TCAAATAAGGGTTTAGAGTTAAGGGTT
1 TTACTTGAGTAAATTAATTATAAA-TT-TTTACAAAATTCAAATAAGGG-TTAGAGTTAAGGGTT
26156309 TTTAAG-AAAAAATCAAATAAATTAGGGTGCAAGA
63 TTTAAGTAAAAAATCAAATAAATTAGGGTGCAAGA
** * * * *
26156343 TTACTTGAGTAAATTAATTATAAATTTTTACAAAATTTGATTAAGGGTTAGTGTTTAGTGTTTTT
1 TTACTTGAGTAAATTAATTATAAATTTTTACAAAATTCAAATAAGGGTTAGAGTTAAGGGTTTTT
*
26156408 AAGTAAAAACTCAAATAAATTA
66 AAGTAAAAAATCAAATAAATTA
26156430 AGGTTTGGGA
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
95 4 0.05
96 43 0.57
97 28 0.37
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (97 bp):
TTACTTGAGTAAATTAATTATAAATTTTTACAAAATTCAAATAAGGGTTAGAGTTAAGGGTTTTT
AAGTAAAAAATCAAATAAATTAGGGTGCAAGA
Found at i:26156699 original size:126 final size:126
Alignment explanation
Indices: 26156474--26157016 Score: 872
Period size: 126 Copynumber: 4.3 Consensus size: 126
26156464 TTTTTAATTT
* ** * **
26156474 AAAGAAGCTCCCACGTGGACGCACTTTTATTGCAGTAACTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
*
26156539 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGC-GAGATGCTTTGTCAGCAGAAGTAATG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAG-GATGCTTTGTCAGCAGAAGTACTG
*
26156600 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTAGAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
* *
26156665 GTTTCTGAGCAAATAGTGTCAAAAACGTTTTAAGCAGGATACTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * * * *
26156726 AAAGAAGCTCCCATGTGGACGCACTTTTGCTATAGTAGCTCCTCAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
* * *
26156791 GTTTCTGAGCAAATAGTGTCAAAAAAGCTTTAAGCAGGATGTTTTGTCAGTAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* *
26156852 AAAGAAGCTCCTACGTAGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
*
26156917 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCATGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
*
26156978 AAAGAAGCTCCCACATGGACGCGCTTTTGCTACAGTGGC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGC
26157017 GCATGTTTGG
Statistics
Matches: 382, Mismatches: 34, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
126 381 1.00
127 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:26162465 original size:22 final size:21
Alignment explanation
Indices: 26162440--26162489 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
26162430 TCTTTTAAAT
* *
26162440 AGAAATTTGAGAGGAATTTGAG
1 AGAAATTAGAGA-GAAATTGAG
*
26162462 AGAATACTAGAGAGAAATTGAG
1 AGAA-ATTAGAGAGAAATTGAG
26162484 AGAAAT
1 AGAAAT
26162490 GATTTAGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.04
22 16 0.70
23 6 0.26
ACGTcount: A:0.48, C:0.02, G:0.28, T:0.22
Consensus pattern (21 bp):
AGAAATTAGAGAGAAATTGAG
Found at i:26164462 original size:18 final size:18
Alignment explanation
Indices: 26164424--26164459 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
26164414 TTATTATTTT
*
26164424 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
26164442 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
26164460 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:26164477 original size:16 final size:19
Alignment explanation
Indices: 26164448--26164507 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 19
26164438 AAAATAAAAT
26164448 TTAA-ATATTAAATAATTTA
1 TTAATATATT-AATAATTTA
26164467 TTAA-A-A-TAATAAATTATA
1 TTAATATATTAAT-AATT-TA
26164485 TTAATTATATTAATAATTTA
1 TTAA-TATATTAATAATTTA
26164505 TTA
1 TTA
26164508 TATGACTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
16 3 0.09
17 5 0.14
18 7 0.20
19 5 0.14
20 6 0.17
21 5 0.14
22 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTAATATATTAATAATTTA
Found at i:26188510 original size:14 final size:14
Alignment explanation
Indices: 26188491--26188527 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
26188481 TTAGCAATGC
26188491 TAAAGAAAGAAATA
1 TAAAGAAAGAAATA
26188505 TAAAGAATA-AAATA
1 TAAAGAA-AGAAATA
26188519 -AAAGAAAGA
1 TAAAGAAAGA
26188528 GATGCTCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.05
13 7 0.33
14 12 0.57
15 1 0.05
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
TAAAGAAAGAAATA
Found at i:26189356 original size:16 final size:15
Alignment explanation
Indices: 26189337--26189388 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 15
26189327 AAAATTAGCT
26189337 AAAAATAAAAATGAAA
1 AAAAATAAAAAT-AAA
26189353 AAAAATAAAAATAAACA
1 AAAAATAAAAAT-AA-A
*
26189370 AAAAAGGAAAAATAAA
1 AAAAA-TAAAAATAAA
26189386 AAA
1 AAA
26189389 TTTGACTTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 18 0.56
17 8 0.25
18 6 0.19
ACGTcount: A:0.83, C:0.02, G:0.06, T:0.10
Consensus pattern (15 bp):
AAAAATAAAAATAAA
Found at i:26189372 original size:26 final size:25
Alignment explanation
Indices: 26189300--26189387 Score: 63
Period size: 26 Copynumber: 3.4 Consensus size: 25
26189290 AAACAAATAG
*
26189300 AAAAATAAACATGAAGACAAAAAGAAA
1 AAAAATAAAAAT-AA-ACAAAAAGAAA
* ** *
26189327 AAAATTAGCTAA-AAATAAAAATGAAA
