Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 11 of 145
Found at i:3740108 original size:19 final size:20
Alignment explanation
Indices: 3740084--3740131 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
3740074 AAACATAAAC
*
3740084 TTTTGAATTTTTATAAA-TA
1 TTTTGAATTTTTAAAAATTA
*
3740103 TTTTGAA-ATTTAAAAATTA
1 TTTTGAATTTTTAAAAATTA
3740122 TTTTGAATTT
1 TTTTGAATTT
3740132 CTTTTTGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 7 0.29
19 16 0.67
20 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTGAATTTTTAAAAATTA
Found at i:3749780 original size:12 final size:12
Alignment explanation
Indices: 3749763--3749787 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3749753 CGAGAATAAT
3749763 TTTTTAATATTA
1 TTTTTAATATTA
3749775 TTTTTAATATTA
1 TTTTTAATATTA
3749787 T
1 T
3749788 AAAAATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTAATATTA
Found at i:3754611 original size:17 final size:17
Alignment explanation
Indices: 3754585--3754636 Score: 95
Period size: 17 Copynumber: 3.1 Consensus size: 17
3754575 ACGGAGTTTA
*
3754585 TGATTATGTTTTTATTT
1 TGATTTTGTTTTTATTT
3754602 TGATTTTGTTTTTATTT
1 TGATTTTGTTTTTATTT
3754619 TGATTTTGTTTTTATTT
1 TGATTTTGTTTTTATTT
3754636 T
1 T
3754637 CTTTATGAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.13, C:0.00, G:0.12, T:0.75
Consensus pattern (17 bp):
TGATTTTGTTTTTATTT
Found at i:3754613 original size:11 final size:11
Alignment explanation
Indices: 3754585--3754636 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
3754575 ACGGAGTTTA
*
3754585 TGATTATGTTT
1 TGATTTTGTTT
*
3754596 TTATTTTGATTT
1 TGATTTTG-TTT
* *
3754608 TGTTTTTATTT
1 TGATTTTGTTT
3754619 TGATTTTGTTT
1 TGATTTTGTTT
*
3754630 TTATTTT
1 TGATTTT
3754637 CTTTATGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
11 24 0.75
12 8 0.25
ACGTcount: A:0.13, C:0.00, G:0.12, T:0.75
Consensus pattern (11 bp):
TGATTTTGTTT
Found at i:3755766 original size:20 final size:21
Alignment explanation
Indices: 3755720--3755770 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
3755710 CCTTATATAT
3755720 TTTTTATAATATTTTTAATGA
1 TTTTTATAATATTTTTAATGA
* * *
3755741 TTTTTATAGTATTTTT-TTTA
1 TTTTTATAATATTTTTAATGA
3755761 TTTTTATAAT
1 TTTTTATAAT
3755771 TTTGGAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (21 bp):
TTTTTATAATATTTTTAATGA
Found at i:3758882 original size:31 final size:31
Alignment explanation
Indices: 3758847--3758908 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
3758837 TGATCAATCA
3758847 TATGTTTTGTGTCATTAAGTTTTTCAAGTCT
1 TATGTTTTGTGTCATTAAGTTTTTCAAGTCT
*
3758878 TATGTTTTGTGTCATTAAGTTTTTCGAGTCT
1 TATGTTTTGTGTCATTAAGTTTTTCAAGTCT
3758909 ATTATGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.10, G:0.18, T:0.55
Consensus pattern (31 bp):
TATGTTTTGTGTCATTAAGTTTTTCAAGTCT
Found at i:3758899 original size:15 final size:15
Alignment explanation
Indices: 3758850--3758900 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
3758840 TCAATCATAT
3758850 GTTTTGTGTCATTAA
1 GTTTTGTGTCATTAA
*
3758865 GTTTT-TCAAGTC-TTAT
1 GTTTTGT---GTCATTAA
3758881 GTTTTGTGTCATTAA
1 GTTTTGTGTCATTAA
3758896 GTTTT
1 GTTTT
3758901 TCGAGTCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 4 0.14
15 13 0.45
16 8 0.28
17 4 0.14
ACGTcount: A:0.18, C:0.08, G:0.18, T:0.57
Consensus pattern (15 bp):
GTTTTGTGTCATTAA
Found at i:3758901 original size:16 final size:16
Alignment explanation
Indices: 3758851--3758901 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
3758841 CAATCATATG
3758851 TTTTGTGTCATTAAGT
1 TTTTGTGTCATTAAGT
** *
3758867 TTTTCAAGTC-TTATG-
1 TTTT-GTGTCATTAAGT
3758882 TTTTGTGTCATTAAGT
1 TTTTGTGTCATTAAGT
3758898 TTTT
1 TTTT
3758902 CGAGTCTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
14 3 0.12
15 8 0.31
16 12 0.46
17 3 0.12
ACGTcount: A:0.18, C:0.08, G:0.16, T:0.59
Consensus pattern (16 bp):
TTTTGTGTCATTAAGT
Found at i:3763165 original size:22 final size:20
Alignment explanation
Indices: 3763140--3763180 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
3763130 TCTGAAAAGA
3763140 CGAAATTATATCATTGTATTCT
1 CGAAATT-TATCATT-TATTCT
*
3763162 CGAAATTTATTATTTATTC
1 CGAAATTTATCATTTATTC
3763181 CAATAATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (20 bp):
CGAAATTTATCATTTATTCT
Found at i:3764318 original size:19 final size:19
Alignment explanation
Indices: 3764281--3764332 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
3764271 AATTAGTTGG
*
3764281 ATAAATTTTAAAATT-ATAT
1 ATAAATTTT-AATTTAATAT
3764300 ATAAATTTTAATTTAATAT
1 ATAAATTTTAATTTAATAT
* *
3764319 GT-AATTTAAATTTA
1 ATAAATTTTAATTTA
3764333 TGATTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
ATAAATTTTAATTTAATAT
Found at i:3764880 original size:17 final size:17
Alignment explanation
Indices: 3764837--3764881 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
3764827 AACCATATCT
3764837 TTTC-AAATTAATGGTA
1 TTTCTAAATTAATGGTA
*
3764853 TTT-TTAATTAAT-GTA
1 TTTCTAAATTAATGGTA
3764868 GTTTCTAAATTAAT
1 -TTTCTAAATTAAT
3764882 ACTTTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 3 0.12
16 13 0.54
17 8 0.33
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (17 bp):
TTTCTAAATTAATGGTA
Found at i:3769696 original size:113 final size:113
Alignment explanation
Indices: 3769596--3770050 Score: 499
Period size: 113 Copynumber: 4.1 Consensus size: 113
3769586 TATTTGTAAG
* * * * * * *
3769596 CGCCGTAAAAAATGCTAACCAAAACGCATCGTTTGGTCTTGAGGTATGTTAGTATTTGTGGCACT
1 CGCCGCAAAAAATGTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* * *
3769661 TA-TGAAAAACGCCGCTATAGCATATTATCAGCGGCGTTTTGCACGAAA
66 TACTGAAAAACGCCGCTATAGCATAGTATTAGCGGCGTTTTG-TCGAAA
* * * *
3769709 CGCCTCAAAAAATGTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATTAGAACTGGTGGCGCT
1 CGCCGCAAAAAATGTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* * * * *
3769774 AACT-AAAAATGCCGTTATAGGATAGTATTAGCGGCG-TTT-T-AAAA
66 TACTGAAAAACGCCGCTATAGCATAGTATTAGCGGCGTTTTGTCGAAA
* *
3769818 CGCCGCAAAATATGTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAATGGCGCT
1 CGCCGCAAAAAATGTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
** * * *
3769883 T-CCAAAAAACGCCACTATAGGATAGTATTAGCGGCGTTTTGTACGAAT
66 TACTGAAAAACGCCGCTATAGCATAGTATTAGCGGCGTTTTGT-CGAAA
* * * * * *
3769931 CGCCGCAACATATTTTAACCAAAACGCAGCGTTTGGTCTTTAGGCATATTAGAGTTAGTGGCGCT
1 CGCCGCAAAAAATGTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
** * * * *
3769996 TAGGGACAAATGCCGCTATAGCATAGTATTAGCGGCGTTTTATAGAAAA
66 TACTGAAAAACGCCGCTATAGCATAGTATTAGCGGCGTTTTGTCG-AAA
3770045 CGCCGC
1 CGCCGC
3770051 TAAAGCAAAG
Statistics
Matches: 289, Mismatches: 45, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
108 1 0.00
109 91 0.31
110 3 0.01
111 1 0.00
112 3 0.01
113 148 0.51
114 42 0.15
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (113 bp):
CGCCGCAAAAAATGTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
TACTGAAAAACGCCGCTATAGCATAGTATTAGCGGCGTTTTGTCGAAA
Found at i:3769893 original size:222 final size:223
Alignment explanation
Indices: 3769596--3770037 Score: 571
Period size: 222 Copynumber: 2.0 Consensus size: 223
3769586 TATTTGTAAG
* * * * **
3769596 CGCCGTAAAAAATGCTAACCAAAACGCATCGTTTGGTCTTGAGGTATGTTAGTATTTGTGGCACT
1 CGCCGCAAAAAATGCTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAATGGCACT
** * * *
3769661 TATGAAAAACGCCGCTATAGCATATTATCAGCGGCGTTTTGCACGAAACGCCTCAAAAAATGTTA
66 TACAAAAAACGCCACTATAGCATAGTATCAGCGGCGTTTTGCACGAAACGCCGCAAAAAATGTTA
* * * * *
3769726 ACCAAAACGCATCGTTTGGTCTTGAGGTATATTAGAACTGGTGGCGC-TAACTAAAAATGCCGTT
131 ACCAAAACGCAGCGTTTGGTCTTGAGGCATATTAGAACTAGTGGCGCTTAACGAAAAATGCCGCT
*
3769790 ATAGGATAGTATTAGCGGCGTTTTAAAA
196 ATAGCATAGTATTAGCGGCGTTTTAAAA
* * *
3769818 CGCCGCAAAATATGTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAATGGCGCT
1 CGCCGCAAAAAATGCTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAATGGCACT
* * * * * * * *
3769883 TCCAAAAAACGCCACTATAGGATAGTATTAGCGGCGTTTTGTACGAATCGCCGCAACATATTTTA
66 TACAAAAAACGCCACTATAGCATAGTATCAGCGGCGTTTTGCACGAAACGCCGCAAAAAATGTTA
* ** ** *
3769948 ACCAAAACGCAGCGTTTGGTCTTTAGGCATATTAGAGTTAGTGGCGCTTAGGGACAAATGCCGCT
131 ACCAAAACGCAGCGTTTGGTCTTGAGGCATATTAGAACTAGTGGCGCTTAACGAAAAATGCCGCT
3770013 ATAGCATAGTATTAGCGGCGTTTTA
196 ATAGCATAGTATTAGCGGCGTTTTA
3770038 TAGAAAACGC
Statistics
Matches: 185, Mismatches: 34, Indels: 1
0.84 0.15 0.00
Matches are distributed among these distances:
222 149 0.81
223 36 0.19
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (223 bp):
CGCCGCAAAAAATGCTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAATGGCACT
TACAAAAAACGCCACTATAGCATAGTATCAGCGGCGTTTTGCACGAAACGCCGCAAAAAATGTTA
ACCAAAACGCAGCGTTTGGTCTTGAGGCATATTAGAACTAGTGGCGCTTAACGAAAAATGCCGCT
ATAGCATAGTATTAGCGGCGTTTTAAAA
Found at i:3770085 original size:39 final size:39
Alignment explanation
Indices: 3770007--3770093 Score: 99
Period size: 39 Copynumber: 2.3 Consensus size: 39
3769997 AGGGACAAAT
* * * *
3770007 GCCGCTATAGCATAGTATTAGCGGCGTTTTATAGAAAAC
1 GCCGCTAAAGCAAAGTATTAGCAGCGTTGTATAGAAAAC
3770046 GCCGCTAAAGCAAAGTATTAGCAGCGCTGTGTA-AG-AAAC
1 GCCGCTAAAGCAAAGTATTAGCAGCG-T-TGTATAGAAAAC
3770085 GCCGC-AAAG
1 GCCGCTAAAG
3770094 TATCTTAACC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
38 4 0.10
39 32 0.76
40 3 0.07
41 3 0.07
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (39 bp):
GCCGCTAAAGCAAAGTATTAGCAGCGTTGTATAGAAAAC
Found at i:3770148 original size:75 final size:75
Alignment explanation
Indices: 3770062--3770200 Score: 190
Period size: 75 Copynumber: 1.9 Consensus size: 75
3770052 AAAGCAAAGT
* * *
3770062 ATTAGCAGCGCT-GTGTAAGAAACGCCGCAAAGTATCTTAACCAAAACGCAGCGTTTGGTCTTGA
1 ATTAGCAGCGCTCATGTAA-AAACGCCGCAAAATATCTTAACCAAAACGCAGCATTTGGTCTTGA
3770126 TGTCTATTAGA
65 TGTCTATTAGA
* * * * *
3770137 ATTAGTAGCGCTCATGTAAAAGCTCCGCAAAATATCTTAACTAAAACGCATCATTTGGTCTTGA
1 ATTAGCAGCGCTCATGTAAAAACGCCGCAAAATATCTTAACCAAAACGCAGCATTTGGTCTTGA
3770201 GGTATAGAGC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
75 50 0.91
76 5 0.09
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (75 bp):
ATTAGCAGCGCTCATGTAAAAACGCCGCAAAATATCTTAACCAAAACGCAGCATTTGGTCTTGAT
GTCTATTAGA
Found at i:3770497 original size:22 final size:21
Alignment explanation
Indices: 3770470--3770522 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 21
3770460 TAGGTTTACT
3770470 GTTTTGGGTTTAAGGTTTGGG
1 GTTTTGGGTTTAAGGTTTGGG
