Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 78 of 230
Found at i:21469322 original size:18 final size:18
Alignment explanation
Indices: 21469299--21469340 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
21469289 ATTACTCGGT
21469299 CGAAGCGCTCATCCTAGA
1 CGAAGCGCTCATCCTAGA
21469317 CGAAGCGCTCATCCTAGA
1 CGAAGCGCTCATCCTAGA
21469335 CGAAGC
1 CGAAGC
21469341 AAAAAGATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.24, T:0.14
Consensus pattern (18 bp):
CGAAGCGCTCATCCTAGA
Found at i:21470553 original size:27 final size:28
Alignment explanation
Indices: 21470520--21470589 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
21470510 GACAAAATCC
*
21470520 AAACTTTTCAATGGA-T-TGAATTGAGT
1 AAACTTTTCAATGAATTGTGAATTGAGT
**
21470546 AAATCTTTTTTATGAATTGTGAATTGAGT
1 AAA-CTTTTCAATGAATTGTGAATTGAGT
21470575 AAACTTTTCAATGAA
1 AAACTTTTCAATGAA
21470590 GTAAGGTGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 3 0.08
27 9 0.25
28 11 0.31
29 13 0.36
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (28 bp):
AAACTTTTCAATGAATTGTGAATTGAGT
Found at i:21472019 original size:21 final size:21
Alignment explanation
Indices: 21472003--21472054 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
21471993 TCTGGTTTCT
*
21472003 GGTTTTGGGTGAATGGTTTAG
1 GGTTTTGGGTAAATGGTTTAG
*
21472024 GGTTTTGGGTAAATGGTTTAA
1 GGTTTTGGGTAAATGGTTTAG
*
21472045 GGTTTAGGGT
1 GGTTTTGGGT
21472055 TTAGAGTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.42
Consensus pattern (21 bp):
GGTTTTGGGTAAATGGTTTAG
Found at i:21472033 original size:7 final size:7
Alignment explanation
Indices: 21472017--21472085 Score: 50
Period size: 7 Copynumber: 9.7 Consensus size: 7
21472007 TTGGGTGAAT
21472017 GGTTTAG
1 GGTTTAG
*
21472024 GGTTTTG
1 GGTTTAG
** *
21472031 GGTAAAT
1 GGTTTAG
*
21472038 GGTTTAA
1 GGTTTAG
21472045 GGTTTAG
1 GGTTTAG
21472052 GGTTTAG
1 GGTTTAG
*
21472059 AG-TTAG
1 GGTTTAG
*
21472065 AGTTTTTAG
1 -G-GTTTAG
21472074 GGTTTAG
1 GGTTTAG
21472081 GGTTT
1 GGTTT
21472086 TAAAGAAAAA
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
6 4 0.09
7 37 0.80
8 1 0.02
9 4 0.09
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:21472569 original size:126 final size:125
Alignment explanation
Indices: 21472344--21472887 Score: 772
Period size: 126 Copynumber: 4.3 Consensus size: 125
21472334 TTGTTAATTT
*
21472344 AAAGAAGCTCCCATGTGGAC-GCATTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCAAGTTGA
1 AAAGAAGCTCCCACGTGGACAGC--TTTTGCTACAGTAGCTCTTGAAAAAATAATTTCAAGTTGA
* * *
21472408 CGTTTCTGAGCAAATAGTGTCAAAAACGCTTT-AGTTAGGATGATTTGTTAGCAAAAGTACTG
64 CGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAG-CAGGATGCTTTGTCAGCAAAAGTACTG
* * ** *
21472470 AAAGAAGCTCCCACGTGGACATGCTTTTCCTACAGTAGCTCCTGAAAAAATAATTTTGAGTTGAT
1 AAAGAAGCTCCCACGTGGACA-GCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCAAGTTGAC
* * * *
21472535 GTTTCTGAACAAATAGTGTCAAAAACGCTTT-AGTTAGGATGCTTTGTTAGCAAAAGTATTG
65 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAG-CAGGATGCTTTGTCAGCAAAAGTACTG
* * *
21472596 AAAGAAGCTCCCACGTGGACGAGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGAT
1 AAAGAAGCTCCCACGTGGAC-AGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCAAGTTGAC
* * * *
21472661 ATTTTTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTATTG
65 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
*
21472722 AAAGAAGCTTCCACGTGGACGAGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCAAGTAT-A
1 AAAGAAGCTCCCACGTGGAC-AGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCAAGT-TGA
21472786 CGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
64 CGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
* *
21472848 AAAGAAGCTCCCACGTGGACGTGTTTTTGCTACAGTAGCT
1 AAAGAAGCTCCCACGTGGAC-AGCTTTTGCTACAGTAGCT
21472888 TCTGTTAGGC
Statistics
Matches: 383, Mismatches: 30, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
126 378 0.99
127 3 0.01
128 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (125 bp):
AAAGAAGCTCCCACGTGGACAGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCAAGTTGACG
TTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
Found at i:21476008 original size:33 final size:32
Alignment explanation
Indices: 21475969--21476067 Score: 107
Period size: 28 Copynumber: 3.2 Consensus size: 32
21475959 TATAATCTAT
* *
21475969 TAAAAATATTAAAGTAAATTACAATTGGTACA
1 TAAAAATGTAAAAGTAAATTACAATTGGTACA
* * * *
21476001 TAGAAAATGTAAAAG--AATTTCTATT-ATA-T
1 TA-AAAATGTAAAAGTAAATTACAATTGGTACA
21476030 TAAAAATGTAAAAGTAAATTACAATTGGTACA
1 TAAAAATGTAAAAGTAAATTACAATTGGTACA
21476062 TAAAAA
1 TAAAAA
21476068 ATCTAATCTA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
28 12 0.23
29 2 0.04
30 10 0.19
31 10 0.19
32 8 0.15
33 10 0.19
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (32 bp):
TAAAAATGTAAAAGTAAATTACAATTGGTACA
Found at i:21476008 original size:49 final size:50
Alignment explanation
Indices: 21475953--21476088 Score: 121
Period size: 61 Copynumber: 2.5 Consensus size: 50
21475943 CTTATTTAAA
21475953 AGAAAATATAATCTATTAAAAATATT-AAAGTAAATTACAATTGGTACAT
1 AGAAAATATAATCTATTAAAAATATTAAAAGTAAATTACAATTGGTACAT
* *
21476002 AGAAAATGTAAAAGAATTTCTATTATATTAAAAATGTAAAAGTAAATTACAATTGGTACAT
1 AGAAAA--T---ATAA--TCTATTA-A--AAATAT-TAAAAGTAAATTACAATTGGTACAT
* * *
21476063 AAAAAATCTAATCTATTAAACATATT
1 AGAAAATATAATCTATTAAAAATATT
21476089 GCCTTATTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 23
0.69 0.07 0.23
Matches are distributed among these distances:
49 6 0.09
50 1 0.01
51 5 0.07
53 1 0.01
54 10 0.15
56 9 0.13
57 1 0.01
59 6 0.09
60 1 0.01
61 28 0.41
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (50 bp):
AGAAAATATAATCTATTAAAAATATTAAAAGTAAATTACAATTGGTACAT
Found at i:21476015 original size:61 final size:61
Alignment explanation
Indices: 21475949--21476069 Score: 170
Period size: 61 Copynumber: 2.0 Consensus size: 61
21475939 TTGACTTATT
* * *
21475949 TAAAAGAAAATATAATCTATTAAAAATATTAAAGTAAATTACAATTGGTACATAGAAAATG
1 TAAAAGAAAATATAATATATTAAAAATATAAAAGTAAATTACAATTGGTACATAAAAAATG
** * * *
21476010 TAAAAGAATTTCTATTATATTAAAAATGTAAAAGTAAATTACAATTGGTACATAAAAAAT
1 TAAAAGAAAATATAATATATTAAAAATATAAAAGTAAATTACAATTGGTACATAAAAAAT
21476070 CTAATCTATT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (61 bp):
TAAAAGAAAATATAATATATTAAAAATATAAAAGTAAATTACAATTGGTACATAAAAAATG
Found at i:21476069 original size:33 final size:33
Alignment explanation
Indices: 21475970--21476069 Score: 102
Period size: 33 Copynumber: 3.2 Consensus size: 33
21475960 ATAATCTATT
* *
21475970 AAAAATATTAAAGTAAATTACAATTGGTACATA
1 AAAAATGTAAAAGTAAATTACAATTGGTACATA
* * * * *
21476003 GAAAATGTAAAAG--AATTTCTA-T--TATATT
1 AAAAATGTAAAAGTAAATTACAATTGGTACATA
21476031 AAAAATGTAAAAGTAAATTACAATTGGTACATA
1 AAAAATGTAAAAGTAAATTACAATTGGTACATA
21476064 AAAAAT
1 AAAAAT
21476070 CTAATCTATT
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
28 16 0.32
30 7 0.14
31 7 0.14
33 20 0.40
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (33 bp):
AAAAATGTAAAAGTAAATTACAATTGGTACATA
Found at i:21476649 original size:18 final size:18
Alignment explanation
Indices: 21476623--21476665 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
21476613 ACTAGAAAAA
*
21476623 AGGAAACATATAAA-GGCT
1 AGGATACATA-AAAGGGCT
*
21476641 AGGATACATAAAAGGGTT
1 AGGATACATAAAAGGGCT
21476659 AGGATAC
1 AGGATAC
21476666 GTACCTGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.47, C:0.09, G:0.26, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:21477319 original size:7 final size:7
Alignment explanation
Indices: 21477307--21477345 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
21477297 TTAATTATAT
21477307 ATACTAA
1 ATACTAA
21477314 ATACTAA
1 ATACTAA
21477321 ATACTAA
1 ATACTAA
21477328 ATACTAA
1 ATACTAA
21477335 ATACTAA
1 ATACTAA
21477342 ATAC
1 ATAC
21477346 CAATCGACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACTAA
Found at i:21478880 original size:43 final size:43
Alignment explanation
Indices: 21478832--21479072 Score: 246
Period size: 43 Copynumber: 5.7 Consensus size: 43
21478822 CTTTGAATGT
*
21478832 AAGG-GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTG
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATG
* *
21478874 AAAGG-GGTTGCTATGTGCTGATTCC-CCGTATCATTGATTAT-
1 -AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATG
* * * * *
21478915 AAGGTGGTTGTTAAGTGTTGATTCTACCGTATCCTTAATTGTG
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATG
* * *
21478958 AAAGG-GGTTGCTATGTGTTGATTCC-CCGTATCATTGATTAT-
1 -AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATG
* * * **
21478999 AAGGTGGTTGCTAAGTGTTGATTCTACCGGGATCCTTTGAACATG
1 AAGGTGGTTGCTAAGTGCTGATTCCACC-GTATCC-TTGATTATG
21479044 -AGGTGGTTGCTAAGTGCTGATTCCACCGT
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGT
21479073 GTAACGGTTA
Statistics
Matches: 164, Mismatches: 25, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
40 8 0.05
41 34 0.21
42 42 0.26
43 45 0.27
44 35 0.21
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (43 bp):
AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATG
Found at i:21478937 original size:41 final size:40
Alignment explanation
Indices: 21478831--21479022 Score: 213
Period size: 42 Copynumber: 4.6 Consensus size: 40
21478821 TCTTTGAATG
* * *
21478831 TAAGGGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTG
1 TAAGGGGTTGCTAAGTGTTGATTCC-CCGTATCATTGATTA
* *
21478872 TGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTA
1 T--AAGGGGTTGCTAAGTGTTGATTCCCCGTATCATTGATTA
* * * * *
21478914 TAAGGTGGTTGTTAAGTGTTGATTCTACCGTATCCTTAATTG
1 TAAGG-GGTTGCTAAGTGTTGATTC-CCCGTATCATTGATTA
*
21478956 TGAAAGGGGTTGCTATGTGTTGATTCCCCGTATCATTGATTA
1 T--AAGGGGTTGCTAAGTGTTGATTCCCCGTATCATTGATTA
21478998 TAAGGTGGTTGCTAAGTGTTGATTC
1 TAAGG-GGTTGCTAAGTGTTGATTC
21479023 TACCGGGATC
Statistics
Matches: 127, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
40 8 0.06
41 35 0.28
42 40 0.31
43 40 0.31
44 4 0.03
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.38
Consensus pattern (40 bp):
TAAGGGGTTGCTAAGTGTTGATTCCCCGTATCATTGATTA
Found at i:21478980 original size:84 final size:84
Alignment explanation
Indices: 21478831--21479027 Score: 342
Period size: 84 Copynumber: 2.4 Consensus size: 84
21478821 TCTTTGAATG
* * *
21478831 TAAGG-GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGTTGATTCTACCGTATCCTTAATTGTGAAAGGGGTTGCTATGTGCTGA
21478895 TTCCCCGTATCATTGATTA
66 TTCCCCGTATCATTGATTA
* *
21478914 TAAGGTGGTTGTTAAGTGTTGATTCTACCGTATCCTTAATTGTGAAAGGGGTTGCTATGTGTTGA
1 TAAGGTGGTTGCTAAGTGTTGATTCTACCGTATCCTTAATTGTGAAAGGGGTTGCTATGTGCTGA
21478979 TTCCCCGTATCATTGATTA
66 TTCCCCGTATCATTGATTA
21478998 TAAGGTGGTTGCTAAGTGTTGATTCTACCG
1 TAAGGTGGTTGCTAAGTGTTGATTCTACCG
21479028 GGATCCTTTG
Statistics
Matches: 107, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
83 5 0.05
84 102 0.95
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (84 bp):
TAAGGTGGTTGCTAAGTGTTGATTCTACCGTATCCTTAATTGTGAAAGGGGTTGCTATGTGCTGA
TTCCCCGTATCATTGATTA
Found at i:21481626 original size:10 final size:10
Alignment explanation
Indices: 21481585--21481629 Score: 63
Period size: 11 Copynumber: 4.2 Consensus size: 10
21481575 TTTTAAAAAT
21481585 AATTTGAGAGG
1 AATTTGAGA-G
21481596 AATTTGAGAG
1 AATTTGAGAG
21481606 AATATTAGAGAG
1 AAT-TT-GAGAG
21481618 AATTTGAGAG
1 AATTTGAGAG
21481628 AA
1 AA
21481630 ATGATTAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 11 0.34
11 13 0.41
12 8 0.25
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (10 bp):
AATTTGAGAG
Found at i:21483348 original size:15 final size:15
Alignment explanation
Indices: 21483330--21483361 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21483320 AAATGTCGCG
21483330 ATAACAAATACAACA
1 ATAACAAATACAACA
*
21483345 ATAATAAATACAACA
1 ATAACAAATACAACA
21483360 AT
1 AT
21483362 GACATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.19
Consensus pattern (15 bp):
ATAACAAATACAACA
Found at i:21483387 original size:13 final size:14
Alignment explanation
Indices: 21483369--21483405 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
21483359 AATGACATAA
21483369 AAATAATATAAAC-
1 AAATAATATAAACG
21483382 AAATAA-ATAAACG
1 AAATAATATAAACG
21483395 AAACTAATATA
1 AAA-TAATATA
21483406 CATAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.68, C:0.08, G:0.03, T:0.22
Consensus pattern (14 bp):
AAATAATATAAACG
Found at i:21483944 original size:21 final size:22
Alignment explanation
Indices: 21483888--21483945 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
21483878 AATAAAAACA
21483888 AAAACATATGTATAAAATATAT
1 AAAACATATGTATAAAATATAT
* * **
21483910 ATAAGCATACGTATACTATATAT
1 A-AAACATATGTATAAAATATAT
21483933 AAAACA-ATGTATA
1 AAAACATATGTATA
21483946 TATTACATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 6 0.21
22 5 0.17
23 18 0.62
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (22 bp):
AAAACATATGTATAAAATATAT
Found at i:21484475 original size:22 final size:21
Alignment explanation
Indices: 21484440--21484497 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
21484430 AAAAGGTATC
* *
21484440 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
21484461 TACAAAATCATATCTTTTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
21484484 TGCATATCATATCT
1 TACAAATCATATCT
21484498 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:21484491 original size:17 final size:17
Alignment explanation
Indices: 21484469--21484520 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
21484459 ATTACAAAAT
21484469 CATATCTTTTAAGATTG
1 CATATCTTTTAAGATTG
*
21484486 CATATCATATCTAAGATTG
1 CATATC-T-TTTAAGATTG
* *
21484505 CATATCCTTGAAGATT
1 CATATCTTTTAAGATT
21484521 ATGTTTCCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 13 0.45
18 1 0.03
19 15 0.52
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATATCTTTTAAGATTG
Found at i:21484984 original size:17 final size:18
Alignment explanation
Indices: 21484962--21484996 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
21484952 CCTTTATAAA
*
21484962 AAATAATTTAAT-TTTTT
1 AAATAAATTAATATTTTT
21484979 AAATAAATTAATATTTTT
1 AAATAAATTAATATTTTT
21484997 TAGTGTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATAAATTAATATTTTT
Found at i:21489997 original size:108 final size:108
Alignment explanation
Indices: 21489802--21490003 Score: 246
Period size: 108 Copynumber: 1.9 Consensus size: 108
21489792 TCATATGGAA
* * * * *
21489802 ATCCCATGTTTGTTGCAGTTCCATTCACATGGAAATTCTGTTGCTGCTGAAATTGAGTAGTCCAA
1 ATCCCACGTTTGCTGCAGTTCCATTCACATGGAAATTCTGCTGCTGCTGAAATTGAGGAGTCAAA
* *
21489867 GGATCGGTTTGTCCAGTCAAACCATGTGTGTCATATCCAGGTG
66 GGATCGGTTTGACCAGCCAAACCATGTGTGTCATATCCAGGTG
* * * * *
21489910 ATCCCACGTTTGCTGCATTTCCATTCGCGT-GAAAGTTCTGCTGGTGCTGAATTTGAGGAGTCAA
1 ATCCCACGTTTGCTGCAGTTCCATTCACATGGAAA-TTCTGCTGCTGCTGAAATTGAGGAGTCAA
* *
21489974 AGGATTGGTTTGACCA-CCAAAACCTTGTGT
65 AGGATCGGTTTGACCAGCC-AAACCATGTGT
21490004 TCTTGAAGAA
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
107 5 0.06
108 73 0.94
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (108 bp):
ATCCCACGTTTGCTGCAGTTCCATTCACATGGAAATTCTGCTGCTGCTGAAATTGAGGAGTCAAA
GGATCGGTTTGACCAGCCAAACCATGTGTGTCATATCCAGGTG
Found at i:21498979 original size:100 final size:100
Alignment explanation
Indices: 21498804--21499005 Score: 386
Period size: 100 Copynumber: 2.0 Consensus size: 100
21498794 ATACATGAGT
21498804 ATCTCATATTATTTATATATATGGTTTTAATGTAAAACACATGAAAGTTTTATTCAACATATATC
1 ATCTCATATTATTTATATATATGGTTTTAATGTAAAACACATGAAAGTTTTATTCAACATATATC
* *
21498869 TTCTTGATCTGAAAAACAATATTATATTTTACGAA
66 TTATTAATCTGAAAAACAATATTATATTTTACGAA
21498904 ATCTCATATTATTTATATATATGGTTTTAATGTAAAACACATGAAAGTTTTATTCAACATATATC
1 ATCTCATATTATTTATATATATGGTTTTAATGTAAAACACATGAAAGTTTTATTCAACATATATC
21498969 TTATTAATCTGAAAAACAATATTATATTTTACGAA
66 TTATTAATCTGAAAAACAATATTATATTTTACGAA
21499004 AT
1 AT
21499006 TTTGCATCAC
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.42
Consensus pattern (100 bp):
ATCTCATATTATTTATATATATGGTTTTAATGTAAAACACATGAAAGTTTTATTCAACATATATC
TTATTAATCTGAAAAACAATATTATATTTTACGAA
Found at i:21500332 original size:16 final size:16
Alignment explanation
Indices: 21500275--21500348 Score: 62
Period size: 16 Copynumber: 4.8 Consensus size: 16
21500265 ATTTTTCGGA
21500275 TTAAATTATTTT-AA-
1 TTAAATTATTTTGAAT
*
21500289 TTGAATTATTTTGAAT
1 TTAAATTATTTTGAAT
* * **
21500305 TTAGATTTTTTTGGGT
1 TTAAATTATTTTGAAT
* *
21500321 TTAAATTATTTTAAAC
1 TTAAATTATTTTGAAT
*
21500337 TCAAATTATTTT
1 TTAAATTATTTT
21500349 TAAATTTGAA
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
14 11 0.24
15 2 0.04
16 32 0.71
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (16 bp):
TTAAATTATTTTGAAT
Found at i:21500687 original size:16 final size:16
Alignment explanation
Indices: 21500666--21500708 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
21500656 CAAATGACTC
21500666 AAACCCAAAACAATTA
1 AAACCCAAAACAATTA
* * *
21500682 AAACCCGAAATAATTT
1 AAACCCAAAACAATTA
*
21500698 AAACTCAAAAC
1 AAACCCAAAAC
21500709 CACCTTAACA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.58, C:0.23, G:0.02, T:0.16
Consensus pattern (16 bp):
AAACCCAAAACAATTA
Found at i:21500887 original size:10 final size:9
Alignment explanation
Indices: 21500863--21500892 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
21500853 TCTATCTTCC
21500863 AAAAAATAA
1 AAAAAATAA
21500872 AAAAAATAA
1 AAAAAATAA
21500881 AATAAAATAA
1 AA-AAAATAA
21500891 AA
1 AA
21500893 CACAGGTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAAAATAA
Found at i:21505649 original size:12 final size:11
Alignment explanation
Indices: 21505623--21505651 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
21505613 TATATTTTAA
21505623 TTTTTATGAAC
1 TTTTTATGAAC
21505634 TTTTTATGAAC
1 TTTTTATGAAC
21505645 TTTTTAT
1 TTTTTAT
21505652 ATAATTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (11 bp):
TTTTTATGAAC
Found at i:21515680 original size:31 final size:32
Alignment explanation
Indices: 21515635--21515697 Score: 110
Period size: 31 Copynumber: 2.0 Consensus size: 32
21515625 AGATAATTTT
21515635 AAAGAGTTTTTATTAAGATTCAATTACTCTTG
1 AAAGAGTTTTTATTAAGATTCAATTACTCTTG
*
21515667 AAAGAG-TTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTTATTAAGATTCAATTACTCTTG
21515698 TAATTTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 24 0.80
32 6 0.20
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (32 bp):
AAAGAGTTTTTATTAAGATTCAATTACTCTTG
Found at i:21521795 original size:31 final size:31
Alignment explanation
Indices: 21521746--21521808 Score: 110
Period size: 31 Copynumber: 2.0 Consensus size: 31
21521736 TATTAGATAA
21521746 TTTTAAAGAGTTTTTATTAGGATTCAATTAC
1 TTTTAAAGAGTTTTTATTAGGATTCAATTAC
21521777 TTTTGAAAGAG-TTTTATTAGGATTCAATTAC
1 TTTT-AAAGAGTTTTTATTAGGATTCAATTAC
21521808 T
1 T
21521809 CTTGTAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 25 0.81
32 6 0.19
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (31 bp):
TTTTAAAGAGTTTTTATTAGGATTCAATTAC
