Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 155 of 170
Found at i:46102653 original size:43 final size:44
Alignment explanation
Indices: 46102476--46102641 Score: 189
Period size: 43 Copynumber: 3.8 Consensus size: 44
46102466 AATATTGAGA
* * *
46102476 AAGACCACGTCTGGGACGA-TGGCATTGATTTCA-GATTTACGTGT
1 AAGACCATGTCTGGGAC-ATTGGCATCGATAT-ATGATTTACGTGT
*
46102520 AAGACCATGT-TTGGACATTGGCATCG-TATATGATTTACGTGT
1 AAGACCATGTCTGGGACATTGGCATCGATATATGATTTACGTGT
* * *
46102562 AAAACCATGTCTGGGACATTGGCATC-ATATATGATTTGCGTAT
1 AAGACCATGTCTGGGACATTGGCATCGATATATGATTTACGTGT
* * *
46102605 AAGACCCTGTCTGGGACAGTGGCATCGATATTTGATT
1 AAGACCATGTCTGGGACATTGGCATCGATATATGATT
46102642 ACATGCAAGA
Statistics
Matches: 105, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
41 1 0.01
42 23 0.22
43 63 0.60
44 18 0.17
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (44 bp):
AAGACCATGTCTGGGACATTGGCATCGATATATGATTTACGTGT
Found at i:46105261 original size:16 final size:16
Alignment explanation
Indices: 46105242--46105413 Score: 85
Period size: 17 Copynumber: 9.8 Consensus size: 16
46105232 CGAAAGTTTT
* *
46105242 TTTTAAAATACGAGAAT
1 TTTTAAAACACGA-AAA
*
46105259 TTTTGAAAACACGAGAA
1 TTTT-AAAACACGAAAA
46105276 TTTGT-AAACACGAAAA
1 TTT-TAAAACACGAAAA
46105292 TTTTAGAAACACGAAAA
1 TTTTA-AAACACGAAAA
* *
46105309 TTTTTAGAAAAAACGAAATT
1 -TTTT--AAAACACGAAA-A
**
46105329 TTCTTAAAACACGACATTTT
1 TT-TTAAAACACGA-A--AA
* * *
46105349 TTTCTGAAACACGGGAAT
1 TTT-TAAAACAC-GAAAA
* *
46105367 TTTTAAAACAGGGAAA
1 TTTTAAAACACGAAAA
46105383 TTTTAGAAACACGAAAA
1 TTTTA-AAACACGAAAA
46105400 TTTTTAAAACACGA
1 -TTTTAAAACACGA
46105414 CATTTTTTGA
Statistics
Matches: 123, Mismatches: 16, Indels: 32
0.72 0.09 0.19
Matches are distributed among these distances:
15 1 0.01
16 22 0.18
17 42 0.34
18 30 0.24
19 13 0.11
20 14 0.11
21 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.30
Consensus pattern (16 bp):
TTTTAAAACACGAAAA
Found at i:46105506 original size:35 final size:34
Alignment explanation
Indices: 46105454--46105668 Score: 127
Period size: 35 Copynumber: 6.1 Consensus size: 34
46105444 AATTGAAATG
* *
46105454 CGAGAATATTTTG-AAACACGAATTTTTTTTAAACG
1 CGAGAAT-TTTTGAAAACACGAA-TTTTTTGAAACA
* **
46105489 CGAGAATTTTTGAAAACATGGAA-ACTTTGAAACA
1 CGAGAATTTTTGAAAACA-CGAATTTTTTGAAACA
* * *
46105523 CTG-GAGTTTTTGAAAACACGAGAATTTGTGAAACA
1 C-GAGAATTTTTGAAAACACGA-ATTTTTTGAAACA
* * *
46105558 CGAAAATTTGTGAAAACACGTAATTTTTTTTTAAACA
1 CGAGAATTTTTGAAAACACG-AA--TTTTTTGAAACA
* *
46105595 CGAAAATTTTTG-AAACGCCAGAA-TTTTTGAAAACA
1 CGAGAATTTTTGAAAAC-AC-GAATTTTTTG-AAACA
* *
46105630 C-AAAGATTTTTGAAAACACGAAAATTTTTGAAAACA
1 CGAGA-ATTTTTGAAAACACG-AATTTTTTG-AAACA
46105666 CGA
1 CGA
46105669 AAACACTAAA
Statistics
Matches: 143, Mismatches: 20, Indels: 32
0.73 0.10 0.16
Matches are distributed among these distances:
33 2 0.01
34 38 0.27
35 53 0.37
36 25 0.17
37 24 0.17
38 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (34 bp):
CGAGAATTTTTGAAAACACGAATTTTTTGAAACA
Found at i:46105669 original size:18 final size:18
Alignment explanation
Indices: 46105240--46105671 Score: 216
Period size: 18 Copynumber: 25.0 Consensus size: 18
46105230 AACGAAAGTT
* * *
46105240 TTTTTTAAAATACGAGAA
1 TTTTTGAAAACACGAAAA
*
46105258 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
46105276 --TTTGTAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
46105292 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
46105309 TTTTTAGAAAAAACG-AAA
1 TTTTT-GAAAACACGAAAA
* **
46105327 TTTTCTTAAAACACGACATTT
1 TTTT-TGAAAACACGA-A-AA
**
46105348 TTTTCTG-AAACACGGGAA
1 TTTT-TGAAAACACGAAAA
* *
46105366 TTTTT-AAAACAGGGAAA
1 TTTTTGAAAACACGAAAA
*
46105383 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
46105400 TTTTT-AAAACACGACAT
1 TTTTTGAAAACACGAAAA
46105417 TTTTTG-AAACACG---A
1 TTTTTGAAAACACGAAAA
*
46105431 --TTT-AAAAAAC-AAAA
1 TTTTTGAAAACACGAAAA
* ** *
46105445 --ATTG-AAATGCGAGAA
1 TTTTTGAAAACACGAAAA
*
46105460 TATTTTG-AAACACG-AAT
1 T-TTTTGAAAACACGAAAA
** * *
46105477 TTTTTTTAAACGCGAGAA
1 TTTTTGAAAACACGAAAA
* *
46105495 TTTTTGAAAACATGGAAA
1 TTTTTGAAAACACGAAAA
* * *
46105513 -CTTTG-AAACACTG-GAG
1 TTTTTGAAAACAC-GAAAA
*
46105529 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
46105547 TTTGTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* **
46105564 TTTGTGAAAACACGTAATT
1 TTTTTGAAAACACG-AAAA
**
46105583 TTTTTTTAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
46105601 TTTTTG-AAACGCCAGAA
1 TTTTTGAAAACACGAAAA
46105618 TTTTTGAAAACAC-AAAGA
1 TTTTTGAAAACACGAAA-A
46105636 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
46105654 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
46105672 CACTAAATTT
Statistics
Matches: 316, Mismatches: 66, Indels: 64
0.71 0.15 0.14
Matches are distributed among these distances:
12 8 0.03
14 7 0.02
15 3 0.01
16 24 0.08
17 113 0.36
18 124 0.39
19 23 0.07
20 8 0.03
21 6 0.02
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:46105748 original size:9 final size:9
Alignment explanation
Indices: 46105734--46105778 Score: 81
Period size: 9 Copynumber: 5.0 Consensus size: 9
46105724 ATTCACGAGA
46105734 ATTTTTTTT
1 ATTTTTTTT
46105743 ATTTTTTTT
1 ATTTTTTTT
46105752 ATTTTTTTT
1 ATTTTTTTT
*
46105761 ATTATTTTT
1 ATTTTTTTT
46105770 ATTTTTTTT
1 ATTTTTTTT
46105779 TAAACACGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:46105792 original size:19 final size:20
Alignment explanation
Indices: 46105770--46105808 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
46105760 TATTATTTTT
46105770 ATTTTTTTTT-AAACACGAG
1 ATTTTTTTTTAAAACACGAG
46105789 ATTTTTTTTTGAAAACACGA
1 ATTTTTTTTT-AAAACACGA
46105809 AAACACGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (20 bp):
ATTTTTTTTTAAAACACGAG
Found at i:46105856 original size:17 final size:16
Alignment explanation
Indices: 46105807--46105854 Score: 64
Period size: 15 Copynumber: 3.0 Consensus size: 16
46105797 TTGAAAACAC
46105807 GAAAACACGAATTTTT
1 GAAAACACGAATTTTT
46105823 G-AAACACGGAAATTTTT
1 GAAAACAC-G-AATTTTT
46105840 GAAAACACG-ATTTTT
1 GAAAACACGAATTTTT
46105855 TTAGAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 2 0.07
17 9 0.31
18 6 0.21
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (16 bp):
GAAAACACGAATTTTT
Found at i:46105932 original size:17 final size:18
Alignment explanation
Indices: 46105910--46105957 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
46105900 TATTATTATT
46105910 ATTTTGAAACACGTG-AA
1 ATTTTGAAACACGTGAAA
46105927 ATTTTGAAGACA--TGAAA
1 ATTTTGAA-ACACGTGAAA
46105944 ATTTTTGAAACACG
1 A-TTTTGAAACACG
46105958 ATTTTTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.08
17 14 0.54
18 10 0.38
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (18 bp):
ATTTTGAAACACGTGAAA
Found at i:46106574 original size:24 final size:25
Alignment explanation
Indices: 46106545--46106600 Score: 96
Period size: 24 Copynumber: 2.3 Consensus size: 25
46106535 CACAAAGTGG
46106545 GCTGCTTCTTTCTTATTCTTTTTTT
1 GCTGCTTCTTTCTTATTCTTTTTTT
*
46106570 -CTGCTTCTTTCTTCTTCTTTTTTT
1 GCTGCTTCTTTCTTATTCTTTTTTT
46106594 GCTGCTT
1 GCTGCTT
46106601 TTTTTTTGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 23 0.79
25 6 0.21
ACGTcount: A:0.02, C:0.23, G:0.09, T:0.66
Consensus pattern (25 bp):
GCTGCTTCTTTCTTATTCTTTTTTT
Found at i:46106608 original size:14 final size:15
Alignment explanation
Indices: 46106587--46106624 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
46106577 TTTCTTCTTC
46106587 TTTTTTTGC-TGCTT
1 TTTTTTTGCTTGCTT
*
46106601 TTTTTTTGCTTTGTTT
1 TTTTTTTGC-TTGCTT
46106617 TTTTTTTG
1 TTTTTTTG
46106625 GGCTGGCCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
16 12 0.57
ACGTcount: A:0.00, C:0.08, G:0.13, T:0.79
Consensus pattern (15 bp):
TTTTTTTGCTTGCTT
Found at i:46107219 original size:30 final size:30
Alignment explanation
Indices: 46107148--46107250 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
46107138 ATTTAGGATT
*
46107148 AAAATGAAATTTAATGAAAGTTTAGGGGTTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGG-TC
* * *
46107179 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
46107209 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
46107239 AAAATGCAATTT
1 AAAATGAAATTT
46107251 TTATTTTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
29 2 0.03
30 36 0.58
31 24 0.39
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:46107272 original size:15 final size:16
Alignment explanation
Indices: 46107246--46107282 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
46107236 GTCAAAATGC
*
46107246 AATTTTTATTTTTTTA
1 AATTTTTATTTTTTGA
46107262 AATTTTT-TTTTTTGA
1 AATTTTTATTTTTTGA
46107277 AATTTT
1 AATTTT
46107283 GAAAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
AATTTTTATTTTTTGA
Found at i:46107698 original size:55 final size:54
Alignment explanation
Indices: 46107524--46107688 Score: 244
Period size: 55 Copynumber: 3.0 Consensus size: 54
46107514 CACGTGAGCC
* *
46107524 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTG-AA
*
46107579 AAGGCTCAACTCACCTCTCGCAATATGGGTTGATTTTTTGAAAAACAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-AAAACAGAAATTGAA
*
46107634 AAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAA-ATTGAA
46107688 A
1 A
46107689 TTACCTCAAC
Statistics
Matches: 101, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
52 2 0.02
53 9 0.09
54 8 0.08
55 65 0.64
56 6 0.06
57 11 0.11
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAA
Found at i:46107867 original size:72 final size:72
Alignment explanation
Indices: 46107635--46107901 Score: 448
Period size: 72 Copynumber: 3.7 Consensus size: 72
46107625 AGAAATTAAA
**
46107635 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA-ATTGAAATTACCTCAAC