1 AAAAATA-AAAATAAACAAAAA-GAAA
**
26189353 AAAAATAAAAATAAACAAAAA-AGG
1 AAAAATAAAAATAAACAAAAAGAAA
26189377 AAAAATAAAAA
1 AAAAATAAAAA
26189388 ATTTGACTTG
Statistics
Matches: 47, Mismatches: 11, Indels: 9
0.70 0.16 0.13
Matches are distributed among these distances:
24 12 0.26
25 8 0.17
26 20 0.43
27 6 0.13
28 1 0.02
ACGTcount: A:0.76, C:0.05, G:0.08, T:0.11
Consensus pattern (25 bp):
AAAAATAAAAATAAACAAAAAGAAA
Found at i:26203273 original size:18 final size:18
Alignment explanation
Indices: 26203229--26203357 Score: 134
Period size: 18 Copynumber: 7.2 Consensus size: 18
26203219 TTATCTACCG
*
26203229 TACATATAAGGGTTCGCT
1 TACATATAAGGGTTCGCA
** *
26203247 TACGCATAAGAGTTCGCA
1 TACATATAAGGGTTCGCA
26203265 TACATATAAGGGCTT-GCA
1 TACATATAAGGG-TTCGCA
* * *
26203283 TGCATATAAAGGTTCACA
1 TACATATAAGGGTTCGCA
*
26203301 TACATATAAAGGTTCGCA
1 TACATATAAGGGTTCGCA
* * *
26203319 TGCATATAAGGGTCCACA
1 TACATATAAGGGTTCGCA
*
26203337 TACATATAAGGGTTCACA
1 TACATATAAGGGTTCGCA
26203355 TAC
1 TAC
26203358 CAACAATTTG
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
17 2 0.02
18 87 0.96
19 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (18 bp):
TACATATAAGGGTTCGCA
Found at i:26204753 original size:24 final size:24
Alignment explanation
Indices: 26204723--26204770 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
26204713 TTAAGAATGA
26204723 AAATGAATCCACAAAGTTTGATTG
1 AAATGAATCCACAAAGTTTGATTG
*
26204747 AAATGAATCCACAAATTTTGATTG
1 AAATGAATCCACAAAGTTTGATTG
26204771 TCTCTACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (24 bp):
AAATGAATCCACAAAGTTTGATTG
Found at i:26212975 original size:39 final size:40
Alignment explanation
Indices: 26212910--26213023 Score: 178
Period size: 40 Copynumber: 2.9 Consensus size: 40
26212900 CCGGCCCGTT
26212910 TTTTAAAAAAATTTTAAAATTAAAAAAATTAAAAAAAGTA
1 TTTTAAAAAAATTTTAAAATTAAAAAAATTAAAAAAAGTA
*
26212950 TTTTAAAAAAAATTTAAAATTAAAAAAATTAAAAAAAGTA
1 TTTTAAAAAAATTTTAAAATTAAAAAAATTAAAAAAAGTA
** *
26212990 TTTTAAAAGTATTTTAAAGTT-AAAAAA-TAAAAAA
1 TTTTAAAAAAATTTTAAAATTAAAAAAATTAAAAAA
26213024 TAAAAATATT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
38 7 0.10
39 6 0.09
40 56 0.81
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (40 bp):
TTTTAAAAAAATTTTAAAATTAAAAAAATTAAAAAAAGTA
Found at i:26212997 original size:11 final size:11
Alignment explanation
Indices: 26212983--26213007 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
26212973 AAAAATTAAA
26212983 AAAAGTATTTT
1 AAAAGTATTTT
26212994 AAAAGTATTTT
1 AAAAGTATTTT
26213005 AAA
1 AAA
26213008 GTTAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:26214391 original size:24 final size:23
Alignment explanation
Indices: 26214364--26214417 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
26214354 TGCGCATTAT
* *
26214364 ATATATGCTAATTAAATTTATTTA
1 ATATATGCTAAATAAATTTA-TCA
**
26214388 ATATATATTAAATAAATTTATCA
1 ATATATGCTAAATAAATTTATCA
26214411 ATATATG
1 ATATATG
26214418 TATATATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (23 bp):
ATATATGCTAAATAAATTTATCA
Found at i:26219868 original size:28 final size:27
Alignment explanation
Indices: 26219819--26219872 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
26219809 ATTAAATAAA
* *
26219819 TTCAATAAACACTAATTTTATACTTAAG
1 TTCAATAAACACTAAATATATA-TTAAG
26219847 TTCATATAAACA-TAAATATATATTAA
1 TTCA-ATAAACACTAAATATATATTAA
26219873 CAGTGACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
28 12 0.52
29 7 0.30
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (27 bp):
TTCAATAAACACTAAATATATATTAAG
Found at i:26225270 original size:5 final size:5
Alignment explanation
Indices: 26225253--26225307 Score: 83
Period size: 5 Copynumber: 10.8 Consensus size: 5
26225243 TTTTTATGTT
* *
26225253 TTATA TATATA TTATA TTATA TTATA TTATA TTGTA TTATA TTATA TTGTA
1 TTATA T-TATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
26225304 TTAT
1 TTAT
26225308 NNNNNNNNNN
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 40 0.89
6 5 0.11
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:26232475 original size:10 final size:11
Alignment explanation
Indices: 26232439--26232474 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
26232429 TTTAAAATTA
*
26232439 AAAAGTATTTA
1 AAAAGTATTTT
26232450 AAAAGTATTTT
1 AAAAGTATTTT
26232461 AAAA-TATTTT
1 AAAAGTATTTT
26232471 AAAA
1 AAAA
26232475 TCAAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:26232659 original size:10 final size:10
Alignment explanation
Indices: 26232603--26232664 Score: 58
Period size: 10 Copynumber: 6.1 Consensus size: 10
26232593 AGGTAATTTT
26232603 TATTTTAAAA
1 TATTTTAAAA
26232613 T-TTTTAAAA
1 TATTTTAAAA
*
26232622 -A-TTAAAAA
1 TATTTTAAAA
26232630 GTATTTTAAAAAA
1 -TATTTT--AAAA
26232643 GTATTTTAAAA
1 -TATTTTAAAA
26232654 TATTTTAAAA
1 TATTTTAAAA
26232664 T
1 T
26232665 CAAAAATTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
8 6 0.14
9 8 0.18