Found at i:21524848 original size:24 final size:24
Alignment explanation
Indices: 21524803--21524856 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
21524793 AGAATCAAAT
*
21524803 TCAGAACATGTCTCAATATCAGAA
1 TCAGAACATATCTCAATATCAGAA
*
21524827 TCAGAACATATGTC-ATAGTCAGAA
1 TCAGAACATATCTCAATA-TCAGAA
21524851 TCAGAA
1 TCAGAA
21524857 TTAAAACATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 3 0.11
24 24 0.89
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.24
Consensus pattern (24 bp):
TCAGAACATATCTCAATATCAGAA
Found at i:21528185 original size:42 final size:40
Alignment explanation
Indices: 21528113--21528230 Score: 141
Period size: 40 Copynumber: 2.9 Consensus size: 40
21528103 CCGGGATTCT
* *
21528113 TTAAATGTAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCC
1 TTAATTGTAAGGTGGTTGCTAAGTGCTGATTCCA-C-TATCA
*
21528155 TTAATTGTGAAGG-GGTTGCTATGTGCTGATTCCTA-TATCA
1 TTAATTGT-AAGGTGGTTGCTAAGTGCTGATTCC-ACTATCA
* *
21528195 TTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACT
1 TTAATTGTAAGGTGGTTGCTAAGTGCTGATTCCACT
21528231 GGGATCCTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
39 5 0.08
40 30 0.45
42 26 0.39
43 5 0.08
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (40 bp):
TTAATTGTAAGGTGGTTGCTAAGTGCTGATTCCACTATCA
Found at i:21535434 original size:27 final size:27
Alignment explanation
Indices: 21535404--21535457 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
21535394 ATAATTGGGG
*
21535404 GAGTCGGTAATATACATATATATATAT
1 GAGTCGGTAATATACATATACATATAT
* ** *
21535431 GAGTGGGTTGTATATATATACATATAT
1 GAGTCGGTAATATACATATACATATAT
21535458 ATACGTGGGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.39
Consensus pattern (27 bp):
GAGTCGGTAATATACATATACATATAT
Found at i:21535445 original size:29 final size:27
Alignment explanation
Indices: 21535413--21535489 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 27
21535403 GGAGTCGGTA
21535413 ATATACATATATATATATGA-GTGGGTTG
1 ATATACATATATATATAT-ACGTGGG-TG
* *
21535441 TATATATATACATATATATACGTGGGTG
1 -ATATACATATATATATATACGTGGGTG
*
21535469 ATTATGCATATATAATATATA
1 A-TATACATATAT-ATATATA
21535490 TGCATGGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 1 0.03
28 11 0.28
29 28 0.70
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.40
Consensus pattern (27 bp):
ATATACATATATATATATACGTGGGTG
Found at i:21535509 original size:28 final size:28
Alignment explanation
Indices: 21535477--21535578 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 28
21535467 TGATTATGCA
21535477 TATATAATATATATGCATGGATTTATTT
1 TATATAATATATATGCATGGATTTATTT
** *
21535505 TATATAATATATATTAATGGATTTTGATGT
1 TATATAATATATATGCATGGA-TTT-ATTT
*
21535535 TATATATATAATATATGCATGG-TTCTATTG
1 TATATA-AT-ATATATGCATGGATT-TATTT
*
21535565 TATACAATATATAT
1 TATATAATATATAT
21535579 AATTATGGGT
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
28 25 0.41
29 5 0.08
30 18 0.30
31 3 0.05
32 10 0.16
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (28 bp):
TATATAATATATATGCATGGATTTATTT
Found at i:21541099 original size:28 final size:22
Alignment explanation
Indices: 21541041--21541085 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
21541031 AGTGTCCACA
21541041 AGTATACAAATCAAATTGTAAT
1 AGTATACAAATCAAATTGTAAT
21541063 AGTATACAAATCAAATTGTAAT
1 AGTATACAAATCAAATTGTAAT
21541085 A
1 A
21541086 TAGTATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (22 bp):
AGTATACAAATCAAATTGTAAT
Found at i:21549940 original size:28 final size:28
Alignment explanation
Indices: 21549872--21549940 Score: 66
Period size: 28 Copynumber: 2.5 Consensus size: 28
21549862 CCAGAAAAGT
* *
21549872 GGAAGGTCTGCCAAGGGCTATCTTAAGA
1 GGAAAGTCTGCCAAGGACTATCTTAAGA
* * * * *
21549900 AGAAAGTCCGCCAAGGATTATCTTAGGC
1 GGAAAGTCTGCCAAGGACTATCTTAAGA
*
21549928 GGAATGTCTGCCA
1 GGAAAGTCTGCCA
21549941 GGGGCTGACT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (28 bp):
GGAAAGTCTGCCAAGGACTATCTTAAGA
Found at i:21556506 original size:12 final size:13
Alignment explanation
Indices: 21556483--21556512 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
21556473 ACTTAGTTAT
21556483 TTTTAGGGTTTTA
1 TTTTAGGGTTTTA
21556496 TTTTA-GGTTTTA
1 TTTTAGGGTTTTA
21556508 TTTTA
1 TTTTA
21556513 TTTCAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (13 bp):
TTTTAGGGTTTTA
Found at i:21558994 original size:4 final size:4
Alignment explanation
Indices: 21558985--21559014 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
21558975 TCCAAATAGG
21558985 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
21559015 AATTTTCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:21560621 original size:19 final size:19
Alignment explanation
Indices: 21560597--21560641 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
21560587 TGTTTCCTTA
*
21560597 AAGTATTTGTAC-TTCGCTT
1 AAGTATCTGTACATT-GCTT
21560616 AAGTATCTGTACATTGCTT
1 AAGTATCTGTACATTGCTT
21560635 AAGTATC
1 AAGTATC
21560642 GATACTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (19 bp):
AAGTATCTGTACATTGCTT
Found at i:21561481 original size:15 final size:17
Alignment explanation
Indices: 21561451--21561498 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
21561441 GTAATTTAGA
21561451 ATTTTATCTCATTCACT
1 ATTTTATCTCATTCACT
21561468 -TTTTATCTCA-TCACT
1 ATTTTATCTCATTCACT
*
21561483 ATTTCATCTCACTTCA
1 ATTTTATCTCA-TTCA
21561499 TTTATATTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 5 0.19
16 19 0.70
18 3 0.11
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTTATCTCATTCACT
Found at i:21567840 original size:16 final size:16
Alignment explanation
Indices: 21567821--21567857 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
21567811 TTGGTTCGTT
21567821 GTAATGGAATAAAGGC
1 GTAATGGAATAAAGGC
*
21567837 GTAATGGAATAGAGGC
1 GTAATGGAATAAAGGC
21567853 GTAAT
1 GTAAT
21567858 AATAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.32, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAAAGGC
Found at i:21568134 original size:24 final size:23
Alignment explanation
Indices: 21568107--21568162 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
21568097 ATTTAATAAA
*
21568107 AATATATAATTTAATAAAATTCTT
1 AATATATAATTTAATAAAA-TCAT
* *
21568131 AATAT-TAAATTACTAAAATCAT
1 AATATATAATTTAATAAAATCAT
21568153 AATATATAAT
1 AATATATAAT
21568163 ACTATAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 8 0.30
23 14 0.52
24 5 0.19
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
AATATATAATTTAATAAAATCAT
Found at i:21568217 original size:17 final size:17
Alignment explanation
Indices: 21568195--21568229 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
21568185 AATTATTATT
21568195 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
21568212 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
21568229 A
1 A
21568230 TTCCTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:21568276 original size:119 final size:122
Alignment explanation
Indices: 21568090--21568331 Score: 395
Period size: 119 Copynumber: 2.0 Consensus size: 122
21568080 AATTATTATT
* *
21568090 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATTACTAAAATCATAA
1 AAATATAATTTAATAAAAATATATAATTTAATAAAATCCTTAATATGAAATTACTAAAATCATAA
21568155 TATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAA
66 TATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAA
* *
21568212 AAATATAATTTAAT-AAAAT-TCCTAATATT-A-AAAATCCTT-ATATGAATTTACTAAAATCAT
1 AAATATAATTTAATAAAAATAT-ATAAT-TTAATAAAATCCTTAATATGAAATTACTAAAATCAT
21568272 AATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAA
64 AATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAA
21568331 A
1 A
21568332 TTCTTAATAT
Statistics
Matches: 114, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
119 79 0.69
120 9 0.08
121 10 0.09
122 16 0.14
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (122 bp):
AAATATAATTTAATAAAAATATATAATTTAATAAAATCCTTAATATGAAATTACTAAAATCATAA
TATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAA
Found at i:21568318 original size:26 final size:26
Alignment explanation
Indices: 21568275--21568430 Score: 94
Period size: 26 Copynumber: 6.1 Consensus size: 26
21568265 AAATCATAAT
* *
21568275 ATATAA-TACTATAAAATATAATTTA
1 ATATAATTATTATTAAATATAATTTA
*
21568300 ACATAATTATTATTAAATATAATTTA
1 ATATAATTATTATTAAATATAATTTA
* * * *
21568326 ATAAAATTCTTAATATTAAATAT--TCTG
1 ATATAA---TTATTATTAAATATAATTTA
* *
21568353 ATATAAAT-TTACTAAAATCATAA--T-
1 ATATAATTATTA-TTAAAT-ATAATTTA
** *
21568377 ATATAA-TGCTATAAAATATAATTTA
1 ATATAATTATTATTAAATATAATTTA
*
21568402 ACATAATTATTATTAAATATAATTTA
1 ATATAATTATTATTAAATATAATTTA
21568428 ATA
1 ATA
21568431 AAAATATATA
Statistics
Matches: 100, Mismatches: 18, Indels: 25
0.70 0.13 0.17
Matches are distributed among these distances:
22 4 0.04
23 9 0.09
24 15 0.15
25 13 0.13
26 39 0.39
27 7 0.07
29 13 0.13
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (26 bp):
ATATAATTATTATTAAATATAATTTA
Found at i:21568340 original size:102 final size:102
Alignment explanation
Indices: 21568212--21568433 Score: 390
Period size: 102 Copynumber: 2.2 Consensus size: 102
21568202 ATTTAATAAA
* *
21568212 AAATATAATTTAATAAAATTCCTAATATTAAAAATCCTTATATGAATTTACTAAAATCATAATAT
1 AAATATAATTTAATAAAATTCCTAATATTAAAAATCCTGATATAAATTTACTAAAATCATAATAT
21568277 ATAATACTATAAAATATAATTTAACATAATTATTATT
66 ATAATACTATAAAATATAATTTAACATAATTATTATT
* * *
21568314 AAATATAATTTAATAAAATTCTTAATATTAAATATTCTGATATAAATTTACTAAAATCATAATAT
1 AAATATAATTTAATAAAATTCCTAATATTAAAAATCCTGATATAAATTTACTAAAATCATAATAT