46107699 GTGTCTTG
65 GTGTCTTG
* *
46107707 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAAC
46107772 GTGTCTTG
65 GTGTCTTG
46107780 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
46107845 TGTCTTG
66 TGTCTTG
*
46107852 AGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
46107902 AAAAGGCTTA
Statistics
Matches: 185, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
71 6 0.03
72 110 0.59
73 67 0.36
74 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTG
Found at i:46108000 original size:122 final size:125
Alignment explanation
Indices: 46107780--46108023 Score: 361
Period size: 122 Copynumber: 2.0 Consensus size: 125
46107770 ACGTGTCTTG
** * * * *
46107780 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
46107845 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATTAAA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTAAA
* * *
46107905 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
*
46107967 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATT
46108024 GAAATTACCT
Statistics
Matches: 108, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
122 71 0.66
123 9 0.08
124 3 0.03
125 25 0.23
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (125 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAA
Found at i:46108047 original size:72 final size:72
Alignment explanation
Indices: 46107905--46109680 Score: 2950
Period size: 72 Copynumber: 24.7 Consensus size: 72
46107895 AAAAATTAAA
* ** * * * * * *
46107905 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
46107967 TGTCTTG
66 TGTCTTG
46107974 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
46108039 TGTCTTG
66 TGTCTTG
*
46108046 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACGGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
46108111 TGTCTTG
66 TGTCTTG
* *
46108118 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGGAAACAGAAATTGAAAATACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
46108183 TGTCTTG
66 TGTCTTG
46108190 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
46108255 TGTATTTG
66 TGT-CTTG
* *
46108263 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAAC
*
46108328 GTGTCCTG
65 GTGTCTTG
* *
46108336 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
46108401 TGTCCTG
66 TGTCTTG
* * *
46108408 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTAAAATTACCTCA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAA-AACAGAAATTGAAATTACCTCA
* *
46108473 GCGTGTCCTG
63 ACGTGTCTTG
*
46108483 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
46108548 TGTCTTG
66 TGTCTTG
46108555 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
46108620 TGTCTTG
66 TGTCTTG
46108627 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
46108692 TGTCTTG
66 TGTCTTG
46108699 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAAC
46108764 GTGTCTTG
65 GTGTCTTG
*
46108772 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
46108837 TGTCTTG
66 TGTCTTG
*
46108844 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTCAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
46108909 TGTCTTG
66 TGTCTTG
46108916 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
46108981 TGTCTTG
66 TGTCTTG
* *
46108988 AGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTGAAAAGCAGAAATTGAAAATACCTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAAC
*
46109052 GTGTCCTG
65 GTGTCTTG
* *
46109060 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
46109125 TGTCCTG
66 TGTCTTG
* * *
46109132 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTAAAACAGAAATT-AAA-TACCTCAGCG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
46109195 TGTCCTG
66 TGTCTTG
46109202 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTG-AAATTACCTCAAC
46109267 GTGTCTTG
65 GTGTCTTG
46109275 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
46109340 TGTC-TG
66 TGTCTTG
46109346 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTG-AAATTACCTCAAC
46109411 GTGTCTTG
65 GTGTCTTG
46109419 AGGCTCAACTCA-TTCTCGCAATATGAGTTG-ATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
46109482 TGTCTTG
66 TGTCTTG
46109489 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTC-ACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
46109553 TGTC-TG
66 TGTCTTG
* * *
46109559 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATT-AAATTACCTCAG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAA-AACAGAAATTGAAATTACCTCAA
*
46109623 CGTGTCCTG
64 CGTGTCTTG
** *
46109632 AGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACA-AAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
46109681 AAAAGGCTTA
Statistics
Matches: 1627, Mismatches: 57, Indels: 45
0.94 0.03 0.03
Matches are distributed among these distances:
69 25 0.02
70 140 0.09
71 135 0.08
72 950 0.58
73 284 0.17
74 30 0.02
75 63 0.04
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTG
Found at i:46121604 original size:16 final size:16
Alignment explanation
Indices: 46121585--46122014 Score: 93
Period size: 17 Copynumber: 25.0 Consensus size: 16
46121575 CGAAAGTTTT
* *
46121585 TTTTAAAATACGAGAAT
1 TTTTAAAACACGA-AAA
*
46121602 TTTTGAAAACACGAGAA
1 TTTT-AAAACACGAAAA
46121619 TTTGT-AAACACGAAAA
1 TTT-TAAAACACGAAAA
46121635 TTTTAGAAACACGAAAA
1 TTTTA-AAACACGAAAA
* *
46121652 TTTTTAGAAAAAACGAAATT
1 -TTTT--AAAACACGAAA-A
**
46121672 TTCTTAAAACACGACATTTTT
1 TT-TTAAAACACGA-A---AA
* * *
46121693 TTTCTGAAACACGGGAAT
1 TTT-TAAAACAC-GAAAA
* *
46121711 TTTTAAAACAGGGAAA
1 TTTTAAAACACGAAAA
46121727 TTTTAGAAACACGAAAA
1 TTTTA-AAACACGAAAA
**
46121744 TTTTTAAAACACGACATT
1 -TTTTAAAACACGA-AAA
*
46121762 TTTTGAAACACG---A
1 TTTTAAAACACGAAAA
*
46121775 -TTTAAAAAAC-AAAA
1 TTTTAAAACACGAAAA
* * * *
46121789 ATTGAAATGCGA-GAATA
1 TTTTAAA-AC-ACGAAAA
* **
46121806 TTTTGAAACACGAATT
1 TTTTAAAACACGAAAA
* * *
46121822 TTTTTAAACGCGAGAAT
1 TTTTAAAACACGA-AAA
* *
46121839 TTTTGAAAACATGGAAA
1 TTTT-AAAACACGAAAA
* * * **
46121856 CTTTGAAACACTGGAGT
1 TTTTAAAACAC-GAAAA
*
46121873 TTTTGAAAACACGAGAA
1 TTTT-AAAACACGAAAA
*
46121890 TTTGTGAAACACGAAAA
1 TTT-TAAAACACGAAAA
*
46121907 TTTGTGAAAACACGTAAATTT
1 TTT-T-AAAACACG-AAA--A
*
46121928 TTTTTAAACACGAAAA
1 TTTTAAAACACGAAAA
* * * *
46121944 TTTTTGAAACGCCAGAAT
1 -TTTTAAAACACGA-AAA
46121962 TTTTGAAAACAC-AAAGA
1 TTTT-AAAACACGAAA-A
46121979 TTTTTGAAAACACGAAAA
1 -TTTT-AAAACACGAAAA
46121997 TTTTTGAAAACACGAAAA
1 -TTTT-AAAACACGAAAA
46122015 CACTAAATTT
Statistics
Matches: 309, Mismatches: 63, Indels: 81
0.68 0.14 0.18
Matches are distributed among these distances:
12 8 0.03
14 1 0.00
15 7 0.02
16 45 0.15
17 112 0.36
18 91 0.29
19 25 0.08
20 5 0.02
21 14 0.05
22 1 0.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.30
Consensus pattern (16 bp):
TTTTAAAACACGAAAA
Found at i:46122012 original size:18 final size:18
Alignment explanation
Indices: 46121583--46122014 Score: 218
Period size: 18 Copynumber: 25.0 Consensus size: 18
46121573 AACGAAAGTT
* * *
46121583 TTTTTTAAAATACGAGAA
1 TTTTTGAAAACACGAAAA
*
46121601 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
46121619 --TTTGTAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
46121635 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
46121652 TTTTTAGAAAAAACG-AAA
1 TTTTT-GAAAACACGAAAA
* **
46121670 TTTTCTTAAAACACGACATTTT
1 TTTT-TGAAAACACGA-A--AA
**
46121692 TTTTCTG-AAACACGGGAA
1 TTTT-TGAAAACACGAAAA
* *
46121710 TTTTT-AAAACAGGGAAA
1 TTTTTGAAAACACGAAAA
*
46121727 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
46121744 TTTTT-AAAACACGACAT
1 TTTTTGAAAACACGAAAA
46121761 TTTTTG-AAACACG---A
1 TTTTTGAAAACACGAAAA
*
46121775 --TTT-AAAAAAC-AAAA
1 TTTTTGAAAACACGAAAA
* ** *
46121789 --ATTG-AAATGCGAGAA
1 TTTTTGAAAACACGAAAA
46121804 TATTTTG-AAACACG--AA
1 T-TTTTGAAAACACGAAAA
** * *
46121820 TTTTTTTAAACGCGAGAA
1 TTTTTGAAAACACGAAAA
* *
46121838 TTTTTGAAAACATGGAAA
1 TTTTTGAAAACACGAAAA
* * *
46121856 -CTTTG-AAACACTG-GAG
1 TTTTTGAAAACAC-GAAAA
*
46121872 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
46121890 TTTGTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
46121907 TTTGTGAAAACACGTAAAT
1 TTTTTGAAAACACG-AAAA
**
46121926 TTTTTTTAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
46121944 TTTTTG-AAACGCCAGAA
1 TTTTTGAAAACACGAAAA
46121961 TTTTTGAAAACAC-AAAGA
1 TTTTTGAAAACACGAAA-A
46121979 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
46121997 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
46122015 CACTAAATTT
Statistics
Matches: 320, Mismatches: 60, Indels: 68
0.71 0.13 0.15
Matches are distributed among these distances:
12 8 0.03
14 7 0.02
15 7 0.02
16 29 0.09
17 105 0.33
18 126 0.39
19 24 0.08
20 1 0.00
21 7 0.02
22 6 0.02
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.30
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:46122101 original size:21 final size:21
Alignment explanation
Indices: 46122077--46122124 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
46122067 ATTCACGAGA
46122077 ATTTTTGTTATTTTT-TTTATT
1 ATTTTTGTTATTTTTATTT-TT
*
46122098 ATTTTTATTATTTTTATTTTT
1 ATTTTTGTTATTTTTATTTTT
46122119 -TTTTTG
1 ATTTTTG
46122125 AAACACGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.21
21 16 0.67
22 3 0.12
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (21 bp):
ATTTTTGTTATTTTTATTTTT
Found at i:46122121 original size:9 final size:9
Alignment explanation
Indices: 46122077--46122121 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
46122067 ATTCACGAGA
*
46122077 ATTTTTGTT
1 ATTTTTTTT
46122086 ATTTTTTTT
1 ATTTTTTTT
*
46122095 ATTATTTTT
1 ATTTTTTTT
*
46122104 ATTATTTTT
1 ATTTTTTTT
46122113 ATTTTTTTT
1 ATTTTTTTT
46122122 TTGAAACACG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:46122138 original size:20 final size:21