10 13 0.30
11 6 0.14
13 11 0.25
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:26232710 original size:18 final size:18
Alignment explanation
Indices: 26232687--26232748 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
26232677 AAAGTATTTT
26232687 AAAAATATTTTAAAATT-
1 AAAAATATTTTAAAATTA
**
26232704 AAAAA-ATTAAAAAGTATGTA
1 AAAAATATTTTAAA--AT-TA
26232724 AAAAATATTTTAAAATTA
1 AAAAATATTTTAAAATTA
26232742 AAAAATA
1 AAAAATA
26232749 AATATATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
16 6 0.17
17 5 0.14
18 11 0.31
19 3 0.08
20 5 0.14
21 6 0.17
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAAATATTTTAAAATTA
Found at i:26232746 original size:38 final size:38
Alignment explanation
Indices: 26232609--26232747 Score: 158
Period size: 37 Copynumber: 3.6 Consensus size: 38
26232599 TTTTTATTTT
**
26232609 AAAAT-TTTTAAAAATTAAAAAGTATTTTAAAAAAGTAT-TTT
1 AAAATATTTT-AAAATTAAAAA--A--TTAAAAAAGTATGTAA
* * * *
26232650 AAAATATTTTAAAATCAAAAATTTAAAAAAGTATTTTA
1 AAAATATTTTAAAATTAAAAAATTAAAAAAGTATGTAA
26232688 AAAATATTTTAAAATTAAAAAATT-AAAAAGTATGTAA
1 AAAATATTTTAAAATTAAAAAATTAAAAAAGTATGTAA
26232725 AAAATATTTTAAAATTAAAAAAT
1 AAAATATTTTAAAATTAAAAAAT
26232748 AAATATATTT
Statistics
Matches: 89, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
37 46 0.52
38 24 0.27
41 15 0.17
42 4 0.04
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.37
Consensus pattern (38 bp):
AAAATATTTTAAAATTAAAAAATTAAAAAAGTATGTAA
Found at i:26239234 original size:22 final size:23
Alignment explanation
Indices: 26239209--26239259 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
26239199 TTCAAAACTA
*
26239209 AAAAAT-AACTCTTTCACCAATC
1 AAAAATCAACTATTTCACCAATC
* *
26239231 AAAAATCATCTATTTCATCAATC
1 AAAAATCAACTATTTCACCAATC
26239254 AAAAAT
1 AAAAAT
26239260 TATTTAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAAATCAACTATTTCACCAATC
Found at i:26250015 original size:195 final size:195
Alignment explanation
Indices: 26249683--26250072 Score: 771
Period size: 195 Copynumber: 2.0 Consensus size: 195
26249673 ATCGTCAGCC
26249683 TACTCATGTAAGTTTGCATTTGTGTTGCTGAACCGTGATTGCATGAGAGTTATCTAGGACTAGGA
1 TACTCATGTAAGTTTGCATTTGTGTTGCTGAACCGTGATTGCATGAGAGTTATCTAGGACTAGGA
26249748 GTTTGTAAATTATTTATCCATTTTCTGCGCTTGTTGAAATACTTCTTAACTTTGAGGTAACTGGT
66 GTTTGTAAATTATTTATCCATTTTCTGCGCTTGTTGAAATACTTCTTAACTTTGAGGTAACTGGT
*
26249813 CAAAGCTTATAGTTAAGCTTAAGCCTCTTTCTTAGTTCGGCTTGAATCTCCATTATTTCACTGTA
131 CAAAGCTTATAGTTAAGCTTAAGCCCCTTTCTTAGTTCGGCTTGAATCTCCATTATTTCACTGTA
26249878 TACTCATGTAAGTTTGCATTTGTGTTGCTGAACCGTGATTGCATGAGAGTTATCTAGGACTAGGA
1 TACTCATGTAAGTTTGCATTTGTGTTGCTGAACCGTGATTGCATGAGAGTTATCTAGGACTAGGA
26249943 GTTTGTAAATTATTTATCCATTTTCTGCGCTTGTTGAAATACTTCTTAACTTTGAGGTAACTGGT
66 GTTTGTAAATTATTTATCCATTTTCTGCGCTTGTTGAAATACTTCTTAACTTTGAGGTAACTGGT
26250008 CAAAGCTTATAGTTAAGCTTAAGCCCCTTTCTTAGTTCGGCTTGAATCTCCATTATTTCACTGTA
131 CAAAGCTTATAGTTAAGCTTAAGCCCCTTTCTTAGTTCGGCTTGAATCTCCATTATTTCACTGTA
26250073 CGCAAGTCTG
Statistics
Matches: 194, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
195 194 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (195 bp):
TACTCATGTAAGTTTGCATTTGTGTTGCTGAACCGTGATTGCATGAGAGTTATCTAGGACTAGGA
GTTTGTAAATTATTTATCCATTTTCTGCGCTTGTTGAAATACTTCTTAACTTTGAGGTAACTGGT
CAAAGCTTATAGTTAAGCTTAAGCCCCTTTCTTAGTTCGGCTTGAATCTCCATTATTTCACTGTA
Found at i:26251542 original size:14 final size:14
Alignment explanation
Indices: 26251516--26251542 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26251506 CTGACGTTAT
26251516 AATATGGTCGTTGC
1 AATATGGTCGTTGC
26251530 AATATGGTCGTTG
1 AATATGGTCGTTG
26251543 AATTTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.11, G:0.30, T:0.37
Consensus pattern (14 bp):
AATATGGTCGTTGC
Found at i:26256841 original size:28 final size:28
Alignment explanation
Indices: 26256796--26256888 Score: 98
Period size: 28 Copynumber: 3.4 Consensus size: 28
26256786 AATTTGACCA
* *
26256796 TTACAATATGGTTGTTGGAATCTGATTG
1 TTACAATATGGCTGTTGGAATCTGACTG
* * **
26256824 TTACAATATGGCTATTGGAATTTGACCA
1 TTACAATATGGCTGTTGGAATCTGACTG
* *
26256852 TTACAA-ATGGCCGTTGGAATCTAACTG
1 TTACAATATGGCTGTTGGAATCTGACTG
*
26256879 TTGCAATATG
1 TTACAATATG
26256889 ACCGTTGAAT
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
27 20 0.39
28 31 0.61
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.37
Consensus pattern (28 bp):
TTACAATATGGCTGTTGGAATCTGACTG
Found at i:26257770 original size:2 final size:2
Alignment explanation
Indices: 26257763--26257825 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
26257753 GCTTTGTTCC
26257763 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26257805 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
26257826 TAAGTGTATA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26259492 original size:31 final size:31
Alignment explanation
Indices: 26259457--26259515 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