3770491 AGTTTTGGGTTTAAGGTTTGGG
1 -GTTTTGGGTTTAAGGTTTGGG
3770513 G-TTTGGGTTT
1 GTTTTGGGTTT
3770523 GGGGTTTAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 9 0.29
21 1 0.03
22 21 0.68
ACGTcount: A:0.09, C:0.00, G:0.42, T:0.49
Consensus pattern (21 bp):
GTTTTGGGTTTAAGGTTTGGG
Found at i:3772357 original size:89 final size:88
Alignment explanation
Indices: 3772206--3772408 Score: 336
Period size: 89 Copynumber: 2.3 Consensus size: 88
3772196 TTTTTAAAAA
*
3772206 CACATTACTTGGTATTCTGGTTTTGCCACACACTTAAGCAAATGACTTTGTGGATTACTTGGTAT
1 CACATTACTTGGTATTCT-GTTTTGGCACACACTTAAGCAAATGACTTTGTGGATTACTTGGTAT
*
3772271 TCTGTTTTGGTAGGATTGTTTTGG
65 TCTATTTTGGTAGGATTGTTTTGG
* *
3772295 CACATTACTTGGTAATT-TGTTTTGGCACAACAGTTAAGCAAATGGCTTTGTGGATTACTTGGTA
1 CACATTACTTGGT-ATTCTGTTTTGGCAC-ACACTTAAGCAAATGACTTTGTGGATTACTTGGTA
3772359 TTCTATTTTGGTAGGATTGTTTTGG
64 TTCTATTTTGGTAGGATTGTTTTGG
3772384 CACATTACTTGGTATTCTGTTTTGG
1 CACATTACTTGGTATTCTGTTTTGG
3772409 TCGGGTTCGA
Statistics
Matches: 107, Mismatches: 4, Indels: 6
0.91 0.03 0.05
Matches are distributed among these distances:
88 12 0.11
89 92 0.86
90 3 0.03
ACGTcount: A:0.21, C:0.13, G:0.23, T:0.43
Consensus pattern (88 bp):
CACATTACTTGGTATTCTGTTTTGGCACACACTTAAGCAAATGACTTTGTGGATTACTTGGTATT
CTATTTTGGTAGGATTGTTTTGG
Found at i:3772630 original size:21 final size:20
Alignment explanation
Indices: 3772606--3772662 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
3772596 GCAGAGGCCG
*
3772606 CAGCGAGGGAAGCAATGGCTA
1 CAGCGAGAGAAGCAA-GGCTA
* *
3772627 CAGCGAGAAAAGCAGAGGCTG
1 CAGCGAGAGAAGCA-AGGCTA
3772648 CAGCGAGAGAAGCAA
1 CAGCGAGAGAAGCAA
3772663 CGAGAGAAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.37, T:0.05
Consensus pattern (20 bp):
CAGCGAGAGAAGCAAGGCTA
Found at i:3772673 original size:33 final size:33
Alignment explanation
Indices: 3772630--3772694 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
3772620 ATGGCTACAG
3772630 CGAGAAAAGCAGAGGCTGCAGCGAGAGAAGCAA
1 CGAGAAAAGCAGAGGCTGCAGCGAGAGAAGCAA
* *
3772663 CGAGAGAAGCAGAGGCTGCAGCTAGAGAAGCA
1 CGAGAAAAGCAGAGGCTGCAGCGAGAGAAGCA
3772695 GAGGTTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.18, G:0.37, T:0.05
Consensus pattern (33 bp):
CGAGAAAAGCAGAGGCTGCAGCGAGAGAAGCAA
Found at i:3773207 original size:43 final size:43
Alignment explanation
Indices: 3773085--3773292 Score: 154
Period size: 43 Copynumber: 4.9 Consensus size: 43
3773075 GTTTTCTGTA
* ** * * *
3773085 AAAGCGACGCTAAAAGTCATGTTCTATAGCGGCGTTTGTGAAG
1 AAAGCGCCGCTAAAAAACATGATCTTTAGCGGCGTTTGTGAAT
* * * *
3773128 AAAGCGCCGCTAAAGAACAT-TTCTTTTCGCGACGTTTGTGAAT
1 AAAGCGCCGCTAAAAAACATGATC-TTTAGCGGCGTTTGTGAAT
* * * **
3773171 CAAGCGTCGCTAAAAAACATGATCTTTAGGGGCGTTT-TTTAT
1 AAAGCGCCGCTAAAAAACATGATCTTTAGCGGCGTTTGTGAAT
* * * ***
3773213 TAAGCGCCGCTAAAGAACATGATCTTTAGCTGCGGCTTT-TTTCT
1 AAAGCGCCGCTAAAAAACATGATCTTTAGCGGC-G-TTTGTGAAT
* *
3773257 -AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTT
1 AAAGCGCCGCTAAAAAACATGATCTTTAGCGGCGTTT
3773293 TTTTCGGTAA
Statistics
Matches: 136, Mismatches: 25, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
41 3 0.02
42 35 0.26
43 89 0.65
44 9 0.07
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (43 bp):
AAAGCGCCGCTAAAAAACATGATCTTTAGCGGCGTTTGTGAAT
Found at i:3773296 original size:43 final size:42
Alignment explanation
Indices: 3773172--3773296 Score: 169
Period size: 43 Copynumber: 3.0 Consensus size: 42
3773162 TTTGTGAATC
* * * *
3773172 AAGCGTCGCTAAAAAACATGATCTTTAGGGGCGTTTTTTATT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTT
* * *
3773214 AAGCGCCGCTAAAGAACATGATCTTTAGCTGCGGCTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGC-GTTTTTTTTT
*
3773257 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
3773297 CGGTAAACGC
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 35 0.49
43 37 0.51
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTT
Found at i:3775259 original size:12 final size:12
Alignment explanation
Indices: 3775239--3775274 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
3775229 TTATTACATG
3775239 TAATAGTAATAA
1 TAATAGTAATAA
* *
3775251 TAGTAGTAATTA
1 TAATAGTAATAA
3775263 TAATAGTAATAA
1 TAATAGTAATAA
3775275 AAAAATAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (12 bp):
TAATAGTAATAA
Found at i:3776135 original size:322 final size:323
Alignment explanation
Indices: 3775539--3776187 Score: 1291
Period size: 322 Copynumber: 2.0 Consensus size: 323
3775529 ATTGTTGAAT
3775539 AGTTTAAGTATTAGGGATTAAATAGATAGATTTTTAAGTTAAAAGTGAAAAAGGATTAAATTTTG
1 AGTTTAAGTATTAGGGATTAAATAGATAGATTTTTAAGTTAAAAGTGAAAAAGGATTAAATTTTG
3775604 GAATTAATTATTGATTTTGAGTATAAGGACTAAATTGTGAAAAATTCAAAATTAAAGGGTGGAGT
66 GAATTAATTATTGATTTTGAGTATAAGGACTAAATTGTGAAAAATTCAAAATTAAAGGGTGGAGT
3775669 TGAAAATAGGGGGCTAAATTTATTTTAAAGTGAAATTGAAATTCTTGTGAATTGGGTGGTATGTG
131 TGAAAATAGGGGGCTAAATTTATTTTAAAGTGAAATTGAAATTCTTGTGAATTGGGTGGTATGTG
3775734 ATTAATCTATTATAATTATTTTATTTCGTAGCAAACGTCGTCCCAAAATCTTCGAGTAAGAAAGA
196 ATTAATCTATTATAATTATTTTATTTCGTAGCAAACGTCGTCCCAAAATCTTCGAGTAAGAAAGA
3775799 GAAAGACAAGGTTGACGTTGAGTAGCTCGAAATATACAGCTTGTGTTTCTATAATTCAAATTA
261 GAAAGACAAGGTTGACGTTGAGTAGCTCGAAATATACAGCTTGTGTTTCTATAATTCAAATTA
3775862 AGTTTAAGTA-TAGGGATTAAATAGATAGATTTTTAAGTTAAAAGTGAAAAAGGATTAAATTTTG
1 AGTTTAAGTATTAGGGATTAAATAGATAGATTTTTAAGTTAAAAGTGAAAAAGGATTAAATTTTG
3775926 GAATTAATTATTGATTTTGAGTATAAGGACTAAATTGTGAAAAATTCAAAATTAAAGGGTGGAGT
66 GAATTAATTATTGATTTTGAGTATAAGGACTAAATTGTGAAAAATTCAAAATTAAAGGGTGGAGT
3775991 TGAAAATAGGGGGCTAAATTTATTTTAAAGTGAAATTGAAATTCTTGTGAATTGGGTGGTATGTG
131 TGAAAATAGGGGGCTAAATTTATTTTAAAGTGAAATTGAAATTCTTGTGAATTGGGTGGTATGTG
3776056 ATTAATCTATTATAATTATTTTATTTCGTAGCAAACGTCGTCCCAAAATCTTCGAGTAAGAAAGA
196 ATTAATCTATTATAATTATTTTATTTCGTAGCAAACGTCGTCCCAAAATCTTCGAGTAAGAAAGA
3776121 GAAAGACAAGGTTGACGTTGAGTAGCTCGAAATATACAGCTTGTGTTTCTATAATTCAAATTA
261 GAAAGACAAGGTTGACGTTGAGTAGCTCGAAATATACAGCTTGTGTTTCTATAATTCAAATTA
3776184 AGTT
1 AGTT
3776188 ATAAATTGTT
Statistics
Matches: 326, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
322 316 0.97
323 10 0.03
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (323 bp):
AGTTTAAGTATTAGGGATTAAATAGATAGATTTTTAAGTTAAAAGTGAAAAAGGATTAAATTTTG
GAATTAATTATTGATTTTGAGTATAAGGACTAAATTGTGAAAAATTCAAAATTAAAGGGTGGAGT
TGAAAATAGGGGGCTAAATTTATTTTAAAGTGAAATTGAAATTCTTGTGAATTGGGTGGTATGTG
ATTAATCTATTATAATTATTTTATTTCGTAGCAAACGTCGTCCCAAAATCTTCGAGTAAGAAAGA
GAAAGACAAGGTTGACGTTGAGTAGCTCGAAATATACAGCTTGTGTTTCTATAATTCAAATTA
Found at i:3776738 original size:18 final size:19
Alignment explanation
Indices: 3776712--3776747 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
3776702 AATGACAAAT
*
3776712 ATGATAAATG-AATATGAG
1 ATGAGAAATGAAATATGAG
3776730 ATGAGAAATGAAATATGA
1 ATGAGAAATGAAATATGA
3776748 AATATGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.25
Consensus pattern (19 bp):
ATGAGAAATGAAATATGAG
Found at i:3776756 original size:19 final size:19
Alignment explanation
Indices: 3776712--3776759 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
3776702 AATGACAAAT
* *
3776712 ATGATAAATG-AATATGAG
1 ATGAGAAATGAAATATGAA
3776730 ATGAGAAATGAAATATGAA
1 ATGAGAAATGAAATATGAA
3776749 AT-ATGAAATGA
1 ATGA-GAAATGA
3776760 TGAATTGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.54, C:0.00, G:0.21, T:0.25
Consensus pattern (19 bp):
ATGAGAAATGAAATATGAA
Found at i:3778240 original size:49 final size:49
Alignment explanation
Indices: 3778168--3778261 Score: 172
Period size: 49 Copynumber: 1.9 Consensus size: 49
3778158 TCGAGAGGGA
3778168 ATAAATAGTGATAAGAGTGTAGACAATGGAA-AACCAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGTAGACAATGGAAGAA-CAAGTTTAGCAATGT
3778217 ATAAATAGTGATAAGAGTGTAGACAATGGAAGAACAAGTTTAGCA
1 ATAAATAGTGATAAGAGTGTAGACAATGGAAGAACAAGTTTAGCA
3778262 TTGCATAACA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
49 42 0.95
50 2 0.05
ACGTcount: A:0.46, C:0.07, G:0.23, T:0.23
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAGACAATGGAAGAACAAGTTTAGCAATGT
Found at i:3780368 original size:7 final size:7
Alignment explanation
Indices: 3780347--3780384 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
3780337 GAGAATTTTA
3780347 TTATATT
1 TTATATT
3780354 TTAT-TT
1 TTATATT
3780360 TTATATT
1 TTATATT
*
3780367 TTAAATT
1 TTATATT
*
3780374 TTATAGT
1 TTATATT
3780381 TTAT
1 TTAT
3780385 CCAATTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (7 bp):
TTATATT
Found at i:3781466 original size:5 final size:5
Alignment explanation
Indices: 3781456--3781483 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
3781446 ATATTACTTT
3781456 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
3781484 TATTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:3784113 original size:22 final size:22
Alignment explanation
Indices: 3784088--3784130 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3784078 TATCTAAACA
3784088 ATAACAACAAAAT-AGTAGCAAT
1 ATAACAACAAAATGA-TAGCAAT
*
3784110 ATAATAACAAAATGATAGCAA
1 ATAACAACAAAATGATAGCAA
3784131 AATAGCAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.60, C:0.12, G:0.09, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATGATAGCAAT
Found at i:3785443 original size:269 final size:270
Alignment explanation
Indices: 3784953--3785491 Score: 1071
Period size: 269 Copynumber: 2.0 Consensus size: 270
3784943 CATTATATTT
3784953 TAATAATATGTTAAATATAATATATATTTTCAGTTATATACGTAAGTTTATTTTAAGTTAGAAGT
1 TAATAATATGTTAAATATAATATATATTTTCAGTTATATACGTAAGTTTATTTTAAGTTAGAAGT
3785018 ACACTAAAAAAATTGCAATTACAAAAAATGCATTTTAATAATTATAATCAAATTTAATTATAAAG
66 ACACTAAAAAAATTGCAATTACAAAAAATGCATTTTAATAATTATAATCAAATTTAATTATAAAG
3785083 CAAGATTGGATTTATAACTAGAATATCTCTATACCTAAATTAAAATAAATATAGGGTAAACTACA
131 CAAGATTGGATTTATAACTAGAATATCTCTATACCTAAATTAAAATAAATATAGGGTAAACTACA
3785148 ATAATAATCATCCAATTATGCTTTTGGTTTTATTTTGGTCACCTAGCTATTAATTTTTTCGATTT
196 ATAATAATCATCCAATTATGCTTTTGGTTTTATTTTGGTCACCTAGCTATTAATTTTTTCGATTT
3785213 AGTCACTCAA
261 AGTCACTCAA
3785223 TAATAATATG-TAAATATAATATATATTTTCAGTTATATACGTAAGTTTATTTTAAGTTAGAAGT
1 TAATAATATGTTAAATATAATATATATTTTCAGTTATATACGTAAGTTTATTTTAAGTTAGAAGT
3785287 ACACTAAAAAAATTGCAATTACAAAAAATGCATTTTAATAATTATAATCAAATTTAATTATAAAG
66 ACACTAAAAAAATTGCAATTACAAAAAATGCATTTTAATAATTATAATCAAATTTAATTATAAAG
3785352 CAAGATTGGATTTATAACTAGAATATCTCTATACCTAAATTAAAATAAATATAGGGTAAACTACA
131 CAAGATTGGATTTATAACTAGAATATCTCTATACCTAAATTAAAATAAATATAGGGTAAACTACA
