Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 83 of 126
Found at i:16715526 original size:19 final size:19
Alignment explanation
Indices: 16715473--16715527 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
16715463 AGAACACCGG
* * *
16715473 TGGAATTTTCGTCGGATTC
1 TGGAAATTTCGCCGGAATC
* *
16715492 TGGAAAATGTCACCGGAATC
1 TGG-AAATTTCGCCGGAATC
16715512 TGGAAATTTCGCCGGA
1 TGGAAATTTCGCCGGA
16715528 GTTCGCCGGA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (19 bp):
TGGAAATTTCGCCGGAATC
Found at i:16715534 original size:10 final size:10
Alignment explanation
Indices: 16715519--16715548 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
16715509 ATCTGGAAAT
16715519 TTCGCCGGAG
1 TTCGCCGGAG
16715529 TTCGCCGGAG
1 TTCGCCGGAG
*
16715539 TTGGCCGGAG
1 TTCGCCGGAG
16715549 ATCACGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.27, G:0.43, T:0.20
Consensus pattern (10 bp):
TTCGCCGGAG
Found at i:16717073 original size:60 final size:59
Alignment explanation
Indices: 16716945--16717172 Score: 354
Period size: 60 Copynumber: 3.9 Consensus size: 59
16716935 TCTTGTGTGG
* *
16716945 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTGTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTTTAA
*
16717002 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAATATTTTTTTTTGAAACTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTGGAAA-TTTATTTTTAA
** *
16717062 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTTAAATTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTTTGGAAATTTATTTTTAA
16717122 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTT
16717173 TGATTTTTTT
Statistics
Matches: 158, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
56 2 0.01
57 31 0.20
59 23 0.15
60 88 0.56
61 14 0.09
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTTTAA
Found at i:16717211 original size:17 final size:17
Alignment explanation
Indices: 16717186--16717233 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
16717176 TTTTTTTATT
*
16717186 TAAAGAAAATAGAAT-AA
1 TAAAAAAAATA-AATAAA
16717203 TAAAAAAAATAAATAAA
1 TAAAAAAAATAAATAAA
16717220 TAATAAAAAATAAA
1 TAA-AAAAAATAAA
16717234 GAAACGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 3 0.11
17 15 0.54
18 10 0.36
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (17 bp):
TAAAAAAAATAAATAAA
Found at i:16717260 original size:17 final size:17
Alignment explanation
Indices: 16717213--16717273 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
16717203 TAAAAAAAAT
16717213 AAATAAATAATAAAA-AA
1 AAATAAA-AATAAAACAA
* **
16717230 TAAAGAAACGTAAAACAA
1 -AAATAAAAATAAAACAA
*
16717248 AAATAAAAATAAAACTA
1 AAATAAAAATAAAACAA
*
16717265 AGATAAAAA
1 AAATAAAAA
16717274 GAATATTAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
17 26 0.76
18 8 0.24
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (17 bp):
AAATAAAAATAAAACAA
Found at i:16718310 original size:3 final size:3
Alignment explanation
Indices: 16718302--16718340 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
16718292 TATTATAAAA
16718302 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16718341 CATATATAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16718466 original size:13 final size:14
Alignment explanation
Indices: 16718442--16718471 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
16718432 AATAAAACAC
16718442 AAAAGAAGAAAAGA
1 AAAAGAAGAAAAGA
16718456 AAAAGAA-AAAAGA
1 AAAAGAAGAAAAGA
16718469 AAA
1 AAA
16718472 TAATAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAGAAGAAAAGA
Found at i:16718539 original size:20 final size:21
Alignment explanation
Indices: 16718514--16718552 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16718504 TTACCCCATT
16718514 TGGGCCAGG-CCCAATTGGTC
1 TGGGCCAGGACCCAATTGGTC
*
16718534 TGGGCCTGGACCCAATTGG
1 TGGGCCAGGACCCAATTGG
16718553 GTGTCTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.21
Consensus pattern (21 bp):
TGGGCCAGGACCCAATTGGTC
Found at i:16718611 original size:9 final size:9
Alignment explanation
Indices: 16718597--16718621 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
16718587 TGAAAGAATG
16718597 AAAAAAATA
1 AAAAAAATA
16718606 AAAAAAATA
1 AAAAAAATA
16718615 AAAAAAA
1 AAAAAAA
16718622 GATGAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATA
Found at i:16719960 original size:46 final size:45
Alignment explanation
Indices: 16719891--16720031 Score: 169
Period size: 46 Copynumber: 3.0 Consensus size: 45
16719881 TGATGAAGTC
* *
16719891 TTGAGTTTTCAAATTAGAATCTTTAAGAAATCTTTAAATGAGAATCT
1 TTGAGTCTT-AAATAAGAATCTTTAAGAAATC-TTAAATGAGAATCT
* * *
16719938 TTGAGTCTTAAATGAA-AATCTTTAAAAAATCCTCAAATAAGAATCT
1 TTGAGTCTTAAAT-AAGAATCTTTAAGAAAT-CTTAAATGAGAATCT
16719984 TTGAGTCTTAAATAAGAATCTTTAAGAAAGTCTTAAATG-GAAATCT
1 TTGAGTCTTAAATAAGAATCTTTAAGAAA-TCTTAAATGAG-AATCT
16720030 TT
1 TT
16720032 AAGATGTTTT
Statistics
Matches: 81, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
45 3 0.04
46 67 0.83
47 11 0.14
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (45 bp):
TTGAGTCTTAAATAAGAATCTTTAAGAAATCTTAAATGAGAATCT
Found at i:16720062 original size:46 final size:46
Alignment explanation
Indices: 16720012--16720216 Score: 250
Period size: 46 Copynumber: 4.4 Consensus size: 46
16720002 TCTTTAAGAA
** * *
16720012 AGTCTTAAATG-GAAATCTTTAAGATGTTTTCAAATGAGAATCTTTG
1 AGTCTTAAATGAG-AATCTTTAAGAAATCTTCAAATGAAAATCTTTG
* * * * *
16720058 AGTCTCAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTA
1 AGTCTTAAATGAGAATCTTTAAGAAATCTTCAAATGAAAATCTTTG
* *
16720104 AGTTTTAAATGAGAATCTTTAAGAAATCCTCAAATGAAAATCTTTG
1 AGTCTTAAATGAGAATCTTTAAGAAATCTTCAAATGAAAATCTTTG
* * *
16720150 AGTCTTAAATAAGAATCTTTAAAAAATCTTCAAATGAAAATTTTTG
1 AGTCTTAAATGAGAATCTTTAAGAAATCTTCAAATGAAAATCTTTG
*
16720196 AGTTTTCAAATGAGAATCTTT
1 AGTCTT-AAATGAGAATCTTT
16720217 GAGATGTAAA
Statistics
Matches: 139, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
46 125 0.90
47 14 0.10
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (46 bp):
AGTCTTAAATGAGAATCTTTAAGAAATCTTCAAATGAAAATCTTTG
Found at i:16720065 original size:92 final size:91
Alignment explanation
Indices: 16719969--16720216 Score: 236
Period size: 92 Copynumber: 2.7 Consensus size: 91
16719959 TTAAAAAATC
*
16719969 CTCAAATAAGAATCTTT-GA-GTCTT-AAATAAGAATCTTTAAGAAAGTCTTAAATG-GAAATCT
1 CTCAAATAAGAATCTTTAGACATCTTCAAATAAGAATCTTT----AAGTCTTAAATGAG-AATCT
** ** *
16720030 TTAAGATGTTTTCAAATGAGAATCTTTGAGT
61 TTAAGAAATCCTCAAATGAAAATCTTTGAGT
* * * *
16720061 CTCAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTAAGTTTTAAATGAGAATCTTTAA
1 CTCAAATAAGAATCTTT-AGACATCTTCAAATAAGAATCTTTAAGTCTTAAATGAGAATCTTTAA
16720126 GAAATCCTCAAATGAAAATCTTTGAGT
65 GAAATCCTCAAATGAAAATCTTTGAGT
* * * * * *
16720153 CTTAAATAAGAATCTTTAAAAAATCTTCAAATGAA-AATTTTTGAGTTTTCAAATGAGAATCTTT
1 CTCAAATAAGAATCTTT-AGACATCTTCAAAT-AAGAATCTTTAAGTCTT-AAATGAGAATCTTT
16720217 GAGATGTAAA
Statistics
Matches: 131, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
92 97 0.74
93 16 0.12
94 2 0.02
95 3 0.02
96 13 0.10
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.36
Consensus pattern (91 bp):
CTCAAATAAGAATCTTTAGACATCTTCAAATAAGAATCTTTAAGTCTTAAATGAGAATCTTTAAG
AAATCCTCAAATGAAAATCTTTGAGT
Found at i:16720119 original size:117 final size:117
Alignment explanation
Indices: 16719899--16720148 Score: 324
Period size: 117 Copynumber: 2.1 Consensus size: 117
16719889 TCTTGAGTTT
* * *
16719899 TCAAATTAGAATCTTTAAGAAATCTTTAAATGAGAATCTTTGAGTCTTAAATGAAAATCTTTAAA
1 TCAAATGAAAATCTTTAAGAAATCTTTAAATGAGAATCTTTGAGTCTCAAATGAAAATCTTTAAA
*
16719964 AAATCCTCAAATAAGAATCTTTGAGTCTTAAATAAGAATCTTTAAGAAAGT-C
66 AAATCCTCAAATAAGAATCTTTAAGTCTTAAATAAGAATCTTTAAGAAA-TCC
* * ** *
16720016 TTAAATGGAAATCTTTAAGATGT-TTTCAAATGAGAATCTTTGAGTCTCAAATGAGAATCTTTAA
1 TCAAATGAAAATCTTTAAGAAATCTTT-AAATGAGAATCTTTGAGTCTCAAATGAAAATCTTTAA
* * ** * * *
16720080 GACATTTTCAAATGAGAATCTTTAAGTTTTAAATGAGAATCTTTAAGAAATCC
65 AAAATCCTCAAATAAGAATCTTTAAGTCTTAAATAAGAATCTTTAAGAAATCC
16720133 TCAAATGAAAATCTTT
1 TCAAATGAAAATCTTT
16720149 GAGTCTTAAA
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
116 4 0.04
117 109 0.96
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (117 bp):
TCAAATGAAAATCTTTAAGAAATCTTTAAATGAGAATCTTTGAGTCTCAAATGAAAATCTTTAAA
AAATCCTCAAATAAGAATCTTTAAGTCTTAAATAAGAATCTTTAAGAAATCC
Found at i:16720206 original size:22 final size:22
Alignment explanation
Indices: 16720018--16720219 Score: 106
Period size: 25 Copynumber: 8.8 Consensus size: 22
16720008 AGAAAGTCTT
*
16720018 AAATGGAAATCTTTAAGATGTTTTC
1 AAATGAAAATCTTT--GA-GTTTTC
* *
16720043 AAATGAGAATCTTTGAG-TCTC
1 AAATGAAAATCTTTGAGTTTTC
* *
16720064 AAATGAGAATCTTTAAGACATTTTC
1 AAATGAAAATCTTT--GA-GTTTTC
* *
16720089 AAATGAGAATCTTTAAGTTTT-
1 AAATGAAAATCTTTGAGTTTTC
* * **
16720110 AAATGAGAATCTTTAAGAAATCCTC
1 AAATGAAAATCTTT--G-AGTTTTC
*
16720135 AAATGAAAATCTTTGAGTCTT-
1 AAATGAAAATCTTTGAGTTTTC
* * *
16720156 AAAT-AAGAATCTTTAAAAAATCTTC
1 AAATGAA-AATCTTT---GAGTTTTC
*
16720181 AAATGAAAATTTTTGAGTTTTC
1 AAATGAAAATCTTTGAGTTTTC
*
16720203 AAATGAGAATCTTTGAG
1 AAATGAAAATCTTTGAG
16720220 ATGTAAAACC
Statistics
Matches: 141, Mismatches: 22, Indels: 31
0.73 0.11 0.16
Matches are distributed among these distances:
20 2 0.01
21 42 0.30
22 29 0.21
23 6 0.04
24 8 0.06
25 52 0.37
26 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (22 bp):
AAATGAAAATCTTTGAGTTTTC
Found at i:16720816 original size:41 final size:41
Alignment explanation
Indices: 16720710--16720823 Score: 147
Period size: 41 Copynumber: 2.8 Consensus size: 41
16720700 CCGGGAGCTT
* * ** *
16720710 TTTATTTTTCAAAGTCATCGAGCCTCTACTTGGGGGAGCCT
1 TTTATTTTTCAAAGTCATTGAGCCTCTATTTAAGGGAGCCC
*
16720751 TTTATTTTTCAAAGTCATTAAGCCTCTATTTAAGGGAGCCC
1 TTTATTTTTCAAAGTCATTGAGCCTCTATTTAAGGGAGCCC
* **
16720792 TTTATTTTTCTAAGTTGTTGAGCCTCTATTTA
1 TTTATTTTTCAAAGTCATTGAGCCTCTATTTA
16720824 GAGAAGCTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (41 bp):
TTTATTTTTCAAAGTCATTGAGCCTCTATTTAAGGGAGCCC
Found at i:16720841 original size:41 final size:41
Alignment explanation
Indices: 16720709--16720859 Score: 119
Period size: 41 Copynumber: 3.7 Consensus size: 41
16720699 TCCGGGAGCT
** ** * ** *
16720709 TTTTATTTTTCAAAGTCATCGAGCCTCTACTTGGGGGAGCC
1 TTTTATTTTTCAAAGTTGTTAAGCCTCTATTTAAGGAAGCC
** *
16720750 TTTTATTTTTCAAAGTCATTAAGCCTCTATTTAAGGGAGCC
1 TTTTATTTTTCAAAGTTGTTAAGCCTCTATTTAAGGAAGCC
* * *
16720791 CTTTATTTTTCTAAGTTGTTGAGCCTCTATTT-AGAGAAG-C
1 TTTTATTTTTCAAAGTTGTTAAGCCTCTATTTAAG-GAAGCC
*
16720831 TTTTATTTTTTCAAAAGTTG-TCAGCCTCT
1 TTTTA-TTTTTC-AAAGTTGTTAAGCCTCT
16720860 GCTTAGGGGA
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
40 7 0.08
41 80 0.86
42 6 0.06
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.43
Consensus pattern (41 bp):
TTTTATTTTTCAAAGTTGTTAAGCCTCTATTTAAGGAAGCC
Found at i:16722541 original size:11 final size:11
Alignment explanation
Indices: 16722527--16722567 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
16722517 TTTTTTTTGG
16722527 TATTTTTTATT