*
21568379 ATAATGCTATAAAATATAATTTAACATAATTATTATT
66 ATAATACTATAAAATATAATTTAACATAATTATTATT
21568416 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
21568434 ATATATAATT
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 114 1.00
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (102 bp):
AAATATAATTTAATAAAATTCCTAATATTAAAAATCCTGATATAAATTTACTAAAATCATAATAT
ATAATACTATAAAATATAATTTAACATAATTATTATT
Found at i:21568391 original size:61 final size:61
Alignment explanation
Indices: 21568326--21568512 Score: 204
Period size: 61 Copynumber: 3.1 Consensus size: 61
21568316 ATATAATTTA
*
21568326 ATAAAATTCTTAATATTAAATATTCTGATATAAATTTACTAAAATCATAATATATAATGCT
1 ATAAAATTCTTAATATTAAATATTCTTATATAAATTTACTAAAATCATAATATATAATGCT
* * * * ** * * *
21568387 ATAAAA-T-ATAAT-TTAACATAATTATTAT-TAAATATAATTTAATAAAAATATATAAT-TT
1 ATAAAATTCTTAATATTAA-AT-ATTCTTATATAAATTTACTAAAATCATAATATATAATGCT
* *
21568445 AATGAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATGCT
1 -ATAAAATTCTTAATATTAAATATTCTTATATAAATTTACTAAAATCATAATATATAATGCT
21568507 ATAAAA
1 ATAAAA
21568513 ATATTGTATA
Statistics
Matches: 96, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 5 0.05
59 33 0.34
60 15 0.16
61 38 0.40
62 5 0.05
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (61 bp):
ATAAAATTCTTAATATTAAATATTCTTATATAAATTTACTAAAATCATAATATATAATGCT
Found at i:21568499 original size:59 final size:58
Alignment explanation
Indices: 21568315--21568499 Score: 173
Period size: 59 Copynumber: 3.1 Consensus size: 58
21568305 ATTATTATTA
*
21568315 AATATAATTTAATAAAATTCTTAATATTAAATATTCTGATATAAATTTACTAAAATCAT
1 AATATAATTTAATAAAATTCTTAATATTAAATATTCTTATAT-AATTTACTAAAATCAT
* * * * * *
21568374 AATATATAATGCT-ATAAAATATAATTTAACA-TAATTATTATTAAATATAATTTAATAAAA--A
1 -A-ATATAAT-TTAATAAAAT-T--CTTAATATTAAATATTCTT--ATATAATTTACTAAAATCA
21568435 T
58 T
*
21568436 -ATATAATTTAATGAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATAATTTAATAAAATTCTTAATATTAAATATTCTTATAT-AATTTACTAAAATCAT
21568494 AATATA
1 AATATA
21568500 TAATGCTATA
Statistics
Matches: 98, Mismatches: 14, Indels: 27
0.71 0.10 0.19
Matches are distributed among these distances:
55 4 0.04
56 16 0.16
57 9 0.09
58 4 0.04
59 18 0.18
60 1 0.01
61 14 0.14
62 4 0.04
63 8 0.08
64 16 0.16
65 4 0.04
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (58 bp):
AATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAATTTACTAAAATCAT
Found at i:21570839 original size:13 final size:13
Alignment explanation
Indices: 21570821--21570850 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21570811 CCAAGGGGTT
*
21570821 AACAAGGAAATCA
1 AACAAGAAAATCA
21570834 AACAAGAAAATCA
1 AACAAGAAAATCA
21570847 AACA
1 AACA
21570851 TGCAATACAA
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:0.67, C:0.17, G:0.10, T:0.07
Consensus pattern (13 bp):
AACAAGAAAATCA
Found at i:21574905 original size:30 final size:31
Alignment explanation
Indices: 21574869--21574928 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
21574859 AAACCTTTTA
*
21574869 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
** *
21574899 TTTTCCCTTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
21574929 TCCCACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:21575052 original size:21 final size:21
Alignment explanation
Indices: 21575023--21575062 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
21575013 TCCCTCAAAC
21575023 TTTTGCTCCCCAAAACTTTTTA
1 TTTTGCT-CCCAAAACTTTTTA
*
21575045 TTTT-CTCCCTAAACTTTT
1 TTTTGCTCCCAAAACTTTT
21575063 ACTTCTCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.20, C:0.28, G:0.03, T:0.50
Consensus pattern (21 bp):
TTTTGCTCCCAAAACTTTTTA
Found at i:21575095 original size:54 final size:54
Alignment explanation
Indices: 21575037--21575143 Score: 214
Period size: 54 Copynumber: 2.0 Consensus size: 54
21575027 GCTCCCCAAA
21575037 ACTTTTTATTTTCTCCCTAAACTTTTACTTCTCACCCTTTACTCTCAAATAAAT
1 ACTTTTTATTTTCTCCCTAAACTTTTACTTCTCACCCTTTACTCTCAAATAAAT
21575091 ACTTTTTATTTTCTCCCTAAACTTTTACTTCTCACCCTTTACTCTCAAATAAA
1 ACTTTTTATTTTCTCCCTAAACTTTTACTTCTCACCCTTTACTCTCAAATAAA
21575144 AAATCAAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.46
Consensus pattern (54 bp):
ACTTTTTATTTTCTCCCTAAACTTTTACTTCTCACCCTTTACTCTCAAATAAAT
Found at i:21575743 original size:5 final size:5
Alignment explanation
Indices: 21575733--21575773 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
21575723 CTCGAAAATT
** *
21575733 TTCGA TTCGA TTTAA TTCGA TTCGA TTTGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
21575774 CGAATGCTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.46
Consensus pattern (5 bp):
TTCGA
Found at i:21575751 original size:15 final size:15
Alignment explanation
Indices: 21575733--21575773 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
21575723 CTCGAAAATT
21575733 TTCGATTCGATTTAA
1 TTCGATTCGATTTAA
*
21575748 TTCGATTCGATTTGA
1 TTCGATTCGATTTAA
21575763 TTCGATTCGAT
1 TTCGATTCGAT
21575774 CGAATGCTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.46
Consensus pattern (15 bp):
TTCGATTCGATTTAA
Found at i:21581869 original size:23 final size:24
Alignment explanation
Indices: 21581832--21581876 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
21581822 AGTTAGACCT
21581832 GAAATTTAAAATTTAAAAAATAGA
1 GAAATTTAAAATTTAAAAAATAGA
* *
21581856 GAAA-TTAAATTTTATAAAATA
1 GAAATTTAAAATTTAAAAAATA
21581877 AAAATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (24 bp):
GAAATTTAAAATTTAAAAAATAGA
Found at i:21585050 original size:22 final size:22
Alignment explanation
Indices: 21585025--21585070 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
21585015 GTATATAGAG
21585025 AATATAAAATA-ATAAATAAATA
1 AATATAAAATATA-AAATAAATA
* *
21585047 AATATAACATATAAAATACATA
1 AATATAAAATATAAAATAAATA
21585069 AA
1 AA
21585071 GGGTTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (22 bp):
AATATAAAATATAAAATAAATA
Found at i:21586573 original size:19 final size:19
Alignment explanation
Indices: 21586523--21586574 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 19
21586513 TTTCTGATTT
* *
21586523 TTATTTTTAATATTTAAAA
1 TTATTATTAATTTTTAAAA
* * *
21586542 ATATTCATGAATTTTTTAAA
1 TTATT-ATTAATTTTTAAAA
21586562 TTATTATTAATTT
1 TTATTATTAATTT
21586575 ATTCTTTTAA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
TTATTATTAATTTTTAAAA
Found at i:21587130 original size:4 final size:4
Alignment explanation
Indices: 21587121--21587422 Score: 338
Period size: 4 Copynumber: 75.2 Consensus size: 4
21587111 TATGTTATCT
*
21587121 TATG TATG TATG TATG TATG TATG TATG TATG TATA TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
21587169 TATG TATG TAATG TATG TATG TATG TATG TATG CATG TATG TATG TATG
1 TATG TATG T-ATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
21587218 TATG TATG TATG TATG TATG CATG CATG CATG TATAG -ATG CATG GATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT-G TATG TATG TATG
* * * * * * * *
21587266 TATA TATG GATG TATG TATG CATG GATG TATG GATG CATG CATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * * * * *
21587314 TATG CT-TC CATA CATG CATA TATG CATG CATG CATG GATG TATG TATG
1 TATG -TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
21587362 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
21587410 TATG TATG TATG T
1 TATG TATG TATG T
21587423 TTTTTGTGAA
Statistics
Matches: 265, Mismatches: 28, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
3 1 0.00
4 258 0.97
5 6 0.02
ACGTcount: A:0.26, C:0.06, G:0.25, T:0.43
Consensus pattern (4 bp):
TATG
Found at i:21589302 original size:25 final size:25
Alignment explanation
Indices: 21589267--21589480 Score: 125
Period size: 25 Copynumber: 8.6 Consensus size: 25
21589257 CCTAGCATTG
*
21589267 GTGGCGGGTTATCTATAAAGCCTTT
1 GTGGCGAGTTATCTATAAAGCCTTT
*
21589292 GTGGCGAGTTATCTGTAAAGCCTTT
1 GTGGCGAGTTATCTATAAAGCCTTT
* * * *
21589317 AT-GAGAGTTAAT-TGTAAAGTCTTT
1 GTGGCGAGTT-ATCTATAAAGCCTTT
* * *
21589341 GTGGTGAGTTAAT-TGTAAGGCCTTT
1 GTGGCGAGTT-ATCTATAAAGCCTTT
* * **
21589366 ATGGCGAGTTATCTGTAAAGAATTT
1 GTGGCGAGTTATCTATAAAGCCTTT
* ** *
21589391 TTGGAAAATTATCTATAAAG-CTCTT
1 GTGGCGAGTTATCTATAAAGCCT-TT
* * * *
21589416 GTGGTGAATTATCTAAAAAGCCTAT
1 GTGGCGAGTTATCTATAAAGCCTTT
* *
21589441 GTGACGTA-TTAT-TCATAAAGCCTTA
1 GTGGCG-AGTTATCT-ATAAAGCCTTT
21589466 GTGGCGAAGTTATCT
1 GTGGCG-AGTTATCT
21589481 GGGAAGCCCT
Statistics
Matches: 148, Mismatches: 32, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
24 22 0.15
25 118 0.80
26 7 0.05
27 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (25 bp):
GTGGCGAGTTATCTATAAAGCCTTT
Found at i:21589341 original size:49 final size:50
Alignment explanation
Indices: 21589274--21589385 Score: 140
Period size: 49 Copynumber: 2.3 Consensus size: 50
21589264 TTGGTGGCGG
*
21589274 GTTATCTATAAAGCCTTTGTGGCGAGTT-ATCTGTAAAGCCTTTAT-GAGA
1 GTTATCTGTAAAGCCTTTGTGGCGAGTTAAT-TGTAAAGCCTTTATGGAGA
* * * *
21589323 GTTAAT-TGTAAAGTCTTTGTGGTGAGTTAATTGTAAGGCCTTTATGGCGA
1 GTT-ATCTGTAAAGCCTTTGTGGCGAGTTAATTGTAAAGCCTTTATGGAGA
21589373 GTTATCTGTAAAG
1 GTTATCTGTAAAG
21589386 AATTTTTGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
49 37 0.69
50 17 0.31
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.38
Consensus pattern (50 bp):
GTTATCTGTAAAGCCTTTGTGGCGAGTTAATTGTAAAGCCTTTATGGAGA
Found at i:21590999 original size:32 final size:32
Alignment explanation
Indices: 21590954--21591031 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
21590944 CAATAATTTT
* * *