3785417 ATAATAATCATCCAATTATGCTTTTGGTTTTATTTTGGTCACCTAGCTATTAATTTTTTCGATTT
196 ATAATAATCATCCAATTATGCTTTTGGTTTTATTTTGGTCACCTAGCTATTAATTTTTTCGATTT
3785482 AGTCACTCAA
261 AGTCACTCAA
3785492 CTTTTTTAGA
Statistics
Matches: 269, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
269 259 0.96
270 10 0.04
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.39
Consensus pattern (270 bp):
TAATAATATGTTAAATATAATATATATTTTCAGTTATATACGTAAGTTTATTTTAAGTTAGAAGT
ACACTAAAAAAATTGCAATTACAAAAAATGCATTTTAATAATTATAATCAAATTTAATTATAAAG
CAAGATTGGATTTATAACTAGAATATCTCTATACCTAAATTAAAATAAATATAGGGTAAACTACA
ATAATAATCATCCAATTATGCTTTTGGTTTTATTTTGGTCACCTAGCTATTAATTTTTTCGATTT
AGTCACTCAA
Found at i:3792100 original size:18 final size:18
Alignment explanation
Indices: 3792077--3792120 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
3792067 TAATTTGATA
3792077 TGGATTCTGTTGTACCAT
1 TGGATTCTGTTGTACCAT
* **
3792095 TGGATTCTGTTTTTTCAT
1 TGGATTCTGTTGTACCAT
3792113 TGGATTCT
1 TGGATTCT
3792121 AAATTTCCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (18 bp):
TGGATTCTGTTGTACCAT
Found at i:3796869 original size:39 final size:39
Alignment explanation
Indices: 3796826--3796905 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
3796816 TACAATTTCA
3796826 TTGCTTCTTTTATTTCAGTGTTAAAACAGAGTATCTTCC
1 TTGCTTCTTTTATTTCAGTGTTAAAACAGAGTATCTTCC
*
3796865 TTGCTTCTTTTATTTCAGTGTTAAAATAGAGTATCTTCC
1 TTGCTTCTTTTATTTCAGTGTTAAAACAGAGTATCTTCC
3796904 TT
1 TT
3796906 ATTTGTGTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.16, G:0.12, T:0.49
Consensus pattern (39 bp):
TTGCTTCTTTTATTTCAGTGTTAAAACAGAGTATCTTCC
Found at i:3798614 original size:16 final size:16
Alignment explanation
Indices: 3798595--3798638 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
3798585 ACATTTCATG
3798595 TCATATAATATTCAAA-
1 TCATAT-ATATTCAAAC
*
3798611 TCATATATCAATCAAAC
1 TCATATAT-ATTCAAAC
3798628 TCATATATATT
1 TCATATATATT
3798639 GTCCCTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 2 0.08
16 14 0.58
17 8 0.33
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (16 bp):
TCATATATATTCAAAC
Found at i:3802361 original size:677 final size:677
Alignment explanation
Indices: 3801069--3802423 Score: 2710
Period size: 677 Copynumber: 2.0 Consensus size: 677
3801059 TTAAAAATCT
3801069 ATCAATTTAATCCCTAATACTAAAATTGTTCAACATTAACAACCTTTAAAAACTCAATCAATGCT
1 ATCAATTTAATCCCTAATACTAAAATTGTTCAACATTAACAACCTTTAAAAACTCAATCAATGCT
3801134 AAAATTTCAACATGGGTCGGGTAAGCCTAGGTACCGAGATTCTAAAAACATAAAAATTATAAAAA
66 AAAATTTCAACATGGGTCGGGTAAGCCTAGGTACCGAGATTCTAAAAACATAAAAATTATAAAAA
3801199 AAATGGACTAAATTAACTAACCAATTGAACTTTAAACCCCAGAAATCCCTAAGCCGTGCGTTGGA
131 AAATGGACTAAATTAACTAACCAATTGAACTTTAAACCCCAGAAATCCCTAAGCCGTGCGTTGGA
3801264 CCTTCTTTCTCTTTTTCTTTTTTCTTTCTGTTTTGTATGGCTTTCTTTCTTTTAATACTTTTTTT
196 CCTTCTTTCTCTTTTTCTTTTTTCTTTCTGTTTTGTATGGCTTTCTTTCTTTTAATACTTTTTTT
3801329 TGTTTTATTATAATTATATAATATATATATACTTAATAATTAAGTAAACATATTATAATATATAT
261 TGTTTTATTATAATTATATAATATATATATACTTAATAATTAAGTAAACATATTATAATATATAT
3801394 TTTAACTTTAATATTATAATATATATATATAAAATAAATTTACACATGTAAGTTATTAATACCAT
326 TTTAACTTTAATATTATAATATATATATATAAAATAAATTTACACATGTAAGTTATTAATACCAT
3801459 CCACTTAATGGAATAAGGTATAATTGCTTATTTAGTCCCTTTAATTATTCTTTAATCTATAATTT
391 CCACTTAATGGAATAAGGTATAATTGCTTATTTAGTCCCTTTAATTATTCTTTAATCTATAATTT
3801524 AATTTTCACCCTATATGCAATTTAGTTCTTAAACTTAATTGCTTTTAATTCAAGCAAAATTCCTT
456 AATTTTCACCCTATATGCAATTTAGTTCTTAAACTTAATTGCTTTTAATTCAAGCAAAATTCCTT
3801589 AACCAAAACCTAATTAATTACACAACTAGCTTCGTAAATATTTATTAAAAGTATTTACGAGTCCG
521 AACCAAAACCTAATTAATTACACAACTAGCTTCGTAAATATTTATTAAAAGTATTTACGAGTCCG
3801654 ATTTACGGGAACGGAGTCCCGGGAATGCACTTCTTTTTTCTTCAATTTGGTCCTTTTTAATTAAT
586 ATTTACGGGAACGGAGTCCCGGGAATGCACTTCTTTTTTCTTCAATTTGGTCCTTTTTAATTAAT
3801719 TAACTATCGAAACATTAAAATTTCTTA
651 TAACTATCGAAACATTAAAATTTCTTA
3801746 ATCAATTTAATCCCTAATACTAAAATTGTTCAACATTAACAACCTTTAAAAACTCAATCAATGCT
1 ATCAATTTAATCCCTAATACTAAAATTGTTCAACATTAACAACCTTTAAAAACTCAATCAATGCT
3801811 AAAATTTCAACATGGGTCGGGTAAGCCTAGGTACCGAGATTCTAAAAACATAAAAATTATAAAAA
66 AAAATTTCAACATGGGTCGGGTAAGCCTAGGTACCGAGATTCTAAAAACATAAAAATTATAAAAA
3801876 AAATGGACTAAATTAACTAACCAATTGAACTTTAAACCCCAGAAATCCCTAAGCCGTGCGTTGGA
131 AAATGGACTAAATTAACTAACCAATTGAACTTTAAACCCCAGAAATCCCTAAGCCGTGCGTTGGA
3801941 CCTTCTTTCTCTTTTTCTTTTTTCTTTCTGTTTTGTATGGCTTTCTTTCTTTTAATACTTTTTTT
196 CCTTCTTTCTCTTTTTCTTTTTTCTTTCTGTTTTGTATGGCTTTCTTTCTTTTAATACTTTTTTT
3802006 TGTTTTATTATAATTATATAATATATATATACTTAATAATTAAGTAAACATATTATAATATATAT
261 TGTTTTATTATAATTATATAATATATATATACTTAATAATTAAGTAAACATATTATAATATATAT
3802071 TTTAACTTTAATATTATAATATATATATATAAAATAAATTTACACATGTAAGTTATTAATACCAT
326 TTTAACTTTAATATTATAATATATATATATAAAATAAATTTACACATGTAAGTTATTAATACCAT
3802136 CCACTTAATGGAATAAGGTATAATTGCTTATTTAGTCCCTTTAATTATTCTTTAATCTATAATTT
391 CCACTTAATGGAATAAGGTATAATTGCTTATTTAGTCCCTTTAATTATTCTTTAATCTATAATTT
3802201 AATTTTCACCCTATATGCAATTTAGTTCTTAAACTTAATTGCTTTTAATTCAAGCAAAATTCCTT
456 AATTTTCACCCTATATGCAATTTAGTTCTTAAACTTAATTGCTTTTAATTCAAGCAAAATTCCTT
3802266 AACCAAAACCTAATTAATTACACAACTAGCTTCGTAAATATTTATTAAAAGTATTTACGAGTCCG
521 AACCAAAACCTAATTAATTACACAACTAGCTTCGTAAATATTTATTAAAAGTATTTACGAGTCCG
3802331 ATTTACGGGAACGGAGTCCCGGGAATGCACTTCTTTTTTCTTCAATTTGGTCCTTTTTAATTAAT
586 ATTTACGGGAACGGAGTCCCGGGAATGCACTTCTTTTTTCTTCAATTTGGTCCTTTTTAATTAAT
3802396 TAACTATCGAAACATTAAAATTTCTTA
651 TAACTATCGAAACATTAAAATTTCTTA
3802423 A
1 A
3802424 CGAAATTTTA
Statistics
Matches: 678, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
677 678 1.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.40
Consensus pattern (677 bp):
ATCAATTTAATCCCTAATACTAAAATTGTTCAACATTAACAACCTTTAAAAACTCAATCAATGCT
AAAATTTCAACATGGGTCGGGTAAGCCTAGGTACCGAGATTCTAAAAACATAAAAATTATAAAAA
AAATGGACTAAATTAACTAACCAATTGAACTTTAAACCCCAGAAATCCCTAAGCCGTGCGTTGGA
CCTTCTTTCTCTTTTTCTTTTTTCTTTCTGTTTTGTATGGCTTTCTTTCTTTTAATACTTTTTTT
TGTTTTATTATAATTATATAATATATATATACTTAATAATTAAGTAAACATATTATAATATATAT
TTTAACTTTAATATTATAATATATATATATAAAATAAATTTACACATGTAAGTTATTAATACCAT
CCACTTAATGGAATAAGGTATAATTGCTTATTTAGTCCCTTTAATTATTCTTTAATCTATAATTT
AATTTTCACCCTATATGCAATTTAGTTCTTAAACTTAATTGCTTTTAATTCAAGCAAAATTCCTT
AACCAAAACCTAATTAATTACACAACTAGCTTCGTAAATATTTATTAAAAGTATTTACGAGTCCG
ATTTACGGGAACGGAGTCCCGGGAATGCACTTCTTTTTTCTTCAATTTGGTCCTTTTTAATTAAT
TAACTATCGAAACATTAAAATTTCTTA
Found at i:3803710 original size:40 final size:39
Alignment explanation
Indices: 3803645--3803779 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 39
3803635 CGATTGGACA
* *
3803645 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGTTTTTAG
1 AAAAGCGCCGCTAAAAAT-AAGCATTAGCGGCGTTTTTAG
** * *
3803685 AAAAGCGCCGCTAAAGGTCGAGCATTAGCGGCGCTTTTTGG
1 AAAAGCGCCGCTAAAAAT-AAGCATTAGCGGCG-TTTTTAG
* * *
3803726 AAAA-CGCCGCTAAAAATAAGCATTAGCGACATTTTTTG
1 AAAAGCGCCGCTAAAAATAAGCATTAGCGGCGTTTTTAG
3803764 AAAAGCGCCGC-AAAAA
1 AAAAGCGCCGCTAAAAA
3803780 GCCTAAGCCC
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
38 15 0.19
39 17 0.21
40 39 0.48
41 10 0.12
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (39 bp):
AAAAGCGCCGCTAAAAATAAGCATTAGCGGCGTTTTTAG
Found at i:3803872 original size:41 final size:41
Alignment explanation
Indices: 3803815--3804140 Score: 510
Period size: 41 Copynumber: 8.0 Consensus size: 41
3803805 TGAGTTTTTG
*
3803815 GGGCCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
3803856 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
3803897 CGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCCCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
3803938 GGGCCTTTAGCGGCGCTTTTT-AAAAAACGCCGCTAATGCTC
1 GGGCCTTTAGCGGCG-TTTTTGAAGAAGCGCCGCTAATGCTC
3803979 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * * *
3804020 AGACCTTTAGCGGCATTTTTGAAGAAGCACCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
3804061 AGACCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * *
3804102 GGGCCTTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
3804141 CCGTTTTTGA
Statistics
Matches: 263, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
40 5 0.02
41 253 0.96
42 5 0.02
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
Found at i:3804522 original size:14 final size:14
Alignment explanation
Indices: 3804505--3804541 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
3804495 GGGTTTAATA
3804505 TATATGGTTTAGGG
1 TATATGGTTTAGGG
*
3804519 TATATGATTTAGGG
1 TATATGGTTTAGGG
3804533 TATATGGTT
1 TATATGGTT
3804542 AATTTAGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (14 bp):
TATATGGTTTAGGG
Found at i:3804778 original size:20 final size:20
Alignment explanation
Indices: 3804751--3804796 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
3804741 GAATAAGGTG
3804751 TAGGGTTAGGGGTTAGGGATT
1 TAGGGTTAGGGGTTA-GGATT
*
3804772 T-GGGTTAGGGTTTAGGATT
1 TAGGGTTAGGGGTTAGGATT
3804791 TAGGGT
1 TAGGGT
3804797 CTAGATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 16 0.70
21 1 0.04
ACGTcount: A:0.17, C:0.00, G:0.46, T:0.37
Consensus pattern (20 bp):
TAGGGTTAGGGGTTAGGATT
Found at i:3804862 original size:7 final size:7
Alignment explanation
Indices: 3804839--3804897 Score: 64
Period size: 7 Copynumber: 8.4 Consensus size: 7
3804829 TAAATAAGAT
3804839 TTAGGGG
1 TTAGGGG
**
3804846 TTAGTAG
1 TTAGGGG
3804853 TTAGGGG
1 TTAGGGG
3804860 TTAGGGG
1 TTAGGGG
3804867 TTAGGGG
1 TTAGGGG
*
3804874 TTAGAGG
1 TTAGGGG
**
3804881 TTAAAGG
1 TTAGGGG
*
3804888 TTAGAGG
1 TTAGGGG
3804895 TTA
1 TTA
3804898 AGAGTTAGTG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:3804876 original size:21 final size:21
Alignment explanation
Indices: 3804839--3804905 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
3804829 TAAATAAGAT
*
3804839 TTAGGGGTTAGTA-GTTAGGGG
1 TTAGGGGTTAG-AGGTTAGAGG
*
3804860 TTAGGGGTTAGGGGTTAGAGG
1 TTAGGGGTTAGAGGTTAGAGG
**
3804881 TTAAAGGTTAGAGGTTA-AGAG
1 TTAGGGGTTAGAGGTTAGAG-G
3804902 TTAG
1 TTAG
3804906 TGATTTAGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
20 2 0.05
21 36 0.95
ACGTcount: A:0.25, C:0.00, G:0.43, T:0.31
Consensus pattern (21 bp):
TTAGGGGTTAGAGGTTAGAGG
Found at i:3804882 original size:14 final size:14
Alignment explanation
Indices: 3804839--3804897 Score: 75
Period size: 14 Copynumber: 4.2 Consensus size: 14
3804829 TAAATAAGAT
3804839 TTAGGGGTTAGTA-G
1 TTAGGGGTTAG-AGG
*
3804853 TTAGGGGTTAGGGG
1 TTAGGGGTTAGAGG
3804867 TTAGGGGTTAGAGG
1 TTAGGGGTTAGAGG