1 TATTTTTTATT
16722538 TATTTTTTATT
1 TATTTTTTATT
*
16722549 TATTTGTTTGTT
1 TATTT-TTTATT
16722561 TATTTTT
1 TATTTTT
16722568 AGGAGTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (11 bp):
TATTTTTTATT
Found at i:16722688 original size:59 final size:58
Alignment explanation
Indices: 16722622--16722848 Score: 314
Period size: 57 Copynumber: 3.9 Consensus size: 58
16722612 GATAAAAAAT
* *
16722622 AAAAAATATTTTTGAGAAAAAGTTGAAATTATTAATTTTCCTTGAAAATAAAATTTTC
1 AAAAAATATTTTTGAGAAAAAGTTAAAATTATCAATTTTCCTTGAAAATAAAATTTTC
* * *
16722680 AAAAAAATATTTTTGAGAAAAAGTTAAAATTTTCAATTTTCTTTAAAAATAAAATTTTC
1 -AAAAAATATTTTTGAGAAAAAGTTAAAATTATCAATTTTCCTTGAAAATAAAATTTTC
* * *
16722739 AAAAAA-CTTTTTGAGGAAAAGTTAAAAATATCAATTTTCCTTGAAAATAAAATTTTC
1 AAAAAATATTTTTGAGAAAAAGTTAAAATTATCAATTTTCCTTGAAAATAAAATTTTC
** * *
16722796 AAAAACCA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATGAAAA
1 AAAAAATATTTTTGAGAAAAAGTTAAAATTATCAATTTTCCTTGAAAAT-AAAA
16722849 CCTTAAAATG
Statistics
Matches: 150, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
57 87 0.58
58 10 0.07
59 53 0.35
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (58 bp):
AAAAAATATTTTTGAGAAAAAGTTAAAATTATCAATTTTCCTTGAAAATAAAATTTTC
Found at i:16722773 original size:57 final size:57
Alignment explanation
Indices: 16722630--16722893 Score: 309
Period size: 57 Copynumber: 4.6 Consensus size: 57
16722620 ATAAAAAATA
* * *
16722630 TTTTTGAGAAAAAGTTGAAATTATTAATTTTCCTTGAAAATAAAATTTTCAAAAAAATA
1 TTTTTGAGAAAAAGTTAAAATTATCAATTTTCCTTGAAAATAAAATTTTC-AAAAAA-C
* * *
16722689 TTTTTGAGAAAAAGTTAAAATTTTCAATTTTCTTTAAAAATAAAATTTTCAAAAAAC
1 TTTTTGAGAAAAAGTTAAAATTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAC
* * *
16722746 TTTTTGAGGAAAAGTTAAAAATATCAATTTTCCTTGAAAATAAAATTTTCAAAAACC
1 TTTTTGAGAAAAAGTTAAAATTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAC
* * * ** **
16722803 ATTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATGAAAACCTT-AAAATGC
1 TTTTTGAGAAAAAGTTAAAATTATCAATTTTCCTTGAAAAT-AAAATTTTCAAAAAAC
* * *
16722860 --TTTAAGAAAAAGTTAAAAGTATCAATTTTTCTTG
1 TTTTTGAGAAAAAGTTAAAATTATCAATTTTCCTTG
16722894 TATAAAAGCA
Statistics
Matches: 181, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
55 31 0.17
57 93 0.51
58 12 0.07
59 45 0.25
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.37
Consensus pattern (57 bp):
TTTTTGAGAAAAAGTTAAAATTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAC
Found at i:16722776 original size:116 final size:115
Alignment explanation
Indices: 16722630--16722893 Score: 320
Period size: 116 Copynumber: 2.3 Consensus size: 115
16722620 ATAAAAAATA
* * * *
16722630 TTTTTGAGAAAAAGTTGAAATTATTAATTTTCCTTGAAAATAAAATTTTCAAAAAAATATTTTTG
1 TTTTTGAGAAAAAGTTAAAAATATCAATTTTCCTTGAAAATAAAATTTTC-AAAAAACA-TTTTG
* * *
16722695 AGAAAAAGTTAAAATTTTCAATTTTCTTTAAAAAT-AAAATTTTCAAAAAAC
64 AGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATGAAAATTTTCAAAAAAC
* *
16722746 TTTTTGAGGAAAAGTTAAAAATATCAATTTTCCTTGAAAATAAAATTTTCAAAAACCATTTTGAG
1 TTTTTGAGAAAAAGTTAAAAATATCAATTTTCCTTGAAAATAAAATTTTCAAAAAACATTTTGAG
* * ** **
16722811 AAAAAGTTGAAAGTATCAATTTTCCTTGAAAATGAAAACCTT-AAAATGC
66 AAAAAGTTAAAAGTATCAATTTTCCTTAAAAATGAAAATTTTCAAAAAAC
* * *
16722860 --TTTAAGAAAAAGTTAAAAGTATCAATTTTTCTTG
1 TTTTTGAGAAAAAGTTAAAAATATCAATTTTCCTTG
16722894 TATAAAAGCA
Statistics
Matches: 128, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
112 30 0.23
114 40 0.31
115 12 0.09
116 46 0.36
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.37
Consensus pattern (115 bp):
TTTTTGAGAAAAAGTTAAAAATATCAATTTTCCTTGAAAATAAAATTTTCAAAAAACATTTTGAG
AAAAAGTTAAAAGTATCAATTTTCCTTAAAAATGAAAATTTTCAAAAAAC
Found at i:16727085 original size:20 final size:20
Alignment explanation
Indices: 16727062--16727099 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16727052 AAGTTAAAAA
16727062 TTTTTAAAAATTTCTAAACT
1 TTTTTAAAAATTTCTAAACT
* *
16727082 TTTTTCAAACTTTCTAAA
1 TTTTTAAAAATTTCTAAA
16727100 AAATTCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTTAAAAATTTCTAAACT
Found at i:16727248 original size:30 final size:30
Alignment explanation
Indices: 16727214--16727289 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
16727204 TAAAATAATA
*
16727214 TAAAAATTTTTAGAAAATTCCAACAAA-TTC
1 TAAAAATTTTTAAAAAATTCCAA-AAACTTC
* **
16727244 TAAAAAATTTTAAAAAATTTTAAAAACTTC
1 TAAAAATTTTTAAAAAATTCCAAAAACTTC
*
16727274 TAAAAATTTTTTAAAA
1 TAAAAATTTTTAAAAA
16727290 TTTTACAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 3 0.08
30 36 0.92
ACGTcount: A:0.54, C:0.08, G:0.01, T:0.37
Consensus pattern (30 bp):
TAAAAATTTTTAAAAAATTCCAAAAACTTC
Found at i:16727251 original size:10 final size:10
Alignment explanation
Indices: 16727093--16727279 Score: 76
Period size: 10 Copynumber: 18.9 Consensus size: 10
16727083 TTTTCAAACT
16727093 TTCTAAAAAA
1 TTCTAAAAAA
*
16727103 TTCAAAAAAA
1 TTCTAAAAAA
*** * *
16727113 AAATCAAATA
1 TTCTAAAAAA
* *
16727123 TTATAAGAAA
1 TTCTAAAAAA
**
16727133 TTC-AAAATT
1 TTCTAAAAAA
*
16727142 TTCTAAAATA
1 TTCTAAAAAA
16727152 TTCTAAAAAAA
1 TTCT-AAAAAA
* **
16727163 TT-TTAGCAA
1 TTCTAAAAAA
* *
16727172 TCCTAACAAA
1 TTCTAAAAAA
* *
16727182 TTTTCAAAAA
1 TTCTAAAAAA
*
16727192 TTCT-AAGAA
1 TTCTAAAAAA
16727201 TTCTAAAATAA
1 TTCTAAAA-AA
* *
16727212 -TATAAAAAT
1 TTCTAAAAAA
* *
16727221 TTTTAGAAAA
1 TTCTAAAAAA
* *
16727231 TTCCAACAAA
1 TTCTAAAAAA
16727241 TTCTAAAAAA
1 TTCTAAAAAA
*
16727251 TTTTAAAAAA
1 TTCTAAAAAA
* *
16727261 TTTTAAAAAC
1 TTCTAAAAAA
16727271 TTCTAAAAA
1 TTCTAAAAA
16727280 TTTTTTAAAA
Statistics
Matches: 125, Mismatches: 46, Indels: 12
0.68 0.25 0.07
Matches are distributed among these distances:
9 19 0.15
10 97 0.78
11 9 0.07
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (10 bp):
TTCTAAAAAA
Found at i:16727261 original size:20 final size:20
Alignment explanation
Indices: 16727145--16727334 Score: 92
Period size: 20 Copynumber: 9.8 Consensus size: 20
16727135 CAAAATTTTC
*
16727145 TAAAATATTCTAAAAAAATTT
1 TAAAAAATTCT-AAAAAATTT
** * *
16727166 T-AGCAATCCTAACAAATTT
1 TAAAAAATTCTAAAAAATTT
* * *
16727185 TCAAAAATTCT-AAGAATTC
1 TAAAAAATTCTAAAAAATTT
* *
16727204 TAAAATAA-TATAAAAATTTT
1 TAAAA-AATTCTAAAAAATTT
* * * *
16727224 TAGAAAATTCCAACAAATTC
1 TAAAAAATTCTAAAAAATTT
*
16727244 TAAAAAATTTTAAAAAATTT
1 TAAAAAATTCTAAAAAATTT
*
16727264 TAAAAACTTCT-AAAAATTT
1 TAAAAAATTCTAAAAAATTT
** * *
16727283 TTTAAAATTTTACAAAAA--C
1 TAAAAAATTCTA-AAAAATTT
*
16727302 T-AAAATTTC-AAAAAATTT
1 TAAAAAATTCTAAAAAATTT
*
16727320 CAAAAAATTC-AAAAA
1 TAAAAAATTCTAAAAA
16727335 GAATTAAGGA
Statistics
Matches: 120, Mismatches: 40, Indels: 20
0.67 0.22 0.11
Matches are distributed among these distances:
16 5 0.04
17 1 0.01
18 5 0.04
19 50 0.42
20 53 0.44
21 6 0.05
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAAAAATTCTAAAAAATTT
Found at i:16727299 original size:10 final size:9
Alignment explanation
Indices: 16727179--16727299 Score: 62
Period size: 10 Copynumber: 12.3 Consensus size: 9
16727169 CAATCCTAAC
16727179 AAATTTTCAA
1 AAATTTT-AA
*
16727189 AAATTCTAA
1 AAATTTTAA
* *
16727198 GAATTCTAA
1 AAATTTTAA
* *
16727207 AATAATATAA
1 AA-ATTTTAA
16727217 AAATTTTTAGA
1 AAA-TTTTA-A
**
16727228 AAATTCCAA
1 AAATTTTAA
*
16727237 CAAATTCTAAA
1 -AAATT-TTAA
16727248 AAATTTTAAA
1 AAATTTT-AA
16727258 AAATTTTAA
1 AAATTTTAA
*
16727267 AAACTTCTAA
1 AAA-TTTTAA
*
16727277 AAATTTTTTA
1 AAA-TTTTAA
16727287 AAATTTTACA
1 AAATTTTA-A
16727297 AAA
1 AAA
16727300 ACTAAAATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 16
0.72 0.14 0.13
Matches are distributed among these distances:
9 23 0.27
10 57 0.66
11 6 0.07
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.36
Consensus pattern (9 bp):
AAATTTTAA
Found at i:16727316 original size:10 final size:10
Alignment explanation
Indices: 16727303--16727334 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
16727293 TACAAAAACT
16727303 AAAATTTCAA
1 AAAATTTCAA
16727313 AAAATTTCAA
1 AAAATTTCAA
16727323 AAAA-TTCAA
1 AAAATTTCAA
16727332 AAA
1 AAA
16727335 GAATTAAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (10 bp):
AAAATTTCAA
Found at i:16727654 original size:19 final size:20
Alignment explanation
Indices: 16727605--16727657 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
16727595 ATCTTTTTAA
16727605 TTTAA-TTTTTTTTGAAAAAT
1 TTTAAGTTTTTTTT-AAAAAT
** *
16727625 TTTTGGATTTTTTT-AAAAT
1 TTTAAGTTTTTTTTAAAAAT
16727644 TTTAAGTTTTTTTT
1 TTTAAGTTTTTTTT
16727658 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 16 0.62
20 3 0.12
21 7 0.27
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (20 bp):
TTTAAGTTTTTTTTAAAAAT
Found at i:16728167 original size:20 final size:21
Alignment explanation
Indices: 16728144--16728186 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
16728134 ATTTAGAATG
*
16728144 TTTTT-AAGTTTTT-TAATTT
1 TTTTTGAAGTTTTTAAAATTT
16728163 TTTTTGAAGTTTTTAAAATTT
1 TTTTTGAAGTTTTTAAAATTT
16728184 TTT
1 TTT
16728187 AGAAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 8 0.38
21 8 0.38
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (21 bp):
TTTTTGAAGTTTTTAAAATTT
Found at i:16729005 original size:29 final size:29
Alignment explanation
Indices: 16728947--16729005 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
16728937 GATTATAGTG
* * *
16728947 AAATATTTAATGTATTATTTAATCTTTAA
1 AAATATTTAATGTAATATTAAATCTATAA
*
16728976 AAATTTTTAATGTAATAGTTAAAT-TATAA
1 AAATATTTAATGTAATA-TTAAATCTATAA
16729005 A
1 A
16729006 TTTGTTAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (29 bp):
AAATATTTAATGTAATATTAAATCTATAA
Found at i:16729990 original size:37 final size:37
Alignment explanation
Indices: 16729939--16730010 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
16729929 CACTTTTACA
*
16729939 AATAGATGTGGTTTTATTATTTCCTTGTGTAGTATAT
1 AATAGATGTGGTTTTATTATTTCCTAGTGTAGTATAT
* *
16729976 AATAGATGTTGTTTTATTGTTTCCTAGTGTAGTAT
1 AATAGATGTGGTTTTATTATTTCCTAGTGTAGTAT
16730011 GGATTAGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.06, G:0.19, T:0.51
Consensus pattern (37 bp):
AATAGATGTGGTTTTATTATTTCCTAGTGTAGTATAT
Found at i:16730468 original size:17 final size:18
Alignment explanation
Indices: 16730424--16730469 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
16730414 CAAGTCTAAT
16730424 GCAAATGAAT-AAAATTGG
1 GCAAAT-AATAAAAATTGG
* *
16730442 GAAAAAAATAAAAATT-G
1 GCAAATAATAAAAATTGG
16730459 GCAAATAATAA
1 GCAAATAATAA
16730470 CTTTCATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.61, C:0.04, G:0.15, T:0.20
Consensus pattern (18 bp):
GCAAATAATAAAAATTGG
Found at i:16731907 original size:28 final size:29
Alignment explanation
Indices: 16731869--16731951 Score: 98
Period size: 28 Copynumber: 2.8 Consensus size: 29
16731859 TATGGAATTT
**
16731869 AATACATAATAAAATTTACAATTCAATAA
1 AATACATAATAAAATACACAATTCAATAA
16731898 AATACA-AATAAAATACACAATTCAATAAA
1 AATACATAATAAAATACACAATTCAAT-AA
16731927 ACATA-ATAATAAAATAATCACAATT
1 A-ATACATAATAAAAT-A-CACAATT
16731952 TAATCAATCA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