26259447 ATGTGTATAG
26259457 TTGAATCACAATAAAAATTTCATATATACAT
1 TTGAATCACAATAAAAATTTCATATATACAT
* * *
26259488 TTGAATTACAATCAAAGTTTCATATATA
1 TTGAATCACAATAAAAATTTCATATATA
26259516 TTGTTAGAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (31 bp):
TTGAATCACAATAAAAATTTCATATATACAT
Found at i:26260300 original size:110 final size:112
Alignment explanation
Indices: 26260042--26260360 Score: 543
Period size: 110 Copynumber: 2.9 Consensus size: 112
26260032 GAAATTCGAG
* * *
26260042 AGGATATTTGGCTATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
*
26260107 GAATTTCCCAAATGCAAAACATTGCCTTATTTCGAAAATTTTTTAAA
66 GAATTTCCCAAACGCAAAACATTGCCTTATTTCGAAAATTTTTTAAA
* *
26260154 AGGATATTTAGCCATTTGGCTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTCTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
26260219 GAATTTCCCAAACGCAAAACATTGCCTTATTT-GAAAA-TTTTTAAA
66 GAATTTCCCAAACGCAAAACATTGCCTTATTTCGAAAATTTTTTAAA
*
26260264 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
* *
26260329 GAATTTCCCAAACGCGAAATATTGCCTTATTT
66 GAATTTCCCAAACGCAAAACATTGCCTTATTT
26260361 AGGAAAAGTT
Statistics
Matches: 196, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
110 100 0.51
111 5 0.03
112 91 0.46
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (112 bp):
AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
GAATTTCCCAAACGCAAAACATTGCCTTATTTCGAAAATTTTTTAAA
Found at i:26265891 original size:10 final size:9
Alignment explanation
Indices: 26265877--26265923 Score: 62
Period size: 8 Copynumber: 5.3 Consensus size: 9
26265867 CAGACTCAAA
26265877 AAAAAAATC
1 AAAAAAATC
26265886 AAAAAAAT-
1 AAAAAAATC
*
26265894 TAAAAAATC
1 AAAAAAATC
26265903 -AAAAAATC
1 AAAAAAATC
26265911 AAAAAAAATC
1 -AAAAAAATC
26265921 AAA
1 AAA
26265924 GTAAAAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
8 15 0.44
9 11 0.32
10 8 0.24
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAAAAATC
Found at i:26265931 original size:17 final size:15
Alignment explanation
Indices: 26265874--26265923 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 15
26265864 GTCCAGACTC
26265874 AAAAAAAAAATCAAA
1 AAAAAAAAAATCAAA
26265889 AAAATTAAAAAATCAAAA
1 AAAA--AAAAAATC-AAA
26265907 AATCAAAAAAAATCAAA
1 AA--AAAAAAAATCAAA
26265924 GTAAAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.13
17 11 0.37
18 13 0.43
20 2 0.07
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAAAAAAAATCAAA
Found at i:26265943 original size:14 final size:14
Alignment explanation
Indices: 26265926--26265959 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
26265916 AAATCAAAGT
*
26265926 AAAAAATAGGAGAA
1 AAAAAATAGAAGAA
26265940 AAAAAATAGAAGAA
1 AAAAAATAGAAGAA
26265954 AAAAAA
1 AAAAAA
26265960 GAAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (14 bp):
AAAAAATAGAAGAA
Found at i:26265956 original size:27 final size:25
Alignment explanation
Indices: 26265911--26265983 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 25
26265901 TCAAAAAATC
* * *
26265911 AAAAAAAATCAAAGTAAAAAATAGGAG
1 AAAAAAAATAAAAG-AAAAAA-AAGAA
*
26265938 AAAAAAAATAGAAGAAAAAAAAGAA
1 AAAAAAAATAAAAGAAAAAAAAGAA
26265963 AAATAAAAATAAAAAGAAAAA
1 AAA-AAAAAT-AAAAGAAAAA
26265984 GAAAAAGGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
25 6 0.15
26 12 0.31
27 21 0.54
ACGTcount: A:0.79, C:0.01, G:0.11, T:0.08
Consensus pattern (25 bp):
AAAAAAAATAAAAGAAAAAAAAGAA
Found at i:26265970 original size:6 final size:6
Alignment explanation
Indices: 26265936--26265990 Score: 60
Period size: 6 Copynumber: 9.3 Consensus size: 6
26265926 AAAAAATAGG
* * *
26265936 AGAAAA A-AAAT AGAAGAA A-AAAA AGAAAA ATAAAA ATAAAA AGAAAA
1 AGAAAA AGAAAA AGAA-AA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
26265983 AGAAAA AG
1 AGAAAA AG
26265991 GAGAGGTCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
5 7 0.17
6 33 0.79
7 2 0.05
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (6 bp):
AGAAAA
Found at i:26266820 original size:8 final size:8
Alignment explanation
Indices: 26266809--26266842 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
26266799 AATAAAAAAT
26266809 AAATGAAA
1 AAATGAAA
26266817 AAATGAAAA
1 AAATG-AAA
26266826 AAATGAAA
1 AAATGAAA
*
26266834 AAGTGAAA
1 AAATGAAA
26266842 A
1 A
26266843 TGGAGAGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (8 bp):
AAATGAAA
Found at i:26266831 original size:17 final size:18
Alignment explanation
Indices: 26266804--26266843 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
26266794 AAAATAATAA
26266804 AAAATAAATGAAAAAATG
1 AAAATAAATGAAAAAATG
*
26266822 AAAA-AAATGAAAAAGTG
1 AAAATAAATGAAAAAATG
26266839 AAAAT
1 AAAAT
26266844 GGAGAGGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.15
Consensus pattern (18 bp):
AAAATAAATGAAAAAATG
Found at i:26268175 original size:45 final size:45
Alignment explanation
Indices: 26268037--26268176 Score: 139
Period size: 45 Copynumber: 3.2 Consensus size: 45