Alignment explanation
Indices: 46122115--46122153 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
46122105 TTATTTTTAT
46122115 TTTTTTTTTG-AAACACGAGA
1 TTTTTTTTTGAAAACACGAGA
46122135 TTTTTTTTTGAAAACACGA
1 TTTTTTTTTGAAAACACGA
46122154 AAACACGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (21 bp):
TTTTTTTTTGAAAACACGAGA
Found at i:46122201 original size:17 final size:16
Alignment explanation
Indices: 46122152--46122199 Score: 64
Period size: 15 Copynumber: 3.0 Consensus size: 16
46122142 TTGAAAACAC
46122152 GAAAACACGAATTTTT
1 GAAAACACGAATTTTT
46122168 G-AAACACGGAAATTTTT
1 GAAAACAC-G-AATTTTT
46122185 GAAAACACG-ATTTTT
1 GAAAACACGAATTTTT
46122200 TTAGAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 2 0.07
17 9 0.31
18 6 0.21
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (16 bp):
GAAAACACGAATTTTT
Found at i:46122276 original size:17 final size:18
Alignment explanation
Indices: 46122254--46122301 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
46122244 TATTATTATT
46122254 ATTTTGAAACACGTG-AA
1 ATTTTGAAACACGTGAAA
46122271 ATTTTGAAGACA--TGAAA
1 ATTTTGAA-ACACGTGAAA
46122288 ATTTTTGAAACACG
1 A-TTTTGAAACACG
46122302 ATTTTTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.08
17 14 0.54
18 10 0.38
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (18 bp):
ATTTTGAAACACGTGAAA
Found at i:46122939 original size:24 final size:24
Alignment explanation
Indices: 46122886--46122932 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
46122876 ACAAAGTGGG
46122886 CTGCTTCTTTCTTATTCTTTTTTT
1 CTGCTTCTTTCTTATTCTTTTTTT
*
46122910 CTGCTTCTTTCTTCTTCTTTTTT
1 CTGCTTCTTTCTTATTCTTTTTT
46122933 GTTGCTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.02, C:0.23, G:0.04, T:0.70
Consensus pattern (24 bp):
CTGCTTCTTTCTTATTCTTTTTTT
Found at i:46123505 original size:29 final size:29
Alignment explanation
Indices: 46123472--46123588 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
46123462 TGTAATTTTT
*
46123472 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
46123501 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
46123531 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
46123560 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
46123589 TTATTTTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:46123527 original size:30 final size:30
Alignment explanation
Indices: 46123487--46123588 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
46123477 ATTTAGGATT
*
46123487 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
46123517 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
46123547 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
46123577 AAAATGCAATTT
1 AAAATGAAATTT
46123589 TTATTTTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:46123611 original size:14 final size:15
Alignment explanation
Indices: 46123587--46123619 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
46123577 AAAATGCAAT
*
46123587 TTTTATTTTTTTAAA
1 TTTTATTTTTTGAAA
46123602 TTTT-TTTTTTGAAA
1 TTTTATTTTTTGAAA
46123616 TTTT
1 TTTT
46123620 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTATTTTTTGAAA
Found at i:46123899 original size:114 final size:112
Alignment explanation
Indices: 46123729--46123983 Score: 361
Period size: 114 Copynumber: 2.3 Consensus size: 112
46123719 AAAATTCACA
* * * *
46123729 TCCATCTCCAACAAACACATCTCCACCAATATCTACACCTTTAACATCACCTATGATACCAT-TT
1 TCCATCACCAACAAACTCACCTCCACCAATATCTACACCTTTAAAATCACCTATGATACCATCTT
* * *
46123793 CCACCTCCAAGGAACTTGCGACCACCTTCACCTCTAAGAAACTCATCTTT
66 -CACCTCCAAGGAACTTGAGACCACC-T-ACCTCTAAGAAACTCACCTTC
*
46123843 TCCATCACCAACAAACTCACCTCCACCAATATCTACTCCTTTAAAATCACCTATGATACCATCTT
1 TCCATCACCAACAAACTCACCTCCACCAATATCTACACCTTTAAAATCACCTATGATACCATCTT
*
46123908 CACCTCCAAGGAACTTGAGACTACCTACCTCTAAGAAACTCACCTTC
66 CACCTCCAAGGAACTTGAGACCACCTACCTCTAAGAAACTCACCTTC
* *
46123955 TCCA-CTACTAACAAACTCACATCCACCAA
1 TCCATC-ACCAACAAACTCACCTCCACCAA
46123984 CATCATTGTC
Statistics
Matches: 128, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
111 1 0.01
112 44 0.34
113 1 0.01
114 80 0.62
115 2 0.02
ACGTcount: A:0.33, C:0.37, G:0.05, T:0.25
Consensus pattern (112 bp):
TCCATCACCAACAAACTCACCTCCACCAATATCTACACCTTTAAAATCACCTATGATACCATCTT
CACCTCCAAGGAACTTGAGACCACCTACCTCTAAGAAACTCACCTTC
Found at i:46125573 original size:3 final size:3
Alignment explanation
Indices: 46125565--46125619 Score: 83
Period size: 3 Copynumber: 18.3 Consensus size: 3
46125555 ATAAATTTCA
** *
46125565 TAT TAT TAT CGT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
46125613 TAT TAT T
1 TAT TAT T
46125620 GCTTTTATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:46125794 original size:13 final size:13
Alignment explanation
Indices: 46125773--46125802 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
46125763 ATTTTTTAAA
46125773 ATATCTATTTTAT
1 ATATCTATTTTAT
*
46125786 ATATGTATTTTAT
1 ATATCTATTTTAT
46125799 ATAT
1 ATAT
46125803 TATGATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (13 bp):
ATATCTATTTTAT
Found at i:46125890 original size:18 final size:18
Alignment explanation
Indices: 46125863--46125904 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
46125853 TTTACATACG
*
46125863 TATATGTATATACTTACT
1 TATATATATATACTTACT
* *
46125881 TATATATATATATTTATT
1 TATATATATATACTTACT
46125899 TATATA
1 TATATA
46125905 ATAATTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (18 bp):
TATATATATATACTTACT
Found at i:46128546 original size:105 final size:101
Alignment explanation
Indices: 46128376--46128566 Score: 267
Period size: 105 Copynumber: 1.9 Consensus size: 101
46128366 CTCGTAATGT
* *
46128376 CATAACCCAGTTATGGTCTTATCATCAAGATGCCATAGCCCAACTATGGTCTTACACGTATACAT
1 CATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGTCTTACACGTAAACA-
*
46128441 TTACTGCCCTGGTCCAACCATGGTCTTATGTTTAAGGTGC
65 -T--TGCCATGGTCCAACCATGGTCTTATGTTTAAGGTGC
* * * *
46128481 CATAACCCAGTTATGGTCTTTTCATTAAAATGCCATAGCTCAACTATGGTCTTACA-TTCAAACA
1 CATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGTCTTACACGT-AAACA
46128545 TTGCCATGGTCCAACCATGGTC
65 TTGCCATGGTCCAACCATGGTC
46128567 GTATCTGTCA
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
101 20 0.26
103 1 0.01
104 1 0.01
105 56 0.72
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (101 bp):
CATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGTCTTACACGTAAACAT
TGCCATGGTCCAACCATGGTCTTATGTTTAAGGTGC
Found at i:46132018 original size:17 final size:17
Alignment explanation
Indices: 46131981--46132019 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
46131971 GGAAATCATG
*
46131981 TTATAAGTGTAATATGG
1 TTATAAGTGTAATATGA
*
46131998 TTATAAGTGTAATCTGA
1 TTATAAGTGTAATATGA
46132015 TTATA
1 TTATA
46132020 TTGTGAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.44
Consensus pattern (17 bp):
TTATAAGTGTAATATGA
Found at i:46133509 original size:24 final size:24
Alignment explanation
Indices: 46133482--46133527 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
46133472 TATAATAAAA
* *
46133482 TAATATATATAAATATACATATTT
1 TAATATATAAAAATATAAATATTT
*
46133506 TAATATGTAAAAATATAAATAT
1 TAATATATAAAAATATAAATAT
46133528 ATAAGTATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (24 bp):
TAATATATAAAAATATAAATATTT
Found at i:46133536 original size:24 final size:21
Alignment explanation
Indices: 46133475--46133552 Score: 63
Period size: 22 Copynumber: 3.7 Consensus size: 21
46133465 TGTGAATTAT
*
46133475 AATA-AAATA-AT-ATATATA
1 AATATAAATATATAATATGTA
* *
46133493 AATATACATATTTTAATATGTAAA
1 AATATAAATA-TATAATATGT--A
46133517 AATATAAATATATAAGTATGTA
1 AATATAAATATATAA-TATGTA
*
46133539 CATATAAATATATA
1 AATATAAATATATA
46133553 CTTATAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
18 4 0.09
19 4 0.09
21 1 0.02
22 19 0.40
23 4 0.09
24 15 0.32
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (21 bp):
AATATAAATATATAATATGTA
Found at i:46133638 original size:18 final size:18
Alignment explanation
Indices: 46133610--46133650 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
46133600 AATTACAAGA
* *
46133610 TATAT-AAAATATTAAAT
1 TATATGAAAATATAAAAG
46133627 TATATGAAAATATAAAAG
1 TATATGAAAATATAAAAG
46133645 TATATG
1 TATATG
46133651 TATGTATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (18 bp):
TATATGAAAATATAAAAG
Found at i:46138473 original size:51 final size:51
Alignment explanation
Indices: 46138417--46138519 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
46138407 AAATTAAAAG
46138417 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
46138468 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
46138519 A
1 A
46138520 GTAATTTTAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (51 bp):
ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:46138528 original size:33 final size:33
Alignment explanation
Indices: 46138512--46138608 Score: 185
Period size: 33 Copynumber: 2.9 Consensus size: 33
46138502 ATAACATTAA
*
46138512 ACCAACAAGTAATTTTAGGTCAATTATACATAC
1 ACCAACAATTAATTTTAGGTCAATTATACATAC
46138545 ACCAACAATTAATTTTAGGTCAATTATACATAC
1 ACCAACAATTAATTTTAGGTCAATTATACATAC
46138578 ACCAACAATTAATTTTAGGTCAATTATACAT
1 ACCAACAATTAATTTTAGGTCAATTATACAT
46138609 GCTTTATAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (33 bp):
ACCAACAATTAATTTTAGGTCAATTATACATAC
Found at i:46138582 original size:66 final size:66
Alignment explanation
Indices: 46138466--46138608 Score: 202
Period size: 66 Copynumber: 2.2 Consensus size: 66
46138456 ATTAAACCAA
*
46138466 CAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAAGTAATTTTAGG
1 CAATTATACATACACCAACAATGTATTTTAGGGTAAATAACATTAAACCAACAAGTAATTTTAGG
46138531 T
66 T
* * *