28 18 0.38
29 10 0.21
30 11 0.23
31 1 0.02
32 7 0.15
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (29 bp):
AATACATAATAAAATACACAATTCAATAA
Found at i:16735186 original size:13 final size:14
Alignment explanation
Indices: 16735156--16735190 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
16735146 TTGAATTGTC
16735156 AAATTTTGAACTTT
1 AAATTTTGAACTTT
*
16735170 AAATTTTGATC-TT
1 AAATTTTGAACTTT
16735183 AAATTTTG
1 AAATTTTG
16735191 GATTTTAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (14 bp):
AAATTTTGAACTTT
Found at i:16745566 original size:2 final size:2
Alignment explanation
Indices: 16745559--16745583 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16745549 ATGATTTGGA
16745559 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
16745584 ATTTATAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16748875 original size:16 final size:16
Alignment explanation
Indices: 16748856--16748906 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 16
16748846 AAAAAAAGCA
16748856 TATAATTTAAAATTAT
1 TATAATTTAAAATTAT
*
16748872 TATAATATAATCAATTAAT
1 TATAATTTAA--AATT-AT
16748891 TATAATTTAAAATTAT
1 TATAATTTAAAATTAT
16748907 GTGAAGTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 11 0.37
17 4 0.13
18 4 0.13
19 11 0.37
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTTAAAATTAT
Found at i:16751074 original size:21 final size:20
Alignment explanation
Indices: 16751037--16751078 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
16751027 TTTTATAATT
**
16751037 CCAAAGTAAACTTTTTTGAAA
1 CCAAAGTAAACAATTTT-AAA
16751058 CCAAAGTAAACAATTTTAAA
1 CCAAAGTAAACAATTTTAAA
16751078 C
1 C
16751079 ATAAAAGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
CCAAAGTAAACAATTTTAAA
Found at i:16753506 original size:20 final size:20
Alignment explanation
Indices: 16753481--16753524 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
16753471 GAAAAAGGGA
16753481 AAAAGAAAA-AAGAGAAAAAG
1 AAAAGAAAAGAAG-GAAAAAG
*
16753501 AAAAGAAAAGAAGGAAAAAT
1 AAAAGAAAAGAAGGAAAAAG
16753521 AAAA
1 AAAA
16753525 AAGTAGTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (20 bp):
AAAAGAAAAGAAGGAAAAAG
Found at i:16753519 original size:15 final size:15
Alignment explanation
Indices: 16753468--16753504 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
16753458 CAAAATAAAG
*
16753468 AAAG-AAAAAGGGAA
1 AAAGAAAAAAGAGAA
16753482 AAAGAAAAAAGAGAA
1 AAAGAAAAAAGAGAA
16753497 AAAGAAAA
1 AAAGAAAA
16753505 GAAAAGAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAGAGAA
Found at i:16757336 original size:24 final size:23
Alignment explanation
Indices: 16757300--16757345 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
16757290 AAAAAATTTT
** *
16757300 GAAAAAATTGAAACACAACAAAAA
1 GAAAAAAAAGAAAAACAA-AAAAA
16757324 GAAAAAAAAGAAAAACAAAAAA
1 GAAAAAAAAGAAAAACAAAAAA
16757346 TAAAAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.78, C:0.09, G:0.09, T:0.04
Consensus pattern (23 bp):
GAAAAAAAAGAAAAACAAAAAAA
Found at i:16757451 original size:5 final size:5
Alignment explanation
Indices: 16757435--16757472 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
16757425 CATTTTTCTT
*
16757435 TTTAA TTTTAA TGTAA TTTAA TTTAA TTTAA TTTAA TT
1 TTTAA -TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TT
16757473 ATTTTTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (5 bp):
TTTAA
Found at i:16757528 original size:20 final size:20
Alignment explanation
Indices: 16757467--16757528 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
16757457 TTAATTTAAT
16757467 TTAATTATTTTTCA-TTA-TTA
1 TTAA-TATTTTT-ATTTATTTA
* * *
16757487 TTATTATTATTATTTATCTA
1 TTAATATTTTTATTTATTTA
16757507 TTAATATTTTTATTTATTTA
1 TTAATATTTTTATTTATTTA
16757527 TT
1 TT
16757529 TATCTATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 1 0.03
19 9 0.26
20 24 0.71
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TTAATATTTTTATTTATTTA
Found at i:16757535 original size:28 final size:28
Alignment explanation
Indices: 16757465--16757574 Score: 113
Period size: 28 Copynumber: 4.1 Consensus size: 28
16757455 ATTTAATTTA
* * * *
16757465 ATTTAATTATTTTTC-ATTATTATTATT
1 ATTTATTTATTTATCTATTAATATTTTT
16757492 A-TTA-TTATTTATCTATTAATATTTTT
1 ATTTATTTATTTATCTATTAATATTTTT
16757518 ATTTATTTATTTATCTATTAATATATTTT
1 ATTTATTTATTTATCTATTAATAT-TTTT
* **
16757547 A-TTATTTATCTAT-TATTTTTATTTTT
1 ATTTATTTATTTATCTATTAATATTTTT
16757573 AT
1 AT
16757575 CTTTTTCTTG
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
25 8 0.11
26 19 0.26
27 11 0.15
28 29 0.40
29 5 0.07
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (28 bp):
ATTTATTTATTTATCTATTAATATTTTT
Found at i:16757544 original size:24 final size:25
Alignment explanation
Indices: 16757457--16757571 Score: 110
Period size: 24 Copynumber: 4.5 Consensus size: 25
16757447 GTAATTTAAT
* *
16757457 TTAAT-TTAATTTAATTATTTTTC-A
1 TTAATATT-ATTTTATTATTTATCTA
*
16757481 TTATTATTATTATTATTATTTATCTA
1 TTAATATTATT-TTATTATTTATCTA
*
16757507 TTAATATTTTTATTTATTTATTTATCTA
1 TTAATA-TTAT-TTTA-TTATTTATCTA
16757535 TTAATA-TATTTTATTATTTATCTA
1 TTAATATTATTTTATTATTTATCTA
* *
16757559 TTATTTTTATTTT
1 TTAATATTATTTT
16757572 TATCTTTTTC
Statistics
Matches: 76, Mismatches: 8, Indels: 13
0.78 0.08 0.13
Matches are distributed among these distances:
24 22 0.29
25 22 0.29
26 8 0.11
27 6 0.08
28 18 0.24
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (25 bp):
TTAATATTATTTTATTATTTATCTA
Found at i:16757551 original size:20 final size:20
Alignment explanation
Indices: 16757523--16757569 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
16757513 TTTTTATTTA
16757523 TTTATTTATCTAT-TAATATAT
1 TTTA-TTATCTATCTAATAT-T
* *
16757544 TTTATTATTTATCTATTATT
1 TTTATTATCTATCTAATATT
16757564 TTTATT
1 TTTATT
16757570 TTTATCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTATTATCTATCTAATATT
Found at i:16758432 original size:17 final size:17
Alignment explanation
Indices: 16758399--16758432 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
16758389 AATTCAAGGT
16758399 TTATTTTATTTTATTTA
1 TTATTTTATTTTATTTA
16758416 TTATTATTATTTT-TTTA
1 TTATT-TTATTTTATTTA
16758433 ATTTAGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTTTATTTTATTTA
Found at i:16758443 original size:22 final size:23
Alignment explanation
Indices: 16758399--16758445 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
16758389 AATTCAAGGT
* **
16758399 TTATTTTATTTTATTTATTATTA
1 TTATTTTATTTAATTTAGAATTA
16758422 TTATTTT-TTTAATTTAGAATTA
1 TTATTTTATTTAATTTAGAATTA
16758444 TT
1 TT
16758446 TAGTATTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (23 bp):
TTATTTTATTTAATTTAGAATTA
Found at i:16758655 original size:109 final size:112
Alignment explanation
Indices: 16758523--16758732 Score: 286
Period size: 113 Copynumber: 1.9 Consensus size: 112
16758513 AAATTTCCAA
* * * *
16758523 AAAAAATATATTTTGAGAAAAAGTTGAAAGTATCAATTT-TTTTAAAGAT-AAA-TTTTAAAAAA
1 AAAAAATATATTTTAAGAAAAAGTTGAAAGTATCAATTTCTCTTAAAAATAAAAGGTTTAAAAAA
* **
16758585 -ATATATTTTT-GAAGGAAAGTTGATTGTATCAATTTCCTTTGAACAC
66 TATATATTTTTAG-AGAAAAGTTGAAAGTATCAATTTCCTTTGAACAC
* *
16758631 AAAAAATATTTTTTTAAGAGAAAGTTGAAAGTATCAATTTCTCTTAAAAATAAAAGGTTTAAAAA
1 AAAAAATA-TATTTTAAGAAAAAGTTGAAAGTATCAATTTCTCTTAAAAATAAAAGGTTTAAAAA
16758696 ATATATATTTTTAGAGAAAAGTTGAAAGTATCAATTT
65 ATATATATTTTTAGAGAAAAGTTGAAAGTATCAATTT
16758733 TTCTTAAAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
108 8 0.09
109 28 0.32
110 8 0.09
111 3 0.03
112 9 0.10
113 30 0.34
114 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (112 bp):
AAAAAATATATTTTAAGAAAAAGTTGAAAGTATCAATTTCTCTTAAAAATAAAAGGTTTAAAAAA
TATATATTTTTAGAGAAAAGTTGAAAGTATCAATTTCCTTTGAACAC
Found at i:16758756 original size:62 final size:60
Alignment explanation
Indices: 16758631--16758747 Score: 191
Period size: 62 Copynumber: 1.9 Consensus size: 60
16758621 CTTTGAACAC
16758631 AAAAAATATTTTTTTAAGAGAAAGTTGAAAGTATCAATTTCTCTTAAAAATAAAAGGTTT
1 AAAAAATATTTTTTTAAGAGAAAGTTGAAAGTATCAATTTCTCTTAAAAATAAAAGGTTT
*
16758691 AAAAAATATATATTTTT-AGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAA
1 AAAAAATAT-T-TTTTTAAGAG-AAAGTTGAAAGTATCAATTTCTCTTAAAAATAAAA
16758748 TTTCTAAAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
60 9 0.17
61 5 0.09
62 39 0.74
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.36
Consensus pattern (60 bp):
AAAAAATATTTTTTTAAGAGAAAGTTGAAAGTATCAATTTCTCTTAAAAATAAAAGGTTT
Found at i:16758771 original size:15 final size:14
Alignment explanation
Indices: 16758738--16758771 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
16758728 AATTTTTCTT
16758738 AAAAATAAAATTTC
1 AAAAATAAAATTTC
*
16758752 TAAAATAAAATTTTC
1 AAAAATAAAA-TTTC
16758767 AAAAA
1 AAAAA
16758772 GTATTTTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAATAAAATTTC
Found at i:16758790 original size:71 final size:67
Alignment explanation
Indices: 16758691--16758886 Score: 205
Period size: 71 Copynumber: 2.8 Consensus size: 67
16758681 TAAAAGGTTT
* * *
16758691 AAAAAATATATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCTAAA
1 AAAAAAAAAATATTTTGAG-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTT-TAAA
16758756 A-TA
64 AGTA
* * * * * *
16758759 AAATTTTCAAAAAGTATTTTGAGGAAAAGTTGAAAGTATCAAATTTTCTCAAAATTAGAATTTTA
1 AAA----AAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTA
16758824 AAAGTA
62 AAAGTA
* * * *
16758830 AAAAAAAAAACATTTTTGGGGAAAAGTTGAAAGTACCAATTTTCCTTAAAAATAAAA
1 AAAAAAAAAATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAA
16758887 ATTATCAAGA
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
67 6 0.06
68 40 0.39
70 5 0.05
71 41 0.40
72 11 0.11
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (67 bp):
AAAAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTAAAAG
TA
Found at i:16769464 original size:13 final size:12
Alignment explanation
Indices: 16769431--16769462 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
16769421 ACTATGCTTG
*
16769431 AAAAAAAAGGTA
1 AAAAAAAAGATA
16769443 AAAAAAAAGATA
1 AAAAAAAAGATA
16769455 AAAAAAAA
1 AAAAAAAA
16769463 AGGAATGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.06
Consensus pattern (12 bp):
AAAAAAAAGATA
Found at i:16770199 original size:16 final size:16
Alignment explanation
Indices: 16770178--16770208 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16770168 TGCATAGCAT
16770178 GCATTGAATTTCGCAC
1 GCATTGAATTTCGCAC
*
16770194 GCATTGCATTTCGCA
1 GCATTGAATTTCGCA
16770209 TTGCATTTCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (16 bp):
GCATTGAATTTCGCAC
Found at i:16770210 original size:12 final size:12
Alignment explanation
Indices: 16770193--16770233 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
16770183 GAATTTCGCA
16770193 CGCATTGCATTT
1 CGCATTGCATTT
16770205 CGCATTGCATTT
1 CGCATTGCATTT
*
16770217 CGCATTGTATTT
1 CGCATTGCATTT
16770229 CGCAT
1 CGCAT
16770234 AACATATACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.41
Consensus pattern (12 bp):
CGCATTGCATTT