**
3804881 TTAAAGGTTAGAGG
1 TTAGGGGTTAGAGG
3804895 TTA
1 TTA
3804898 AGAGTTAGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 40 1.00
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (14 bp):
TTAGGGGTTAGAGG
Found at i:3804904 original size:14 final size:14
Alignment explanation
Indices: 3804859--3804905 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
3804849 GTAGTTAGGG
* * *
3804859 GTTAGGGGTTAGGG
1 GTTAGAGGTTAAGA
3804873 GTTAGAGGTTAA-A
1 GTTAGAGGTTAAGA
3804886 GGTTAGAGGTTAAGA
1 -GTTAGAGGTTAAGA
3804901 GTTAG
1 GTTAG
3804906 TGATTTAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 27 0.96
15 1 0.04
ACGTcount: A:0.28, C:0.00, G:0.43, T:0.30
Consensus pattern (14 bp):
GTTAGAGGTTAAGA
Found at i:3810645 original size:18 final size:18
Alignment explanation
Indices: 3810622--3810681 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
3810612 ATGTAATTCT
3810622 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
3810640 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
3810657 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
3810675 AATGTAA
1 AATGTAA
3810682 CTTGTTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:3810943 original size:43 final size:43
Alignment explanation
Indices: 3810882--3811172 Score: 503
Period size: 43 Copynumber: 6.8 Consensus size: 43
3810872 AAGTCATGTT
* * *
3810882 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTA
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTC
*
3810925 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTC
* * *
3810968 TTTAGCGGCATTTGTGGTAAAAGTGCTGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTC
3811011 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTC
3811054 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTC
3811097 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTC
*
3811140 TTTAGCGGCGTTTGTGG-GAAAGCGCCGCTAAAG
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAG
3811173 TTAGCGACGC
Statistics
Matches: 238, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
42 15 0.06
43 223 0.94
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTC
Found at i:3812479 original size:25 final size:25
Alignment explanation
Indices: 3812446--3812495 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
3812436 TTATAAAAAA
* *
3812446 ATTATTAAAACTATAAATAATCATT
1 ATTAATAAAACTATAAATAACCATT
*
3812471 ATTAATAAAATTATAAATAACCATT
1 ATTAATAAAACTATAAATAACCATT
3812496 TTTCTAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (25 bp):
ATTAATAAAACTATAAATAACCATT
Found at i:3812489 original size:12 final size:12
Alignment explanation
Indices: 3812432--3812490 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
3812422 AAATATCATA
3812432 AAAATTATAAA-
1 AAAATTATAAAT
3812443 AAAATTAT---T
1 AAAATTATAAAT
*
3812452 AAAACTATAAAT
1 AAAATTATAAAT
* *
3812464 AATCATTATTAAT
1 AA-AATTATAAAT
3812477 AAAATTATAAAT
1 AAAATTATAAAT
3812489 AA
1 AA
3812491 CCATTTTTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
9 7 0.19
11 8 0.22
12 13 0.35
13 9 0.24
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (12 bp):
AAAATTATAAAT
Found at i:3814633 original size:43 final size:43
Alignment explanation
Indices: 3814528--3814677 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 43
3814518 TGTAATATCA
* *
3814528 TGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGAGATTTATG
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATTT--GATTTACG
* * *
3814572 TGTAAGACCATGTTTGGGACATTGGCATCGTATATGATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTACG
* ** *
3814615 TGTAAGACC-CTGTCTGGGATAGAGGCATCGTTATTTGA-TTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGATTTACG
3814658 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCACGTCTGGGAC
3814678 GCTGGCATTG
Statistics
Matches: 89, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
43 52 0.58
44 34 0.38
45 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTACG
Found at i:3817607 original size:7 final size:7
Alignment explanation
Indices: 3817595--3817619 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3817585 ATTTATATGA
3817595 ATGAAAT
1 ATGAAAT
3817602 ATGAAAT
1 ATGAAAT
3817609 ATGAAAT
1 ATGAAAT
3817616 ATGA
1 ATGA
3817620 TGATTGAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (7 bp):
ATGAAAT
Found at i:3821455 original size:71 final size:71
Alignment explanation
Indices: 3821339--3821483 Score: 274
Period size: 71 Copynumber: 2.0 Consensus size: 71
3821329 GACATACACA
3821339 AATTGAGATGACCAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAATTAA
1 AATTGAGATGACCAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAATTAA
3821404 CCTGTT
66 CCTGTT
3821410 AATTGAGATG-CTCAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAATTA
1 AATTGAGATGAC-CAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAATTA
3821474 ACCTGTT
65 ACCTGTT
3821481 AAT
1 AAT
3821484 GAGGATTTAT
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
70 1 0.01
71 72 0.99
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (71 bp):
AATTGAGATGACCAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAATTAA
CCTGTT
Found at i:3821524 original size:3 final size:3
Alignment explanation
Indices: 3821516--3821570 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
3821506 ACTTCAGGAA
*
3821516 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG GAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
3821564 AAG AAG A
1 AAG AAG A
3821571 GAAAACCTGA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:3827471 original size:121 final size:120
Alignment explanation
Indices: 3827311--3827527 Score: 355
Period size: 121 Copynumber: 1.8 Consensus size: 120
3827301 GTAATGTGGG
* *
3827311 TTCACAAACACATTTGACAAGTTATTAGCACCATGTTTCTTTCTATCCCCACCAACCAAGGAGGG
1 TTCACAAACACATTTGACAAGTTATTAGCAACATGTTTCTTTCTATCCCCACCAACCAAGCAGGG
3827376 GATTTTGAGATAAGTCAAAGCAACTACTGTTTGTTACCATCCCAAGTAACATGGA
66 GATTTTGAGATAAGTCAAAGCAACTACTGTTTGTTACCATCCCAAGTAACATGGA
* *
3827431 TTCACAAAATACATTTTACACA-TTATTAGCAACATGTTTCTTTCTATCCCCACCAACCAAGCAG
1 TTCAC-AAACACATTTGACA-AGTTATTAGCAACATGTTTCTTTCTATCCCCACCAACCAAGCAG
* *
3827495 GGGATTTTGGGATAGGTCAAAGCAACTACTGTT
64 GGGATTTTGAGATAAGTCAAAGCAACTACTGTT
3827528 ACTATCATGA
Statistics
Matches: 89, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
120 5 0.06
121 83 0.93
122 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.29
Consensus pattern (120 bp):
TTCACAAACACATTTGACAAGTTATTAGCAACATGTTTCTTTCTATCCCCACCAACCAAGCAGGG
GATTTTGAGATAAGTCAAAGCAACTACTGTTTGTTACCATCCCAAGTAACATGGA
Found at i:3835363 original size:37 final size:37
Alignment explanation
Indices: 3835299--3835393 Score: 147
Period size: 37 Copynumber: 2.6 Consensus size: 37
3835289 AGTACACAAG
* *
3835299 TAATCCAACCGA-AACACGCCAACTGCTCATAAGAGT
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* *
3835335 TAATCCACCCGATAACACGTCAAATGCTCATAAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
3835372 TAATCCAACCGATAACACGCCA
1 TAATCCAACCGATAACACGCCA
3835394 CGGCAGTAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 11 0.21
37 41 0.79
ACGTcount: A:0.39, C:0.32, G:0.13, T:0.17
Consensus pattern (37 bp):
TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
Found at i:3842694 original size:34 final size:35
Alignment explanation
Indices: 3842636--3842702 Score: 102
Period size: 34 Copynumber: 1.9 Consensus size: 35
3842626 CAAACACCAG
3842636 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
3842671 AAAATATTTTCTC-G-AAATCATTTTACGGAAAA
1 AAAATATTTTC-CAGTAAATCATTTTACAGAAAA
3842703 TATTTTACTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 17 0.57
35 12 0.40
36 1 0.03
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:3851575 original size:5 final size:5
Alignment explanation
Indices: 3851565--3851591 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
3851555 TTGAACTGCT
3851565 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
3851592 ATGCAGGTAT
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):
AATAA
Found at i:3859209 original size:88 final size:88
Alignment explanation
Indices: 3859104--3859280 Score: 354
Period size: 88 Copynumber: 2.0 Consensus size: 88
3859094 AGTTTCTTTC
3859104 ATTAAAAAAACATATTATAGTCAAAGTTTATTATTTATACTTGTATAATTGTTAAGTGCTTAAAT
1 ATTAAAAAAACATATTATAGTCAAAGTTTATTATTTATACTTGTATAATTGTTAAGTGCTTAAAT
3859169 GAATTTGTTTCTTGAGTTCATTG
66 GAATTTGTTTCTTGAGTTCATTG
3859192 ATTAAAAAAACATATTATAGTCAAAGTTTATTATTTATACTTGTATAATTGTTAAGTGCTTAAAT
1 ATTAAAAAAACATATTATAGTCAAAGTTTATTATTTATACTTGTATAATTGTTAAGTGCTTAAAT
3859257 GAATTTGTTTCTTGAGTTCATTG
66 GAATTTGTTTCTTGAGTTCATTG
3859280 A
1 A
3859281 ATAACAATAT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (88 bp):
ATTAAAAAAACATATTATAGTCAAAGTTTATTATTTATACTTGTATAATTGTTAAGTGCTTAAAT
GAATTTGTTTCTTGAGTTCATTG
Found at i:3859684 original size:17 final size:18
Alignment explanation
Indices: 3859657--3859692 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
3859647 GCTGTTGATA
3859657 TATTATCTTATTTTATTT
1 TATTATCTTATTTTATTT
3859675 TATT-TCTTATTTTATTT
1 TATTATCTTATTTTATTT
3859692 T
1 T
3859693 CTATCTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (18 bp):
TATTATCTTATTTTATTT
Found at i:3859699 original size:17 final size:17
Alignment explanation
Indices: 3859660--3859699 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
3859650 GTTGATATAT
3859660 TATCTTATTTTATTTTA
1 TATCTTATTTTATTTTA
* *
3859677 TTTCTTATTTTATTTTC
1 TATCTTATTTTATTTTA
3859694 TATCTT
1 TATCTT
3859700 TTCCAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
TATCTTATTTTATTTTA
Found at i:3859860 original size:9 final size:9
Alignment explanation
Indices: 3859846--3859876 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
3859836 TATACGTTTT
3859846 TGGTAAGTG
1 TGGTAAGTG
3859855 TGGTAAGTG
1 TGGTAAGTG
3859864 TGGTAAGTG
1 TGGTAAGTG
3859873 TGGT
1 TGGT
3859877 TATTGTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35
Consensus pattern (9 bp):
TGGTAAGTG
Found at i:3870902 original size:31 final size:31
Alignment explanation
Indices: 3870864--3870926 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
3870854 TGTACGTGAC
* * *
3870864 ATTGACATGATGTCTCTTGGAAACTAATCTA
1 ATTGACATGACGTATCTAGGAAACTAATCTA
3870895 ATTGACATGACGTATCTAGGAAACTAATCTA
1 ATTGACATGACGTATCTAGGAAACTAATCTA
3870926 A
1 A