26268027 ACAGATCAGT
* *
26268037 GAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTC
1 GAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTC
* * * * *
26268082 GAAGACACAA-A-CGTTGCCTCTCTCGGT-TGTGA-TG-G-AGCTGGTT
1 GAAGACAAAAGATC-TTGCCT-TC-CTGTAT-TGACAGCGAAGCAGGTC
26268125 GAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTC
1 GAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTC
26268170 GAAGACA
1 GAAGACA
26268177 CAAACCTTGC
Statistics
Matches: 73, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
42 6 0.08
43 20 0.27
44 16 0.22
45 26 0.36
46 5 0.07
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (45 bp):
GAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTC
Found at i:26268186 original size:44 final size:44
Alignment explanation
Indices: 26268050--26268188 Score: 142
Period size: 44 Copynumber: 3.2 Consensus size: 44
26268040 GACAACAGAT
*
26268050 CTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAAC
* * * * * * *
26268094 GTTGCCTCTCTCGGT-TGTGA-TG-G-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCT-TC-CTGTAT-TGACAGCGAAGCAGGTCGAAGACACAA-AC
26268138 CTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAAC
26268182 CTTGCCT
1 CTTGCCT
26268189 CCATCGATTG
Statistics
Matches: 72, Mismatches: 15, Indels: 16
0.70 0.15 0.16
Matches are distributed among these distances:
42 6 0.08
43 19 0.26
44 23 0.32
45 19 0.26
46 5 0.07
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (44 bp):
CTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAAC
Found at i:26268187 original size:88 final size:88
Alignment explanation
Indices: 26268036--26268303 Score: 339
Period size: 88 Copynumber: 3.1 Consensus size: 88
26268026 AACAGATCAG
*
26268036 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACGTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
* *
26268101 CTC-TCGGTTG-TGATGGAGCTGGT
66 C-CATCGGTTGCAG-TGGAGCTAGT
* *
26268124 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
26268189 CCATCGATTGCAGTGGAGCTAGT
66 CCATCGGTTGCAGTGGAGCTAGT
* * ** * * * *
26268212 TGAAGATAGCAGATCTTATCTTCCTGCGTTAACAACGAAGCAGATCGAA-A-ACAAAGCCTTGCC
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAA-CCTTGCC
26268275 TCCATCGGTTGCAGTGGAGC-AGAT
65 TCCATCGGTTGCAGTGGAGCTAG-T
26268299 TGAAG
1 TGAAG
26268304 CCAGAGATCT
Statistics
Matches: 159, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
86 7 0.04
87 34 0.21
88 117 0.74
89 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (88 bp):
TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
CCATCGGTTGCAGTGGAGCTAGT
Found at i:26268339 original size:44 final size:44
Alignment explanation
Indices: 26268286--26269488 Score: 375
Period size: 44 Copynumber: 27.3 Consensus size: 44
26268276 CCATCGGTTG
26268286 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
1 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
* * * ** * *
26268330 CAATGGAGCAGATCGAAGACA-CTATCCTATCTCTCTGA-AGTTA
1 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGA-TTA
** *** * *
26268373 CAGTGGAGTGGATT-AAAATAAAGGATCTTATCTCTCTGA-AGTTA
1 CAGTGGAGCAGATTGAAGCCAGA-GATCTTATCTCCCTGAGA-TTA
** * * * * * *
26268417 CAGCAGAGTAGATCGCA-TCAG-G-TCTTATCTCCTTGAGGTTA
1 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
* *** * *
26268458 CAGTGGAGTAGACCAAAG-AATTTCAGATCTTATCTCCCTGAGATTA
1 CAGTGGAGCAGATTGAAGCCA---GAGATCTTATCTCCCTGAGATTA
26268504 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
1 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
* * * ** * *
26268548 CAGCGGAGCAGATCGAAGACA-CTATCCTATCCCCCTGA-AGTTA
1 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGA-TTA
*** * * *
26268591 CAGTGGAGCAGATT-AAAATAAAGGATCTTATCTCTCTGAGGTTA
1 CAGTGGAGCAGATTGAAGCCAGA-GATCTTATCTCCCTGAGATTA
** * * * * *
26268635 CAGCAGAGTAGATCGTA-TCAG-G-TCTTATCTCCCTGAGGTTA
1 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
* *** * * * * * *
26268676 CAGTGGAGTAGACCAAAG-AATTTCACATTTTATCTCCCTAAGGTTA
1 CAGTGGAGCAGATTGAAGCCA---GAGATCTTATCTCCCTGAGATTA
* *
26268722 CAGTGGAGCAGATTGAAGCCAGAGATCTTATTTCCTTGAGATTA
1 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
* * * ** *
26268766 CAGCGGAGCAGATCGAAGACA-CTATCCTATCTCCCTGA-AGTTA
1 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGA-TTA
** *** * *
26268809 CAGTGGAGTGGATT-AAAATAAAGGATCTTATCTCTCTGA-AGTTA
1 CAGTGGAGCAGATTGAAGCCAGA-GATCTTATCTCCCTGAGA-TTA
*** * * * ** *
26268853 CAGCATAGTAGATCGCA-TTAG-G-TCTTATCTCCCTGAGGTTA
1 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
* ** *
26268894 CAGTGGAGTAGACCGAAGAATTTCA-A-ATCTTATCTCCCTGAGATTA
1 CAGTGGAGCAGATTGAAG----CCAGAGATCTTATCTCCCTGAGATTA
* * ** *
26268940 TAGCGGAGCAGATTGAAGTTAGTA-ATCCTATCTCCCTGAGATTA
1 CAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCCCTGAGATTA
* *** * * *
26268984 CAGTGGAGCGGATTGAAATAAAAGATTTTATCTCTCTGA-AGTTACA
1 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGA-TT--A
* *