Found at i:16770652 original size:42 final size:42
Alignment explanation
Indices: 16770491--16770690 Score: 240
Period size: 43 Copynumber: 4.7 Consensus size: 42
16770481 ATTGTCAAGG
* * *
16770491 AGCAATTTATTTTCTCAAAGTTTTGTTGCCTTTATTTAGAGG
1 AGCAATTTATTTTCTCAAAGTTCTGTTGCCTCTATTTAGAGA
* * *
16770533 AGCAATTTATTTTCCCCAATGTTCTATTGCCTCTATTTAGA-A
1 AGCAATTTATTTT-CTCAAAGTTCTGTTGCCTCTATTTAGAGA
* *
16770575 GAGCAATTTATTTTCCCCAAAGTTTTGTTGCCTCTATTTAGAGA
1 -AGCAATTTATTTT-CTCAAAGTTCTGTTGCCTCTATTTAGAGA
* * *
16770619 AGCCATTTATTTTCTCAAAGTTCTGTTGTCTCTATTTAGAGG
1 AGCAATTTATTTTCTCAAAGTTCTGTTGCCTCTATTTAGAGA
* *
16770661 AGCCATTTATTCTCTCAAAAGTTCTGTTGC
1 AGCAATTTATTTTCTC-AAAGTTCTGTTGC
16770691 ATTTGTTTAA
Statistics
Matches: 138, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
42 53 0.38
43 84 0.61
44 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.43
Consensus pattern (42 bp):
AGCAATTTATTTTCTCAAAGTTCTGTTGCCTCTATTTAGAGA
Found at i:16770658 original size:85 final size:86
Alignment explanation
Indices: 16770490--16770690 Score: 262
Period size: 85 Copynumber: 2.4 Consensus size: 86
16770480 GATTGTCAAG
* * * *
16770490 GAGCAATTTATTTT-CTCAAAGTTTTGTTGCCTTTATTTAGAGGAGCAATTTATTTTCCCCAATG
1 GAGCAATTTATTTTCCCCAAAGTTTTGTTGCCTCTATTTAGAGAAGCAATTTATTTTCCCCAAAG
16770554 TTCTATTGCCTCTATTTAGAA
66 TTCTATTGCCTCTATTTAGAA
* *
16770575 GAGCAATTTATTTTCCCCAAAGTTTTGTTGCCTCTATTTAGAGAAGCCATTTATTTT-CTCAAAG
1 GAGCAATTTATTTTCCCCAAAGTTTTGTTGCCTCTATTTAGAGAAGCAATTTATTTTCCCCAAAG
* * *
16770639 TTCTGTTGTCTCTATTTAGAG
66 TTCTATTGCCTCTATTTAGAA
* * * * *
16770660 GAGCCATTTATTCTCTCAAAAGTTCTGTTGC
1 GAGCAATTTATTTTCCCCAAAGTTTTGTTGC
16770691 ATTTGTTTAA
Statistics
Matches: 101, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 63 0.62
86 38 0.38
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.43
Consensus pattern (86 bp):
GAGCAATTTATTTTCCCCAAAGTTTTGTTGCCTCTATTTAGAGAAGCAATTTATTTTCCCCAAAG
TTCTATTGCCTCTATTTAGAA
Found at i:16770768 original size:42 final size:42
Alignment explanation
Indices: 16770711--16771006 Score: 283
Period size: 42 Copynumber: 7.0 Consensus size: 42
16770701 AGGAGCTTTG
* * * *
16770711 TTTATTTTTCCAAAGTTGTTGAGCCTTTGTTTAGAGGAGCAA
1 TTTACTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCAA
* *
16770753 TTTACTTTTCAAAAGTCGTTGAGCCTCTGTTTAAAGGAGTAA
1 TTTACTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCAA
* * * * *
16770795 TTCACTTTCCAAAAGTCTTTGAGCCTCTATTTAGAGGAGCTTTA
1 TTTACTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGC--AA
**
16770839 TTTA-TTTT-AAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
1 TTTACTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGC--AA
* *
16770881 TTTATATTTTC-AAAGTCATTGAGCCTCTGTTTAGAGGAGCAA
1 TTTA-CTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCAA
* * * ***
16770923 TTTACTTTCCAAAAGTCTTTAAGCCTCTGTTTAGAGGAGTTTTG
1 TTTACTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAG--CAA
* * **
16770967 TTTATTTTTCAAAAGTCGTTAAGCCTCTACTTAGAGGAGC
1 TTTACTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
16771007 TTTGTTTATT
Statistics
Matches: 212, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
41 4 0.02
42 135 0.64
43 3 0.01
44 70 0.33
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.40
Consensus pattern (42 bp):
TTTACTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCAA
Found at i:16770842 original size:86 final size:83
Alignment explanation
Indices: 16770648--16771006 Score: 323
Period size: 86 Copynumber: 4.2 Consensus size: 83
16770638 GTTCTGTTGT
* * * *
16770648 CTCTATTTAGAGGAGCCATTTATTCTCTCAAAAGTTCTGTT--GCATTTGTTTAAAGGAGCTTTG
1 CTCTATTTAGAGGAGCAATTTATT-T-TCAAAAG-TC-GTTGAGCCTCTGTTTAGAGGAG-TTTG
*
16770711 TTTATTTTTCCAAAGT-TGTTGAGC
61 TTTA-ATTTCCAAAGTCT-TTGAGC
* * * ** *
16770735 CTTTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTTGAGCCTCTGTTTAAAGGAG-TAATTCA
1 CTCTATTTAGAGGAGCAATTTA-TTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGTTTGTTTA
*
16770799 CTTTCCAAAAGTCTTTGAGC
65 ATTTCC-AAAGTCTTTGAGC
*
16770819 CTCTATTTAGAGGAGCTTTATTTATTTT-AAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTT
1 CTCTATTTAGAGGAGC--AATTTATTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAG-TTTGTT
* *
16770883 TATATTTTCAAAGTCATTGAGC
63 TA-ATTTCCAAAGTCTTTGAGC
* * * *
16770905 CTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGTCTTTAAGCCTCTGTTTAGAGGAGTTTTGTTT
1 CTCTATTTAGAGGAGCAATTTA-TTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAG-TTTGTTT
* * * *
16770970 ATTTTTCAAAAGTCGTTAAGC
64 A-ATTTCCAAAGTCTTTGAGC
*
16770991 CTCTACTTAGAGGAGC
1 CTCTATTTAGAGGAGC
16771007 TTTGTTTATT
Statistics
Matches: 228, Mismatches: 32, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
83 5 0.02
84 65 0.29
85 10 0.04
86 122 0.54
87 24 0.11
88 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.40
Consensus pattern (83 bp):
CTCTATTTAGAGGAGCAATTTATTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGTTTGTTTAA
TTTCCAAAGTCTTTGAGC
Found at i:16770896 original size:128 final size:128
Alignment explanation
Indices: 16770696--16771038 Score: 442
Period size: 128 Copynumber: 2.7 Consensus size: 128
16770686 GTTGCATTTG
* * * * ** *
16770696 TTTAAAGGAGCTTTGTTTATTTTTCCAAAGTTGTTGAGCCTTTGTTTAGAGGAGC--AATTTACT
1 TTTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATT
* *
16770759 TTTCAAAAGTCGTTGAGCCTCTGTTTAAAGGAGTAATTCACTTTCCAAAAGTCTTTGAGCCTCTA
66 TTTC-AAAGTC-TTGAGCCTCTGTTTAAAGGAGCAATTCACTTTCCAAAAGTCTTTAAGCCTCTA
*
16770824 TTTAGAGGAGCTTTATTTA-TTTT-AAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATA
1 TTTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTAT-
* * *
16770887 TTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGTCTTTAAGCCTCTG
65 TTTTCAAAGTC-TTGAGCCTCTGTTTAAAGGAGCAATTCACTTTCCAAAAGTCTTTAAGCCTCTA
* * **
16770952 TTTAGAGGAGTTTTGTTTATTTTTCAAAAGTCGTTAAGCCTCTACTTAGAGGAGCTTTGTTTATT
1 TTTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATT
*
16771017 TTACTCAAAGTCATGAGCCTCT
66 TT--TCAAAGTCTTGAGCCTCT
16771039 ACTTAAAAGA
Statistics
Matches: 188, Mismatches: 20, Indels: 12
0.85 0.09 0.05
Matches are distributed among these distances:
126 27 0.14
127 4 0.02
128 92 0.49
129 12 0.06
130 45 0.24
131 8 0.04
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (128 bp):
TTTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATT
TTTCAAAGTCTTGAGCCTCTGTTTAAAGGAGCAATTCACTTTCCAAAAGTCTTTAAGCCTCTA
Found at i:16771036 original size:44 final size:43
Alignment explanation
Indices: 16770696--16771053 Score: 282
Period size: 42 Copynumber: 8.3 Consensus size: 43
16770686 GTTGCATTTG
* * * *
16770696 TTTAAAGGAGCTTTGTTTATTTTTCCAAAGTTGTTGAGCCTTTG
1 TTTAGAGGAGCTTTGTTTATTTTT-CAAAGTCGTTGAGCCTCTA
** * *
16770740 TTTAGAGGAGC--AATTTACTTTTCAAAAGTCGTTGAGCCTCTG
1 TTTAGAGGAGCTTTGTTTATTTTTC-AAAGTCGTTGAGCCTCTA
* ** * * * *
16770782 TTTAAAGGAG--TAATTCACTTTCCAAAAGTCTTTGAGCCTCTA
1 TTTAGAGGAGCTTTGTTTATTTTTC-AAAGTCGTTGAGCCTCTA
* * *
16770824 TTTAGAGGAGCTTTATTTA-TTTTAAAAGTCGTTGAGCCTCTG
1 TTTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTA
* *
16770866 TTTAGAGGAGCTTTGTTTATATTTTCAAAGTCATTGAGCCTCTG
1 TTTAGAGGAGCTTTGTTTAT-TTTTCAAAGTCGTTGAGCCTCTA
** * * * * *
16770910 TTTAGAGGAGC--AATTTACTTTCCAAAAGTCTTTAAGCCTCTG
1 TTTAGAGGAGCTTTGTTTATTTTTC-AAAGTCGTTGAGCCTCTA
* *
16770952 TTTAGAGGAGTTTTGTTTATTTTTCAAAAGTCGTTAAGCCTCTA
1 TTTAGAGGAGCTTTGTTTATTTTTC-AAAGTCGTTGAGCCTCTA
* *
16770996 CTTAGAGGAGCTTTGTTTATTTTACTCAAAGTC-ATGAGCCTCTA
1 TTTAGAGGAGCTTTGTTTATTTT--TCAAAGTCGTTGAGCCTCTA
* * *
16771040 CTTAAAAGAGCTTT
1 TTTAGAGGAGCTTT
16771054 AATCAAAATT
Statistics
Matches: 263, Mismatches: 40, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
41 5 0.02
42 133 0.51
43 3 0.01
44 114 0.43
45 6 0.02
46 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41
Consensus pattern (43 bp):
TTTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTA
Found at i:16771233 original size:20 final size:20
Alignment explanation
Indices: 16771208--16771246 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16771198 GGCCTAGATA
*
16771208 AATTGGGCCTGGTCTAAATC
1 AATTGGGCCTGGTCCAAATC
16771228 AATTGGGCCTGGTCCAAAT
1 AATTGGGCCTGGTCCAAAT
16771247 GGGTAATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (20 bp):
AATTGGGCCTGGTCCAAATC
Found at i:16771306 original size:3 final size:3
Alignment explanation
Indices: 16771288--16771416 Score: 77
Period size: 3 Copynumber: 40.7 Consensus size: 3
16771278 ATTTAATTTA
* * *
16771288 ATT ATT TTT CATT ATT ATT ATG ATT ATT ATT ATTT ATCT ATT AAT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT A-TT AT-T ATT ATT ATT
*
16771336 -TT -TT ATTT ATTT ATCT ATT ATT ATT ATT ATTT AGTT ATCT ATT AAT
1 ATT ATT A-TT A-TT AT-T ATT ATT ATT ATT A-TT A-TT AT-T ATT ATT
* *
16771382 A-T ATT -TT ATT ATTT ATCT ATT ATT TTT ATT TTT AT
1 ATT ATT ATT ATT A-TT AT-T ATT ATT ATT ATT ATT AT
16771417 CCTTTTTCTT
Statistics
Matches: 102, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
2 8 0.08
3 61 0.60
4 33 0.32
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:16771345 original size:28 final size:27
Alignment explanation
Indices: 16771283--16771416 Score: 107
Period size: 28 Copynumber: 5.0 Consensus size: 27
16771273 TTTTAATTTA
* *
16771283 ATTTAATTATT-TTTCATTATTATTATG
1 ATTTATTTATTATTT-ATTATTATTATT
*
16771310 A-TTA-TTATTATTTATCTATTAATATT
1 ATTTATTTATTATTTAT-TATTATTATT
* *
16771336 TTTTATTTATTTATCTATTATTATTATT
1 ATTTATTTA-TTATTTATTATTATTATT
* *
16771364 ATTTAGTTATCTATTAATATATT-TTATT
1 ATTTATTTAT-TATTTAT-TATTATTATT
* *
16771392 ATTTATCTATTATTT-TTATTTTTAT
1 ATTTATTTATTATTTATTATTATTAT
16771417 CCTTTTTCTT
Statistics
Matches: 87, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
25 11 0.13
26 19 0.22
27 9 0.10
28 37 0.43
29 11 0.13
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (27 bp):
ATTTATTTATTATTTATTATTATTATT
Found at i:16771362 original size:48 final size:47
Alignment explanation
Indices: 16771299--16771416 Score: 166
Period size: 48 Copynumber: 2.5 Consensus size: 47
16771289 TTATTTTTCA
* *
16771299 TTAT-TATTATGATTATTATTATTTATCTATTAATATTTTTTATTTAT
1 TTATCTATTATTATTATTATTATTTATCTATTAATATATTTTA-TTAT
*
16771346 TTATCTATTATTATTATTATTTAGTTATCTATTAATATATTTTATTAT
1 TTATCTATTATTATTATTA-TTATTTATCTATTAATATATTTTATTAT
* *
16771394 TTATCTATTATTTTTATTTTTAT
1 TTATCTATTATTATTATTATTAT
16771417 CCTTTTTCTT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
47 7 0.11
48 34 0.54
49 22 0.35
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (47 bp):
TTATCTATTATTATTATTATTATTTATCTATTAATATATTTTATTAT
Found at i:16771365 original size:24 final size:24
Alignment explanation
Indices: 16771299--16771416 Score: 129
Period size: 24 Copynumber: 5.0 Consensus size: 24
16771289 TTATTTTTCA
*
16771299 TTAT-TATTATGATTATTA-TTAT
1 TTATCTATTATTATTATTATTTAT
* *
16771321 TTATCTATTAATATTTTTTATTTAT
1 TTATCTATTATTA-TTATTATTTAT
*
16771346 TTATCTATTATTATTATTATTTAG
1 TTATCTATTATTATTATTATTTAT
16771370 TTATCTATTAATATATT-TTA-TTAT
1 TTATCTATT-AT-TATTATTATTTAT
*
16771394 TTATCTATTATTTTTATT-TTTAT