21590954 TAAAGGTTGATTAATACAAATGCC-TGAAGAAA
1 TAAAGATTGATTAATACAAA-CCCTTAAAGAAA
* *
21590986 TTAGGATTGATTAATACAAACCCTTAAAGAAA
1 TAAAGATTGATTAATACAAACCCTTAAAGAAA
21591018 TAAAGATTGATTAA
1 TAAAGATTGATTAA
21591032 AAATTTACCA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 2 0.05
32 36 0.95
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.28
Consensus pattern (32 bp):
TAAAGATTGATTAATACAAACCCTTAAAGAAA
Found at i:21603027 original size:6 final size:6
Alignment explanation
Indices: 21603016--21603044 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
21603006 ATCCTTAATC
21603016 TCTGCG TCTGCG TCTGCG TCTGCG TCTGC
1 TCTGCG TCTGCG TCTGCG TCTGCG TCTGC
21603045 TTCTTTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.34, G:0.31, T:0.34
Consensus pattern (6 bp):
TCTGCG
Found at i:21622699 original size:20 final size:20
Alignment explanation
Indices: 21622674--21622715 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
21622664 TAGAGCTAAG
21622674 CAATCGAGCATG-AATGTGTT
1 CAATCGA-CATGAAATGTGTT
*
21622694 CAATCGACTTGAAATGTGTT
1 CAATCGACATGAAATGTGTT
21622714 CA
1 CA
21622716 GTAAGAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (20 bp):
CAATCGACATGAAATGTGTT
Found at i:21625586 original size:6 final size:6
Alignment explanation
Indices: 21625575--21625616 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
21625565 TTATGGAATG
*
21625575 AATGAA AATGAA AATGAA AATGAA AATAAA AATGAA AA-GAA A
1 AATGAA AATGAA AATGAA AATGAA AATGAA AATGAA AATGAA A
21625617 TATATTGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 4 0.12
6 30 0.88
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (6 bp):
AATGAA
Found at i:21629231 original size:23 final size:23
Alignment explanation
Indices: 21629176--21629232 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
21629166 GACGTCATTT
* *
21629176 ATCGCGTCATCAGGATGTGAAAA
1 ATCGCGTCATCAGGACGAGAAAA
* *
21629199 TTCACGTCATCAGGACGAGAAAA
1 ATCGCGTCATCAGGACGAGAAAA
*
21629222 ATCGCATCATC
1 ATCGCGTCATC
21629233 TCGACATGGC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (23 bp):
ATCGCGTCATCAGGACGAGAAAA
Found at i:21645539 original size:12 final size:12
Alignment explanation
Indices: 21645522--21645549 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
21645512 ATGTCATCAT
21645522 ATTAATTTTTGA
1 ATTAATTTTTGA
21645534 ATTAATTTTTGA
1 ATTAATTTTTGA
21645546 ATTA
1 ATTA
21645550 CACTATCAAT
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:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (12 bp):
ATTAATTTTTGA
Found at i:21652772 original size:9 final size:9
Alignment explanation
Indices: 21652732--21652774 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
21652722 CACTTAGTTA
21652732 ATTTTTTTT
1 ATTTTTTTT
21652741 ATGTTTTTTT
1 AT-TTTTTTT
**
21652751 AGTTGCTTTT
1 A-TTTTTTTT
21652761 ATTTTTTTT
1 ATTTTTTTT
21652770 ATTTT
1 ATTTT
21652775 GTGTTGTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 13 0.46
10 14 0.50
11 1 0.04
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.79
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:21655821 original size:7 final size:7
Alignment explanation
Indices: 21655811--21655843 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
21655801 GTACATTATA
21655811 TATTAAT
1 TATTAAT
21655818 TATTAAT
1 TATTAAT
21655825 TATTAAT
1 TATTAAT
21655832 TATTATAT
1 TATTA-AT
21655840 TATT
1 TATT
21655844 TGAAATATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TATTAAT
Found at i:21655828 original size:14 final size:15
Alignment explanation
Indices: 21655805--21655843 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
21655795 ATAGAAGTAC
21655805 ATTATA-TATTAATT
1 ATTATATTATTAATT
21655819 ATTA-ATTATTAATT
1 ATTATATTATTAATT
21655833 ATTATATTATT
1 ATTATATTATT
21655844 TGAAATATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.04
14 16 0.70
15 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTATATTATTAATT
Found at i:21655989 original size:16 final size:17
Alignment explanation
Indices: 21655968--21656000 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21655958 TATACTATAG
21655968 ATTTTA-ATAATTATTA
1 ATTTTATATAATTATTA
*
21655984 ATTTTATATATTTATTA
1 ATTTTATATAATTATTA
21656001 TACATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTATATAATTATTA
Found at i:21663859 original size:9 final size:9
Alignment explanation
Indices: 21663845--21663873 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
21663835 TTAGATGATT
21663845 TTATATTAA
1 TTATATTAA
21663854 TTATATTAA
1 TTATATTAA
21663863 TTATATTAA
1 TTATATTAA
21663872 TT
1 TT
21663874 TGGTTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTATATTAA
Found at i:21666839 original size:17 final size:17
Alignment explanation
Indices: 21666817--21666852 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
21666807 ACAAGATGAT
21666817 ATAGAGATTAATGAAAG
1 ATAGAGATTAATGAAAG
21666834 ATAGAGATTAATGAAAG
1 ATAGAGATTAATGAAAG
21666851 AT
1 AT
21666853 TTATTGACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.25
Consensus pattern (17 bp):
ATAGAGATTAATGAAAG
Found at i:21679691 original size:13 final size:13
Alignment explanation
Indices: 21679673--21679736 Score: 92
Period size: 13 Copynumber: 4.9 Consensus size: 13
21679663 ACACTCAAAT
*
21679673 TTCTCAAAAACAC
1 TTCTCAAAAGCAC
21679686 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
* * *
21679699 TTTTGAAAAGCAT
1 TTCTCAAAAGCAC
21679712 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
21679725 TTCTCAAAAGCA
1 TTCTCAAAAGCA
21679737 ATAAAGAACT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.27
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:21684685 original size:24 final size:24
Alignment explanation
Indices: 21684645--21684690 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
21684635 TCCTTTTGTT
*
21684645 TTCTTAAATTTCATCTTTCCTTTC
1 TTCTTAAATTTCATCTTACCTTTC
*
21684669 TTCTT-AATTTGCTTCTTACCTT
1 TTCTTAAATTT-CATCTTACCTT
21684691 GCTGCCATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.15, C:0.24, G:0.02, T:0.59
Consensus pattern (24 bp):
TTCTTAAATTTCATCTTACCTTTC
Found at i:21687694 original size:20 final size:19
Alignment explanation
Indices: 21687661--21687699 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
21687651 GTAGATCATA
21687661 ATTCTTAGAAAATAGAATTT
1 ATTCTTAGAAAATA-AATTT
**
21687681 ATTCTTAGTTAATAAATTT
1 ATTCTTAGAAAATAAATTT
21687700 CTACTACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (19 bp):
ATTCTTAGAAAATAAATTT
Found at i:21690781 original size:31 final size:30
Alignment explanation
Indices: 21690746--21690807 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
21690736 AACCATTAAC
* *
21690746 TTTTATTT-TTATTTTGTTGTTTGTTTTTCTT
1 TTTTATTTATTAGTTTG-TGTTTG-GTTTCTT
21690777 TTTTATTTATTAGTTTGTGTTTGGTTTCTT
1 TTTTATTTATTAGTTTGTGTTTGGTTTCTT
21690807 T
1 T
21690808 AGCGGGCCGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 7 0.25
31 14 0.50
32 7 0.25
ACGTcount: A:0.08, C:0.03, G:0.13, T:0.76
Consensus pattern (30 bp):
TTTTATTTATTAGTTTGTGTTTGGTTTCTT
Found at i:21691097 original size:44 final size:44
Alignment explanation
Indices: 21691000--21691525 Score: 434
Period size: 44 Copynumber: 12.1 Consensus size: 44
21690990 ACTGGATGCG
* * * ** *
21691000 ATCTGCTCAACTGCCACTTTAGAAAGATAAGATCTGTGCTT-TT-A
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GTTTCTTCA
* * *
21691044 ATCTACTCCACTGCAACTTCAGGGACATAGGATTGGTTTCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCA
* *
21691088 ATCTGCTCCACT-CAACTTCAGAGAGATAAGATTGGTTTCTTCT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCA
* * * *
21691131 GTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATTT-TTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTTTCTTCA
* * * *
21691175 ATCTGCTCCATTGCAACTTCAAGGAGATAAGACTGGATTCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCA
* * * ** *
21691219 ATCTGCTCCATTGTAACTTCAGGGAGATAAGACTGAATCCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCA
* * *
21691263 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG--GCAT-G
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCA
* * * *
21691304 ATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTT-TT-A
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GTTTCTTCA
* ** * * *
21691348 TTCCACTCCGA-TGCAACTTCAGGGAGATATGATTAGTTTTTTCA
1 ATCTGCTCC-ACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCA
* ** * * *
21691392 ATCTGATTTACTGCAACTTCAGGGAGATAAGATTGG---ATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCA
* * *
21691433 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT-GTTAT-TTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGTT-TCTTCA
* *
21691477 ATCTGCTCCGCTGCAACTTCAGGGAGATAGGATTGGTTTCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCA
21691521 ATCTG
1 ATCTG
21691526 TTCTCTGAGG
Statistics
Matches: 388, Mismatches: 74, Indels: 40
0.77 0.15 0.08
Matches are distributed among these distances:
41 63 0.16
42 11 0.03
43 51 0.13
44 257 0.66
45 6 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCA
Found at i:21691521 original size:129 final size:129
Alignment explanation
Indices: 21691044--21691525 Score: 478
Period size: 129 Copynumber: 3.7 Consensus size: 129
21691034 TGTGCTTTTA
* * * * *
21691044 ATCTACTCCACTGCAACTTCAGGGACATAGGAT-TG-GTTTCTTCAATCTGCTCCACT-CAACTT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATT-TT-AATCTGCTCCACTGCAACTT
* ** * * *
21691106 CAGAGAGATAAGATTGGTTTCTTCTGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATTT
64 CAGGGAGATAAGATTGGTTTCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGA---
* *
21691171 TTCA
126 TGCG
* * *
21691175 ATCTGCTCCATTGCAACTTCA-AGGAGATAAGA-CTG-GATTCTTCAATCTGCTCCATTGTAACT
1 ATCTGCTCCACTGCAACTTCAGA-GAGATAAGATCTGTGATT-TT-AATCTGCTCCACTGCAACT
* ** *
21691237 TCAGGGAGATAAGACTGAATCCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG--G
63 TCAGGGAGATAAGATTGGTTTCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGATG
21691300 CATG
128 C--G
* * * * **
21691304 ATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTATTCCACTCCGA-TGCAACTTC
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCTGCTCC-ACTGCAACTTC
* * * * **
21691368 AGGGAGATATGATTAGTTTTTTCAATCTGATTTACTGCAACTTCAGGGAGATAAGATTGGATGCG
65 AGGGAGATAAGATTGGTTTCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGATGCG
* * *
21691433 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTTATTTTAATCTGCTCCGCTGCAACTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCA
*
21691498 GGGAGATAGGATTGGTTTCTTCAATCTG
66 GGGAGATAAGATTGGTTTCTTCAATCTG
21691526 TTCTCTGAGG
Statistics
Matches: 291, Mismatches: 48, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
127 1 0.00
129 175 0.60
130 7 0.02
131 52 0.18
132 56 0.19
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (129 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCA
GGGAGATAAGATTGGTTTCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGATGCG
Found at i:21692415 original size:26 final size:26
Alignment explanation
Indices: 21692356--21692409 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
21692346 AGTATCTTGA
* *
21692356 AAAGATTAAAGTATTCCAAGAACAGC
1 AAAGAATAAAGTATTCCAAGAACAAC
* *
21692382 AAAGAATAAAGTATTCTAAGAATAAC
1 AAAGAATAAAGTATTCCAAGAACAAC
21692408 AA
1 AA
21692410 GTAATATGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.56, C:0.11, G:0.13, T:0.20
Consensus pattern (26 bp):
AAAGAATAAAGTATTCCAAGAACAAC
Found at i:21692747 original size:45 final size:44
Alignment explanation
Indices: 21692685--21692769 Score: 134
Period size: 45 Copynumber: 1.9 Consensus size: 44
21692675 CTCTCCCTTT
21692685 TTTTTTTAGACTCAAAGCACCCTTTGCGGGTTTTCACCTTAGTC
1 TTTTTTTAGACTCAAAGCACCCTTTGCGGGTTTTCACCTTAGTC
* * *
21692729 TTTTTTTAGGATTCAAAGCGCTCTTTGCGGGTTTTCACCTT
1 TTTTTTTA-GACTCAAAGCACCCTTTGCGGGTTTTCACCTT
21692770 GATCCATCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 8 0.22
45 29 0.78
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (44 bp):
TTTTTTTAGACTCAAAGCACCCTTTGCGGGTTTTCACCTTAGTC
Found at i:21704973 original size:30 final size:30
Alignment explanation
Indices: 21704922--21704982 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
21704912 AACCATTAAC
**
21704922 TTTTATTTTTGTTTTGTTGTTTTTTTTCTT
1 TTTTATTTTTGTTTTGTTGTTTGGTTTCTT
21704952 TTTTATTTATTAG-TTTG-TGTTTGGTTTCTT
1 TTTTATTT-TT-GTTTTGTTGTTTGGTTTCTT
21704982 T
1 T
21704983 AGCGGGCTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 20 0.74
31 6 0.22
32 1 0.04
ACGTcount: A:0.07, C:0.03, G:0.13, T:0.77
Consensus pattern (30 bp):
TTTTATTTTTGTTTTGTTGTTTGGTTTCTT
Found at i:21710772 original size:19 final size:19
Alignment explanation
Indices: 21710748--21710801 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
21710738 AATCTTCAAG
21710748 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
21710767 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21710786 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
21710802 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:21710777 original size:36 final size:36
Alignment explanation
Indices: 21710737--21710808 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
21710727 TATGGAAACA
21710737 TAATCTT-CA-AGGATATGCAATCTTAGATATGATATG
1 TAATCTTACATAGGATATGCAATCTTAGA-A-GATATG
* *
21710773 TAATCTTAGATATGATATGCAATCTTAGAAGATATG
1 TAATCTTACATAGGATATGCAATCTTAGAAGATATG
21710809 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.41
37 2 0.06
38 17 0.53
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (36 bp):
TAATCTTACATAGGATATGCAATCTTAGAAGATATG
Found at i:21710837 original size:21 final size:23
Alignment explanation
Indices: 21710761--21710837 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 23
21710751 ATGCAATCTT
*
21710761 AGATATG-ATATGTAATCTT---
1 AGATATGAATTTGTAATCTTAGA
* *
21710780 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
21710802 AGATATGATTTTGTAATCTTA-A
1 AGATATGAATTTGTAATCTTAGA
*
21710824 AGAT-TTAATTTGTA
1 AGATATGAATTTGTA
21710838 GATACCTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
19 18 0.38
21 8 0.17
22 12 0.25
23 10 0.21
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.42
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:21711051 original size:23 final size:23
Alignment explanation
Indices: 21711007--21711051 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
21710997 TCTTATTTTG
* *
21711007 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
21711030 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
21711052 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:21711280 original size:3 final size:3
Alignment explanation
Indices: 21711272--21711307 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
21711262 ATTAATCTTG
*
21711272 TAT TAT TAT TAT TATT TAT TAT TAT TAA TAT TAT TA
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA
21711308 CCACGTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:21714502 original size:20 final size:20
Alignment explanation
Indices: 21714477--21714519 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
21714467 CTTCCGCATC
21714477 ATTCTTTCATTCATAATTAT
1 ATTCTTTCATTCATAATTAT
21714497 ATTCTTTCATTCATAATTAT
1 ATTCTTTCATTCATAATTAT
21714517 ATT
1 ATT
21714520 GTACAAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTCTTTCATTCATAATTAT
Found at i:21716804 original size:88 final size:88
Alignment explanation
Indices: 21716655--21717225 Score: 767
Period size: 88 Copynumber: 6.5 Consensus size: 88
21716645 ATCAGTGAAG
* * *
21716655 ATAGCAGATCTTGCCTTCCTACA-TCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCTT
1 ATAGCAGATCTTGCCTTCCTGCACT-GACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT
*
21716719 GGATTGCAGCGAAGCAGGTTAAAA
65 GGGTTGCAGCGAAGCAGGTTAAAA
* * *
21716743 ATAGCAGATCTTGTCTTCCTACACTGACAGCAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
21716808 GGTTGCAGC-AGAGCAGGTTAAAA
66 GGTTGCAGCGA-AGCAGGTTAAAA
** * *
21716831 ATTA-CAGATCTTATCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCT
1 A-TAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT
* * *
21716895 GGGTTGTAACGGAGCAGGTTAAAA
65 GGGTTGCAGCGAAGCAGGTTAAAA
* * * * *
21716919 ATAACAGATCTTGCCTTCCTGC-CTCGACAACGAAGCTGATCAAAGACACTAGCCTTGCCTCCCT
1 ATAGCAGATCTTGCCTTCCTGCACT-GACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT
*
21716983 GGGTTGCAGCGGAGCAGGTTAAAA
65 GGGTTGCAGCGAAGCAGGTTAAAA
* * ** * *
21717007 ATAACAGATCTTGCCTTCCTGTACCAACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTA
1 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
21717072 GGTTGCAGC-AGAGCAGGTTAAAA
66 GGTTGCAGCGA-AGCAGGTTAAAA
* *
21717095 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
*
21717160 GGTTGCAGCGAAGTAGGTTAAAA
66 GGTTGCAGCGAAGCAGGTTAAAA
* *
21717183 ATAGGAGATCTTGCCTTCCTGCA-TCGACAACGAAGCAGATCGA
1 ATAGCAGATCTTGCCTTCCTGCACT-GACAGCGAAGCAGATCGA
21717226 TGACCCCAAA
Statistics
Matches: 432, Mismatches: 41, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
87 4 0.01
88 423 0.98
89 5 0.01
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
GGTTGCAGCGAAGCAGGTTAAAA
Found at i:21716934 original size:44 final size:44
Alignment explanation
Indices: 21716884--21717027 Score: 130
Period size: 44 Copynumber: 3.3 Consensus size: 44
21716874 AGACACCAAC
*
21716884 CTTGCCTCCCTGGGTTGTAACGGAGCAGGTTAAAAATAACAGAT
1 CTTGCCTCCCTGGGTTGCAACGGAGCAGGTTAAAAATAACAGAT
* ** * * * * * * * *
21716928 CTTGCCTTCCTGCCTCGACAACGAAGCTGATCAAAGA-CACTAG-C
1 CTTGCCTCCCTGGGTTG-CAACGGAGCAGGTTAAAAATAAC-AGAT
*
21716972 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAACAGAT
1 CTTGCCTCCCTGGGTTGCAACGGAGCAGGTTAAAAATAACAGAT
*
21717016 CTTGCCTTCCTG
1 CTTGCCTCCCTG
21717028 TACCAACAGC
Statistics
Matches: 71, Mismatches: 25, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 15 0.21
44 41 0.58
45 15 0.21
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAACGGAGCAGGTTAAAAATAACAGAT
Found at i:21717044 original size:45 final size:45
Alignment explanation
Indices: 21716989--21717132 Score: 116
Period size: 44 Copynumber: 3.2 Consensus size: 45
21716979 CCCTGGGTTG
*
21716989 CAGCGGAGCAGGTTAAAAATAACAGATCTTGCCTTCCTGTACCAA
1 CAGCGAAGCAGGTTAAAAATAACAGATCTTGCCTTCCTGTACCAA
* ** * * * * ** *
21717034 CAGCGAAGCAGATCGAAGACACCAG-CCTTGCCTTCCTAGGTTGCAG
1 CAGCGAAGCAGGTTAAAAATAACAGATCTTGCCTTCCT--GTACCAA
* * *
21717080 CA--G-AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGA
1 CAGCGAAGCAGGTTAAAAATAACAGATCTTGCCTTCCTGTACCAA
21717122 CAGCGAAGCAG
1 CAGCGAAGCAG
21717133 ATCGAAGACA
Statistics
Matches: 70, Mismatches: 23, Indels: 12
0.67 0.22 0.11
Matches are distributed among these distances:
42 4 0.06
43 13 0.19
44 24 0.34
45 23 0.33
46 6 0.09
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.19
Consensus pattern (45 bp):
CAGCGAAGCAGGTTAAAAATAACAGATCTTGCCTTCCTGTACCAA
Found at i:21717064 original size:44 final size:44
Alignment explanation
Indices: 21717016--21717154 Score: 122
Period size: 44 Copynumber: 3.2 Consensus size: 44