26269030 GCAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTA
1 -C--AGT-G---G-AGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
* * *
26269082 CAGCGGAGCAGATTGAAGCTAGTA-ATCCTATCTCCCTGAGA-TA
1 CAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCCCTGAGATTA
* * *
26269125 CAGTGGAGC-GAATTAAAACCA-AGGATCTTATCTCTCTGA-AGTTA
1 CAGTGGAGCAG-ATTGAAGCCAGA-GATCTTATCTCCCTGAGA-TTA
** * * * *
26269169 CAGTAAAGTAGATTGCA-CCAG-G-TCTTATTTCCCTAAGATTA
1 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
* ** * *
26269210 CAGTGGAACAGACCGAAG-AATTTCAGATCTTATCTCCCTGAGATTA
1 CAGTGGAGCAGATTGAAGCCA---GAGATCTTATCTCCCTGAGATTA
* ** * *
26269256 CAGCGGAGCAGATTGAAGCTGGTA-ATCCTATCTCCCTAAGATTA
1 CAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCCCTGAGATTA
* * * * *
26269300 CACTGGAGCGGATTAAAACCA-AGGATCTTATCTCTCTGA-AGTTA
1 CAGTGGAGCAGATTGAAGCCAGA-GATCTTATCTCCCTGAGA-TTA
* * * * * *
26269344 CAGTAGAGTAGATCGCA-CCAG-G-TCTTGTTTCCCTGAGATTA
1 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
* * ** ***** * *
26269385 TAGTGGAACAGACCGAAAATTTTCAGATCTTATCTCCCTGAGACTG
1 CAGTGGAGCAGATTG--AAGCCAGAGATCTTATCTCCCTGAGATTA
* * ** *
26269431 CAGCGGAGCATATTGAAGCTGGTA-ATCTTATCTCCCTAAGATTA
1 CAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCCCTGAGATTA
*
26269475 CAGTGGAGCGGATT
1 CAGTGGAGCAGATT
26269489 AAAATAAAGG
Statistics
Matches: 842, Mismatches: 238, Indels: 158
0.68 0.19 0.13
Matches are distributed among these distances:
41 137 0.16
42 27 0.03
43 119 0.14
44 357 0.42
45 11 0.01
46 151 0.18
47 3 0.00
48 1 0.00
49 5 0.01
50 1 0.00
51 1 0.00
52 1 0.00
53 1 0.00
54 26 0.03
55 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
Found at i:26268377 original size:87 final size:87
Alignment explanation
Indices: 26268286--26269522 Score: 348
Period size: 87 Copynumber: 14.0 Consensus size: 87
26268276 CCATCGGTTG
* * *
26268286 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAATGGAGCAGATCGAAGACA
1 CAGTGGAGCAGATCGAAGACAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACA
* * *
26268351 CTATCCTATCTCTCTGAAGTTA
66 CGATCTTATCTCCCTGAAGTTA
** * * * * * ** * * *
26268373 CAGTGGAGTGGAT-TAAAATAAAGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-T
1 CAGTGGAGCAGATCGAAGACAGA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGA
* * *
26268435 CA-GGTCTTATCTCCTTGAGGTTA
64 CACGATCTTATCTCCCTGAAGTTA
* * * * *
26268458 CAGTGGAGTAGACCAAAGA-ATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG
1 CAGTGGAGCAGATCGAAGACA---GAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAG
* *
26268522 CCAGAGATCTTATCTCCCTG-AGATTA
63 ACA-CGATCTTATCTCCCTGAAG-TTA
* ** * * ** *
26268548 CAGCGGAGCAGATCGAAGACA-CTATCCTATCCCCCTGA-AGTTACAGTGGAGCAGATTAAAATA
1 CAGTGGAGCAGATCGAAGACAGAGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGA-TCGAAGA
* * * *
26268611 AAGGATCTTATCTCTCTGAGGTTA
64 CACGATCTTATCTCCCTGAAGTTA
** * * * * * * *
26268635 CAGCAGAGTAGATCGTA-TCAG-G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAAT
1 CAGTGGAGCAGATCGAAGACAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAG-A-
*
26268697 TTCAC-ATTTTATCTCCCT-AAGGTTA
64 --CACGATCTTATCTCCCTGAA-GTTA
* * * * *
26268722 CAGTGGAGCAGATTGAAGCCAGAGATCTTATTTCCTTGAGATTACAGCGGAGCAGATCGAAGACA
1 CAGTGGAGCAGATCGAAGACAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACA
* *
26268787 CTATCCTATCTCCCTGAAGTTA
66 CGATCTTATCTCCCTGAAGTTA
** * * * * * *** * * *
26268809 CAGTGGAGTGGAT-TAAAATAAAGGATCTTATCTCTCTGA-AGTTACAGCATAGTAGATCGCA-T
1 CAGTGGAGCAGATCGAAGACAGA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGA
* * *
26268871 TA-GGTCTTATCTCCCTGAGGTTA
64 CACGATCTTATCTCCCTGAAGTTA
* * * * *
26268894 CAGTGGAGTAGACCGAAGAATTTCA-A-ATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAA
1 CAGTGGAGCAGATCGAAG-A---CAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAA
** *
26268957 GTTA-GTAATCCTATCTCCCTG-AGATTA
62 GACACG--ATCTTATCTCCCTGAAG-TTA
* * * * * * ** *
26268984 CAGTGGAGCGGATTGAA-ATAAAAGATTTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCATC
1 CAGTGGAGCAGATCGAAGA-CAGAGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCG-A--
*
26269047 AGATTGAAGCCAGAAATCTTATCTCCCTG-AGATTA
61 AGA---CA--C-G--ATCTTATCTCCCTGAAG-TTA
* * * * *
26269082 CAGCGGAGCAGATTGAAG-CTAGTA-ATCCTATCTCCCTGAGA-TACAGTGGAGC-GAAT-TAAA
1 CAGTGGAGCAGATCGAAGAC-AG-AGATCTTATCTCCCTGAGATTACAGTGGAGCAG-ATCGAAG
* *
26269142 ACCAAGGATCTTATCTCTCTGAAGTTA
63 A-C-ACGATCTTATCTCCCTGAAGTTA
** * * * * * * * *
26269169 CAGTAAAGTAGATTGCA-CCAG-G-TCTTATTTCCCTAAGATTACAGTGGAACAGACCGAAGA-A
1 CAGTGGAGCAGATCGAAGACAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACA
26269230 TTTCAGATCTTATCTCCCTG-AGATTA
66 ---C-GATCTTATCTCCCTGAAG-TTA
* * * * * * * * *
26269256 CAGCGGAGCAGATTGAAG-CTG-GTAATCCTATCTCCCTAAGATTACACTGGAGCGGAT-TAAAA
1 CAGTGGAGCAGATCGAAGACAGAG--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGA
* *
26269318 CCAAGGATCTTATCTCTCTGAAGTTA
64 -C-ACGATCTTATCTCCCTGAAGTTA