1 TTATCTATTATTATTATTATTTAT
16771417 CCTTTTTCTT
Statistics
Matches: 81, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
22 7 0.09
23 14 0.17
24 35 0.43
25 21 0.26
26 4 0.05
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (24 bp):
TTATCTATTATTATTATTATTTAT
Found at i:16771390 original size:45 final size:45
Alignment explanation
Indices: 16771288--16771412 Score: 121
Period size: 45 Copynumber: 2.7 Consensus size: 45
16771278 ATTTAATTTA
* * *
16771288 ATTATTTTTCATTATTATTATGATTATTA-TTATTTATCTATTAAT
1 ATTATATTT-ATTATTATTATTATTATTATTTAGTTATCTATTAAT
*
16771333 ATTTTTTATTTATTTATCTATTATTATTATTATTTAGTTATCTATTAAT
1 A--TTATATTTA-TTAT-TATTATTATTATTATTTAGTTATCTATTAAT
*
16771382 A-TAT-TTTATTATTTATCTATTATTTTTATTT
1 ATTATATTTATTA-TTAT-TATTATTATTATTT
16771413 TTATCCTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
44 6 0.09
45 19 0.28
46 3 0.04
47 10 0.15
48 13 0.19
49 16 0.24
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (45 bp):
ATTATATTTATTATTATTATTATTATTATTTAGTTATCTATTAAT
Found at i:16772268 original size:3 final size:3
Alignment explanation
Indices: 16772241--16772280 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
16772231 GATTCAAGGT
16772241 TTA TT- TTA TT- TTA TT- TTA TTTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
16772281 ATTTAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
2 6 0.18
3 24 0.73
4 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:16772538 original size:62 final size:61
Alignment explanation
Indices: 16772451--16772567 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 61
16772441 CTTTGAACAC
* * *
16772451 AAAAAATATTTTTTTTAAGAGAAAGTTGAAAGTATCAATTTCTCTGGAAAATAAATGGTTT
1 AAAAAATATTATTTTTAAGAAAAAGTTGAAAGTATCAATTTCTCTGAAAAATAAATGGTTT
* * *
16772512 AAAAAATATATATTTTT-AGAAAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAA
1 AAAAAATAT-TATTTTTAAG-AAAAAGTTGAAAGTATCAATTTCTCTGAAAAATAAA
16772568 ATTTCTCAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
61 11 0.23
62 37 0.77
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.38
Consensus pattern (61 bp):
AAAAAATATTATTTTTAAGAAAAAGTTGAAAGTATCAATTTCTCTGAAAAATAAATGGTTT
Found at i:16773760 original size:15 final size:15
Alignment explanation
Indices: 16773742--16773806 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 15
16773732 TAATTTAATA
*
16773742 AAAAAGAATAAAAAC
1 AAAAAGAATAAAAAT
16773757 AAAAAGGAA-AAAAAGT
1 AAAAA-GAATAAAAA-T
* *
16773773 -AAAATAACAAAAAT
1 AAAAAGAATAAAAAT
16773787 AACAAA-AATAAAAAT
1 AA-AAAGAATAAAAAT
16773802 AAAAA
1 AAAAA
16773807 AGGAAAATGG
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
14 6 0.14
15 30 0.71
16 6 0.14
ACGTcount: A:0.80, C:0.05, G:0.06, T:0.09
Consensus pattern (15 bp):
AAAAAGAATAAAAAT
Found at i:16773785 original size:9 final size:9
Alignment explanation
Indices: 16773773--16773797 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
16773763 GAAAAAAAGT
16773773 AAAATAACA
1 AAAATAACA
16773782 AAAATAACA
1 AAAATAACA
16773791 AAAATAA
1 AAAATAA
16773798 AAATAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAACA
Found at i:16774639 original size:9 final size:9
Alignment explanation
Indices: 16774622--16774660 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
16774612 AAATTTATCT
*
16774622 AAATTAAAA
1 AAATAAAAA
16774631 AAATAAAAA
1 AAATAAAAA
**
16774640 AGCTAAAAA
1 AAATAAAAA
16774649 AAATAAAAA
1 AAATAAAAA
16774658 AAA
1 AAA
16774661 AACCTAAGGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (9 bp):
AAATAAAAA
Found at i:16775962 original size:13 final size:13
Alignment explanation
Indices: 16775944--16775970 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16775934 GATTCAAAAC
16775944 ATTTTTTATATGA
1 ATTTTTTATATGA
16775957 ATTTTTTATATGA
1 ATTTTTTATATGA
16775970 A
1 A
16775971 AAAATCTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (13 bp):
ATTTTTTATATGA
Found at i:16776629 original size:13 final size:13
Alignment explanation
Indices: 16776592--16776637 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
16776582 AATAGGAATG
16776592 AAGAT-AATAAAA
1 AAGATAAATAAAA
* * *
16776604 AATAGAAAAAAAA
1 AAGATAAATAAAA
16776617 AAGATAAATAAAA
1 AAGATAAATAAAA
16776630 AAGATAAA
1 AAGATAAA
16776638 ATTACCAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
12 3 0.11
13 24 0.89
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (13 bp):
AAGATAAATAAAA
Found at i:16778386 original size:38 final size:37
Alignment explanation
Indices: 16778322--16778403 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 37
16778312 TATTAAATTA
* *
16778322 AAATATAAATTTATAATTATTAATAAAGTACATATATAT
1 AAATATAAAATTATAATAATTAATAAA--ACATATATAT
* *
16778361 AAATATAAAATTA-AATAATTAATAAAATATATATTT
1 AAATATAAAATTATAATAATTAATAAAACATATATAT
16778397 AAATATA
1 AAATATA
16778404 CTCAAGAAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
36 15 0.38
38 12 0.31
39 12 0.31
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (37 bp):
AAATATAAAATTATAATAATTAATAAAACATATATAT
Found at i:16778644 original size:16 final size:17
Alignment explanation
Indices: 16778625--16778670 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
16778615 TTAAAATTTT
*
16778625 AAAAAGTAAAA-AAGAA
1 AAAAAGTAAAATAAAAA
*
16778641 AAAAAGCAAAATAAAAA
1 AAAAAGTAAAATAAAAA
*
16778658 AAAAAGTGAAATA
1 AAAAAGTAAAATA
16778671 GGCTTTCCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (17 bp):
AAAAAGTAAAATAAAAA
Found at i:16779389 original size:115 final size:117
Alignment explanation
Indices: 16779254--16779510 Score: 412
Period size: 117 Copynumber: 2.2 Consensus size: 117
16779244 GATCCTACAA
*
16779254 AAAAAATAAAATCTAAAATATATTTATTAAATATTTAAAA-AGAGAAAATAAGT-AAAAAGGCAA
1 AAAAAATGAAATCTAAAATATATTTATTAAATATTTAAAAGA-AGAAAATAAGTAAAAAAGGCAA
* * *
16779317 AAAAA-AAAAACAATAAAAGAATAAAAGCTTGGTATCAGTGAATCACACATGC
65 AAAAAGAAAAACAATAAAAAAATAAAAGCTTGATATAAGTGAATCACACATGC
*
16779369 AATAAATGAAATCTAAAATATATTTATTAAATATTTAAAAGAAGAAAATAAGTAAAAAAGGCAAA
1 AAAAAATGAAATCTAAAATATATTTATTAAATATTTAAAAGAAGAAAATAAGTAAAAAAGGCAAA
*
16779434 AAAAGAAAAACAATAAAAAAATAAAGGCTTGATATAAGTGAATCACACATGC
66 AAAAGAAAAACAATAAAAAAATAAAAGCTTGATATAAGTGAATCACACATGC
16779486 AAAAAATGAAATCTTTAAAATATAT
1 AAAAAATGAAATC--TAAAATATAT
16779511 ATTTTATTAA
Statistics
Matches: 130, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
115 49 0.38
116 16 0.12
117 55 0.42
119 10 0.08
ACGTcount: A:0.60, C:0.07, G:0.10, T:0.23
Consensus pattern (117 bp):
AAAAAATGAAATCTAAAATATATTTATTAAATATTTAAAAGAAGAAAATAAGTAAAAAAGGCAAA
AAAAGAAAAACAATAAAAAAATAAAAGCTTGATATAAGTGAATCACACATGC
Found at i:16779601 original size:20 final size:20
Alignment explanation
Indices: 16779578--16779615 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
16779568 GAGAAAAGTT
16779578 AAAAACAAAAAAAAAAACCA
1 AAAAACAAAAAAAAAAACCA
*
16779598 AAAAACAAAAAAGAAAAC
1 AAAAACAAAAAAAAAAAC
16779616 TTTAGTATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (20 bp):
AAAAACAAAAAAAAAAACCA
Found at i:16781027 original size:18 final size:19
Alignment explanation
Indices: 16781006--16781051 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
16780996 AATAATATAT
16781006 AAATATAATATAAAT-TTA
1 AAATATAATATAAATATTA
16781024 AAAT-TAA-ATAAATAATTA
1 AAATATAATATAAAT-ATTA
16781042 AAAGTATAAT
1 AAA-TATAAT
16781052 TTTATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 6 0.26
17 3 0.13
18 10 0.43
19 1 0.04
20 3 0.13
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAATATAATATAAATATTA
Found at i:16781809 original size:27 final size:27
Alignment explanation
Indices: 16781778--16781830 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
16781768 AAAAAACTAA
* * *
16781778 AAAAAATAAAAGAAAAGATGAAAAGATG
1 AAAAAA-AGAAGAAAAAAAGAAAAGATG
16781806 AAAAAAAGAAGAAAAAAAGAAAAGA
1 AAAAAAAGAAGAAAAAAAGAAAAGA
16781831 GTTGAATTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (27 bp):
AAAAAAAGAAGAAAAAAAGAAAAGATG
Found at i:16781827 original size:19 final size:19
Alignment explanation
Indices: 16781790--16781828 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
16781780 AAAATAAAAG
* * *
16781790 AAAAGATGAAAAGATGAAA
1 AAAAGAAGAAAAAAAGAAA
16781809 AAAAGAAGAAAAAAAGAAA
1 AAAAGAAGAAAAAAAGAAA
16781828 A
1 A
16781829 GAGTTGAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (19 bp):
AAAAGAAGAAAAAAAGAAA
Found at i:16782225 original size:15 final size:15
Alignment explanation
Indices: 16782205--16782239 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
16782195 CTAAATATAT
16782205 TAAAAAATAAAAAAG
1 TAAAAAATAAAAAAG
*
16782220 TAAAAAGTAAAAAAG
1 TAAAAAATAAAAAAG
16782235 -AAAAA
1 TAAAAA
16782240 CAAGCGGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (15 bp):
TAAAAAATAAAAAAG
Found at i:16782715 original size:11 final size:11
Alignment explanation
Indices: 16782693--16782749 Score: 54
Period size: 10 Copynumber: 5.7 Consensus size: 11
16782683 ATTCAAAATA
16782693 TAAAAAAT-TT
1 TAAAAAATATT
16782703 TAAAAAATATT
1 TAAAAAATATT
16782714 T-AAAAATATT
1 TAAAAAATATT
**
16782724 TATTAAATA--
1 TAAAAAATATT
16782733 T-AAAAA-ATT
1 TAAAAAATATT
16782742 TAAAAAAT
1 TAAAAAAT
16782750 TAAATAGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
7 1 0.03
8 3 0.08
9 2 0.05
10 23 0.62
11 8 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TAAAAAATATT
Found at i:16782771 original size:23 final size:23
Alignment explanation
Indices: 16782725--16782772 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
16782715 AAAAATATTT
* **
16782725 ATTAAATATAAAAAATTTAAAAA
1 ATTAAATAGAAAAAAAATAAAAA
16782748 ATTAAATAGAAAAAAAATAGAAAA
1 ATTAAATAGAAAAAAAATA-AAAA
16782772 A
1 A
16782773 ATGAAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (23 bp):
ATTAAATAGAAAAAAAATAAAAA
Found at i:16783008 original size:23 final size:25
Alignment explanation
Indices: 16782975--16783020 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
16782965 TATAGAAATA
16782975 TAAAAAGAGAAAAG-CAAAAAAGGT
1 TAAAAAGAGAAAAGTCAAAAAAGGT
*
16782999 TAAAAA-AGAAAAGTGAAAAAAG
1 TAAAAAGAGAAAAGTCAAAAAAG
16783021 AAAACTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.70, C:0.02, G:0.20, T:0.09
Consensus pattern (25 bp):
TAAAAAGAGAAAAGTCAAAAAAGGT
Found at i:16783023 original size:653 final size:652
Alignment explanation
Indices: 16782039--16783307 Score: 1617
Period size: 653 Copynumber: 1.9 Consensus size: 652
16782029 GAGCCCCATA
*
16782039 TTAAAAAATTTTAAAATATTTATTAAATATAAAAAATTTTAAAAAAGTATATAGAAAAAATGAAA
1 TTAAAAAATTTTAAAATATTTATTAAATATAAAAAATTTTAAAAAAGTAAATAGAAAAAATGAAA
* * *
16782104 AAGTGAAAAAAAGTAATCAAATATCTAGTACATAATCAATCATTGATATCAAATGGGTATAAAAA
66 AAATGAAAAAAAGTAATCAAATAACTAGCACATAATCAATCATTGATATCAAATGGGTAT-AAAA
*
16782169 AAATTAAAATCTAAAAAAGTTATGTACTAAATATATTAAAAAATAAAAAAGTAAAAAGTAAAAAA
130 AAATTAAAATATAAAAAAGTTATGTACTAAATATATT--AAAATAAAAAAGTAAAAAGT-----A
* * **
16782234 GAAAAACAAGCGGCACTCTTAGTATCAAGTGGGTTCCATATAAAAAAATAAAAATTTTAAAATAT
188 GAAAAACAAGCGGCACTCTTAGTATCAACTGGGTTCCATACAAAAAAATAAAAATTAAAAAATAT
* * *