3870927 CATGCCGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (31 bp):
ATTGACATGACGTATCTAGGAAACTAATCTA
Found at i:3871396 original size:31 final size:31
Alignment explanation
Indices: 3871358--3871420 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
3871348 TGTACGTGAC
* * *
3871358 ATTGACATGATGTCTCTTGGAAACTAATCTA
1 ATTGACATGACGTATCTAGGAAACTAATCTA
3871389 ATTGACATGACGTATCTAGGAAACTAATCTA
1 ATTGACATGACGTATCTAGGAAACTAATCTA
3871420 A
1 A
3871421 CATGCCGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (31 bp):
ATTGACATGACGTATCTAGGAAACTAATCTA
Found at i:3871401 original size:494 final size:495
Alignment explanation
Indices: 3870462--3871453 Score: 1968
Period size: 494 Copynumber: 2.0 Consensus size: 495
3870452 TAGAAATGTA
3870462 TTCTTTTACATTTATAATATATAAAAATATATAGAATAAGAAAGAAAGAAAAATAGAATAATAAA
1 TTCTTTTACA-TTATAATATATAAAAATATATAGAATAAGAAAGAAAGAAAAATAGAATAATAAA
3870527 ATAGACCTCCATATTCATGAAAAGTAAGATTGAAAATTAAATTGTAAAAATTTTCTCCACCTATA
65 ATAGACCTCCATATTCATGAAAAGTAAGATTGAAAATTAAATTGTAAAAATTTTCTCCACCTATA
3870592 AATCTGATTTTTACATTAATTTAAAAATTAAGTGTGAATTTAAATAAACGATACAATTAATTATA
130 AATCTGATTTTTACATTAATTTAAAAATTAAGTGTGAATTTAAATAAACGATACAATTAATTATA
3870657 ATTAGTGTAAAAGTAACAATAATAATTAAACTAAATATCATAATAATATCATAATATAAGATAAA
195 ATTAGTGTAAAAGTAACAATAATAATTAAACTAAATATCATAATAATATCATAATATAAGATAAA
3870722 AAATAAACTAAACACATTAGACTTCTCCGTCCAAACCATCAAAACTCAAACCGATCTACAAGTCT
260 AAATAAACTAAACACATTAGACTTCTCCGTCCAAACCATCAAAACTCAAACCGATCTACAAGTCT
3870787 GTACAGCTCAAGATCTTATCCAACTGGATGTCCAATCAAATTTCTTAGCCATTCCTTTGTCCAAA
325 GTACAGCTCAAGATCTTATCCAACTGGATGTCCAATCAAATTTCTTAGCCATTCCTTTGTCCAAA
3870852 ATTGTACGTGACATTGACATGATGTCTCTTGGAAACTAATCTAATTGACATGACGTATCTAGGAA
390 ATTGTACGTGACATTGACATGATGTCTCTTGGAAACTAATCTAATTGACATGACGTATCTAGGAA
3870917 ACTAATCTAACATGCCGCTTGACCTTTTCAAATATATTCTT
455 ACTAATCTAACATGCCGCTTGACCTTTTCAAATATATTCTT
3870958 TTCTTTTACA-TATAATATATAAAAATATATAGAATAAGAAAGAAAGAAAAATAGAATAATAAAA
1 TTCTTTTACATTATAATATATAAAAATATATAGAATAAGAAAGAAAGAAAAATAGAATAATAAAA
3871022 TAGACCTCCATATTCATGAAAAGTAAGATTGAAAATTAAATTGTAAAAATTTTCTCCACCTATAA
66 TAGACCTCCATATTCATGAAAAGTAAGATTGAAAATTAAATTGTAAAAATTTTCTCCACCTATAA
3871087 ATCTGATTTTTACATTAATTTAAAAATTAAGTGTGAATTTAAATAAACGATACAATTAATTATAA
131 ATCTGATTTTTACATTAATTTAAAAATTAAGTGTGAATTTAAATAAACGATACAATTAATTATAA
3871152 TTAGTGTAAAAGTAACAATAATAATTAAACTAAATATCATAATAATATCATAATATAAGATAAAA
196 TTAGTGTAAAAGTAACAATAATAATTAAACTAAATATCATAATAATATCATAATATAAGATAAAA
3871217 AATAAACTAAACACATTAGACTTCTCCGTCCAAACCATCAAAACTCAAACCGATCTACAAGTCTG
261 AATAAACTAAACACATTAGACTTCTCCGTCCAAACCATCAAAACTCAAACCGATCTACAAGTCTG
3871282 TACAGCTCAAGATCTTATCCAACTGGATGTCCAATCAAATTTCTTAGCCATTCCTTTGTCCAAAA
326 TACAGCTCAAGATCTTATCCAACTGGATGTCCAATCAAATTTCTTAGCCATTCCTTTGTCCAAAA
3871347 TTGTACGTGACATTGACATGATGTCTCTTGGAAACTAATCTAATTGACATGACGTATCTAGGAAA
391 TTGTACGTGACATTGACATGATGTCTCTTGGAAACTAATCTAATTGACATGACGTATCTAGGAAA
3871412 CTAATCTAACATGCCGCTTGACCTTTTCAAATATATTCTT
456 CTAATCTAACATGCCGCTTGACCTTTTCAAATATATTCTT
3871452 TT
1 TT
3871454 ATCTTCTTCA
Statistics
Matches: 496, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
494 486 0.98
496 10 0.02
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (495 bp):
TTCTTTTACATTATAATATATAAAAATATATAGAATAAGAAAGAAAGAAAAATAGAATAATAAAA
TAGACCTCCATATTCATGAAAAGTAAGATTGAAAATTAAATTGTAAAAATTTTCTCCACCTATAA
ATCTGATTTTTACATTAATTTAAAAATTAAGTGTGAATTTAAATAAACGATACAATTAATTATAA
TTAGTGTAAAAGTAACAATAATAATTAAACTAAATATCATAATAATATCATAATATAAGATAAAA
AATAAACTAAACACATTAGACTTCTCCGTCCAAACCATCAAAACTCAAACCGATCTACAAGTCTG
TACAGCTCAAGATCTTATCCAACTGGATGTCCAATCAAATTTCTTAGCCATTCCTTTGTCCAAAA
TTGTACGTGACATTGACATGATGTCTCTTGGAAACTAATCTAATTGACATGACGTATCTAGGAAA
CTAATCTAACATGCCGCTTGACCTTTTCAAATATATTCTT
Found at i:3871479 original size:6 final size:6
Alignment explanation
Indices: 3871468--3871493 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3871458 TCTTCACCTG
3871468 AATTTA AATTTA AATTTA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AA
3871494 ATCTTTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:3872557 original size:21 final size:21
Alignment explanation
Indices: 3872518--3872558 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
3872508 TTAAAATTTA
3872518 TAAACATAAAAAAATTAAAAT
1 TAAACATAAAAAAATTAAAAT
*
3872539 TAAA-ATAAAAAGATATAAAA
1 TAAACATAAAAAAAT-TAAAA
3872559 AAGTTCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (21 bp):
TAAACATAAAAAAATTAAAAT
Found at i:3873974 original size:42 final size:43
Alignment explanation
Indices: 3873865--3874241 Score: 183
Period size: 43 Copynumber: 8.8 Consensus size: 43
3873855 GCTAATGAAT
*
3873865 GCGCCGCTAAAGACCCTGATCTATAGCGGCGCTTCTAGCACAA
1 GCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTAGCACAA
* * *** * ***
3873908 ACGCCGCTGAAGACTAAGACCTTTAGCGGCGCTT-TAGTGGAA
1 GCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTAGCACAA
* *
3873950 GCGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTGT-GCTACAA
1 GCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTAGC-ACAA
* * ** * ** * *
3873993 GCGCCGCTATAGATCAGGGTCTTTAGCGGCATTTTTTA-TA-AA
1 GCGCCGCTAAAGACCCTGATCTTTAGCGGC-GCTTCTAGCACAA
* * * * * **
3874035 ACGCCGC-AATAGACCCTAATCTATAGTGGCGCTTTTCCCTA-AA
1 GCGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTCTAGC-ACAA
* * * * * *
3874078 ACGCCGCTATAGACCCTAATCTATAGCGGCGCTTCGACCACAAA
1 GCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTAGCAC-AA
* * * * ** *
3874122 ACGCCACTAAAGAACCTAATCTTTAGCGGCGCTT-TCCCCAAAA
1 GCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCT-AGCACAA
* * * * **
3874165 ACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCACAA
1 GCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTAGCACAA
* * * * *
3874208 ACGTCGCTACAGACCCTTATCTTTAGCGACGCTT
1 GCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTT
3874242 TGACAAAAAA
Statistics
Matches: 256, Mismatches: 66, Indels: 24
0.74 0.19 0.07
Matches are distributed among these distances:
41 5 0.02
42 55 0.21
43 155 0.61
44 41 0.16
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (43 bp):
GCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTAGCACAA
Found at i:3874083 original size:43 final size:43
Alignment explanation
Indices: 3874031--3874242 Score: 196
Period size: 43 Copynumber: 4.9 Consensus size: 43
3874021 GCATTTTTTA
*
3874031 TAAAACGCCGC-AATAGACCCTAATCTATAGTGGCGCTTTTCCC
1 TAAAACGCCGCTAA-AGACCCTAATCTATAGCGGCGCTTTTCCC
* **
3874074 TAAAACGCCGCTATAGACCCTAATCTATAGCGGCGCTTCGACCAC
1 TAAAACGCCGCTAAAGACCCTAATCTATAGCGGCGCTT-TTCC-C
* * * *
3874119 -AAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCC
1 TAAAACGCCGCTAAAGACCCTAATCTATAGCGGCGCTTTTCCC
* * * * * *
3874161 AAAAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCC
1 TAAAACGCCGCTAAAGACCCTAATCTATAGCGGCGCTTTTCCC
* * * * *
3874204 -ACAAACGTCGCTACAGACCCTTATCTTTAGCGACGCTTT
1 TA-AAACGCCGCTAAAGACCCTAATCTATAGCGGCGCTTT
3874243 GACAAAAAAA
Statistics
Matches: 141, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
42 2 0.01
43 102 0.72
44 36 0.26
45 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.25
Consensus pattern (43 bp):
TAAAACGCCGCTAAAGACCCTAATCTATAGCGGCGCTTTTCCC
Found at i:3874153 original size:87 final size:87
Alignment explanation
Indices: 3874032--3874242 Score: 237
Period size: 87 Copynumber: 2.4 Consensus size: 87
3874022 CATTTTTTAT
* * * * * *
3874032 AAAACGCCGC-AATAGACCCTAATCTATAGTGGCGCTTTTCCCTAAAACGCCGCTATAGACCCTA
1 AAAACGCCGCTAA-AGACCCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACCATA
3874096 ATCTATAGCGGCGCTTCGACCAC
65 ATCTATAGCGGCGCTTCGACCAC
* * *
3874119 AAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACCATGA
1 AAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACCATAA
* * ***
3874184 TCTTTAGTGGCGCTTTTTCCAC
66 TCTATAGCGGCGCTTCGACCAC
* * * *
3874206 -AAACGTCGCTACAGACCCTTATCTTTAGCGACGCTTT
1 AAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTT
3874243 GACAAAAAAA
Statistics
Matches: 103, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
86 31 0.30
87 70 0.68
88 2 0.02
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (87 bp):
AAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACCATAA
TCTATAGCGGCGCTTCGACCAC
Found at i:3874252 original size:87 final size:87
Alignment explanation
Indices: 3874075--3874262 Score: 198
Period size: 87 Copynumber: 2.2 Consensus size: 87
3874065 GCTTTTCCCT
* *
3874075 AAAACGCCGCTATAGACCCTAATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTA
1 AAAACGCCGCTAAAGACCATAATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTA
* * **
3874140 ATCTTTAGCGGCGCTTTCCCCA
66 ATCTTTAGCGACGCTTTACAAA
* * * *** * * * * *
3874162 AAAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCAC-AAACGTCGCTACAGACCCTT
1 AAAACGCCGCTAAAGACCATAATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTA
3874226 ATCTTTAGCGACGCTTTGACAAA
66 ATCTTTAGCGACGCTTT-ACAAA
*
3874249 AAAACGCCACTAAA
1 AAAACGCCGCTAAA
3874263 TTTGGCAGAT
Statistics
Matches: 82, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
86 31 0.38
87 51 0.62
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (87 bp):
AAAACGCCGCTAAAGACCATAATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTA
ATCTTTAGCGACGCTTTACAAA
Found at i:3884392 original size:27 final size:27
Alignment explanation
Indices: 3884360--3884411 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
3884350 TCTTACTTTT
* *
3884360 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
*
3884387 AAATAAATAATTACTAACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
3884412 TTTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:3884496 original size:10 final size:10
Alignment explanation
Indices: 3884481--3884517 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
3884471 ATAACTATAT
3884481 ATATATATCC
1 ATATATATCC
*
3884491 ATATATATTC
1 ATATATATCC
3884501 ATATATATCC
1 ATATATATCC
3884511 ATATATA
1 ATATATA
3884518 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:3886221 original size:15 final size:16
Alignment explanation
Indices: 3886190--3886222 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3886180 GACCAACCCT
3886190 TAATCCCTAATATCCA
1 TAATCCCTAATATCCA
3886206 TAATCCCTAA-ATCCA
1 TAATCCCTAATATCCA
3886221 TA
1 TA
3886223 TATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.39, C:0.30, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATCCCTAATATCCA
Found at i:3887284 original size:114 final size:114
Alignment explanation
Indices: 3887094--3887779 Score: 1011
Period size: 114 Copynumber: 6.0 Consensus size: 114
3887084 GCTAAAACCT
** * *
3887094 ATATTATTAGCGGCGCTAATCTAAAAACGCCACTAAAGTCACCGAAGTGTCTCCAAATGACGTCG
1 ATATTATTAGCGGCGCTAATAGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTCG
*
3887159 TCTGGGGTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATACTC
66 TCTTGGGTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATACTC
* *
3887208 ATATTATTAGCGGCGCTAGTAGAAAAACGCCACTAATGTCACCGAAGTATCTCCAAACGACGTCG
1 ATATTATTAGCGGCGCTAATAGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTCG
* * *
3887273 TCTTGGTTTTAGTTTTTGCGGCGTTTTTATAAAAAAACGCCGCTAATACTC
66 TCTTGGGTTTAGTTTTTGCGGCATTTTTAT--AGAAACGCCGCTAATACTC
* * * * *
3887324 ATATTATTAGCGGCGCTACTCGGAAAACGCCACTAATGTCACCAAAGTGTCTCCAAACGAAGTCG
1 ATATTATTAGCGGCGCTAATAGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTCG
* * *
3887389 T-TTGGGTTTTAGTTTTTCCGGCGTTTTTGTAGAAACGCCGCTAATACTC
66 TCTTGGG-TTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATACTC
* * *
3887438 ATATTATTAGCGGCGCTAGTAGAAAAACGCCACTAAAGTCACCGAAGTATCTCCAAACGACGTCG
1 ATATTATTAGCGGCGCTAATAGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTCG
*
3887503 TCTGGGGTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATACTC
66 TCTTGGGTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATACTC
* *
3887552 ATATTATTAGCGGCGCTATTCA-AAAAACGCCACTAATGTCACCGAAGTGTCCCCAAACGACGTC
1 ATATTATTAGCGGCGCTAAT-AGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTC
* * * *
3887616 GTCTCGGTTTTAGTTTTTGCGGCATTTTTACAGAAACGCCGCTAATTCTC
65 GTCTTGGGTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATACTC
* * *
3887666 ATATTATTAGCGGTGC-AATCCGAAAAACGCCACTAATGTCACCGAAGTTTCTCCAAACGACGTC
1 ATATTATTAGCGGCGCTAAT-AGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTC
*
3887730 GTC-TGGGTTTAGTTTTTGCGGCGTTTTTATAGAAACGCCGCTAATACTC
65 GTCTTGGGTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATACTC
3887779 A
1 A
3887780 ATCGGTTGCG
Statistics
Matches: 517, Mismatches: 49, Indels: 13
0.89 0.08 0.02
Matches are distributed among these distances:
113 45 0.09
114 364 0.70
115 9 0.02
116 99 0.19
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (114 bp):
ATATTATTAGCGGCGCTAATAGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTCG
TCTTGGGTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATACTC
Found at i:3887485 original size:230 final size:228
Alignment explanation
Indices: 3887094--3887779 Score: 1088
Period size: 230 Copynumber: 3.0 Consensus size: 228
3887084 GCTAAAACCT
* * *
3887094 ATATTATTAGCGGCGCTAATCTAAAAACGCCACTAAAGTCACCGAAGTGTCTCCAAATGACGTCG
1 ATATTATTAGCGGCGCTAATCAAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTCG
*
3887159 TCTGGGGTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATACTCATATTATTAGCGGCGC
66 TCTGGGTTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATACTCATATTATTAGCGGCGC
*
3887224 TAGTAGAAAAACGCCACTAATGTCACCGAAGTATCTCCAAACGACGTCGTCTTGGTTTTAGTTTT
131 TAGTAGAAAAACGCCACTAATGTCACCGAAGTATCTCCAAACGACGTCGTCTTGGGTTTAGTTTT
*
3887289 TGCGGCGTTTTTATAAAAAAACGCCGCTAATACTC
196 TGCGGCGTTTTTAT--AGAAACGCCGCTAATACTC
* ** * *
3887324 ATATTATTAGCGGCGCTACTCGGAAAACGCCACTAATGTCACCAAAGTGTCTCCAAACGAAGTCG
1 ATATTATTAGCGGCGCTAATCAAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTCG
* * * *
3887389 TTTGGGTTTTAGTTTTTCCGGCGTTTTTGTAGAAACGCCGCTAATACTCATATTATTAGCGGCGC
66 TCTGGGTTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATACTCATATTATTAGCGGCGC
* *
3887454 TAGTAGAAAAACGCCACTAAAGTCACCGAAGTATCTCCAAACGACGTCGTCTGGGGTTTAGTTTT
131 TAGTAGAAAAACGCCACTAATGTCACCGAAGTATCTCCAAACGACGTCGTCTTGGGTTTAGTTTT
*
3887519 TGCGGCATTTTTATAGAAACGCCGCTAATACTC
196 TGCGGCGTTTTTATAGAAACGCCGCTAATACTC
* *
3887552 ATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGTGTCCCCAAACGACGTCG
1 ATATTATTAGCGGCGCTAATCAAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTCG
* * * *
3887617 TCTCGGTTTTAGTTTTTGCGGCATTTTTACAGAAACGCCGCTAATTCTCATATTATTAGCGGTGC
66 TCTGGGTTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATACTCATATTATTAGCGGCGC
* * *
3887682 -AATCCGAAAAACGCCACTAATGTCACCGAAGTTTCTCCAAACGACGTCGTC-TGGGTTTAGTTT
131 TAGT-AGAAAAACGCCACTAATGTCACCGAAGTATCTCCAAACGACGTCGTCTTGGGTTTAGTTT
3887745 TTGCGGCGTTTTTATAGAAACGCCGCTAATACTC
195 TTGCGGCGTTTTTATAGAAACGCCGCTAATACTC
3887779 A
1 A
3887780 ATCGGTTGCG
Statistics
Matches: 418, Mismatches: 37, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
227 47 0.11
228 178 0.43
230 193 0.46
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (228 bp):
ATATTATTAGCGGCGCTAATCAAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTCG
TCTGGGTTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATACTCATATTATTAGCGGCGC
TAGTAGAAAAACGCCACTAATGTCACCGAAGTATCTCCAAACGACGTCGTCTTGGGTTTAGTTTT
TGCGGCGTTTTTATAGAAACGCCGCTAATACTC
Found at i:3889275 original size:11 final size:11
Alignment explanation
Indices: 3889250--3889287 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
3889240 TGCTTTTAAG
3889250 TTTTTATTTTA
1 TTTTTATTTTA
3889261 -TTTTATTTTA
1 TTTTTATTTTA
* *
3889271 TTTTTAATTCA
1 TTTTTATTTTA
3889282 TTTTTA
1 TTTTTA
3889288 ATATTCTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:3893575 original size:28 final size:28
Alignment explanation
Indices: 3893529--3893586 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
3893519 TTTGAAGAAA
* * * *
3893529 AAAAATATGTCTTGTAAAATGTGCTTTC
1 AAAAATATGTATTGCAAAACGCGCTTTC
3893557 AAAAATATGTATTGCAAAACGCGCTTTC
1 AAAAATATGTATTGCAAAACGCGCTTTC
3893585 AA
1 AA
3893587 TCAATAGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (28 bp):
AAAAATATGTATTGCAAAACGCGCTTTC
Found at i:3897349 original size:24 final size:24
Alignment explanation
Indices: 3897322--3897369 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
3897312 AGATTGGTGG
3897322 CGACT-CCAATTTTCGTTTTTAAGT
1 CGACTACCAATTTTCG-TTTTAAGT
* *
3897346 CGACTACTAATTTTTGTTTTAAGT
1 CGACTACCAATTTTCGTTTTAAGT
3897370 GTGGGGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.48
Consensus pattern (24 bp):
CGACTACCAATTTTCGTTTTAAGT
Found at i:3899540 original size:13 final size:13
Alignment explanation
Indices: 3899522--3899552 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3899512 AATATAAATT
*
3899522 TTAATTAATTAAA
1 TTAATTAATCAAA
3899535 TTAATTAATCAAA
1 TTAATTAATCAAA
3899548 TTAAT
1 TTAAT
3899553 CGAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (13 bp):
TTAATTAATCAAA
Found at i:3907563 original size:23 final size:23
Alignment explanation
Indices: 3907537--3907582 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
3907527 CTAAAAACAA
3907537 GTTATAGTGAATTTATATTTGTC
1 GTTATAGTGAATTTATATTTGTC
3907560 GTTATAGTGAATTTATATTTGTC
1 GTTATAGTGAATTTATATTTGTC
3907583 CGTGGTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.52
Consensus pattern (23 bp):
GTTATAGTGAATTTATATTTGTC
Found at i:3913356 original size:14 final size:14
Alignment explanation
Indices: 3913337--3913367 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
3913327 AACCCTTCTC
3913337 TATCCCTGATGTCA
1 TATCCCTGATGTCA
3913351 TATCCCTGATGTCA
1 TATCCCTGATGTCA
3913365 TAT
1 TAT
3913368 TCTTCTTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.39
Consensus pattern (14 bp):
TATCCCTGATGTCA
Found at i:3914919 original size:13 final size:13
Alignment explanation
Indices: 3914901--3914977 Score: 118
Period size: 13 Copynumber: 5.9 Consensus size: 13
3914891 ACACTCTAAT
*
3914901 TTCTCAAAAGTAC
1 TTCTCAAAAGCAC
*
3914914 TTCTCAAAATCAC
1 TTCTCAAAAGCAC
3914927 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
* *
3914940 TTTTGAAAAGCAC
1 TTCTCAAAAGCAC
3914953 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
3914966 TTCTCAAAAGCA
1 TTCTCAAAAGCA
3914978 ATGAAGAACT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 57 1.00
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.27
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:3916355 original size:2 final size:2
Alignment explanation
Indices: 3916348--3916372 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3916338 AACTCTTGAG
3916348 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 T
3916373 GAGAAATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3916987 original size:19 final size:19
Alignment explanation
Indices: 3916951--3916989 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3916941 GGTCTTTAGG
*
3916951 TGAAAGCAATTTGTGTTTT
1 TGAAAGCAATTTCTGTTTT
3916970 TGAAAG-AATTTCTGGTTTT
1 TGAAAGCAATTTCT-GTTTT
3916989 T
1 T
3916990 CTTTCTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.49
Consensus pattern (19 bp):
TGAAAGCAATTTCTGTTTT
Found at i:3916988 original size:18 final size:19
Alignment explanation
Indices: 3916951--3916988 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
3916941 GGTCTTTAGG
* *
3916951 TGAAAGCAATTTGTGTTTT
1 TGAAAGCAATTTCTGGTTT
3916970 TGAAAG-AATTTCTGGTTT
1 TGAAAGCAATTTCTGGTTT
3916988 T
1 T
3916989 TCTTTCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (19 bp):
TGAAAGCAATTTCTGGTTT
Found at i:3938250 original size:6 final size:6
Alignment explanation
Indices: 3938239--3938269 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
3938229 TTTCCTAGGG
*
3938239 TTGCAT TTGCAT TTACAT TTGCAT TTGCAT T
1 TTGCAT TTGCAT TTGCAT TTGCAT TTGCAT T
3938270 AGTATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.19, C:0.16, G:0.13, T:0.52
Consensus pattern (6 bp):
TTGCAT
Found at i:3943743 original size:13 final size:12
Alignment explanation
Indices: 3943725--3943773 Score: 64
Period size: 13 Copynumber: 4.0 Consensus size: 12
3943715 CAAAGCAAAT
3943725 AAAAGAAAAGAGA
1 AAAAG-AAAGAGA
3943738 AAAAG-AAGAGA
1 AAAAGAAAGAGA
*
3943749 AAAAGACAGAGA
1 AAAAGAAAGAGA
3943761 GAAAAGAAAGAGA
1 -AAAAGAAAGAGA
3943774 TAAGTGGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 11 0.34
12 5 0.16
13 16 0.50
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (12 bp):
AAAAGAAAGAGA
Found at i:3943748 original size:11 final size:11
Alignment explanation
Indices: 3943732--3943773 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 11
3943722 AATAAAAGAA
3943732 AAGAGAAAAAG
1 AAGAGAAAAAG
3943743 AAGAGAAAAAG
1 AAGAGAAAAAG
3943754 ACAGAGAGAAAAG
1 A-AGAGA-AAAAG
3943767 AAAGAGA
1 -AAGAGA
3943774 TAAGTGGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 12 0.43