* * * * * * * * * *
26269344 CAGTAGAGTAGATCGCA-CCAG-G-TCTTGTTTCCCTGAGATTATAGTGGAACAGACCGAAAATT
1 CAGTGGAGCAGATCGAAGACAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGA--
* *
26269406 TTCA-GATCTTATCTCCCTG-AGACTG
64 --CACGATCTTATCTCCCTGAAG-TTA
* * * * * * ** *
26269431 CAGCGGAGCATATTGAAG-CTG-GTAATCTTATCTCCCTAAGATTACAGTGGAGCGGATTAAAAT
1 CAGTGGAGCAGATCGAAGACAGAG--ATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TCGAAG
* * *
26269494 AAAGGATCTTATCTCTCTGAAGTTA
63 ACACGATCTTATCTCCCTGAAGTTA
26269519 CAGT
1 CAGT
26269523 AAAGTAGATC
Statistics
Matches: 839, Mismatches: 221, Indels: 179
0.68 0.18 0.14
Matches are distributed among these distances:
83 1 0.00
84 16 0.02
85 116 0.14
86 41 0.05
87 334 0.40
88 101 0.12
89 15 0.02
90 141 0.17
91 6 0.01
92 2 0.00
93 2 0.00
94 1 0.00
95 1 0.00
96 1 0.00
97 10 0.01
98 49 0.06
99 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (87 bp):
CAGTGGAGCAGATCGAAGACAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACA
CGATCTTATCTCCCTGAAGTTA
Found at i:26268545 original size:218 final size:218
Alignment explanation
Indices: 26268286--26268992 Score: 1173
Period size: 218 Copynumber: 3.2 Consensus size: 218
26268276 CCATCGGTTG
**
26268286 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAATGGAGCAGATCGAAGACA
1 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA
*
26268351 CTATCCTATCTCTCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
66 CTATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
*
26268416 ACAGCAGAGTAGATCGCATCAGGTCTTATCTCCTTGAGGTTACAGTGGAGTAGACCAAAGAATTT
131 ACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTT
*
26268481 CAGATCTTATCTCCCTGAGATTA
196 CAAATCTTATCTCCCTGAGATTA
26268504 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA
1 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA
* ** *
26268569 CTATCCTATCCCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAGGTT
66 CTATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
*
26268634 ACAGCAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTT
131 ACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTT
* * * *
26268699 CACATTTTATCTCCCTAAGGTTA
196 CAAATCTTATCTCCCTGAGATTA
* *
26268722 CAGTGGAGCAGATTGAAGCCAGAGATCTTATTTCCTTGAGATTACAGCGGAGCAGATCGAAGACA
1 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA
26268787 CTATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
66 CTATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
* * *
26268852 ACAGCATAGTAGATCGCATTAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTT
131 ACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTT
26268917 CAAATCTTATCTCCCTGAGATTA
196 CAAATCTTATCTCCCTGAGATTA
* * ** * *
26268940 TAGCGGAGCAGATTGAAGTTAGTA-ATCCTATCTCCCTGAGATTACAGTGGAGC
1 CAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCCCTGAGATTACAGCGGAGC
26268993 GGATTGAAAT
Statistics
Matches: 453, Mismatches: 35, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
218 452 1.00
219 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (218 bp):
CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA
CTATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
ACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTT
CAAATCTTATCTCCCTGAGATTA
Found at i:26269129 original size:316 final size:316
Alignment explanation
Indices: 26268730--26269360 Score: 942
Period size: 316 Copynumber: 2.0 Consensus size: 316
26268720 TACAGTGGAG
* * *
26268730 CAGATTGAAGCCAGAGATCTTATTTCCTTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTA
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTA
* * * * *
26268795 TCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCATA
66 TCTCCCTGAAGATACAGTGGAGCGAATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGCAAA
** * * **
26268860 GTAGATCGCATTAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAAATCTT
131 GTAGATCGCACCAGGTCTTATCTCCCTAAGATTACAGTGGAACAGACCGAAGAATTTCAAATCTT
* * * *
26268925 ATCTCCCTGAGATTATAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGG
196 ATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACACTGG
* * *
26268990 AGCGGATTGAAATAAAAGATTTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
261 AGCGGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
* *
26269046 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTAGTAATCC
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC-ACT-ATCC
* *
26269110 TATCTCCCTG-AGATACAGTGGAGCGAATTAAAACCAAGGATCTTATCTCTCTGAAGTTACAGTA
64 TATCTCCCTGAAGATACAGTGGAGCGAATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGCA
* * *
26269174 AAGTAGATTGCACCAGGTCTTATTTCCCTAAGATTACAGTGGAACAGACCGAAGAATTTCAGATC
129 AAGTAGATCGCACCAGGTCTTATCTCCCTAAGATTACAGTGGAACAGACCGAAGAATTTCAAATC
*
26269239 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCTCCCTAAGATTACACT
194 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACACT
* * *
26269304 GGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