16782299 CTATTAAATATTTATAGATATATAAATAGAGAAAAGCAAAAAAAGTTAAAAAAAGAAAAGCAAAA
253 ATATTAAATATTTATAGAAATATAAAAAGAGAAAAGCAAAAAAAGTTAAAAAAAGAAAAGCAAAA
* * *
16782364 AAAGAAAATTTTTTATATAAATGGATTCCATATAAAAAAGAATAAAATCTAAAAAACTATATTTT
318 AAAGAAAACTTTTTATATAAATGGATCCCATATAAAAAAGAATAAAATCTAAAAAACTAAATTTT
*
16782429 TTAGCA-TTTAAA-AA-TTATTAAATATTTAATAAAAA-AGATAAAGTAAAAAAAATAAAAAAAA
383 TTAG-ATTTTAAAGAATTTATTAAATATTTAATAAAAACAGATAAAATAAAAAAAATAAAAAAAA
* * *
16782490 GGACAAAATAAGCATGTGACACGTGACACACCCAAAGGTGATCG-ATATGAGTAAAATTAACTAT
447 --A-AAAATAAGCATGTGACACGTGACACACCCAAAAGTGATAGTACATGAGTAAAATTAACTAT
** * *
16782554 A-TAGATAGATAGATAGATTATTGGTTCAATGGTTAATGCTATTGAAATTCTTTACAAATAATGG
509 ATTA-ATAGATAGAT-GATTA---GCCCAATAGTTAATGCTATTGAAATTCTTTACAAATAATGA
*
16782618 AAAGACTTCAAGTTTGAATCAAGAGTTTAGCATATTTTTAAGATGTGGTATCCAATAATTTTGAG
569 AAAGACTTCAAGTTTGAATCAAGAGTTTAACATATTTTTAAGATGTGGTATCCAATAATTTTGAG
16782683 ATTCAAAATATAAAAAATT
634 ATTCAAAATATAAAAAATT
*
16782702 TTAAAAAATATTTAAAAATATTTATTAAATATAAAAAA-TTTAAAAAATTAAATAGAAAAAAAAT
1 TTAAAAAAT-TTT-AAAATATTTATTAAATATAAAAAATTTTAAAAAAGTAAATAG--AAAAAAT
* *
16782766 AGAAAAAATG-AAAAAA-TAATCAAATAACTTGACACATGA--AATACTATTGATAT-AAAGTGG
62 -GAAAAAATGAAAAAAAGTAATCAAATAACTAG-CACATAATCAAT-C-ATTGATATCAAA-TGG
* * * * * * *
16782826 GTCT-AAAAAATTAAATTATAAAAACA-TTATTTATTAAATATATT-AAA-AAACATGTAAAAGG
122 GTATAAAAAAATTAAAATATAAAAA-AGTTATGTACTAAATATATTAAAATAAAAAAGTAAAAAG
* *
16782887 T-GAAAAA-AATGTGGCACTCTTGGTATCAACT-GGTTCCATACAAAAAAAT-AAAATCTAAAAA
186 TAGAAAAACAA-GCGGCACTCTTAGTATCAACTGGGTTCCATACAAAAAAATAAAAAT-T-AAAA
*
16782948 AATATATATTAAATATTTATAGAAATATAAAAAGAGAAAAGCAAAAAAGGTT-AAAAAAGAAAAG
248 AATATATATTAAATATTTATAGAAATATAAAAAGAGAAAAGCAAAAAAAGTTAAAAAAAGAAAAG
** * *
16783012 TGAAAAAAGAAAACTTTTTATATAAATGGATCCCATATATAAAAGAATAAAATCTTAAAAACTAA
313 CAAAAAAAGAAAACTTTTTATATAAATGGATCCCATATAAAAAAGAATAAAATCTAAAAAACTAA
**
16783077 ATTTTTTAGATTTTAAAGAATTTATTAAATATTTTTTAAAAACAGATAAAATAAAAAAAATAAAA
378 ATTTTTTAGATTTTAAAGAATTTATTAAATATTTAATAAAAACAGATAAAATAAAAAAAATAAAA
* ** * * * * *
16783142 TAAAAAGGATGAGCGTGTGACATGTGATACACCCAAAAGTGATAGTACATGAGTAAAATTAATTA
443 AAAAAAAAATAAGCATGTGACACGTGACACACCCAAAAGTGATAGTACATGAGTAAAATTAACTA
* *
16783207 TATTAATAGATAGATGATTAGCCCAATAGTTAATGCTGTTGAAATTTTTTACAAATAATGAAAAG
508 TATTAATAGATAGATGATTAGCCCAATAGTTAATGCTATTGAAATTCTTTACAAATAATGAAAAG
* * *
16783272 ACTTCAAGTTTGAATTAAGGGTTTAACTTATTTTTA
573 ACTTCAAGTTTGAATCAAGAGTTTAACATATTTTTA
16783308 GGAGATGATA
Statistics
Matches: 531, Mismatches: 56, Indels: 51
0.83 0.09 0.08
Matches are distributed among these distances:
650 71 0.13
652 6 0.01
653 142 0.27
654 106 0.20
655 21 0.04
656 24 0.05
660 12 0.02
661 3 0.01
663 9 0.02
664 55 0.10
665 42 0.08
666 32 0.06
667 8 0.02
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.30
Consensus pattern (652 bp):
TTAAAAAATTTTAAAATATTTATTAAATATAAAAAATTTTAAAAAAGTAAATAGAAAAAATGAAA
AAATGAAAAAAAGTAATCAAATAACTAGCACATAATCAATCATTGATATCAAATGGGTATAAAAA
AATTAAAATATAAAAAAGTTATGTACTAAATATATTAAAATAAAAAAGTAAAAAGTAGAAAAACA
AGCGGCACTCTTAGTATCAACTGGGTTCCATACAAAAAAATAAAAATTAAAAAATATATATTAAA
TATTTATAGAAATATAAAAAGAGAAAAGCAAAAAAAGTTAAAAAAAGAAAAGCAAAAAAAGAAAA
CTTTTTATATAAATGGATCCCATATAAAAAAGAATAAAATCTAAAAAACTAAATTTTTTAGATTT
TAAAGAATTTATTAAATATTTAATAAAAACAGATAAAATAAAAAAAATAAAAAAAAAAAAATAAG
CATGTGACACGTGACACACCCAAAAGTGATAGTACATGAGTAAAATTAACTATATTAATAGATAG
ATGATTAGCCCAATAGTTAATGCTATTGAAATTCTTTACAAATAATGAAAAGACTTCAAGTTTGA
ATCAAGAGTTTAACATATTTTTAAGATGTGGTATCCAATAATTTTGAGATTCAAAATATAAAAAA
TT
Found at i:16787942 original size:117 final size:116
Alignment explanation
Indices: 16787684--16788147 Score: 620
Period size: 119 Copynumber: 4.0 Consensus size: 116
16787674 TCTTGTGCAG
* *
16787684 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TTTATTTTT-GAAAATT-TTATTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAACTTT-TTTTTGGAAATTTATTTTTAAGGAAAA
* * *
16787746 TTGATACTTTCAACTTTTCCCCAACAATCTTTTTTTTTGAAAATTT-ATTTCTAA
65 TTGATACTTTCAACTTTTCCCCAA-AA-ATATTTTTTTGAAATTTTAATTTC-AA
* *
16787800 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGGAAATTTTATTTTTAAGAAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAACTTTTTTTTGGAAA-TTTATTTTTAAGGAAAA
*
16787864 TTGATGCTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTAATTTCGAA
65 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTAATTTC-AA
16787917 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATCTTTTTTTTGG-AATTTATTTTTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-CTTTTTTTTGGAAATTTATTTTTAAGGAAAA
* *
16787981 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTGATTTTCAA
65 TTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTG-AAATTTT-AATTTCAA
* * *
16788036 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTT-GAAATTTATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-CTTTTTTTTGGAAATTTATTTTTAAGGAAAA
* * * *
16788100 TTGATACTTTCAACTTTTCCCTAAAAAT-TTCTTTAGAAATTTTGATTT
65 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTAATTT
16788148 TTTATTTAAA
Statistics
Matches: 316, Mismatches: 22, Indels: 21
0.88 0.06 0.06
Matches are distributed among these distances:
115 8 0.03
116 61 0.19
117 93 0.29
118 45 0.14
119 104 0.33
120 5 0.02
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (116 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAACTTTTTTTTGGAAATTTATTTTTAAGGAAAAT
TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTAATTTCAA
Found at i:16788058 original size:119 final size:117
Alignment explanation
Indices: 16787684--16788148 Score: 636
Period size: 117 Copynumber: 4.0 Consensus size: 117
16787674 TCTTGTGCAG
* * *
16787684 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTATTTTTGAAAATT-TTATTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTGAAATTTATTTTTAAGGAAAATT
* * * *
16787748 GATACTTTCAACTTTTCCCCAACAATCTTTTTTTTTGAAAATTTA-TTTCTAA
66 GATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTTTGAAATTTTATTTTCGAA
* * *
16787800 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTATTTTTAAGAAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTGAAA-TTTATTTTTAAGGAAAAT
* *
16787865 TGATGCTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAATTTTAATTTCGAA
65 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATTTTCGAA
*
16787917 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATCTTTTTTTTGGAATTTATTTTTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAT-TTTTTTTTGAAATTTATTTTTAAGGAAAAT
*
16787982 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTGATTTTC-AA
65 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTG-AAATTTT-ATTTTCGAA
* ** *
16788036 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTATTTTCAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TTTTTTTTTGAAATTTATTTTTAAGGAAAAT
* * *
16788101 TGATACTTTCAACTTTT-CCCTAAAA-ATTTCTTTAGAAATTTTGATTTT
65 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTT-ATTTT
16788149 TTATTTAAAG
Statistics
Matches: 314, Mismatches: 27, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
116 71 0.23
117 93 0.30
118 60 0.19
119 85 0.27
120 5 0.02
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.45
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTGAAATTTATTTTTAAGGAAAATT
GATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATTTTCGAA
Found at i:16788148 original size:58 final size:57
Alignment explanation
Indices: 16787684--16788148 Score: 591
Period size: 58 Copynumber: 7.9 Consensus size: 57
16787674 TCTTGTGCAG
16787684 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTATTTTTGAAAATTTTA--TT-AA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTT-TTTTTG-AAATTTTATTTTCAA
* *
16787740 GGAAAATTGATACTTTCAACTTTTCCCCAACAATCTTTTTTTTTGAAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAA-AA--ATTTTTTTTGAAATTTTATTTTC-AA
* *
16787800 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAT-TTTTTTTGAAATTTTATTTTCAA
* * *
16787858 GAAAAATTGATGCTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTAATTTCGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAT-TTTTTTTGAAATTTTATTTTC-AA
* *
16787917 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATCTTTTTTTTGGAA-TTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA--TTTTTTTTGAAATTTTATTTTCAA
*
16787975 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCC-CAAAA-ATTTTTTTTG-AAATTTT-ATTTTCAA
* *
16788036 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAA-TTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA--TTTTTTTTGAAATTTTATTTTCAA
* * *
16788094 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATTTCTTTAGAAATTTTGATTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTGAAATTTT-ATTTT
16788149 TTATTTAAAG
Statistics
Matches: 362, Mismatches: 27, Indels: 38
0.85 0.06 0.09
Matches are distributed among these distances:
56 39 0.11
57 13 0.04
58 157 0.43
59 58 0.16
60 53 0.15
61 42 0.12
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.45
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTGAAATTTTATTTTCAA
Found at i:16788412 original size:14 final size:14
Alignment explanation
Indices: 16788380--16788416 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
16788370 AGGAAGAGAA
16788380 AACGGCTC--GGAG
1 AACGGCTCGGGGAG
16788392 AAGCGGCTCGGGGAG
1 AA-CGGCTCGGGGAG
16788407 AACGGCTCGG
1 AACGGCTCGG
16788417 CTCGGCTCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.09
13 6 0.27
14 8 0.36
15 6 0.27
ACGTcount: A:0.22, C:0.24, G:0.46, T:0.08
Consensus pattern (14 bp):
AACGGCTCGGGGAG
Found at i:16788706 original size:20 final size:19
Alignment explanation
Indices: 16788657--16788707 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
16788647 ACCGGTGGGG
*
16788657 TTTCGTCGGATTCTGGAAA
1 TTTCGTCGGAATCTGGAAA
*
16788676 TTCTCGCCGGAATCTGGAAAA
1 TT-TCGTCGGAATCTGG-AAA
16788697 TTTCGTCGGAA
1 TTTCGTCGGAA
16788708 GTTCACCGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 20 0.74
21 5 0.19
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (19 bp):
TTTCGTCGGAATCTGGAAA
Found at i:16789227 original size:43 final size:43
Alignment explanation
Indices: 16789167--16789304 Score: 108
Period size: 44 Copynumber: 3.2 Consensus size: 43
16789157 AATCAAAAAT
16789167 AAAAAAAATA-CTAGATAATAATCAGATAAATCAAAAGATATTA
1 AAAAAAAATATCT-GATAATAATCAGATAAATCAAAAGATATTA
*
16789210 AAAAAAAATATCTG---ATAATCAGGAAAAATCAGAACAGATAATTA
1 AAAAAAAATATCTGATAATAATCA-GATAAATCA-AA-AGAT-ATTA
* * * * *
16789254 AAAAAAAA-ATAATAATAA-AATAAGATAAACCCAAAAATATATTA
1 AAAAAAAATAT-CTGATAATAATCAGATAAA-TC-AAAAGATATTA
16789298 AAAAAAA
1 AAAAAAA
16789305 TAATAATAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
40 7 0.09
41 8 0.10
42 2 0.03
43 17 0.22
44 26 0.34
45 8 0.10
46 7 0.09
47 2 0.03
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.20
Consensus pattern (43 bp):
AAAAAAAATATCTGATAATAATCAGATAAATCAAAAGATATTA
Found at i:16789269 original size:41 final size:38
Alignment explanation
Indices: 16789181--16789269 Score: 99
Period size: 41 Copynumber: 2.2 Consensus size: 38
16789171 AAAATACTAG
*