12 5 0.18
13 10 0.36
14 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (11 bp):
AAGAGAAAAAG
Found at i:3951934 original size:25 final size:25
Alignment explanation
Indices: 3951906--3951983 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
3951896 CTCTTCCGAA
3951906 CTGAATATCGATAAGCTCATACGAG
1 CTGAATATCGATAAGCTCATACGAG
*
3951931 CTGAATATCGGTAAGCTC-TCACGAG
1 CTGAATATCGATAAGCTCAT-ACGAG
* * * *
3951956 CT-ACAAATTGATAAGATCATACTAG
1 CTGA-ATATCGATAAGCTCATACGAG
3951981 CTG
1 CTG
3951984 CGGTGAGTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
24 2 0.05
25 40 0.93
26 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (25 bp):
CTGAATATCGATAAGCTCATACGAG
Found at i:3953759 original size:16 final size:16
Alignment explanation
Indices: 3953727--3953771 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
3953717 AAAACACACG
*
3953727 TGTTTTAAATATAAGT
1 TGTTTTAAACATAAGT
3953743 TGTTTTAAACA-ACAGT
1 TGTTTTAAACATA-AGT
*
3953759 TGTTCTAAACATA
1 TGTTTTAAACATA
3953772 GTTATTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (16 bp):
TGTTTTAAACATAAGT
Found at i:3958475 original size:19 final size:19
Alignment explanation
Indices: 3958451--3958488 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
3958441 AGGCTTTTAA
3958451 AGTAAGTTCAAATTTCTTT
1 AGTAAGTTCAAATTTCTTT
3958470 AGTAAGTTCAAATTTCTTT
1 AGTAAGTTCAAATTTCTTT
3958489 CTCCTGGCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (19 bp):
AGTAAGTTCAAATTTCTTT
Found at i:3962955 original size:19 final size:19
Alignment explanation
Indices: 3962890--3962955 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
3962880 TCAATAAAAG
* *
3962890 TTATACAAATTATTAAATT
1 TTATAAAAATTATAAAATT
* *
3962909 TTAATAAAAATATTTAAAA-A
1 TT-ATAAAAAT-TATAAAATT
* *
3962929 TTAGAAAAATTGTAAAATT
1 TTATAAAAATTATAAAATT
3962948 TTATAAAA
1 TTATAAAA
3962956 GTCACAAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
18 6 0.17
19 16 0.44
20 9 0.25
21 5 0.14
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (19 bp):
TTATAAAAATTATAAAATT
Found at i:3963273 original size:9 final size:9
Alignment explanation
Indices: 3963261--3963396 Score: 71
Period size: 9 Copynumber: 14.4 Consensus size: 9
3963251 TTTCTATATA
3963261 TTTTATAAT
1 TTTTATAAT
*
3963270 TTTTATGAT
1 TTTTATAAT
*
3963279 TTTTATAAAA
1 TTTTAT-AAT
*
3963289 TTTTACAATT
1 TTTTATAA-T
3963299 TTTTATAATTT
1 TTTTATAA--T
*
3963310 TTTTCTAA-
1 TTTTATAAT
3963318 TTTT-TAAT
1 TTTTATAAT
*
3963326 TTTTAATATT
1 TTTT-ATAAT
*
3963336 TTTTATTAAAA
1 TTTTA-T-AAT
* *
3963347 TTTAATCAT
1 TTTTATAAT
*
3963356 TTTTATAAA
1 TTTTATAAT
3963365 TTTTATAAAT
1 TTTTAT-AAT
*
3963375 TTTT-TATTT
1 TTTTATA-AT
*
3963384 TTTTATCAT
1 TTTTATAAT
3963393 TTTT
1 TTTT
3963397 TGCCACATGT
Statistics
Matches: 96, Mismatches: 20, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
7 3 0.03
8 9 0.09
9 41 0.43
10 29 0.30
11 14 0.15
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:3963291 original size:57 final size:57
Alignment explanation
Indices: 3963223--3963385 Score: 158
Period size: 57 Copynumber: 2.9 Consensus size: 57
3963213 TTCTTACGAC
*
3963223 TTTATAAAATTTTATATTTTTTTCTATATTTCTATAT-ATTTTATAATTTTT-ATGA-TT
1 TTTATAAAATTTTATATTTTTTTATA-ATTTCTATATAATTTT-TAATTTTTAAT-ATTT
* * * * *
3963280 TTTATAAAATTTTACAATTTTTTATAATTTTTTTCTAATTTTTAATTTTTAATATTT
1 TTTATAAAATTTTATATTTTTTTATAATTTCTATATAATTTTTAATTTTTAATATTT
* * *
3963337 TTTATTAAAATTTAATCATTTTTATA-AATTT-TATA-AATTTTTTATTTTT
1 TTTA-TAAAATTTTAT-ATTTTTTTATAATTTCTATATAATTTTTAATTTTT
3963386 TTATCATTTT
Statistics
Matches: 88, Mismatches: 13, Indels: 11
0.79 0.12 0.10
Matches are distributed among these distances:
56 29 0.33
57 38 0.43
58 14 0.16
59 7 0.08
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (57 bp):
TTTATAAAATTTTATATTTTTTTATAATTTCTATATAATTTTTAATTTTTAATATTT
Found at i:3963312 original size:20 final size:19
Alignment explanation
Indices: 3963261--3963311 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
3963251 TTTCTATATA
**
3963261 TTTTATAATTTTTATGA-T
1 TTTTATAATTTTTACAATT
*
3963279 TTTTATAAAATTTTACAATT
1 TTTTAT-AATTTTTACAATT
3963299 TTTTATAATTTTT
1 TTTTATAATTTTT
3963312 TTCTAATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 6 0.22
19 14 0.52
20 7 0.26
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTACAATT
Found at i:3963381 original size:11 final size:10
Alignment explanation
Indices: 3963223--3963378 Score: 62
Period size: 10 Copynumber: 16.3 Consensus size: 10
3963213 TTCTTACGAC
*
3963223 TTTATAAAAT
1 TTTATAAATT
**
3963233 TTTATATTTT
1 TTTATAAATT
* *
3963243 TTTCTATATT
1 TTTATAAATT
* *
3963253 TCTATATA-T
1 TTTATAAATT
3963262 TTTAT-AATT
1 TTTATAAATT
*
3963271 TTTAT-GATT
1 TTTATAAATT
*
3963280 TTTATAAAAT
1 TTTATAAATT
* *
3963290 TTTACAATTT
1 TTTATAAATT
3963300 TTTAT-AATT
1 TTTATAAATT
* *
3963309 TTTTTCTAA-T
1 TTTAT-AAATT
3963319 TTT-T-AATT
1 TTTATAAATT
*
3963327 TTTA-ATATTT
1 TTTATA-AATT
*
3963337 TTTATTAAAAT
1 TTTA-TAAATT
* *
3963348 TTAAT-CATT
1 TTTATAAATT
3963357 TTTATAAA-T
1 TTTATAAATT
3963366 TTTATAAATT
1 TTTATAAATT
3963376 TTT
1 TTT
3963379 TATTTTTTTA
Statistics
Matches: 108, Mismatches: 26, Indels: 24
0.68 0.16 0.15
Matches are distributed among these distances:
7 2 0.02
8 5 0.05
9 42 0.39
10 51 0.47
11 7 0.06
12 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (10 bp):
TTTATAAATT
Found at i:3963397 original size:29 final size:29
Alignment explanation
Indices: 3963223--3963397 Score: 114
Period size: 29 Copynumber: 6.1 Consensus size: 29
3963213 TTCTTACGAC
*
3963223 TTTATAAAATTTTATATTTTTTTCTATATT
1 TTTATAAAATTTTATATTTTTTTATAT-TT
* * *
3963253 TCTAT-ATATTTTATA-ATTTTTATGA-TT
1 TTTATAAAATTTTATATTTTTTTAT-ATTT
* *
3963280 TTTATAAAATTTTACAATTTTTTATAATTT
1 TTTATAAAATTTTATATTTTTTTAT-ATTT
** * *
3963310 TTT-TCTAATTTT-TAATTTTTAATATTT
1 TTTATAAAATTTTATATTTTTTTATATTT
* **
3963337 TTTATTAAAA-TTTA-ATCATTTTTATAAAT
1 TTTA-TAAAATTTTATAT-TTTTTTATATTT
*
3963366 TTTAT-AAATTTTTTATTTTTTTATCATTT
1 TTTATAAAATTTTATATTTTTTTAT-ATTT
3963395 TTT
1 TTT
3963398 GCCACATGTC
Statistics
Matches: 110, Mismatches: 24, Indels: 23
0.70 0.15 0.15
Matches are distributed among these distances:
27 16 0.15
28 38 0.35
29 47 0.43
30 9 0.08
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (29 bp):
TTTATAAAATTTTATATTTTTTTATATTT
Found at i:3963730 original size:18 final size:18
Alignment explanation
Indices: 3963697--3963749 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
3963687 ATTCACCTAA
*
3963697 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
3963716 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
3963734 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
3963750 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:3963867 original size:9 final size:9
Alignment explanation
Indices: 3963853--3963901 Score: 89
Period size: 9 Copynumber: 5.4 Consensus size: 9
3963843 GTAGTGATTC
3963853 AATTCGGTT
1 AATTCGGTT
*
3963862 AATTCGGGT
1 AATTCGGTT
3963871 AATTCGGTT
1 AATTCGGTT
3963880 AATTCGGTT
1 AATTCGGTT
3963889 AATTCGGTT
1 AATTCGGTT
3963898 AATT
1 AATT
3963902 TTTAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:3964069 original size:29 final size:29
Alignment explanation
Indices: 3964034--3964275 Score: 475
Period size: 29 Copynumber: 8.3 Consensus size: 29
3964024 AATTTTGAAA
3964034 GGTCGGTTAATTCGGTTAATGTTATTTCG
1 GGTCGGTTAATTCGGTTAATGTTATTTCG
3964063 GGTCGGTTAATTCGGTTAATGTTATTTCG
1 GGTCGGTTAATTCGGTTAATGTTATTTCG
3964092 GGTCGGTTAATTCGGTTAATGTTATTTCG
1 GGTCGGTTAATTCGGTTAATGTTATTTCG
3964121 GGTCGGTTAATTCGGTTAATGTTATTTCG
1 GGTCGGTTAATTCGGTTAATGTTATTTCG
3964150 GGTCGGTTAATTCGGTTAATGTTATTTCG
1 GGTCGGTTAATTCGGTTAATGTTATTTCG
3964179 GGTCGGTTAATTCGGTTAATGTTATTTCG
1 GGTCGGTTAATTCGGTTAATGTTATTTCG
3964208 GGTCGGTTAATTCGGTTAATGTTATTTCG
1 GGTCGGTTAATTCGGTTAATGTTATTTCG
3964237 GGTCGGTTAATTCGGTTAATGTTATTTCG
1 GGTCGGTTAATTCGGTTAATGTTATTTCG
*
3964266 GGTCAGTTAA
1 GGTCGGTTAA
3964276 CCGGTCGGTT
Statistics
Matches: 212, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 212 1.00
ACGTcount: A:0.18, C:0.10, G:0.28, T:0.44
Consensus pattern (29 bp):
GGTCGGTTAATTCGGTTAATGTTATTTCG
Found at i:3964482 original size:98 final size:96
Alignment explanation
Indices: 3964310--3964525 Score: 276
Period size: 98 Copynumber: 2.3 Consensus size: 96
3964300 CCCTAGGTTT
* * * * *
3964310 AAGTATCCAATTGAGTGC--AAAAAAAAAAAAGAGCAAGGGTTTAATTACTTTTTTGAAAAAGTT
1 AAGTACCCAATTGAGTGCAAAAAAAAAAAAAAAAGCAAGGGCTTAACTACTTTTTTAAAAAAGTT
3964373 GGAGAGCCTTTTTGATGCATTCTAAAAGTTA
66 GGAGAGCCTTTTTGATGCATTCTAAAAGTTA
3964404 AAGTACCCAATTGAGTGCAAAAAAAAAAAAAAAAGCAAGGGCTTAACTACTATTTTTTAAAAAAG
1 AAGTACCCAATTGAGTGCAAAAAAAAAAAAAAAAGCAAGGGCTTAACTAC--TTTTTTAAAAAAG
* * * * * *
3964469 TTTGAGGGTCTTTTTGATGCATTGTGAAAGTTC
64 TTGGAGAGCCTTTTTGATGCATTCTAAAAGTTA
* *
3964502 AAGTACCCAAGTGAATG-AAAAAAA
1 AAGTACCCAATTGAGTGCAAAAAAA
3964526 GTAGGGACTT
Statistics
Matches: 105, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
94 17 0.16
96 27 0.26
97 7 0.07
98 54 0.51
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (96 bp):
AAGTACCCAATTGAGTGCAAAAAAAAAAAAAAAAGCAAGGGCTTAACTACTTTTTTAAAAAAGTT
GGAGAGCCTTTTTGATGCATTCTAAAAGTTA
Found at i:3966873 original size:29 final size:28
Alignment explanation
Indices: 3966841--3966965 Score: 106
Period size: 29 Copynumber: 4.3 Consensus size: 28
3966831 TCGTGTTTTT
**
3966841 TTTTTAAATTTACATTTTGACCCCTCCAC
1 TTTTTAAATTT-CATTTTGACCCCTAAAC
* *
3966870 TTTTTAAAATTGCATTTTGACCCCTAAAG
1 TTTTT-AAATTTCATTTTGACCCCTAAAC
* *
3966899 TTTTTAAAATTTCATTATGACCCTTAAAC
1 TTTTT-AAATTTCATTTTGACCCCTAAAC
* * * * *
3966928 TTCTTAAAATTGCATTTTAACCCCAAAAA
1 TT-TTTAAATTTCATTTTGACCCCTAAAC
3966957 TTTCTTAAA
1 TTT-TTAAA
3966966 ATTACACTTT
Statistics
Matches: 77, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 1 0.01
29 69 0.90
30 7 0.09
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (28 bp):
TTTTTAAATTTCATTTTGACCCCTAAAC
Found at i:3966935 original size:58 final size:59
Alignment explanation
Indices: 3966840--3966968 Score: 161
Period size: 58 Copynumber: 2.2 Consensus size: 59
3966830 TTCGTGTTTT
* * ** * * * *
3966840 TTTTTTAAATTTACATTTTGACCCCTCCACTTTTTAAAATTGCATTTTGACCCCTAAAG
1 TTTTTAAAATTTACATTATGACCCCTAAACTTCTTAAAATTGCATTTTAACCCCAAAAA
*
3966899 TTTTTAAAATTT-CATTATGACCCTTAAACTTCTTAAAATTGCATTTTAACCCCAAAAA
1 TTTTTAAAATTTACATTATGACCCCTAAACTTCTTAAAATTGCATTTTAACCCCAAAAA