259 GGAGCGGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA
26269361 CCAGGTCTTG
Statistics
Matches: 281, Mismatches: 32, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
315 1 0.00
316 266 0.95
317 14 0.05
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (316 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTA
TCTCCCTGAAGATACAGTGGAGCGAATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGCAAA
GTAGATCGCACCAGGTCTTATCTCCCTAAGATTACAGTGGAACAGACCGAAGAATTTCAAATCTT
ATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACACTGG
AGCGGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
Found at i:26269364 original size:175 final size:175
Alignment explanation
Indices: 26269062--26269533 Score: 786
Period size: 175 Copynumber: 2.7 Consensus size: 175
26269052 GAAGCCAGAA
* *
26269062 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA-TAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCTCCCTAAGATTAC
* *
26269126 AGTGGAGCGAATTAAAACCAAGGATCTTATCTCTCTGAAGTTACAGTAAAGTAGATTGCACCAGG
66 AGTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGTTACAGTAAAGTAGATCGCACCAGG
26269191 TCTTATTTCCCTAAGATTACAGTGGAACAGACCGAAGAA-TTTCAG
131 TCTTATTTCCCTAAGATTACAGTGGAACAGACCGAA-AATTTTCAG
26269236 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCTCCCTAAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCTCCCTAAGATTAC
* *
26269301 ACTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGG
66 AGTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGTTACAGTAAAGTAGATCGCACCAGG
* * *
26269366 TCTTGTTTCCCTGAGATTATAGTGGAACAGACCGAAAATTTTCAG
131 TCTTATTTCCCTAAGATTACAGTGGAACAGACCGAAAATTTTCAG
* * * *
26269411 ATCTTATCTCCCTGAGACTGCAGCGGAGCATATTGAAGCTGGTAATCTTATCTCCCTAAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCTCCCTAAGATTAC
**
26269476 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAAAGTAGATCG
66 AGTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGTTACAGTAAAGTAGATCG
26269534 TATTAAATCT
Statistics
Matches: 279, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
174 61 0.22
175 218 0.78
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (175 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCTCCCTAAGATTAC
AGTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGTTACAGTAAAGTAGATCGCACCAGG
TCTTATTTCCCTAAGATTACAGTGGAACAGACCGAAAATTTTCAG
Found at i:26269704 original size:95 final size:95
Alignment explanation
Indices: 26269584--26269762 Score: 306
Period size: 95 Copynumber: 1.9 Consensus size: 95
26269574 AAGATGGCGA
*
26269584 ATTTTACCTCCTTGTGACTACAGTGGAGTACATTGAAGCC-GATAATTCTATCTCCCTGGTTGGC
1 ATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAG-TAATTCTATCTCCCTGGTTGGC
*
26269648 AGTGGAATAGATTGCAGATTGAAAATGTCAG
65 AGTGGAATAGATTGAAGATTGAAAATGTCAG
* *
26269679 ATTTTACCTCCCTGTGATTATAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTTGGCA
1 ATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTTGGCA
26269744 GTGGAATAGATTGAAGATT
66 GTGGAATAGATTGAAGATT
26269763 CTAGATTCTG
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
95 78 0.99
96 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (95 bp):
ATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTTGGCA
GTGGAATAGATTGAAGATTGAAAATGTCAG
Found at i:26271688 original size:2 final size:2
Alignment explanation
Indices: 26271681--26271715 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
26271671 AATGTACATT
26271681 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26271716 TAGCAAAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26271749 original size:25 final size:26
Alignment explanation
Indices: 26271698--26271759 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
26271688 ATATATATAT
*
26271698 ATATATATATATATATATTAGCAAAAC
1 ATATATATATATATATAGTAG-AAAAC
* *
26271725 ATATGTATATATATATGGTAG-AAAC
1 ATATATATATATATATAGTAGAAAAC
*
26271750 GTATATATAT
1 ATATATATAT
26271760 TTAATGTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 12 0.40
27 18 0.60
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.39
Consensus pattern (26 bp):
ATATATATATATATATAGTAGAAAAC
Found at i:26273770 original size:43 final size:42
Alignment explanation
Indices: 26273721--26273858 Score: 118
Period size: 44 Copynumber: 3.2 Consensus size: 42
26273711 CAAGATCTGT
26273721 TGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTG
1 TGTCTTCAACCAGCTCCACTACAA-CGAGAGAGGCAAGGTTTG
* * * * * * ** *
26273764 TGTCTTCGA-TATGCTTCGCTGTCAAGGCAG-GAAGGCAAAATCTG
1 TGTCTTCAACCA-GCTCCACT-ACAACG-AGAG-AGGCAAGGTTTG
26273808 TTGTCTTCAACCAGCTCCACTACAATCGAGAGAGGCAAGGTTTG
1 -TGTCTTCAACCAGCTCCACTACAA-CGAGAGAGGCAAGGTTTG
26273852 TGTCTTC
1 TGTCTTC
26273859 GATCTGCTTC
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
42 1 0.01
43 23 0.33
44 28 0.41
45 16 0.23
46 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (42 bp):
TGTCTTCAACCAGCTCCACTACAACGAGAGAGGCAAGGTTTG
Done.