16789181 ATAATAATCAGATAAATCAAAAGATATTAAAAAAAAAT
1 ATAATAATCAGAAAAATCAAAAGATATTAAAAAAAAAT
*
16789219 ATCTGATAATCAGGAAAAATCAGAACAGATAATTAAAAAAAAA-
1 A--TAATAATCA-GAAAAATCA-AA-AGAT-ATTAAAAAAAAAT
16789262 ATAATAAT
1 ATAATAAT
16789270 AAAATAAGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
38 1 0.02
40 8 0.19
41 14 0.33
42 2 0.05
43 5 0.12
44 12 0.29
ACGTcount: A:0.63, C:0.07, G:0.08, T:0.22
Consensus pattern (38 bp):
ATAATAATCAGAAAAATCAAAAGATATTAAAAAAAAAT
Found at i:16790820 original size:19 final size:19
Alignment explanation
Indices: 16790791--16790836 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
16790781 CTAGATAGAT
* *
16790791 GAAAAATATAAAGAGA-AA
1 GAAAAAGATAAAAAGAGAA
16790809 GATAAAAGATAAAAAGAGAA
1 GA-AAAAGATAAAAAGAGAA
16790829 GAAAAAGA
1 GAAAAAGA
16790837 GCAAAATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 18 0.75
20 4 0.17
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.09
Consensus pattern (19 bp):
GAAAAAGATAAAAAGAGAA
Found at i:16790824 original size:21 final size:20
Alignment explanation
Indices: 16790787--16790836 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
16790777 AAATCTAGAT
*
16790787 AGATGAAAA-ATATAAAGAGAA
1 AGAT-AAAAGATAAAAAGAG-A
16790808 AGATAAAAGATAAAAAGAGA
1 AGATAAAAGATAAAAAGAGA
16790828 AGA-AAAAGA
1 AGATAAAAGA
16790837 GCAAAATGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 6 0.22
20 8 0.30
21 13 0.48
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.10
Consensus pattern (20 bp):
AGATAAAAGATAAAAAGAGA
Found at i:16790842 original size:19 final size:21
Alignment explanation
Indices: 16790800--16790842 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
16790790 TGAAAAATAT
*
16790800 AAAGAGAAAGATAAAAGATAA
1 AAAGAGAAAGATAAAAGAGAA
*
16790821 AAAGAG-AAGA-AAAAGAGCA
1 AAAGAGAAAGATAAAAGAGAA
16790840 AAA
1 AAA
16790843 TGAAACCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 4 0.20
21 6 0.30
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.05
Consensus pattern (21 bp):
AAAGAGAAAGATAAAAGAGAA
Found at i:16792558 original size:87 final size:87
Alignment explanation
Indices: 16792435--16792608 Score: 330
Period size: 87 Copynumber: 2.0 Consensus size: 87
16792425 AAAAATAAAA
* *
16792435 ATAATTTTTGTAATAAATATTAACTATGATAAAATAAATAATCAACAAATTAAAGCTTAAAAAAT
1 ATAATTTTTGTAATAAATATTAACTATGATAAAATAAATAATCAACAAAGTAAAGCCTAAAAAAT
16792500 ATTTTGTTAACTTAATTTGGTG
66 ATTTTGTTAACTTAATTTGGTG
16792522 ATAATTTTTGTAATAAATATTAACTATGATAAAATAAATAATCAACAAAGTAAAGCCTAAAAAAT
1 ATAATTTTTGTAATAAATATTAACTATGATAAAATAAATAATCAACAAAGTAAAGCCTAAAAAAT
16792587 ATTTTGTTAACTTAATTTGGTG
66 ATTTTGTTAACTTAATTTGGTG
16792609 TTTGAATGTA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (87 bp):
ATAATTTTTGTAATAAATATTAACTATGATAAAATAAATAATCAACAAAGTAAAGCCTAAAAAAT
ATTTTGTTAACTTAATTTGGTG
Found at i:16793791 original size:21 final size:22
Alignment explanation
Indices: 16793767--16793808 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16793757 TTTTATTGTA
16793767 TTTTAAAAT-TTTAAAATTATT
1 TTTTAAAATATTTAAAATTATT
*
16793788 TTTTAAAATATTTAATATTAT
1 TTTTAAAATATTTAAAATTAT
16793809 CGATGATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTAAAATATTTAAAATTATT
Found at i:16797264 original size:52 final size:52
Alignment explanation
Indices: 16797160--16797264 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 52
16797150 TATAACCATA
*
16797160 CAAACTTGCCCATTAAGAATCTCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCCATTAAGAATCTCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * **
16797212 CAAACTTGCCTATTAAGAATC-CTCTTTCTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCCATTAAGAATCTCTC-TCCTCTTAGAATTCTTCTCCTGCAAGT
16797264 C
1 C
16797265 TTCTTGTCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 3 0.07
52 43 0.93
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCCATTAAGAATCTCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:16799338 original size:24 final size:24
Alignment explanation
Indices: 16799311--16799356 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
16799301 AAAAAGTTTT
16799311 CTTTTTTCACTTTTCT-TTTTTAAC
1 CTTTTTT-ACTTTTCTCTTTTTAAC
*
16799335 CTTTTTTGCTTTTCTCTTTTTA
1 CTTTTTTACTTTTCTCTTTTTA
16799357 TATTTCTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.70
Consensus pattern (24 bp):
CTTTTTTACTTTTCTCTTTTTAAC
Found at i:16799624 original size:20 final size:19
Alignment explanation
Indices: 16799597--16799651 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
16799587 TTAATTTTTT
16799597 AAATTTTTTATATTTAATA
1 AAATTTTTTATATTTAATA
* **
16799616 AATATTTTTTAATGTTTTTTA
1 AA-ATTTTTT-ATATTTAATA
16799637 AAATTTTTTATATTT
1 AAATTTTTTATATTT
16799652 TGAATCTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 7 0.23
20 14 0.47
21 9 0.30
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AAATTTTTTATATTTAATA
Found at i:16799995 original size:15 final size:15
Alignment explanation
Indices: 16799961--16799996 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
16799951 TTTATATAAA
16799961 AACTTTTCTTTTTTT
1 AACTTTTCTTTTTTT
*
16799976 -GCTTTTCTTTTTTT
1 AACTTTTCTTTTTTT
16799990 AACTTTT
1 AACTTTT
16799997 TTTGCTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.11, C:0.14, G:0.03, T:0.72
Consensus pattern (15 bp):
AACTTTTCTTTTTTT
Found at i:16800014 original size:24 final size:24
Alignment explanation
Indices: 16799968--16800014 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
16799958 AAAAACTTTT
* *
16799968 CTTTTTTTGCTTTTCTTTTTTTAA
1 CTTTTTTTGCTTTTCTCTATTTAA
16799992 CTTTTTTTGCTTTTCTCTATTTA
1 CTTTTTTTGCTTTTCTCTATTTA
16800015 TATATCTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.09, C:0.15, G:0.04, T:0.72
Consensus pattern (24 bp):
CTTTTTTTGCTTTTCTCTATTTAA
Found at i:16800279 original size:658 final size:652
Alignment explanation
Indices: 16799039--16800281 Score: 1708
Period size: 657 Copynumber: 1.9 Consensus size: 652
16799029 AAAATTAAGT
* *
16799039 TAAACCCTTAATTCAAACTTGAAGTCTTTTCATTATTTGTAAAAAATTTCAACAGCATTAACTAT
1 TAAACCCTTAATTCAAACTTGAAGTCTTTCCATTATTTGTAAAAAATTTCAACAGCATTAACCAT
** * * * *
16799104 TGGGCTAATCATCTATCTATTAATATAATTAATTTTACTCATGTACTATCACTTTTGGGTGTGTC
66 TGAACTAATAATCTATCTATTAATATAATTAATTTTACTCATATACGATCACTCTTGGGTGTGTC
* *
16799169 ACATGTCACACGCTCATCTTTTTTTTATTTTTTTTATTTTATCTGTTTTTAAAAATATTTAATAA
131 ACATGTCACACGCTCATCTTTTTTTTATTTTTTTTACTTTATCTGTCTTTAAAAATATTTAATAA
* *
16799234 ATTTTTTAAAATCTAAAAAATTTAGTTTTTAAGATTTTATTCTTTTATATATGGGATCCATTTAT
196 ATTTTTTAAAATCTAAAAAATATAGTTTTTAAGATTTTATTCTTTTATATATGGAATCCATTTAT
* * *
16799299 ATAAAAAGTTTTCTTTTTTCACTTTTCTTTTTTAACCTTTTTTGCTTTTCTCTTTTTATATTTCT
261 ATAAAAACTTTTCTTTTTTCACTTTTCTTTTTTAACCTTTTTTGCTTTTCTCTATTTATATATCT
* * *
16799364 ATAAATATTTAATAAATATTTTTTTAGATTTTATTTTTTTGTATGGAACCCAGTTGATACCAAGA
326 ATAAATATTTAATAAATA-TTTTTTAAATTTTATTTTTTTATATGGAACCCACTTGATACCAAGA
16799429 GTGCCACGTATTTTTTGGACCTTTTACATTTTTTATTTTTTAATATATTTAATAAATAATGTTTT
390 GTGCCACGTATTTTTTGGACCTTTTACATTTTTTATTTTTTAATATATTTAATAAATAATGTTTT
* * *
16799494 TATAATTTAATTTTTTTAGACCCACTTTATATCAATAGTATTTCATGTGTCAAGTTATTTGATTA
455 TAGAATTTAATTTTTTTAGACCCACTTTATATCAATAGTATTTCATATGT-AAGATATTTGATTA
* *
16799559 TTTTTTCACTTTTTCTATTTTTTTCTATTTAATTTTTTAAATTTTTTATATTTAATAAATATTTT
519 TTTTTTCACTTTTTCTATTTTTTTCTATATAATTTTTTAAAATTTTTATATTTAATAAATATTTT
16799624 TTAATGTTTTTTAAAATTTTTTATATTTTGAATCTCAAAATTATTGGATACCACATCTTAAGAAT
584 TTAATGTTTTTTAAAATTTTTTATATTTTGAATCTCAAAATTATTGGATACCACATCTTAAGAAT
16799689 ATGC
649 ATGC
* * * *
16799693 TAAACTCTTGATTCAAACTTGAAGTCTTTCCATTATTTGTAAAGAATTTCAATAGCATTAACCAT
1 TAAACCCTTAATTCAAACTTGAAGTCTTTCCATTATTTGTAAAAAATTTCAACAGCATTAACCAT
*
16799758 TGAACTAATAATCTATCTATCT-ATATAGTTAATTTTACTCATAT-CGATCAC-CTTGGGTGTGT
66 TGAACTAATAATCTATCTAT-TAATATAATTAATTTTACTCATATACGATCACTCTTGGGTGTGT
* * * *
16799820 CACGTGTCACATGCTTATTTTGTCCTTTTTTTTTATTTTTTTTACTTTATCT-TCTTTATTAAAT
130 CACATGTCACACGCTCA-----T-C-TTTTTTTTATTTTTTTTACTTTATCTGTCTTTA-AAAAT
* *
16799884 ATTTAAT-AA-TTTTT-AAATGCTAAAAAATATAGTTTTTTAGATTTTATTCTTTTTTATATGGA
187 ATTTAATAAATTTTTTAAAAT-CTAAAAAATATAGTTTTTAAGATTTTATTCTTTTATATATGGA
** *
16799946 ATCCATTTATATAAAAACTTTTCTTTTTTTGCTTTTCTTTTTTTAACTTTTTTTGCTTTTCTCTA
251 ATCCATTTATATAAAAACTTTTCTTTTTTCACTTTTC-TTTTTTAACCTTTTTTGCTTTTCTCTA
*
16800011 TTTATATATCTATAAATATTTAATAGATA-TTTTTAAATTTTTATTTTTTTATATGGAACCCACT
315 TTTATATATCTATAAATATTTAATAAATATTTTTTAAA-TTTTATTTTTTTATATGGAACCCACT
* * * ** *
16800075 TGATACTAAGAGTGCCGCTTGTTTTTTTTTTTACTTTTTAC-TTTTTTATTTTTTAATATATTTA
379 TGATACCAAGAGTGCCAC--G-TATTTTTTGGACCTTTTACATTTTTTATTTTTTAATATATTTA
* * * * *
16800139 GTACATAACT-TTTTTAGATTTTAATTTTTTTATACCCA-TTTGATATCAATGATTGATTAT-AT
441 ATAAATAA-TGTTTTTAGAATTTAATTTTTTTAGACCCACTTT-ATATCAAT-AGT-ATT-TCAT
*
16800201 AT-T-AGATATTTGATTACTTTTTTTCACTTTTTC-A-TTTTTTCTATATACTTTTTTAAAATTT
501 ATGTAAGATATTTGATTA--TTTTTTCACTTTTTCTATTTTTTTCTATATAATTTTTTAAAATTT
16800262 TTATATTTAATAAATATTTT
564 TTATATTTAATAAATATTTT
16800282 AAAATTTTTT
Statistics
Matches: 517, Mismatches: 50, Indels: 40
0.85 0.08 0.07
Matches are distributed among these distances:
652 24 0.05
653 6 0.01
654 96 0.19
655 1 0.00
656 11 0.02
657 119 0.23
658 119 0.23
659 100 0.19
660 34 0.07
661 6 0.01
662 1 0.00
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.53
Consensus pattern (652 bp):
TAAACCCTTAATTCAAACTTGAAGTCTTTCCATTATTTGTAAAAAATTTCAACAGCATTAACCAT
TGAACTAATAATCTATCTATTAATATAATTAATTTTACTCATATACGATCACTCTTGGGTGTGTC
ACATGTCACACGCTCATCTTTTTTTTATTTTTTTTACTTTATCTGTCTTTAAAAATATTTAATAA
ATTTTTTAAAATCTAAAAAATATAGTTTTTAAGATTTTATTCTTTTATATATGGAATCCATTTAT
ATAAAAACTTTTCTTTTTTCACTTTTCTTTTTTAACCTTTTTTGCTTTTCTCTATTTATATATCT
ATAAATATTTAATAAATATTTTTTAAATTTTATTTTTTTATATGGAACCCACTTGATACCAAGAG
TGCCACGTATTTTTTGGACCTTTTACATTTTTTATTTTTTAATATATTTAATAAATAATGTTTTT
AGAATTTAATTTTTTTAGACCCACTTTATATCAATAGTATTTCATATGTAAGATATTTGATTATT
TTTTCACTTTTTCTATTTTTTTCTATATAATTTTTTAAAATTTTTATATTTAATAAATATTTTTT
AATGTTTTTTAAAATTTTTTATATTTTGAATCTCAAAATTATTGGATACCACATCTTAAGAATAT
GC
Found at i:16801316 original size:18 final size:19
Alignment explanation
Indices: 16801287--16801346 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 19
16801277 TATATATAAA
16801287 TTATATTTTTAATTATTTAT
1 TTATA-TTTTAATTATTTAT
16801307 TTA-ATTTTAA--ATTTAT
1 TTATATTTTAATTATTTAT
16801323 ATTATATTTATATATTATTATAT
1 -TTATATTT-TA-ATTATT-TAT
16801346 T
1 T
16801347 AATAAAGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
16 6 0.18
17 3 0.09
18 10 0.30
19 3 0.09
20 4 0.12
22 4 0.12
23 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTATATTTTAATTATTTAT
Found at i:16802749 original size:19 final size:19
Alignment explanation
Indices: 16802714--16802750 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
16802704 TCATACTAAA
16802714 GTTTTCTTTTTTCTTTTTT
1 GTTTTCTTTTTTCTTTTTT
*
16802733 GTTTT-TTTTTTGTTTTTT
1 GTTTTCTTTTTTCTTTTTT
16802751 ACTTTTCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.86
Consensus pattern (19 bp):
GTTTTCTTTTTTCTTTTTT