3966957 TTTCTTAAAATT
1 TTT-TTAAAATT
3966969 ACACTTTGGC
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
58 41 0.68
59 19 0.32
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.43
Consensus pattern (59 bp):
TTTTTAAAATTTACATTATGACCCCTAAACTTCTTAAAATTGCATTTTAACCCCAAAAA
Found at i:3966982 original size:30 final size:30
Alignment explanation
Indices: 3966928--3966985 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
3966918 ACCCTTAAAC
* *
3966928 TTCTTAAAATTGCATTTTAACCCCAAAAAT
1 TTCTTAAAATTACACTTTAACCCCAAAAAT
**
3966958 TTCTTAAAATTACACTTTGGCCCCAAAA
1 TTCTTAAAATTACACTTTAACCCCAAAA
3966986 GTTTTGCTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (30 bp):
TTCTTAAAATTACACTTTAACCCCAAAAAT
Found at i:3967344 original size:3 final size:3
Alignment explanation
Indices: 3967336--3967369 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
3967326 AGGGTTTGAG
*
3967336 GAA GAA GAA GAG GAA GAA GAA GAAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA
3967370 AGAAAAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:3967350 original size:12 final size:12
Alignment explanation
Indices: 3967333--3967368 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
3967323 ACTAGGGTTT
3967333 GAGGAAGAAGAA
1 GAGGAAGAAGAA
3967345 GAGGAAGAAGAA
1 GAGGAAGAAGAA
3967357 GA--AAGAAGAA
1 GAGGAAGAAGAA
3967367 GA
1 GA
3967369 AAGAAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.42
12 14 0.58
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (12 bp):
GAGGAAGAAGAA
Found at i:3967364 original size:10 final size:10
Alignment explanation
Indices: 3967337--3967397 Score: 58
Period size: 10 Copynumber: 6.2 Consensus size: 10
3967327 GGGTTTGAGG
3967337 AAGAAGAAGA
1 AAGAAGAAGA
3967347 GGAAGAAGAAGA
1 --AAGAAGAAGA
3967359 AAGAAGAAGA
1 AAGAAGAAGA
*
3967369 AAGAAAAAAGA
1 AAG-AAGAAGA
3967380 AA-AAG-AGA
1 AAGAAGAAGA
3967388 AA-AA-AAGA
1 AAGAAGAAGA
3967396 AA
1 AA
3967398 AAAAATTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
8 12 0.27
9 2 0.04
10 13 0.29
11 8 0.18
12 10 0.22
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (10 bp):
AAGAAGAAGA
Found at i:3967390 original size:14 final size:15
Alignment explanation
Indices: 3967349--3967397 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 15
3967339 GAAGAAGAGG
*
3967349 AAGAAG-AAGA-AAG
1 AAGAAGAAAGAGAAA
3967362 AAGAAGAAAGA-AAA
1 AAGAAGAAAGAGAAA
3967376 AAGAA-AAAGAGAAA
1 AAGAAGAAAGAGAAA
3967390 AA-AAGAAA
1 AAGAAGAAA
3967398 AAAAATTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
13 13 0.41
14 19 0.59
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAGAAGAAAGAGAAA
Found at i:3967400 original size:7 final size:7
Alignment explanation
Indices: 3967355--3967400 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
3967345 GAGGAAGAAG
*
3967355 AAGAAAG
1 AAGAAAA
*
3967362 AAGAAGA
1 AAGAAAA
3967369 AAGAAAA
1 AAGAAAA
3967376 AAGAAAA
1 AAGAAAA
3967383 AGAGAAAAA
1 A-AG-AAAA
3967392 AAGAAAA
1 AAGAAAA
3967399 AA
1 AA
3967401 AATTTAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 25 0.74
8 4 0.12
9 5 0.15
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:3967722 original size:5 final size:5
Alignment explanation
Indices: 3967709--3967777 Score: 63
Period size: 5 Copynumber: 13.8 Consensus size: 5
3967699 GCCCAGTAGA
* * *
3967709 AAAAA AAAAG AAAAAG AAAAG AGAAG AAAAG AAAAAG AGAA- AAAAG -AAAG
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG
3967759 AAAAG AAAA- AAGAAG AAAA
1 AAAAG AAAAG AA-AAG AAAA
3967778 AAGGAAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
4 9 0.17
5 32 0.60
6 12 0.23
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:3967722 original size:11 final size:11
Alignment explanation
Indices: 3967706--3967797 Score: 85
Period size: 11 Copynumber: 7.6 Consensus size: 11
3967696 TTAGCCCAGT
3967706 AGAAAAAAAAA
1 AGAAAAAAAAA
3967717 AGAAAAAGAAAA
1 AGAAAAA-AAAA
3967729 GAGAAGAAAAGAAAA
1 -AG-A-AAAA-AAAA
3967744 AGAGAAAAAAGAA
1 AGA-AAAAAA-AA
3967757 AGAAAAGAAAAA
1 AGAAAA-AAAAA
*
3967769 AGAAGAAAAAA
1 AGAAAAAAAAA
*
3967780 GGAAAAAAAAA
1 AGAAAAAAAAA
*
3967791 GGAAAAA
1 AGAAAAA
3967798 GGGTCGTGTA
Statistics
Matches: 72, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
11 28 0.39
12 16 0.22
13 16 0.22
14 3 0.04
15 9 0.12
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:3967764 original size:34 final size:34
Alignment explanation
Indices: 3967712--3967796 Score: 95
Period size: 34 Copynumber: 2.4 Consensus size: 34
3967702 CAGTAGAAAA
*
3967712 AAAAAAGAAAAAGAAAAGAGAAGAA-AAG-AAAAAGAG
1 AAAAAAG--AAAGAAAAGA-AAAAAGAAGAAAAAAG-G
3967748 AAAAAAGAAAGAAAAGAAAAAAGAAGAAAAAAGG
1 AAAAAAGAAAGAAAAGAAAAAAGAAGAAAAAAGG
3967782 AAAAAA-AAAGGAAAA
1 AAAAAAGAAA-GAAAA
3967797 AGGGTCGTGT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
33 7 0.16
34 25 0.56
35 6 0.13
36 7 0.16
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (34 bp):
AAAAAAGAAAGAAAAGAAAAAAGAAGAAAAAAGG
Found at i:3967769 original size:16 final size:16
Alignment explanation
Indices: 3967706--3967796 Score: 71
Period size: 16 Copynumber: 5.4 Consensus size: 16
3967696 TTAGCCCAGT
3967706 AGAAAA-AAAAAAGAAAA
1 AGAAAAGAAAAAAG--AA
3967723 AGAAAAGAGAAGAAAAGAA
1 AG-AAA-AGAA-AAAAGAA
*
3967742 A-AAGAGAAAAAAGAA
1 AGAAAAGAAAAAAGAA
3967757 AGAAAAGAAAAAAGAA
1 AGAAAAGAAAAAAGAA
*
3967773 GAAAAAAGGAAAAAA-AA
1 -AGAAAA-GAAAAAAGAA
3967790 AGGAAAA
1 A-GAAAA
3967797 AGGGTCGTGT
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
15 8 0.13
16 18 0.29
17 15 0.24
18 10 0.16
19 4 0.06
20 2 0.03
21 5 0.08
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (16 bp):
AGAAAAGAAAAAAGAA
Found at i:3970413 original size:41 final size:40
Alignment explanation
Indices: 3970349--3970459 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 40
3970339 TTTTAAACAT
3970349 TTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GTATCA
1 TTAGCGGCGTTTTT-TCTAAGCGCCGCTAATGCTCTGT-TCA
* * * * *
3970390 TTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGTTCT
1 TTAGCGGCGTTTTT-TCTAAGCGCCGCTAATGCTCTGTTCA
*
3970431 TTAGCGGCATTTTTTCTAAGCGCCGCTAA
1 TTAGCGGCGTTTTTTCTAAGCGCCGCTAA
3970460 AGTTCGTGTT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
40 13 0.22
41 44 0.75
42 2 0.03
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (40 bp):
TTAGCGGCGTTTTTTCTAAGCGCCGCTAATGCTCTGTTCA
Found at i:3972684 original size:23 final size:23
Alignment explanation
Indices: 3972653--3972697 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3972643 TGAATATGTA
*
3972653 TAAATCTAAAAAA-TTCTTAAAAG
1 TAAAACTAAAAAAGTT-TTAAAAG
3972676 TAAAACTAAAAAAGTTTTAAAA
1 TAAAACTAAAAAAGTTTTAAAA
3972698 CTAATGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (23 bp):
TAAAACTAAAAAAGTTTTAAAAG
Found at i:3972839 original size:5 final size:5
Alignment explanation
Indices: 3972829--3972854 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
3972819 TTACTTTGAA
3972829 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
3972855 CAAAGTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:3973640 original size:106 final size:109
Alignment explanation
Indices: 3973482--3973701 Score: 347
Period size: 106 Copynumber: 2.0 Consensus size: 109
3973472 ACAAATGAAA
3973482 AACGAGTAAGATAAAAGTGAATGGATTTTTTTTTTTTTTTTTGTGAAAGTTAAAAGACTGATTTT
1 AACGAGTAAGATAAAAGTGAATGGA------TTTTTTTTTTTGTGAAAGTTAAAAGACTGATTTT
*
3973547 TGATGAGATTGAATGTGAAAATTTTAGCCGCAAAATTCTTGGTTTTTTTG
60 TGATGAGATTGAATGTGAAAATTTTAGCCGCAAAATTCTTGATTTTTTTG
3973597 AACGAGTAAGATAAAAGTGAATGGA-TTTTTTTTTT-T-AAAGTTAAAAGACTGATTTTTGATGA
1 AACGAGTAAGATAAAAGTGAATGGATTTTTTTTTTTGTGAAAGTTAAAAGACTGATTTTTGATGA
*
3973659 GATTGAATTTGAAAATTTTAGCCGCAAAATTCTTGATTTTTTT
66 GATTGAATGTGAAAATTTTAGCCGCAAAATTCTTGATTTTTTT
3973702 AGATGCAAAT
Statistics
Matches: 103, Mismatches: 2, Indels: 9
0.90 0.02 0.08
Matches are distributed among these distances:
106 67 0.65
107 1 0.01
108 10 0.10
115 25 0.24
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (109 bp):
AACGAGTAAGATAAAAGTGAATGGATTTTTTTTTTTGTGAAAGTTAAAAGACTGATTTTTGATGA
GATTGAATGTGAAAATTTTAGCCGCAAAATTCTTGATTTTTTTG
Found at i:3975263 original size:1 final size:1
Alignment explanation
Indices: 3975257--3975281 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
3975247 TGCTTTTGTC
3975257 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
3975282 ATGGTTAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:3985023 original size:24 final size:24
Alignment explanation
Indices: 3984996--3985042 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3984986 CATATGAAAA
*
3984996 TTAAATTAACCAAATCA-AATTATT
1 TTAAATCAACCAAA-CATAATTATT
*
3985020 TTAACTCAACCAAACATAATTAT
1 TTAAATCAACCAAACATAATTAT
3985043 AATACATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (24 bp):
TTAAATCAACCAAACATAATTATT
Found at i:3987202 original size:21 final size:21
Alignment explanation
Indices: 3987176--3987215 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
3987166 ATTATATTAT
3987176 CACAATTCAT-GGACATGACCC
1 CACAATTCATAGGAC-TGACCC
3987197 CACAATTCATAGGACTGAC
1 CACAATTCATAGGACTGAC
3987216 ATTCTGAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (21 bp):
CACAATTCATAGGACTGACCC
Found at i:3993030 original size:18 final size:17
Alignment explanation
Indices: 3993007--3993040 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
3992997 TAGAAGTTAT
3993007 AATAATTATACATTTAAA
1 AATAATTATA-ATTTAAA
3993025 AATAATTATAATTTAA
1 AATAATTATAATTTAA
3993041 TTTACGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAATTATAATTTAAA
Found at i:4001789 original size:32 final size:33
Alignment explanation
Indices: 4001734--4001795 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
4001724 AGACAATCTA
*
4001734 ACCACCAACCTTTGGAAATAGAGTC-AAATTTC
1 ACCACCAACCTTTGGAAAAAGAGTCGAAATTTC
* * *
4001766 ACCATCAATCTTTTGAAAAAGAGTCGAAAT
1 ACCACCAACCTTTGGAAAAAGAGTCGAAAT
4001796 GATTATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 21 0.84
33 4 0.16
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (33 bp):
ACCACCAACCTTTGGAAAAAGAGTCGAAATTTC
Found at i:4005631 original size:6 final size:6
Alignment explanation
Indices: 4005622--4005650 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4005612 AAATAAAATT
4005622 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
4005651 GTCTACAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Done.