46138532 CAATTATACATACACCAACAAT-TAATTTTA-GGTCAATTATACA-TACACCAACAATTAATTTT
1 CAATTATACATACACCAACAATGT-ATTTTAGGGT-AAATA-ACATTAAACCAACAAGTAATTTT
46138594 AGGT
63 AGGT
46138598 CAATTATACAT
1 CAATTATACAT
46138609 GCTTTATAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
65 4 0.06
66 63 0.90
67 3 0.04
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.33
Consensus pattern (66 bp):
CAATTATACATACACCAACAATGTATTTTAGGGTAAATAACATTAAACCAACAAGTAATTTTAGG
T
Found at i:46141694 original size:26 final size:27
Alignment explanation
Indices: 46141654--46141735 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 27
46141644 TAAGAACATT
*
46141654 TTATGAAATTATATTTAATAATAATTA
1 TTATTAAATTATATTTAATAATAATTA
* *
46141681 TT-TTAAATTGTATTTAATCATATATT-
1 TTATTAAATTATATTTAATAATA-ATTA
* *
46141707 TTAATTAAAATATATTTAATATTAATTA
1 TT-ATTAAATTATATTTAATAATAATTA
46141735 T
1 T
46141736 AGTATCATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 19 0.43
27 8 0.18
28 17 0.39
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (27 bp):
TTATTAAATTATATTTAATAATAATTA
Found at i:46141823 original size:16 final size:16
Alignment explanation
Indices: 46141789--46141830 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
46141779 ATTATTAAGA
46141789 ATTTTATTAAATTATAT
1 ATTTTATTAAA-TATAT
46141806 ATTTTAATTAAA-ATAT
1 ATTTT-ATTAAATATAT
46141822 A-TTTATTAA
1 ATTTTATTAA
46141831 TATTTATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.21
15 3 0.12
16 5 0.21
17 5 0.21
18 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTATTAAATATAT
Found at i:46141824 original size:118 final size:118
Alignment explanation
Indices: 46141700--46141960 Score: 388
Period size: 118 Copynumber: 2.2 Consensus size: 118
46141690 GTATTTAATC
*
46141700 ATATATTTTAATTAAAATATATTTAATATTA-A-TTATAGTATCATATATTATGATTTGAATAAA
1 ATATA-TTTAATTAAAATATATTTAAT-TTATATTTACAGTATCATATATTATGATTTGAATAAA
46141763 TT-ATATAAGAATATGAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
64 TTAATATAAGAATATGAATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAA
* * *
46141818 ATATATTT-ATTAATATTTATGTTAATTTATATTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATTAAAATATAT-TTAATTTATATTTACAGTATCATATATTATGATTTGAATAAAT
*
46141882 TAATATAAGAATATTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAA
65 TAATATAAGAATATGAATTATAAGAATTTTATTAAATTATATATTTTAATTAAA
*
46141936 ATATATTTAA-TAAAATTATGTTTAA
1 ATATATTTAATTAAAA-TATATTTAA
46141961 ATATGATTAA
Statistics
Matches: 129, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
116 13 0.10
117 9 0.07
118 86 0.67
119 21 0.16
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.48
Consensus pattern (118 bp):
ATATATTTAATTAAAATATATTTAATTTATATTTACAGTATCATATATTATGATTTGAATAAATT
AATATAAGAATATGAATTATAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:46141831 original size:18 final size:18
Alignment explanation
Indices: 46141789--46141823 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
46141779 ATTATTAAGA
*
46141789 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAAATATAT
46141806 ATTTTAATTAAAATATAT
1 ATTTTAATTAAAATATAT
46141824 TTATTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTAATTAAAATATAT
Found at i:46141933 original size:18 final size:18
Alignment explanation
Indices: 46141907--46141954 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 18
46141897 AATTATAAGA
46141907 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
46141924 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
*
46141940 A-TTTAATAAAATTAT
1 ATTTTAATTAAATTAT
46141955 GTTTAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 9 0.33
16 5 0.19
17 7 0.26
18 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:46141946 original size:15 final size:15
Alignment explanation
Indices: 46141920--46141960 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
46141910 TTATTAAATT
46141920 ATATATTTTAATTAAA
1 ATATATTTTAA-TAAA
46141936 ATATA-TTTAATAAA
1 ATATATTTTAATAAA
46141950 AT-TATGTTTAA
1 ATATAT-TTTAA
46141961 ATATGATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 2 0.09
14 6 0.26
15 10 0.43
16 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
ATATATTTTAATAAA
Found at i:46142055 original size:155 final size:156
Alignment explanation
Indices: 46141896--46142209 Score: 585
Period size: 156 Copynumber: 2.0 Consensus size: 156
46141886 ATAAGAATAT
46141896 TAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAA-AATTATGTTTA
1 TAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
*
46141960 AATATGATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
66 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
46142025 AATCATTTACAAAAACAAATTTATGC
131 AATCATTTACAAAAACAAATTTATGC
*
46142051 TAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTGTGTTTA
1 TAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
46142116 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
66 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
* *
46142181 AATCATTTACCAAAACAATTTTATGC
131 AATCATTTACAAAAACAAATTTATGC
46142207 TAA
1 TAA
46142210 GGGTATTCTA
Statistics
Matches: 154, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
155 53 0.34
156 101 0.66
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (156 bp):
TAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
AATCATTTACAAAAACAAATTTATGC
Found at i:46142090 original size:18 final size:17
Alignment explanation
Indices: 46142062--46142096 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46142052 AATTATAAGA
*
46142062 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
46142079 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
46142097 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:46142353 original size:16 final size:16
Alignment explanation
Indices: 46142332--46142367 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
46142322 GATTAACTAT
46142332 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
46142348 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
46142364 TACA
1 TACA
46142368 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:46165651 original size:23 final size:23
Alignment explanation
Indices: 46165622--46165743 Score: 174
Period size: 23 Copynumber: 5.3 Consensus size: 23
46165612 ATAAGTGCCA
46165622 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
46165645 CATTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
46165668 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
46165691 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
46165714 CATTGA-ATTGTAGTCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
46165737 CACTGAT
1 CACTGAT
46165744 CAATAACATT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
22 1 0.01
23 85 0.99
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:46165689 original size:46 final size:46
Alignment explanation
Indices: 46165622--46165743 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
46165612 ATAAGTGCCA
* *
46165622 CACTGATATGTAGCCGAAGCTACCATTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
46165668 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
* * *
46165714 CATTGAATTGTAGTCGAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
46165744 CAATAACATT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
Found at i:46166832 original size:21 final size:21
Alignment explanation
Indices: 46166808--46166847 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46166798 TTAGTTTTTT
46166808 TTTTAAAAAACCTCTTAAATG
1 TTTTAAAAAACCTCTTAAATG
* *
46166829 TTTTAAATAACTTCTTAAA
1 TTTTAAAAAACCTCTTAAA
46166848 AGCTTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (21 bp):
TTTTAAAAAACCTCTTAAATG
Found at i:46166832 original size:22 final size:23
Alignment explanation
Indices: 46166807--46166857 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
46166797 CTTAGTTTTT
*
46166807 TTTTTAAAAAACCTCTTAAATG-
1 TTTTTAAAAAACCTCTTAAAAGC
* *
46166829 -TTTTAAATAACTTCTTAAAAGC
1 TTTTTAAAAAACCTCTTAAAAGC
46166851 TTTTTAA
1 TTTTTAA
46166858 TGTTTTAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 18 0.75
23 6 0.25
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (23 bp):
TTTTTAAAAAACCTCTTAAAAGC
Found at i:46169862 original size:37 final size:40
Alignment explanation
Indices: 46169766--46169864 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
46169756 AACACACCAG
**
46169766 TTTGGCACCCAATGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGGCACCCAATGCCTCATCGGATAAACCGAAGTAATAA
* ** *
46169806 TTTGACACCCAATATCTCATCGGTTAAACCGAAGT-A-AA
1 TTTGGCACCCAATGCCTCATCGGATAAACCGAAGTAATAA
*
46169844 -TTGGCACCCAGTGCCTCATCG
1 TTTGGCACCCAATGCCTCATCG
46169865 AATTAATCTG
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
37 17 0.35
38 2 0.04
39 1 0.02
40 29 0.59
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (40 bp):
TTTGGCACCCAATGCCTCATCGGATAAACCGAAGTAATAA
Found at i:46170062 original size:19 final size:19
Alignment explanation
Indices: 46170037--46170089 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
46170027 CAATTAAAAT
46170037 AATCAATATATTCAATATA
1 AATCAATATATTCAATATA
* *
46170056 TATCAAT-TAAATCAATATA
1 AATCAATAT-ATTCAATATA
*
46170075 AATTCAATAAATTCA
1 AA-TCAATATATTCA
46170090 TCACACACTA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
18 1 0.04
19 16 0.62
20 9 0.35
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (19 bp):
AATCAATATATTCAATATA
Found at i:46170789 original size:11 final size:10
Alignment explanation
Indices: 46170775--46170840 Score: 62
Period size: 10 Copynumber: 6.3 Consensus size: 10
46170765 TTCTCCTTCA
46170775 TTTCTTTCCTT
1 TTTCTTT-CTT
*
46170786 TTTCTTTTTT
1 TTTCTTTCTT
46170796 TTTCTTT-TT
1 TTTCTTTCTT
* *
46170805 TTTATTTCTG
1 TTTCTTTCTT