21717006 AATAACAGAT
21717016 CTTGCCTTCCTGTACCAACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGTACCAACAGCGAAGCAGATCGAAGACACCAGC
** * * ** * * * *
21717060 CTTGCCTTCCTAGGTTGCAGCA--G-AGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTCCT--GTACCAACAGCGAAGCAGATCGAAGACACCAG-C
* *
21717104 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGTACCAACAGCGAAGCAGATCGAAGACACCAGC
21717148 CTTGCCT
1 CTTGCCT
21717155 CCCTAGGTTG
Statistics
Matches: 67, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
42 4 0.06
43 13 0.19
44 31 0.46
45 13 0.19
46 6 0.09
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.19
Consensus pattern (44 bp):
CTTGCCTTCCTGTACCAACAGCGAAGCAGATCGAAGACACCAGC
Found at i:21717129 original size:264 final size:264
Alignment explanation
Indices: 21716659--21717223 Score: 871
Period size: 264 Copynumber: 2.1 Consensus size: 264
21716649 GTGAAGATAG
* * * *
21716659 CAGATCTTGCCTTCCTACATCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCTTGGATT
1 CAGATCTTGCCTTCCTGCATCGACAACGAAGCAGATCAAAGACACTAGCCTTGCCTCCCTGGATT
* * **
21716724 GCAGCGAAGCAGGTTAAAAATAGCAGATCTTGTCTTCCTACACTGACAGCAAAGCAGATCGAAGA
66 GCAGCGAAGCAGGTTAAAAATAACAGATCTTGCCTTCCTACACCAACAGCAAAGCAGATCGAAGA
* *
21716789 CACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATTACAGATCTTATCTTCCTGCA
131 CACCAGCCTTGCCTCCCTAGGTTGCAGCAGAGCAGGTTAAAAATTACAGATCTTACCTTCCTGCA
* * *
21716854 CCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGGTTGTAACGGAGCAGGTTAAAA
196 CCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTAGGTTGCAACGAAGCAGGTTAAAA
21716919 ATAA
261 ATAA
* * *
21716923 CAGATCTTGCCTTCCTGCCTCGACAACGAAGCTGATCAAAGACACTAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCATCGACAACGAAGCAGATCAAAGACACTAGCCTTGCCTCCCTGGATT
* ** *
21716988 GCAGCGGAGCAGGTTAAAAATAACAGATCTTGCCTTCCTGTACCAACAGCGAAGCAGATCGAAGA
66 GCAGCGAAGCAGGTTAAAAATAACAGATCTTGCCTTCCTACACCAACAGCAAAGCAGATCGAAGA
* *
21717053 CACCAGCCTTGCCTTCCTAGGTTGCAGCAGAGCAGGTTAAAAA-TAGCAGATCTTGCCTTCCTGC
131 CACCAGCCTTGCCTCCCTAGGTTGCAGCAGAGCAGGTTAAAAATTA-CAGATCTTACCTTCCTGC
* * *
21717117 ACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGAAGTAGGTTAAA
195 ACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTAGGTTGCAACGAAGCAGGTTAAA
*
21717182 AATAG
260 AATAA
*
21717187 GAGATCTTGCCTTCCTGCATCGACAACGAAGCAGATC
1 CAGATCTTGCCTTCCTGCATCGACAACGAAGCAGATC
21717224 GATGACCCCA
Statistics
Matches: 271, Mismatches: 29, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
263 2 0.01
264 269 0.99
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (264 bp):
CAGATCTTGCCTTCCTGCATCGACAACGAAGCAGATCAAAGACACTAGCCTTGCCTCCCTGGATT
GCAGCGAAGCAGGTTAAAAATAACAGATCTTGCCTTCCTACACCAACAGCAAAGCAGATCGAAGA
CACCAGCCTTGCCTCCCTAGGTTGCAGCAGAGCAGGTTAAAAATTACAGATCTTACCTTCCTGCA
CCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTAGGTTGCAACGAAGCAGGTTAAAA
ATAA
Found at i:21717171 original size:43 final size:43
Alignment explanation
Indices: 21717034--21717172 Score: 129
Period size: 43 Copynumber: 3.2 Consensus size: 43
21717024 CCTGTACCAA
21717034 CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTAGGTTG
1 CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTAGGTTG
* ** * * * * ***
21717077 CAGC-AGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCT-GCACCG
1 CAGCGA-AGCAGATCGAAGACACCAG-CCTTGCCTTCCTAG-GTTG
*
21717121 ACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTG
1 -CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTAGGTTG
21717165 CAGCGAAG
1 CAGCGAAG
21717173 TAGGTTAAAA
Statistics
Matches: 69, Mismatches: 21, Indels: 12
0.68 0.21 0.12
Matches are distributed among these distances:
42 1 0.01
43 26 0.38
44 23 0.33
45 18 0.26
46 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.25, T:0.17
Consensus pattern (43 bp):
CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTAGGTTG
Found at i:21717299 original size:44 final size:43
Alignment explanation
Indices: 21717236--21717354 Score: 150
Period size: 44 Copynumber: 2.7 Consensus size: 43
21717226 TGACCCCAAA
*
21717236 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGT-AAGT
1 CCTATCTCCCTGG-CAGCAGTGGAATAGGTTAAAGATTGTGAA-T
*
21717280 CCTATCTCCCTGGTCAGCAGTGAAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGG-CAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
21717324 CCTATCTTCCTGAGCAACAGTGGAGTAGGTT
1 CCTATCTCCCTG-GCAGCAGTGGAATAGGTT
21717355 CAAAATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 63 0.95
45 3 0.05
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (43 bp):
CCTATCTCCCTGGCAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:21717479 original size:50 final size:50
Alignment explanation
Indices: 21717425--21717528 Score: 136
Period size: 50 Copynumber: 2.1 Consensus size: 50
21717415 ATCGCCTTGA
* *
21717425 CGTTGCAATGGAAAAGATTGAAGCCACAACGGTGAATCTTATTTCCCTAG
1 CGTTGCAACGGAAAAGATTGAAGCCACAACGGTGAATCTTATCTCCCTAG
* * ** * *
21717475 CGTTGTAGCGGAGCAGATTGAAGCCACGACGGTGAATCTTATCTCCCTGG
1 CGTTGCAACGGAAAAGATTGAAGCCACAACGGTGAATCTTATCTCCCTAG
21717525 CGTT
1 CGTT
21717529 AAGGCTTCGA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (50 bp):
CGTTGCAACGGAAAAGATTGAAGCCACAACGGTGAATCTTATCTCCCTAG
Found at i:21717762 original size:45 final size:44
Alignment explanation
Indices: 21717711--21717828 Score: 130
Period size: 45 Copynumber: 2.7 Consensus size: 44
21717701 GAAGATGGCG
*
21717711 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAATCA
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGAAA-CA
* * * *
21717756 AGTCTTATCCCCCTGAAA-TTACAGTGGGGCAGACTAAATAAACA
1 AGTCTTATCTCCCT-AAAGTTGCAGTGGAGCAGACTAAAGAAACA
* ** *
21717800 AATCACATCTCCCTAAAGTTGTAGTGGAG
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAG
21717829 TGGATTAGAA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
43 3 0.05
44 20 0.34
45 33 0.56
46 3 0.05
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (44 bp):
AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGAAACA
Found at i:21717996 original size:13 final size:13
Alignment explanation
Indices: 21717978--21718003 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21717968 AAACTACAAC
21717978 GTGCAAATCCTAT
1 GTGCAAATCCTAT
21717991 GTGCAAATCCTAT
1 GTGCAAATCCTAT
21718004 CTCCCTAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
GTGCAAATCCTAT
Found at i:21718382 original size:18 final size:19
Alignment explanation
Indices: 21718349--21718401 Score: 90
Period size: 18 Copynumber: 2.8 Consensus size: 19
21718339 AATCTTCAAG
21718349 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
21718368 GATATGTAA-CTTAGATAT
1 GATATGCAATCTTAGATAT
21718386 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
21718402 AGATATGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 17 0.55
19 14 0.45
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:21718427 original size:22 final size:22
Alignment explanation
Indices: 21718380--21718424 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
21718370 TATGTAACTT
*
21718380 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTGAGA
* *
21718402 AGATATGATTTTGTAATCTGAGA
1 AGATATGA-TATGCAATCTGAGA
21718425 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.36
Consensus pattern (22 bp):
AGATATGATATGCAATCTGAGA
Found at i:21718651 original size:23 final size:23
Alignment explanation
Indices: 21718603--21718651 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
21718593 GCGTTCTTAT
* *
21718603 TTTATTGATTTGTGTATAATTTA
1 TTTATTGATTTGTATATAATTGA
**
21718626 TTTATTGATTTGTATATTGTTGA
1 TTTATTGATTTGTATATAATTGA
21718649 TTT
1 TTT
21718652 CAAATCTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.14, T:0.63
Consensus pattern (23 bp):
TTTATTGATTTGTATATAATTGA
Found at i:21723925 original size:38 final size:41
Alignment explanation
Indices: 21723871--21723956 Score: 115
Period size: 38 Copynumber: 2.2 Consensus size: 41
21723861 CATTTAATTA
** *
21723871 ATTTTTAAAATTTAAAAATT-TAAAAAAT-TATAAAA-ACT
1 ATTTTTAAAAAATAAAAATTATAAAAAATATATAAAACAAT
*
21723909 ATTTTTAAAAAATAAAAATTATTAAAAATATATAAAACAAT
1 ATTTTTAAAAAATAAAAATTATAAAAAATATATAAAACAAT
21723950 ATTTTTA
1 ATTTTTA
21723957 TATTTTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
38 18 0.44
39 7 0.17
40 7 0.17
41 9 0.22
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (41 bp):
ATTTTTAAAAAATAAAAATTATAAAAAATATATAAAACAAT
Found at i:21723943 original size:20 final size:19
Alignment explanation
Indices: 21723870--21723945 Score: 54
Period size: 17 Copynumber: 4.1 Consensus size: 19
21723860 ACATTTAATT
*
21723870 AATTTTTAAAAT-T-TAAA
1 AATTTTAAAAATATATAAA
*
21723887 AATTTAAAAAAT-TATAAAA
1 AATTTTAAAAATATAT-AAA
*
21723906 ACTATTTTTAAAA-A-ATAAA
1 A--ATTTTAAAAATATATAAA
21723925 AATTATTAAAAATATATAAA
1 AATT-TTAAAAATATATAAA
21723945 A
1 A
21723946 CAATATTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
17 14 0.30
18 7 0.15
19 9 0.20
20 8 0.17
21 8 0.17
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTTTAAAAATATATAAA
Found at i:21724288 original size:20 final size:20
Alignment explanation
Indices: 21724251--21724288 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21724241 AGAATAAACT
*
21724251 TTTACCAAAATATTTAAAGA
1 TTTACCAAAATATCTAAAGA
21724271 TTTACCAATAAT-TCTAAA
1 TTTACCAA-AATATCTAAA
21724289 ATCATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (20 bp):
TTTACCAAAATATCTAAAGA
Found at i:21724533 original size:6 final size:6
Alignment explanation
Indices: 21724522--21724547 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