Found at i:16803052 original size:116 final size:117
Alignment explanation
Indices: 16802818--16803072 Score: 422
Period size: 116 Copynumber: 2.2 Consensus size: 117
16802808 TTAATAAAAT
* * *
16802818 ATATATTTTAAAGATTTCATTTTTTGCATGTGTGATTCACTTATATCAAGCCTTTATTTTTTTAT
1 ATATATTTT--AGATTTCATTTATTGCATGTGTGATTCACTGATACCAAGCCTTTATTTTTTTAT
*
16802883 TGTTTTTCTTTTTTTGCCTTTTTTACTTATTTTCTTTTTTTAAATATTTAATAA
64 TGTTTTTCTTTTTTTGCCTTTTTTACTTATTTTCTCTTTTTAAATATTTAATAA
*
16802937 ATATATTTTAGATTTCATTTATTGCATGTGTGATTCACTGATACCAAGCTTTTA-TTTTTTATTG
1 ATATATTTTAGATTTCATTTATTGCATGTGTGATTCACTGATACCAAGCCTTTATTTTTTTATTG
*
16803001 TTTTTGTTTTTTTGCCTTTTTTACTTATTTTCTCTTTTTAAATATTTAATAA
66 TTTTTCTTTTTTTGCCTTTTTTACTTATTTTCTCTTTTTAAATATTTAATAA
*
16803053 ATATATTTTAGATTTTATTT
1 ATATATTTTAGATTTCATTT
16803073 TTTTGTAGGA
Statistics
Matches: 129, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
116 79 0.61
117 41 0.32
119 9 0.07
ACGTcount: A:0.23, C:0.09, G:0.07, T:0.60
Consensus pattern (117 bp):
ATATATTTTAGATTTCATTTATTGCATGTGTGATTCACTGATACCAAGCCTTTATTTTTTTATTG
TTTTTCTTTTTTTGCCTTTTTTACTTATTTTCTCTTTTTAAATATTTAATAA
Found at i:16804347 original size:16 final size:16
Alignment explanation
Indices: 16804329--16804358 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16804319 ATAAAAATTA
16804329 AAAAAAG-CAAAAAAG
1 AAAAAAGTCAAAAAAG
16804344 AAAAAAGTCAAAAAA
1 AAAAAAGTCAAAAAA
16804359 AAGAAGGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.80, C:0.07, G:0.10, T:0.03
Consensus pattern (16 bp):
AAAAAAGTCAAAAAAG
Found at i:16805711 original size:14 final size:13
Alignment explanation
Indices: 16805686--16805730 Score: 58
Period size: 12 Copynumber: 3.6 Consensus size: 13
16805676 TTGGTAATTT
16805686 TTTATCTTTTTTA
1 TTTATCTTTTTTA
16805699 TTTATCTTTTTT-
1 TTTATCTTTTTTA
* *
16805711 TTTCTATTTTTTA
1 TTTATCTTTTTTA
16805724 -TTATCTT
1 TTTATCTT
16805731 CATTCCTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 15 0.56
13 12 0.44
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATCTTTTTTA
Found at i:16805720 original size:24 final size:23
Alignment explanation
Indices: 16805683--16805730 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
16805673 TTTTTGGTAA
16805683 TTTTTTATC-TTTTTTATTTATCT
1 TTTTTTATCTTTTTTTA-TTATCT
*
16805706 TTTTTTTTCTATTTTTTATTATCT
1 TTTTTTATCT-TTTTTTATTATCT
16805730 T
1 T
16805731 CATTCCTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 8 0.36
24 7 0.32
25 7 0.32
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTTTATCTTTTTTTATTATCT
Found at i:16805720 original size:25 final size:24
Alignment explanation
Indices: 16805683--16805730 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
16805673 TTTTTGGTAA
*
16805683 TTTTTTATCTTTTTTATTTATCTTT
1 TTTTTTATATTTTTTA-TTATCTTT
*
16805708 TTTTTTCTATTTTTTATTATCTT
1 TTTTTTATATTTTTTATTATCTT
16805731 CATTCCTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTTTATATTTTTTATTATCTTT
Found at i:16807368 original size:6 final size:6
Alignment explanation
Indices: 16807349--16807396 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
16807339 AAAATAAACC
* * * *
16807349 TTTCTT TTTTTT TTTCTT TTT-TT CTTCTT TTTCTT TGTCTT TGTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
16807396 T
1 T
16807397 CTAAGATTCC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
5 4 0.11
6 32 0.89
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (6 bp):
TTTCTT
Found at i:16807554 original size:29 final size:29
Alignment explanation
Indices: 16807500--16807555 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
16807490 ATTGGGTTGA
* *
16807500 AATAAAATATTAAGAGCTTGATTGATTGT
1 AATAAAATATTAAGAGCTTAAATGATTGT
* *
16807529 AATAAAATGTTAAGGGCTTAAATGATT
1 AATAAAATATTAAGAGCTTAAATGATT
16807556 ATTGAATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.36
Consensus pattern (29 bp):
AATAAAATATTAAGAGCTTAAATGATTGT
Found at i:16809698 original size:65 final size:65
Alignment explanation
Indices: 16809608--16809794 Score: 198
Period size: 65 Copynumber: 2.8 Consensus size: 65
16809598 TAATTTTTAT
* * *
16809608 TTTTAAGAAAATTGGTACTTCCAACTTTTTCCCAAAAATATTTTTTTTTAATTTTG-AAATTCTA
1 TTTTAAGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTTAA-TTTGAAAATTCTA
16809672 A
65 A
* * * *
16809673 TTTTGAGAAAATTGATACTTTCAAC-TTTTCTTTAAAATACTTTTTTAAAATTTTATTTGAAAAA
1 TTTTAAGAAAATTGATACTTTCAACTTTTTCCTAAAAATA-TTTTTT----TTTAATTTG-AAAA
* *
16809737 TTTTAT
60 TTCTAA
*
16809743 TTTTAAGAAAAATTGATACTTTCAACTTTTTCCTAAAAATATATTTTTTTAA
1 TTTTAAG-AAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTTAA
16809795 ACATTTTATT
Statistics
Matches: 99, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
64 11 0.11
65 28 0.28
67 4 0.04
68 4 0.04
69 4 0.04
70 13 0.13
71 23 0.23
72 12 0.12
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (65 bp):
TTTTAAGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTTAATTTGAAAATTCTAA
Found at i:16809817 original size:61 final size:62
Alignment explanation
Indices: 16809722--16809977 Score: 188
Period size: 61 Copynumber: 4.4 Consensus size: 62
16809712 CTTTTTTAAA
* *
16809722 ATTTTATTTGAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCCTAAAAATAT
1 ATTTT-TTTGAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTCTCCTAAAAAAAT
* * * * *
16809785 ATTTTTTT-AAACATTTTATTTTTCAGAGAAATTGATACTTTTAACTTTCTCTTAAAAAAAT
1 ATTTTTTTGAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTCTCCTAAAAAAAT
* ** **
16809846 A-TTTTTTG-----TGTTCA-----AAG-AAAATTGATACAATCAACTTT-T-CTTCAAAAAT
1 ATTTTTTTGAAAAAT-TTTATTTTTAAGAAAAATTGATACTTTCAACTTTCTCCTAAAAAAAT
* * * * *
16809895 A-TTTTTT-AAAAAATTTATCTTTAAGAAAAATTGATACTTTCAACTTT-TCTTCAAAATAT
1 ATTTTTTTGAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTCTCCTAAAAAAAT
* * *
16809954 TTTTTTTTGGAAATTTTTATTTTT
1 ATTTTTTTGAAAAATTTTATTTTT
16809978 TTAAAAATAA
Statistics
Matches: 148, Mismatches: 29, Indels: 34
0.70 0.14 0.16
Matches are distributed among these distances:
49 14 0.09
50 1 0.01
51 17 0.11
52 5 0.03
56 1 0.01
57 6 0.04
58 20 0.14
59 6 0.04
60 12 0.08
61 58 0.39
62 3 0.02
63 5 0.03
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (62 bp):
ATTTTTTTGAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTCTCCTAAAAAAAT
Found at i:16809962 original size:109 final size:112
Alignment explanation
Indices: 16809751--16809960 Score: 275
Period size: 109 Copynumber: 1.9 Consensus size: 112
16809741 ATTTTTAAGA
** * * * * *
16809751 AAAATTGATACTTTCAACTTTTTCCTAAAAATATATTTTTTTAAACATTTTATTTTTCAGAGAAA
1 AAAATTGATACAATCAACTTTTTCCTAAAAATATATTTTTTTAAAAAATTTATCTTTAAGAAAAA
*
16809816 TTGATACTTTTAACTTTCTCTTAAAAAAATATTTTTTGTGTTCAAAG
66 TTGATACTTTCAACTTTCTCTTAAAAAAATATTTTTTGTGTTCAAAG
* *
16809863 AAAATTGATACAATCAAC-TTTTCTTCAAAA-ATA-TTTTTTAAAAAATTTATCTTTAAGAAAAA
1 AAAATTGATACAATCAACTTTTTCCTAAAAATATATTTTTTTAAAAAATTTATCTTTAAGAAAAA
* * *
16809925 TTGATACTTTCAACTTT-TCTTCAAAATATTTTTTTT
66 TTGATACTTTCAACTTTCTCTTAAAAAAATATTTTTT
16809961 TGGAAATTTT
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
108 16 0.19
109 40 0.47
110 3 0.04
111 10 0.12
112 16 0.19
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.47
Consensus pattern (112 bp):
AAAATTGATACAATCAACTTTTTCCTAAAAATATATTTTTTTAAAAAATTTATCTTTAAGAAAAA
TTGATACTTTCAACTTTCTCTTAAAAAAATATTTTTTGTGTTCAAAG
Found at i:16810073 original size:5 final size:5
Alignment explanation
Indices: 16810048--16810090 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
16810038 ATTTTAAATT
16810048 AATAA TAATAA TAAT-A AATAA AATAA AATAAA AATAA AATAA A
1 AATAA -AATAA -AATAA AATAA AATAA AAT-AA AATAA AATAA A
16810091 CCTTTAATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
4 3 0.09
5 18 0.51
6 14 0.40
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:16810082 original size:16 final size:17
Alignment explanation
Indices: 16810051--16810090 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
16810041 TTAAATTAAT
16810051 AATAATAATAATAAATAA
1 AATAA-AATAATAAATAA
16810069 AATAAAATAA-AAATAA
1 AATAAAATAATAAATAA
16810085 AATAAA
1 AATAAA
16810091 CCTTTAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 12 0.55
17 5 0.23
18 5 0.23
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
AATAAAATAATAAATAA
Found at i:16810933 original size:3 final size:3
Alignment explanation
Indices: 16810910--16811033 Score: 67
Period size: 3 Copynumber: 39.0 Consensus size: 3
16810900 AAAGGATAGA
* * *
16810910 AAT AAA AAT AAT AGAT AAAT AAT AA- AAT -AT ATT AAT AGAT AACT AAA
1 AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT A-AT AA-T AAT
*
16810957 ACAT AAT AAT AAT AGAT AAAT AAAT AA- AA- AAT ATT AAT AGAT AAAT
1 A-AT AAT AAT AAT A-AT -AAT -AAT AAT AAT AAT AAT AAT A-AT -AAT
* *
16811003 AAT AAT AAT CAT AAT AAT AAT GAAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
16811034 TAAATTAAAT
Statistics
Matches: 96, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
2 8 0.08
3 59 0.61
4 26 0.27
5 3 0.03
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:16810946 original size:24 final size:25
Alignment explanation
Indices: 16810909--16811021 Score: 133
Period size: 24 Copynumber: 4.6 Consensus size: 25
16810899 AAAAGGATAG
*
16810909 AAATAAAAATAATAGATAAATAATA
1 AAATAATAATAATAGATAAATAATA
* *
16810934 AAAT-ATATTAATAGATAACTAA-A
1 AAATAATAATAATAGATAAATAATA
*
16810957 ACATAATAATAATAGATAAATAAATA
1 AAATAATAATAATAGATAAAT-AATA
*
16810983 AAA-AATATTAATAGATAAATAATA
1 AAATAATAATAATAGATAAATAATA
*
16811007 ATAATCATAATAATA
1 A-AATAATAATAATA
16811022 ATGAAAAATA
Statistics
Matches: 73, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
23 4 0.05
24 34 0.47
25 24 0.33
26 11 0.15
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (25 bp):
AAATAATAATAATAGATAAATAATA
Found at i:16810966 original size:21 final size:19
Alignment explanation
Indices: 16810905--16810976 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 19
16810895 AAGAAAAAGG
16810905 ATAGA-AATAAAAATAATA
1 ATAGATAATAAAAATAATA
* *
16810923 GATAAATAATAAAATATATTA
1 -ATAGATAATAAAA-ATAATA
16810944 ATAGATAACTAAAACATAATA
1 ATAGATAA-TAAAA-ATAATA
16810965 ATA-ATAGATAAA
1 ATAGATA-ATAAA
16810977 TAAATAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 4 0.09
20 21 0.48
21 19 0.43
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (19 bp):
ATAGATAATAAAAATAATA
Found at i:16810968 original size:48 final size:48
Alignment explanation
Indices: 16810909--16811022 Score: 160
Period size: 48 Copynumber: 2.4 Consensus size: 48
16810899 AAAAGGATAG
* * *
16810909 AAATAAAAATAATAGATAAAT-AATAAAATATATTAATAGATAACTAA
1 AAATAATAATAATAGATAAATAAATAAAAAATATTAATAGATAAATAA
16810956 AACATAATAATAATAGATAAATAAATAAAAAATATTAATAGATAAATAA
1 AA-ATAATAATAATAGATAAATAAATAAAAAATATTAATAGATAAATAA
* *
16811005 TAATAATCATAATA-ATAA
1 AAATAATAATAATAGATAA
16811023 TGAAAAATAA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
47 6 0.10
48 29 0.48
49 25 0.42
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.28
Consensus pattern (48 bp):
AAATAATAATAATAGATAAATAAATAAAAAATATTAATAGATAAATAA
Done.