46170815 TTTCGTTTCTAT
1 TTTC-TTTCT-T
46170827 CTTTCTTTCTT
1 -TTTCTTTCTT
46170838 TTT
1 TTT
46170841 TATTTGTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
9 8 0.17
10 16 0.35
11 13 0.28
12 5 0.11
13 4 0.09
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:46170878 original size:13 final size:13
Alignment explanation
Indices: 46170862--46170886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46170852 TTATACATTA
46170862 TTATTTTATTATT
1 TTATTTTATTATT
46170875 TTATTTTATTAT
1 TTATTTTATTAT
46170887 AATATAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTTATTATT
Found at i:46175254 original size:99 final size:99
Alignment explanation
Indices: 46175083--46175667 Score: 929
Period size: 99 Copynumber: 5.9 Consensus size: 99
46175073 CGGGTTGAAA
*
46175083 AATTAAAAGATTGAAGCCACAACGGCGGATCTTACTTCATTAGCAGTGCAGCGGAACAGATTGAA
1 AATTAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAA
46175148 GCTACGACGGCGGATCTGGTTTCCCTGATATTGC
66 GCTACGACGGCGGATCTGGTTTCCCTGATATTGC
* *
46175182 AATTAAAAGATTGAAGCCACAACGGCGGATCTTACTTTCTTAGCAGTACAGCGGAACAGATTGAA
1 AATTAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAA
46175247 GCTACGACGGCGGATCTGGTTTCCCTGATATTGC
66 GCTACGACGGCGGATCTGGTTTCCCTGATATTGC
* * *
46175281 AATTAAAAGATTGAAGCCACAAAGACGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAA
1 AATTAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAA
* * *
46175346 GCTACGACGGCAGATCCGGTTTCTCTGATATTGC
66 GCTACGACGGCGGATCTGGTTTCCCTGATATTGC
* *
46175380 AATTAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTACAGCGGAATAGATTGAA
1 AATTAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAA
* * * *
46175445 TCTACGACGGCAGATCTAGTTACCCTGATATTGC
66 GCTACGACGGCGGATCTGGTTTCCCTGATATTGC
*
46175479 AATTAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTAAA
1 AATTAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAA
* *
46175544 GCTATGACGGCGGATCTGGTTTCCCTGATATTGT
66 GCTACGACGGCGGATCTGGTTTCCCTGATATTGC
* * * * * *
46175578 AATTAAAAAGATTAAAGCCACAACGGCGGATCTTACTTCCCT-GACGGTGCGGTGGAACAGGTTG
1 AATT-AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-CAGTGCAGCGGAACAGATTG
46175642 AAGCTACGACGGCGGATCTGGTTTCC
64 AAGCTACGACGGCGGATCTGGTTTCC
46175668 TCGACATTGC
Statistics
Matches: 446, Mismatches: 38, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
99 371 0.83
100 75 0.17
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (99 bp):
AATTAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAA
GCTACGACGGCGGATCTGGTTTCCCTGATATTGC
Found at i:46175693 original size:50 final size:51
Alignment explanation
Indices: 46175136--46175694 Score: 205
Period size: 50 Copynumber: 11.3 Consensus size: 51
46175126 CAGTGCAGCG
* * *
46175136 GAACAGATTGAAGCTACGACGGCGGATCTGGTTTCC-CTGATATTGCAATT
1 GAACAAATTGAAGCTACGACGGCGGATCTGGTTTCCTCTGACATTGCAGTT
* * ** * * **
46175186 -AA-AAGATTGAAGCCACAACGGCGGATCTTACTTT-CT-T-AGCAGTACAGCG
1 GAACAA-ATTGAAGCTACGACGGCGGATC-TGGTTTCCTCTGA-CATTGCAGTT
* * *
46175235 GAACAGATTGAAGCTACGACGGCGGATCTGGTTTCC-CTGATATTGCAATT
1 GAACAAATTGAAGCTACGACGGCGGATCTGGTTTCCTCTGACATTGCAGTT
* * * * *** * *
46175285 -AA-AAGATTGAAGCCACAAAGACGGATCTTACTTCCT-T-AGCAGTGCAGTG
1 GAACAA-ATTGAAGCTACGACGGCGGATCTGGTTTCCTCTGA-CATTGCAGTT
* * * * *
46175334 GAACAGATTGAAGCTACGACGGCAGATCCGGTTT-CTCTGATATTGCAATT
1 GAACAAATTGAAGCTACGACGGCGGATCTGGTTTCCTCTGACATTGCAGTT
* * *** * * **
46175384 -AA-AAGATTGAAGCCACAACGGCGGATCTTACTTCCT-T-AGCAGTACAGCG
1 GAACAA-ATTGAAGCTACGACGGCGGATCTGGTTTCCTCTGA-CATTGCAGTT
* * * * * * * *
46175433 GAATAGATTGAATCTACGACGGCAGATCTAGTTACC-CTGATATTGCAATT
1 GAACAAATTGAAGCTACGACGGCGGATCTGGTTTCCTCTGACATTGCAGTT
* * *** * **
46175483 -AA-AAGATTGAAGCCACAACGGCGGATCTTACTTCCT-T-AGCAGTGCAGCG
1 GAACAA-ATTGAAGCTACGACGGCGGATCTGGTTTCCTCTGA-CATTGCAGTT
* * * * * *
46175532 GAACAGATTAAAGCTATGACGGCGGATCTGGTTTCC-CTGATATTGTAATT
1 GAACAAATTGAAGCTACGACGGCGGATCTGGTTTCCTCTGACATTGCAGTT
* * * * *** ** * *
46175582 -AAAAAGATTAAAGCCACAACGGCGGATCTTACTTCC-CTGACGGTGCGGTG
1 GAACAA-ATTGAAGCTACGACGGCGGATCTGGTTTCCTCTGACATTGCAGTT
**
46175632 GAACAGGTTGAAGCTACGACGGCGGATCTGGTTTCCTC-GACATTGCAGTT
1 GAACAAATTGAAGCTACGACGGCGGATCTGGTTTCCTCTGACATTGCAGTT
46175682 GAACAAATTGAAG
1 GAACAAATTGAAG
46175695 ATTACAGATC
Statistics
Matches: 341, Mismatches: 135, Indels: 66
0.63 0.25 0.12
Matches are distributed among these distances:
48 8 0.02
49 127 0.37
50 194 0.57
51 12 0.04
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (51 bp):
GAACAAATTGAAGCTACGACGGCGGATCTGGTTTCCTCTGACATTGCAGTT
Found at i:46177274 original size:15 final size:17
Alignment explanation
Indices: 46177244--46177275 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
46177234 ACCCATGCAT
46177244 TTTTTAATAGATATATG
1 TTTTTAATAGATATATG
46177261 TTTTT-ATA-ATATATG
1 TTTTTAATAGATATATG
46177276 AATATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.56
Consensus pattern (17 bp):
TTTTTAATAGATATATG
Found at i:46181291 original size:20 final size:20
Alignment explanation
Indices: 46181266--46181325 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
46181256 TTCACCTCAT
46181266 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
46181286 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
*
46181306 GCATCGCATCATATGTATTA
1 GCATCGCATCATATGCATTA
46181326 AAGACCTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:46187032 original size:99 final size:99
Alignment explanation
Indices: 46186861--46187456 Score: 935
Period size: 99 Copynumber: 6.0 Consensus size: 99
46186851 CGGGTTGAAA
*
46186861 AATTAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAA
1 AATTAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAA
46186926 GCTACGACGGCGGATCTGGTTTCCCTGATATTGC
66 GCTACGACGGCGGATCTGGTTTCCCTGATATTGC
* *
46186960 AATTAAAAGATTGAAGCCACAACGACGGATCTTACTTTCTTAGCAGTACAGCGGAACAGATTGAA
1 AATTAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAA
46187025 GCTACGACGGCGGATCTGGTTTCCCTGATATTGC
66 GCTACGACGGCGGATCTGGTTTCCCTGATATTGC
* *
46187059 AATTAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAATGCAGTGGAACAGATTGAA
1 AATTAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAA
* *
46187124 GCTACGATGGTGGATCTGGTTTCCCTGATATTGC
66 GCTACGACGGCGGATCTGGTTTCCCTGATATTGC
* * *
46187158 AATTAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTACAGCGGAATAGATTGAA
1 AATTAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAA
* * * *
46187223 GTTACGACGGCAGATCTAGTTTCCCTGATATTGA
66 GCTACGACGGCGGATCTGGTTTCCCTGATATTGC
*
46187257 AATTAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAA
1 AATTAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAA
*
46187322 GCTACGACGGCGGATCTGGTTTCCCTGATATTGT
66 GCTACGACGGCGGATCTGGTTTCCCTGATATTGC
* * * * * *
46187356 AATTAAAAAGATTGAAGCCACAAC-AGCGGATCTTACTTTCCTGA-CGGTGCGGTGGAATAGGTT
1 AATT-AAAAGATTGAAGCCACAACGA-CGGATCTTAC-TTCCTTAGCAGTGCAGCGGAACAGATT
* *
46187419 GAAGCTACGACGGCGGATCTGGTTTCCCCGACATTGC
63 GAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGC
46187456 A
1 A
46187457 GTTGAACAAA
Statistics
Matches: 458, Mismatches: 36, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
99 374 0.82
100 78 0.17
101 6 0.01
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (99 bp):
AATTAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAA
GCTACGACGGCGGATCTGGTTTCCCTGATATTGC
Found at i:46187471 original size:50 final size:50
Alignment explanation
Indices: 46186914--46187472 Score: 239
Period size: 50 Copynumber: 11.3 Consensus size: 50
46186904 CAGTGCAGCG
* * *
46186914 GAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATT
1 GAACAAATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTT
* * * ** * * * **
46186964 -AA-AAGATTGAAGCCACAACGACGGATCTTACTTT--CTTAGCAGTACAGCG
1 GAACAA-ATTGAAGCTACGACGGCGGATC-TGGTTTCCCTGA-CATTGCAGTT
* * *
46187013 GAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATT
1 GAACAAATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTT
* * * *** * * *
46187063 -AA-AAGATTGAAGCCACAACGACGGATCTTACTT-CCTTAGCAATGCAGTG
1 GAACAA-ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA-CATTGCAGTT
* * * * *
46187112 GAACAGATTGAAGCTACGATGGTGGATCTGGTTTCCCTGATATTGCAATT
1 GAACAAATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTT
* * *** * * * **
46187162 -AA-AAGATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCAGTACAGCG
1 GAACAA-ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA-CATTGCAGTT
* * * * * * * *
46187211 GAATAGATTGAAGTTACGACGGCAGATCTAGTTTCCCTGATATTGAAATT
1 GAACAAATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTT
* * *** * * **
46187261 -AA-AAGATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCAGTGCAGCG
1 GAACAA-ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA-CATTGCAGTT
* * * *
46187310 GAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGTAATT
1 GAACAAATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTT
* * * * ** ** * *
46187360 -AAAAAGATTGAAGCCACAACAGCGGATCTTACTTT-CCTGACGGTGCGGTG
1 GAACAA-ATTGAAGCTACGACGGCGGATC-TGGTTTCCCTGACATTGCAGTT
* ** *
46187410 GAATAGGTTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTGCAGTT
1 GAACAAATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTT
46187460 GAACAAATTGAAG
1 GAACAAATTGAAG
46187473 ATTACAGATC
Statistics
Matches: 342, Mismatches: 141, Indels: 52
0.64 0.26 0.10
Matches are distributed among these distances:
48 19 0.06
49 120 0.35
50 177 0.52
51 26 0.08
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (50 bp):
GAACAAATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTT
Found at i:46188256 original size:12 final size:11
Alignment explanation
Indices: 46188215--46188262 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 11
46188205 ATTTTTGTTC
46188215 TTTTTTCTTTT
1 TTTTTTCTTTT