21724512 ACCCACACAG
21724522 ATTCTA ATTCTA ATTCTA ATTCTA AT
1 ATTCTA ATTCTA ATTCTA ATTCTA AT
21724548 GTACTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTCTA
Found at i:21731553 original size:15 final size:14
Alignment explanation
Indices: 21731533--21731591 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 14
21731523 ATAATAAAAC
21731533 AAAGAAATAAAAGAA
1 AAAGAAA-AAAAGAA
*
21731548 AAAGAAACAAAGAA
1 AAAGAAAAAAAGAA
21731562 CAAACGAAACAAGAAGAA
1 -AAA-GAAA-AA-AAGAA
21731580 AAAGAAAGAAAA
1 AAAGAAA-AAAA
21731592 AAAGGGGGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 6 0.16
15 12 0.32
16 10 0.27
17 4 0.11
18 5 0.14
ACGTcount: A:0.76, C:0.07, G:0.15, T:0.02
Consensus pattern (14 bp):
AAAGAAAAAAAGAA
Found at i:21731572 original size:16 final size:14
Alignment explanation
Indices: 21731542--21731586 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 14
21731532 CAAAGAAATA
21731542 AAAGAAAAAGAAAC
1 AAAGAAAAAGAAAC
21731556 AAAGAACAAACGAAAC
1 AAAGAA-AAA-GAAAC
21731572 AAGAAGAAAAAGAAA
1 -A-AAGAAAAAGAAA
21731587 GAAAAAAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.22
15 3 0.11
16 9 0.33
17 4 0.15
18 5 0.19
ACGTcount: A:0.76, C:0.09, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAGAAAC
Found at i:21731575 original size:23 final size:22
Alignment explanation
Indices: 21731529--21731585 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
21731519 TATAATAATA
*
21731529 AAACAAAGAAATAAAAGAAAAAG
1 AAACAAAG-AACAAAAGAAAAAG
*
21731552 AAACAAAGAACAAACGAAACAAG
1 AAACAAAGAACAAAAGAAA-AAG
*
21731575 AAGAAAAAGAA
1 AA-ACAAAGAA
21731586 AGAAAAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.31
23 13 0.45
24 7 0.24
ACGTcount: A:0.75, C:0.09, G:0.14, T:0.02
Consensus pattern (22 bp):
AAACAAAGAACAAAAGAAAAAG
Found at i:21731584 original size:9 final size:10
Alignment explanation
Indices: 21731528--21731592 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 10
21731518 ATATAATAAT
*
21731528 AAAACAAAGA
1 AAAAGAAAGA
*
21731538 AATA-AAAGA
1 AAAAGAAAGA
*
21731547 AAAAGAAACA
1 AAAAGAAAGA
*
21731557 AAGAACAAACGA
1 AA-AAGAAA-GA
21731569 AACAAG-AAGA
1 AA-AAGAAAGA
21731579 AAAAGAAAGA
1 AAAAGAAAGA
21731589 AAAA
1 AAAA
21731593 AAGGGGGGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
9 11 0.25
10 21 0.48
11 7 0.16
12 5 0.11
ACGTcount: A:0.77, C:0.08, G:0.14, T:0.02
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:21739099 original size:17 final size:17
Alignment explanation
Indices: 21739077--21739117 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
21739067 AAAAAGAAAC
21739077 AAAGAACAAA-CGAAAGA
1 AAAGAA-AAAGCGAAAGA
21739094 AAAGAAAAAGGCGAAAG-
1 AAAGAAAAA-GCGAAAGA
21739111 AAAGAAA
1 AAAGAAA
21739118 GGAGAAGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.14
17 13 0.59
18 6 0.27
ACGTcount: A:0.71, C:0.07, G:0.22, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAGCGAAAGA
Found at i:21740050 original size:40 final size:40
Alignment explanation
Indices: 21739995--21740070 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
21739985 GAGTGCCAAT
* *
21739995 TTACTTCAATTTAGCCGATGATACACTTGGTGCCAATTTA
1 TTACTTCAATTTAGCCGATGAGACACTAGGTGCCAATTTA
*
21740035 TTACTTCGAA-TTAGCCGATGAGGCACTAGGTGCCAA
1 TTACTTC-AATTTAGCCGATGAGACACTAGGTGCCAA
21740071 ACTGGTGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 30 0.94
41 2 0.06
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (40 bp):
TTACTTCAATTTAGCCGATGAGACACTAGGTGCCAATTTA
Found at i:21741707 original size:18 final size:17
Alignment explanation
Indices: 21741684--21741719 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
21741674 TCAATTTTCG
21741684 AATTCAAAAAACTCGAAT
1 AATTCAAAAAACT-GAAT
*
21741702 AATTCAAATAACTGAAT
1 AATTCAAAAAACTGAAT
21741719 A
1 A
21741720 CCAAACTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.56, C:0.14, G:0.06, T:0.25
Consensus pattern (17 bp):
AATTCAAAAAACTGAAT
Found at i:21741890 original size:32 final size:31
Alignment explanation
Indices: 21741813--21741892 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 31
21741803 AATCCCCCAC
*
21741813 AAATCTTTTATTTCCCCTTCTTTACCCTAAA
1 AAATCTTTTATTTCCCCTCCTTTACCCTAAA
21741844 AAATC-TTTACTTTCCTTCC-CCTTTACTCC-AAA
1 AAATCTTTTA-TTTCC--CCTCCTTTAC-CCTAAA
21741876 AAATCTTTTATTTCCCC
1 AAATCTTTTATTTCCCC
21741893 ATTTACCCCC
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
30 6 0.14
31 10 0.23
32 19 0.44
33 8 0.19
ACGTcount: A:0.25, C:0.31, G:0.00, T:0.44
Consensus pattern (31 bp):
AAATCTTTTATTTCCCCTCCTTTACCCTAAA
Found at i:21751266 original size:23 final size:23
Alignment explanation
Indices: 21751240--21751285 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
21751230 GAATTTGAAA
21751240 TCTAAAAAATAAAGGGACCAAAT
1 TCTAAAAAATAAAGGGACCAAAT
21751263 TCTAAAAAATAAAGGGACCAAAT
1 TCTAAAAAATAAAGGGACCAAAT
21751286 CAATGAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.13, G:0.13, T:0.17
Consensus pattern (23 bp):
TCTAAAAAATAAAGGGACCAAAT
Found at i:21752915 original size:28 final size:28
Alignment explanation
Indices: 21752884--21752941 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
21752874 TTAAAAGGAC
21752884 TGAAGATATTAAATATAAAGAGATAGGG
1 TGAAGATATTAAATATAAAGAGATAGGG
21752912 TGAAGATATTAAATATAAAGAGATAGGG
1 TGAAGATATTAAATATAAAGAGATAGGG
21752940 TG
1 TG
21752942 GGGATGAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (28 bp):
TGAAGATATTAAATATAAAGAGATAGGG
Found at i:21755380 original size:25 final size:26
Alignment explanation
Indices: 21755342--21755399 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
21755332 AAATTTAGGA
*
21755342 GTAAAATGGATAAAA-TTTACCAGGG
1 GTAAAATCGATAAAATTTTACCAGGG
* **
21755367 GTAAAATCGTTAAAATTTTATTAGGG
1 GTAAAATCGATAAAATTTTACCAGGG
21755393 GTAAAAT
1 GTAAAAT
21755400 AGGGATGAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.31
Consensus pattern (26 bp):
GTAAAATCGATAAAATTTTACCAGGG
Found at i:21755393 original size:26 final size:25
Alignment explanation
Indices: 21755336--21755399 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
21755326 TCTCAAAAAT
* *
21755336 TTAGGAGTAAAATGGATAAAATTTA
1 TTAGGGGTAAAATCGATAAAATTTA
** *
21755361 CCAGGGGTAAAATCGTTAAAATTTTA
1 TTAGGGGTAAAATCGATAAAA-TTTA
21755387 TTAGGGGTAAAAT
1 TTAGGGGTAAAAT
21755400 AGGGATGAGA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 16 0.52
26 15 0.48
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (25 bp):
TTAGGGGTAAAATCGATAAAATTTA
Found at i:21760291 original size:15 final size:15
Alignment explanation
Indices: 21760271--21760304 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21760261 CTAACTCATT
*
21760271 TTATTTCTTTTATTA
1 TTATTTATTTTATTA
*
21760286 TTATTTATTTTATTT
1 TTATTTATTTTATTA
21760301 TTAT
1 TTAT
21760305 AGCCACTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTATTTTATTA
Found at i:21760834 original size:25 final size:26
Alignment explanation
Indices: 21760786--21760849 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 26
21760776 ACATATTTTC
21760786 TCAAAATTTTACTAGGGGTAAAATCG
1 TCAAAATTTTACTAGGGGTAAAATCG
* *
21760812 TCAAAATTTTA-TCGGGGTAAAATTG
1 TCAAAATTTTACTAGGGGTAAAATCG
*
21760837 TTAAAATTTTACT
1 TCAAAATTTTACT
21760850 GGGACTGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 22 0.65
26 12 0.35
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATCG
Found at i:21761996 original size:36 final size:36
Alignment explanation
Indices: 21761956--21762179 Score: 215
Period size: 35 Copynumber: 6.3 Consensus size: 36
21761946 GTTTTAAACA
*
21761956 GTTGGGATAGACCATTCTATGCCAACCTTAAAAAAG
1 GTTGGGATAGACCAGTCTATGCCAACCTTAAAAAAG
* * *
21761992 GTTGGGATAGACCCA-TCTAAGGCAA-CTTTAAAAAG
1 GTTGGGATAGA-CCAGTCTATGCCAACCTTAAAAAAG
* * *
21762027 TTTGGGATAAACCATTCTATGCCAACCTTAAAAAAG
1 GTTGGGATAGACCAGTCTATGCCAACCTTAAAAAAG
* * ** **
21762063 GTTGGGATAGACCCGTCTAAGGTAA-CTTTTAAAAG
1 GTTGGGATAGACCAGTCTATGCCAACCTTAAAAAAG
* *
21762098 TTTGGGATAGACTAGTCTATGCCAACCTT-AAAAAG
1 GTTGGGATAGACCAGTCTATGCCAACCTTAAAAAAG
* * * * *
21762133 GTTGGGATAGACCCGTCTAAGGCAA-ATTTAAAAAG
1 GTTGGGATAGACCAGTCTATGCCAACCTTAAAAAAG
*
21762168 GTTGGAATAGAC
1 GTTGGGATAGAC
21762180 TTTATCTGTG
Statistics
Matches: 152, Mismatches: 31, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
34 5 0.03
35 95 0.62
36 49 0.32
37 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.26
Consensus pattern (36 bp):
GTTGGGATAGACCAGTCTATGCCAACCTTAAAAAAG
Found at i:21762167 original size:70 final size:71
Alignment explanation
Indices: 21761948--21762179 Score: 360
Period size: 71 Copynumber: 3.3 Consensus size: 71
21761938 TATGCTGAGT
* *
21761948 TTTAAACAG-TTGGGATAGACCATTCTATGCCAACCTTAAAAAAGGTTGGGATAGACCCATCTAA
1 TTTAAAAAGTTTGGGATAGACCATTCTATGCCAACCTTAAAAAAGGTTGGGATAGACCCGTCTAA
21762012 GGCAAC
66 GGCAAC
*
21762018 TTTAAAAAGTTTGGGATAAACCATTCTATGCCAACCTTAAAAAAGGTTGGGATAGACCCGTCTAA
1 TTTAAAAAGTTTGGGATAGACCATTCTATGCCAACCTTAAAAAAGGTTGGGATAGACCCGTCTAA
*
21762083 GGTAAC
66 GGCAAC
* * *
21762089 TTTTAAAAGTTTGGGATAGACTAGTCTATGCCAACCTT-AAAAAGGTTGGGATAGACCCGTCTAA
1 TTTAAAAAGTTTGGGATAGACCATTCTATGCCAACCTTAAAAAAGGTTGGGATAGACCCGTCTAA
*
21762153 GGCAAA
66 GGCAAC
* *
21762159 TTTAAAAAGGTTGGAATAGAC
1 TTTAAAAAGTTTGGGATAGAC
21762180 TTTATCTGTG
Statistics
Matches: 148, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
70 56 0.38
71 92 0.62
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.26
Consensus pattern (71 bp):
TTTAAAAAGTTTGGGATAGACCATTCTATGCCAACCTTAAAAAAGGTTGGGATAGACCCGTCTAA
GGCAAC
Done.