46188226 CGTTATTTTCTTTT
1 --TT-TTTTCTTTT
46188240 TTTTTTCTTTT
1 TTTTTTCTTTT
*
46188251 TATTTTGCTTTT
1 T-TTTTTCTTTT
46188263 CTAAATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
11 10 0.31
12 11 0.34
13 2 0.06
14 9 0.28
ACGTcount: A:0.04, C:0.10, G:0.04, T:0.81
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:46189140 original size:15 final size:17
Alignment explanation
Indices: 46189110--46189141 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
46189100 CCCATGCATT
46189110 TTTTTAATAGATATATG
1 TTTTTAATAGATATATG
46189127 TTTTT-ATA-ATATATG
1 TTTTTAATAGATATATG
46189142 AATATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.56
Consensus pattern (17 bp):
TTTTTAATAGATATATG
Found at i:46190651 original size:36 final size:36
Alignment explanation
Indices: 46190611--46190682 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
46190601 GAATATTGAC
* *
46190611 TTGAAAATGGAAAAGT-AAATTTGAATTGAATTGTGA
1 TTGAAAATGAAAAAGTGAAA-TTGAATTGAAATGTGA
**
46190647 TTGAAGGTGAAAAAGTGAAATTGAATTGAAATGTGA
1 TTGAAAATGAAAAAGTGAAATTGAATTGAAATGTGA
46190683 ATTTGAGAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 28 0.90
37 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (36 bp):
TTGAAAATGAAAAAGTGAAATTGAATTGAAATGTGA
Found at i:46190910 original size:23 final size:22
Alignment explanation
Indices: 46190882--46190991 Score: 118
Period size: 23 Copynumber: 5.0 Consensus size: 22
46190872 CGGCTTTGCC
46190882 AATCAGGCACTTTATGTGTCGT
1 AATCAGGCACTTTATGTGTCGT
46190904 ACATCAGGCACTTTATGTGTCGT
1 A-ATCAGGCACTTTATGTGTCGT
* * *
46190927 ATCTCAGGCACTGTATGTGTTGT
1 A-ATCAGGCACTTTATGTGTCGT
* **
46190950 -ATCAGGCACCTCGTGTGTCGT
1 AATCAGGCACTTTATGTGTCGT
*
46190971 -TTCAGGCAC-TTATGTGTCGT
1 AATCAGGCACTTTATGTGTCGT
46190991 A
1 A
46190992 TACTGATCAG
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
20 9 0.12
21 23 0.32
22 1 0.01
23 40 0.55
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (22 bp):
AATCAGGCACTTTATGTGTCGT
Found at i:46190937 original size:46 final size:43
Alignment explanation
Indices: 46190884--46190991 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 43
46190874 GCTTTGCCAA
* *
46190884 TCAGGCACTTTATGTGTCGTACATCAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTA-ATCAGGCACCTCATGTGTCGT-T
* * *
46190929 CTCAGGCACTGTATGTGTTGT-ATCAGGCACCTCGTGTGTCGTT
1 -TCAGGCACTTTATGTGTCGTAATCAGGCACCTCATGTGTCGTT
46190972 TCAGGCAC-TTATGTGTCGTA
1 TCAGGCACTTTATGTGTCGTA
46190992 TACTGATCAG
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
41 9 0.17
42 8 0.15
43 1 0.02
44 18 0.33
46 18 0.33
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (43 bp):
TCAGGCACTTTATGTGTCGTAATCAGGCACCTCATGTGTCGTT
Found at i:46191179 original size:6 final size:6
Alignment explanation
Indices: 46191168--46191198 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
46191158 AAATTTGTGG
*
46191168 ATTGAA ATTGAA ATTGAA ATTGAA AATGAA A
1 ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA A
46191199 GGCATGAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (6 bp):
ATTGAA
Found at i:46192071 original size:34 final size:34
Alignment explanation
Indices: 46192026--46192094 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
46192016 AGGGGGTGTT
* *
46192026 ACACGCTAGTGCTCATAAGAGCTAATCCCCTGAA
1 ACACGCCAGTGCTCATAAGAGCTAATCCCCCGAA
46192060 ACACGCCAGTGCTCATAAGAGCTAATCCCCCGAA
1 ACACGCCAGTGCTCATAAGAGCTAATCCCCCGAA
46192094 A
1 A
46192095 TAAGCTAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.33, C:0.32, G:0.17, T:0.17
Consensus pattern (34 bp):
ACACGCCAGTGCTCATAAGAGCTAATCCCCCGAA
Found at i:46194052 original size:18 final size:17
Alignment explanation
Indices: 46194019--46194057 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
46194009 TTGTATAAAT
46194019 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
46194037 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
46194054 TGTG
1 TGTG
46194058 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:46194310 original size:23 final size:23
Alignment explanation
Indices: 46194283--46194380 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
46194273 AGTGTTATTG
46194283 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
46194306 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
46194329 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
46194351 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
46194374 ATCAGTG
1 ATCAGTG
46194381 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:46194349 original size:45 final size:45
Alignment explanation
Indices: 46194285--46194373 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
46194275 TGTTATTGAT
* *
46194285 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
46194330 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
46194374 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:46198156 original size:57 final size:58
Alignment explanation
Indices: 46198054--46198169 Score: 180
Period size: 57 Copynumber: 2.0 Consensus size: 58
46198044 AACAATTTCT
* *
46198054 ACTTATCGTAATTATACTAAATCATATAATATATACTCTATAGCAAAATTTTAACATA
1 ACTTATCGTAATTATACAAAATCATATAATATATACTCTAGAGCAAAATTTTAACATA
* * *
46198112 ACTTATGGTAATTATA-AAAATTATATAATATATATTCTAGAGCAAAATTTTAACATA
1 ACTTATCGTAATTATACAAAATCATATAATATATACTCTAGAGCAAAATTTTAACATA
46198169 A
1 A
46198170 ACAAAGAACT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 38 0.72
58 15 0.28
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (58 bp):
ACTTATCGTAATTATACAAAATCATATAATATATACTCTAGAGCAAAATTTTAACATA
Found at i:46200360 original size:6 final size:6
Alignment explanation
Indices: 46200349--46200375 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
46200339 GAAGGCGAGA
46200349 AGAAGG AGAAGG AGAAGG AGAAGG AGA
1 AGAAGG AGAAGG AGAAGG AGAAGG AGA
46200376 GGTCGTCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (6 bp):
AGAAGG
Found at i:46205232 original size:27 final size:25
Alignment explanation
Indices: 46205183--46205234 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 25
46205173 TTTTGAATTC
*
46205183 GTGTTATATGTAAAAAATTATTTTT
1 GTGTTATATGTAAAAAAATATTTTT
46205208 GTGTTATATGTAAAAAAAAATATTTTT
1 GTGTTATATGT--AAAAAAATATTTTT
46205235 ATTAAGATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 11 0.46
27 13 0.54
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (25 bp):
GTGTTATATGTAAAAAAATATTTTT
Found at i:46205346 original size:26 final size:27
Alignment explanation
Indices: 46205297--46205351 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
46205287 AATGATTTAA
*
46205297 AAATAAATAAAAATTATCAGAAAG-AT
1 AAATAAATAAAAATTATCAAAAAGCAT
** *
46205323 AAATAAATTCAAATTATTAAAAAGCAT
1 AAATAAATAAAAATTATCAAAAAGCAT
46205350 AA
1 AA
46205352 GTTATTAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.25
Consensus pattern (27 bp):
AAATAAATAAAAATTATCAAAAAGCAT
Found at i:46206967 original size:19 final size:18
Alignment explanation
Indices: 46206928--46206971 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
46206918 GAAAAACAAA
*
46206928 TTTATAGAAATAAAATGTT
1 TTTATAAAAATAAAA-GTT
46206947 TTTATAAAAATAATAA-TT
1 TTTATAAAAATAA-AAGTT
46206965 TTTATAA
1 TTTATAA
46206972 TTTTATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 9 0.39
19 12 0.52
20 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (18 bp):
TTTATAAAAATAAAAGTT
Found at i:46207233 original size:26 final size:31
Alignment explanation
Indices: 46207186--46207256 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 31
46207176 TAAAAGAATT
* *
46207186 CAAACATAGGTA-TGAATTTG-A-ATA-AAA
1 CAAACATAGGTACCGAATATGAACATAGAAA
46207213 -AAACATAGGTACCGAA-ATGAACATAGAAA
1 CAAACATAGGTACCGAATATGAACATAGAAA
46207242 TCAAACATAGGTACC
1 -CAAACATAGGTACC
46207257 AAAAAAGTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
26 13 0.36
27 4 0.11
28 3 0.08
29 3 0.08
31 13 0.36
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (31 bp):
CAAACATAGGTACCGAATATGAACATAGAAA
Found at i:46209073 original size:4 final size:4
Alignment explanation
Indices: 46209064--46209096 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
46209054 AGAAGAACCC
*
46209064 CATA CATA CATA CGTA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA CATA C
46209097 CTTCTCTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.45, C:0.27, G:0.03, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:46214300 original size:24 final size:24
Alignment explanation
Indices: 46214268--46214318 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
46214258 GTGAGTTTTA
46214268 AATTCTGACCTAAATTAATCTGCC
1 AATTCTGACCTAAATTAATCTGCC
46214292 AATTCTGACCTAAATTAATCTGCC
1 AATTCTGACCTAAATTAATCTGCC
46214316 AAT
1 AAT
46214319 GTTTTTCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (24 bp):
AATTCTGACCTAAATTAATCTGCC
Found at i:46217713 original size:17 final size:17
Alignment explanation
Indices: 46217688--46217721 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46217678 ATAATTTTAA
*
46217688 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
46217705 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
46217722 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:46217723 original size:15 final size:16
Alignment explanation
Indices: 46217688--46217726 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
46217678 ATAATTTTAA
*
46217688 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
46217705 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
46217720 ATTTAAT
1 ATTTAAT
46217727 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:46217730 original size:17 final size:18
Alignment explanation
Indices: 46217692--46217731 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
46217682 TTTTAAATTT
*
46217692 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
46217710 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
46217726 TATTAA
1 TATTAA
46217732 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:46217846 original size:15 final size:15
Alignment explanation
Indices: 46217811--46217862 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
46217801 TTAAGAATTT
*
46217811 TATTAAATTAT-ATA
1 TATTTAATTATAATA
46217825 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
46217839 TATTTAATAATAAT-
1 TATTTAATTATAATA
46217853 TATGTTAATT
1 TAT-TTAATT
46217863 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:46217853 original size:120 final size:120
Alignment explanation
Indices: 46217687--46217978 Score: 459
Period size: 120 Copynumber: 2.4 Consensus size: 120
46217677 AATAATTTTA
* * *
46217687 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATATTAATTAT-TTGAAATTT-TCT
1 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTT--AATTTATAT
* *
46217748 TTTATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAAT-TTTATTTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTT-TTAAG
46217806 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
46217871 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
46217926 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
46217979 TAAATATGAT
Statistics
Matches: 162, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
119 23 0.14
120 128 0.79
121 11 0.07
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
Found at i:46217943 original size:59 final size:59
Alignment explanation
Indices: 46217760--46217943 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
46217750 TATAGTATCA
* *
46217760 TATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAAT
* * * * * * * *
46217819 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-CAGTAT
1 TATATTATGATTTGAGTA-AAT-TCATATAAGAAT-ATTAT-TT-ATTAAGAATTTTATTA-AAT
46217878 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTT-TTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATT-ATTTATTAAGAATTTTATTAAAT
46217939 TATAT
1 TATAT
46217944 ATTTTAATTA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 9 0.10
59 19 0.21
60 7 0.08
61 12 0.13
62 10 0.11
63 13 0.14
64 6 0.07
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAAT
Found at i:46217961 original size:16 final size:16
Alignment explanation
Indices: 46217940--46217981 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
46217930 TTATTAAATT
*
46217940 ATATATTTTAATTATA
1 ATATATTTTAATAATA
46217956 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
46217971 AT-TATGTTTAA
1 ATATAT-TTTAA
46217982 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:46217966 original size:15 final size:15
Alignment explanation
Indices: 46217931--46217972 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46217921 TTAAGAATTT
*
46217931 TATTAAATTAT-ATA
1 TATTTAATTATAATA
46217945 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
46217959 TATTTAATAATAAT
1 TATTTAATTATAAT
46217973 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:46218092 original size:154 final size:156
Alignment explanation
Indices: 46217915--46218228 Score: 569
Period size: 154 Copynumber: 2.0 Consensus size: 156
46217905 ATAAGAATAT
* *
46217915 TAATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
46217980 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAAT
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
46218043 AATAATTTACCAAAACAAATTTATGC
131 AATAATTTACCAAAACAAATTTATGC
46218069 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
46218134 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAA
* *
46218199 TAATCATTTACCAAAACAAATTTCTGC
130 TAATAATTTACCAAAACAAATTTATGC
46218226 TAA
1 TAA
46218229 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
154 91 0.59
155 2 0.01
157 60 0.39
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
AATAATTTACCAAAACAAATTTATGC
Found at i:46218109 original size:18 final size:17
Alignment explanation
Indices: 46218081--46218115 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46218071 ATTATTAAGA
*
46218081 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
46218098 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
46218116 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:46218149 original size:75 final size:75
Alignment explanation
Indices: 46217916--46218151 Score: 203
Period size: 75 Copynumber: 3.1 Consensus size: 75
46217906 TAAGAATATT
* *
46217916 AATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
46217981 AATATGATTA
66 AATATGATTA
* ** * * * * * * *
46217991 AATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT-TA
1 AATTATTAAGAATT-TTATTAA-ATTA-TATATTTTAATTAA-AATATATTTAATAATAATTATG
*** * *
46218052 CCAAAACA-AATTTA
62 TTTAAATATGA-TTA
46218066 TGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
1 ----AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
46218131 TTTAAATATGATTA
62 TTTAAATATGATTA
46218145 AATTATT
1 AATTATT
46218152 TATTATTGAT
Statistics
Matches: 115, Mismatches: 32, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
74 1 0.01
75 29 0.25
76 28 0.24
77 6 0.05
78 27 0.23
79 23 0.20
80 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:46218369 original size:16 final size:16
Alignment explanation
Indices: 46218348--46218386 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
46218338 TTGATTTGCT
*
46218348 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
46218364 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
46218380 ATTACAC
1 ATTACAC
46218387 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:46218387 original size:16 final size:16
Alignment explanation
Indices: 46218361--46218417 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
46218351 ACACAGCTTT
* *
46218361 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
46218377 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
46218393 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
46218409 TCCAATACA
1 TCCAATACA
46218418 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:46225453 original size:18 final size:18
Alignment explanation
Indices: 46225430--46225472 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
46225420 AATAAAATCA
*
46225430 TATTTATAGAAAAATATT
1 TATTTATACAAAAATATT
*
46225448 TATTTA-ACTAAAATATT
1 TATTTATACAAAAATATT
*
46225465 TAATTATA
1 TATTTATA
46225473 AAAGAACTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
TATTTATACAAAAATATT
Found at i:46232683 original size:13 final size:15
Alignment explanation
Indices: 46232649--46232699 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
46232639 TGAAAATGAT
46232649 ATAATAAGTATAATAA
1 ATAAT-AGTATAATAA
*
46232665 ATAATAGTGTAA-AA
1 ATAATAGTATAATAA
46232679 A-AATAGTATAATAA
1 ATAATAGTATAATAA
46232693 ATAATAG
1 ATAATAG
46232700 GAAAATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 9 0.29
14 6 0.19
15 11 0.35
16 5 0.16
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
ATAATAGTATAATAA
Found at i:46233961 original size:8 final size:8
Alignment explanation
Indices: 46233948--46233989 Score: 57
Period size: 8 Copynumber: 4.9 Consensus size: 8
46233938 AAATAGATTT
46233948 ATAAAAAA
1 ATAAAAAA
46233956 ATAAAAAA
1 ATAAAAAA
46233964 ATAAAATAA
1 ATAAAA-AA
46233973 ATAACAAAA
1 ATAA-AAAA
46233982 ATGAAAAA
1 AT-AAAAA
46233990 TGAACAAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 14 0.45
9 13 0.42
10 4 0.13
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (8 bp):
ATAAAAAA
Found at i:46237543 original size:20 final size:19
Alignment explanation
Indices: 46237514--46237551 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
46237504 AAGTAGTGAG
46237514 AATTTATTTTCTAAGAATA
1 AATTTATTTTCTAAGAATA
*
46237533 AATTCTATTTTCTGAGAAT
1 AATT-TATTTTCTAAGAAT
46237552 TACAATTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:46241290 original size:21 final size:21
Alignment explanation
Indices: 46241238--46241282 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
46241228 TATGTGGGAT
46241238 AGTGTCAAAGGAAGGTGTGAC
1 AGTGTCAAAGGAAGGTGTGAC
*
46241259 AGTGTCAAAGGAATGTGTGAC
1 AGTGTCAAAGGAAGGTGTGAC
46241280 AGT
1 AGT
46241283 TGGAAAGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.36, T:0.22
Consensus pattern (21 bp):
AGTGTCAAAGGAAGGTGTGAC
Found at i:46244828 original size:21 final size:21
Alignment explanation
Indices: 46244802--46244842 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
46244792 ATCTGCTCAA
* *
46244802 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
46244823 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
46244843 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:46249878 original size:5 final size:5
Alignment explanation
Indices: 46249868--46249898 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
46249858 TTTTTAAAGA
46249868 AATAT AATAT AATAT AATAT AATAT AATAT A
1 AATAT AATAT AATAT AATAT AATAT AATAT A
46249899 TTTATTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:46249957 original size:30 final size:31
Alignment explanation
Indices: 46249893--46249954 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
46249883 AATATAATAT
*
46249893 AATATATTTATTTATTATTTTTAAAGGATTA
1 AATATATTTATTTATTAATTTTAAAGGATTA
*
46249924 AATATATATT-TTT-TTAATTTTAGAGG-TTA
1 AATATAT-TTATTTATTAATTTTAAAGGATTA
46249953 AA
1 AA
46249955 ATAAAGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 5 0.18
30 11 0.39
31 10 0.36
32 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (31 bp):
AATATATTTATTTATTAATTTTAAAGGATTA
Found at i:46261935 original size:21 final size:20
Alignment explanation
Indices: 46261905--46261945 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
46261895 GCGCAAAACA
46261905 AAAACCATGAAAAATGTGGAC
1 AAAACCATG-AAAATGTGGAC
* *
46261926 AAAACTATGATAATGTGGAC
1 AAAACCATGAAAATGTGGAC
46261946 TGAAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.49, C:0.12, G:0.20, T:0.20
Consensus pattern (20 bp):
AAAACCATGAAAATGTGGAC
Found at i:46273662 original size:20 final size:20
Alignment explanation
Indices: 46273612--46273662 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
46273602 CATAAAACAC
*
46273612 TCAAACAATAACTTATATGT
1 TCAAACAAAAACTTATATGT
* *
46273632 TCCATAGAAAAACTTAT-TGT
1 T-CAAACAAAAACTTATATGT
46273652 TCAACACAAAA
1 TCAA-ACAAAA
46273663 GATAGGGGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
19 2 0.08
20 10 0.42
21 12 0.50
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (20 bp):
TCAAACAAAAACTTATATGT
Found at i:46278422 original size:93 final size:93
Alignment explanation
Indices: 46278263--46278448 Score: 372
Period size: 93 Copynumber: 2.0 Consensus size: 93
46278253 CCGCAGGGAG
46278263 AGTGGTGAGAAATCATCTAGGGGAATGGATTATGGATTTTAATCATTCATTGGGGAAGTGTTCAA
1 AGTGGTGAGAAATCATCTAGGGGAATGGATTATGGATTTTAATCATTCATTGGGGAAGTGTTCAA
46278328 TCTTTGATGCTGAGTTATGGGGTATCTT
66 TCTTTGATGCTGAGTTATGGGGTATCTT
46278356 AGTGGTGAGAAATCATCTAGGGGAATGGATTATGGATTTTAATCATTCATTGGGGAAGTGTTCAA
1 AGTGGTGAGAAATCATCTAGGGGAATGGATTATGGATTTTAATCATTCATTGGGGAAGTGTTCAA
46278421 TCTTTGATGCTGAGTTATGGGGTATCTT
66 TCTTTGATGCTGAGTTATGGGGTATCTT
46278449 GAATGACCTG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.26, C:0.09, G:0.29, T:0.37
Consensus pattern (93 bp):
AGTGGTGAGAAATCATCTAGGGGAATGGATTATGGATTTTAATCATTCATTGGGGAAGTGTTCAA
TCTTTGATGCTGAGTTATGGGGTATCTT
Found at i:46282811 original size:26 final size:25
Alignment explanation
Indices: 46282776--46282834 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
46282766 TTTATATTTA
*
46282776 TTTATGTTT-AATAATTGTAATTAATT
1 TTTATTTTTAAATAATT-TAA-TAATT
* *
46282802 TTTATTTTTAAATTATTTAATATTT
1 TTTATTTTTAAATAATTTAATAATT
46282827 TTTATTTT
1 TTTATTTT
46282835 GTATATTATC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 12 0.41
26 11 0.38
27 6 0.21
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (25 bp):
TTTATTTTTAAATAATTTAATAATT
Found at i:46282826 original size:24 final size:26
Alignment explanation
Indices: 46282799--46282856 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
46282789 ATTGTAATTA
46282799 ATTTTTATTTT-TAAATTAT-TTAAT
1 ATTTTTATTTTGTAAATTATCTTAAT
* *
46282823 ATTTTTTATTTTGTATATTATCTTATT
1 A-TTTTTATTTTGTAAATTATCTTAAT
46282850 ATTTTTA
1 ATTTTTA
46282857 ATATATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 1 0.03
25 10 0.34
26 13 0.45
27 5 0.17
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (26 bp):
ATTTTTATTTTGTAAATTATCTTAAT
Found at i:46282842 original size:26 final size:26
Alignment explanation
Indices: 46282800--46282855 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
46282790 TTGTAATTAA
46282800 TTTTTATTTTTAAATTAT-TTAATAT
1 TTTTTATTTTTAAATTATCTTAATAT
* *
46282825 TTTTTATTTTGTATATTATCTTATTAT
1 TTTTTATTTT-TAAATTATCTTAATAT
46282852 TTTT
1 TTTT
46282856 AATATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 10 0.37
26 7 0.26
27 10 0.37
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (26 bp):
TTTTTATTTTTAAATTATCTTAATAT
Found at i:46286358 original size:2 final size:2
Alignment explanation
Indices: 46286351--46286376 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
46286341 ACCTCAGAGC
46286351 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
46286377 GCAGGGTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46288203 original size:15 final size:15
Alignment explanation
Indices: 46288159--46288209 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
46288149 AGAAAACCCG
*
46288159 AATATCTCAAACTCAA
1 AATAT-TCAAACTTAA
*
46288175 AATAATTTAAACTTAA
1 AAT-ATTCAAACTTAA
*
46288191 AATATTCAAACTTGA
1 AATATTCAAACTTAA
46288206 AATA
1 AATA
46288210 ATCCTAACAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 14 0.47
16 14 0.47
17 2 0.07
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.31
Consensus pattern (15 bp):
AATATTCAAACTTAA
Found at i:46296474 original size:28 final size:28
Alignment explanation
Indices: 46296434--46296500 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
46296424 TAACGGTGAT
*
46296434 CAAGCTAGCATTTATGAATTTGCTCACA
1 CAAGCTAACATTTATGAATTTGCTCACA
*
46296462 CAAGCTAACATTTATGAATTTGCTCTCA
1 CAAGCTAACATTTATGAATTTGCTCACA
46296490 CAAGCTAACAT
1 CAAGCTAACAT
46296501 CGTATCGAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (28 bp):
CAAGCTAACATTTATGAATTTGCTCACA
Found at i:46297717 original size:38 final size:38
Alignment explanation
Indices: 46297661--46297733 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
46297651 AGCATGCTTA
46297661 ACCAAAAATAAGTCGAATTCCTTATCGTCCACCACTGT
1 ACCAAAAATAAGTCGAATTCCTTATCGTCCACCACTGT
*
46297699 ACCAAAAATAAGTGGAATTCCTTATCGTCCACCAC
1 ACCAAAAATAAGTCGAATTCCTTATCGTCCACCAC
46297734 CGTTTGACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.36, C:0.29, G:0.11, T:0.25
Consensus pattern (38 bp):
ACCAAAAATAAGTCGAATTCCTTATCGTCCACCACTGT
Found at i:46298052 original size:21 final size:21
Alignment explanation
Indices: 46298030--46298082 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
46298020 ATATATTTTA
46298030 AAAT-TATAGAAAA-TAGAAAT
1 AAATATATA-AAAAGTAGAAAT
46298050 AAATATATAAAAAGTAGAAA-
1 AAATATATAAAAAGTAGAAAT
*
46298070 ATATATTATAAAA
1 AAATA-TATAAAA
46298083 TATAATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (21 bp):
AAATATATAAAAAGTAGAAAT
Found at i:46299627 original size:67 final size:68
Alignment explanation
Indices: 46299544--46299691 Score: 183
Period size: 67 Copynumber: 2.2 Consensus size: 68
46299534 ATAGATTTTT
* *
46299544 TTAATTTATAAATAAATTAATAAGATAAAAAGATACATA-TTTGTAGATATAATATAATAAATT-
1 TTAATTT-T-AATAAATTAATAAGATAAAAAGATACATACTTT-TAAATATAATATAAGAAATTA
*
46299607 AAAAAG
63 AAAAAA
* * * * *
46299613 TTAATTTTAATAAATTAATAGGATAAAAAGATAGATACTTTTAAATTTAATTTAAGAATTTAAAA
1 TTAATTTTAATAAATTAATAAGATAAAAAGATACATACTTTTAAATATAATATAAGAAATTAAAA
46299678 AAA
66 AAA
46299681 TTAATTTTAAT
1 TTAATTTTAAT
46299692 TTTACATTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
67 42 0.61
68 20 0.29
69 7 0.10
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (68 bp):
TTAATTTTAATAAATTAATAAGATAAAAAGATACATACTTTTAAATATAATATAAGAAATTAAAA
AAA
Found at i:46299856 original size:20 final size:20
Alignment explanation
Indices: 46299831--46299871 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
46299821 ACTATTTTTA
*
46299831 TTAAAAA-TTAATTTTAATCC
1 TTAAAAAGTTAAATTT-ATCC
46299851 TTAAAAAGTTAAATTTATCC
1 TTAAAAAGTTAAATTTATCC
46299871 T
1 T
46299872 ACATTGACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (20 bp):
TTAAAAAGTTAAATTTATCC
Found at i:46312881 original size:12 final size:12
Alignment explanation
Indices: 46312864--46312891 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
46312854 AGGGCCGCTT
46312864 ACAACTTGGAGA
1 ACAACTTGGAGA
46312876 ACAACTTGGAGA
1 ACAACTTGGAGA
46312888 ACAA
1 ACAA
46312892 GGCGCTTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (12 bp):
ACAACTTGGAGA
Found at i:46313807 original size:16 final size:16
Alignment explanation
Indices: 46313786--46313859 Score: 55
Period size: 16 Copynumber: 4.6 Consensus size: 16
46313776 ACAAAGAATG
*
46313786 ATTTATTTTTTATGTA
1 ATTTATTTGTTATGTA
46313802 ATTTATTTGTTATGT-
1 ATTTATTTGTTATGTA
* *
46313817 GTGTT-TTAGGTTGAT-TA
1 AT-TTATT-TGTT-ATGTA
*
46313834 GATTTATTTTTTATGTA
1 -ATTTATTTGTTATGTA
46313851 ATTTATTTG
1 ATTTATTTG
46313860 ACATGTTATT
Statistics
Matches: 44, Mismatches: 7, Indels: 14
0.68 0.11 0.22
Matches are distributed among these distances:
15 3 0.07
16 30 0.68
17 8 0.18
18 3 0.07
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.64
Consensus pattern (16 bp):
ATTTATTTGTTATGTA
Found at i:46315504 original size:14 final size:14
Alignment explanation
Indices: 46315485--46315518 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
46315475 TTGACATTTT
*
46315485 TTCTAATGATACTA
1 TTCTAACGATACTA
46315499 TTCTAACGATACTA
1 TTCTAACGATACTA
46315513 TTCTAA
1 TTCTAA
46315519 AATGTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:46316806 original size:62 final size:62
Alignment explanation
Indices: 46316722--46316873 Score: 286
Period size: 62 Copynumber: 2.5 Consensus size: 62
46316712 ATTACAACAT
46316722 TACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACAC
1 TACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACAC
* *
46316784 TACAACATTAAAACTTGAAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACAT
1 TACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACAC
46316846 TACAACATTAAAACTTGGAACAAACTTT
1 TACAACATTAAAACTTGGAACAAACTTT
46316874 AGGTCCGCGA
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 87 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (62 bp):
TACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACAC
Found at i:46322156 original size:18 final size:18
Alignment explanation
Indices: 46322133--46322169 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
46322123 AATAATACAT
46322133 TTTCTTTCTTCTCTTTTC
1 TTTCTTTCTTCTCTTTTC
*
46322151 TTTCTTTCTTCTGTTTTC
1 TTTCTTTCTTCTCTTTTC
46322169 T
1 T
46322170 CTCTCTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTCTTTCTTCTCTTTTC
Found at i:46343298 original size:2 final size:2
Alignment explanation
Indices: 46343291--46343316 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
46343281 CTAACTCAGG
46343291 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
46343317 ATCCTACATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Done.