Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 68 of 125
Found at i:21201758 original size:19 final size:20
Alignment explanation
Indices: 21201734--21201785 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
21201724 CTAGTGATGG
*
21201734 TTCTACCGATACATGTCA-C
1 TTCTACCGATACAAGTCAGC
*
21201753 TTCTACCGAAACAAGTCATGC
1 TTCTACCGATACAAGTCA-GC
*
21201774 TTCTACTGATAC
1 TTCTACCGATAC
21201786 TAAAAACTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 16 0.59
21 11 0.41
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (20 bp):
TTCTACCGATACAAGTCAGC
Found at i:21201778 original size:21 final size:21
Alignment explanation
Indices: 21201716--21201785 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
21201706 AGCAGACTTA
* * *
21201716 TACCGATACTAGTGATGGTTC
1 TACCGATACAAGTCATGCTTC
*
21201737 TACCGATACATGTCA--CTTC
1 TACCGATACAAGTCATGCTTC
*
21201756 TACCGAAACAAGTCATGCTTC
1 TACCGATACAAGTCATGCTTC
*
21201777 TACTGATAC
1 TACCGATAC
21201786 TAAAAACTCC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 16 0.41
21 23 0.59
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (21 bp):
TACCGATACAAGTCATGCTTC
Found at i:21208916 original size:21 final size:22
Alignment explanation
Indices: 21208864--21208920 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 22
21208854 CAAGCACCCA
*
21208864 AACTACCGATA-CTTCTATGAAC
1 AACTACCGATACCTACTATG-AC
21208886 AGATCTACCGATACCTACTATG-C
1 A-A-CTACCGATACCTACTATGAC
21208909 AACTACCGATAC
1 AACTACCGATAC
21208921 AACCCAAGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 10 0.32
22 2 0.06
23 3 0.10
24 9 0.29
25 7 0.23
ACGTcount: A:0.35, C:0.30, G:0.11, T:0.25
Consensus pattern (22 bp):
AACTACCGATACCTACTATGAC
Found at i:21221095 original size:11 final size:11
Alignment explanation
Indices: 21221067--21221117 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
21221057 GGATCAAACA
*
21221067 AATTTTTTAATT
1 AATTTTTTTA-T
21221079 ACATTTTTTTAT
1 A-ATTTTTTTAT
*
21221091 AATTTTATTAT
1 AATTTTTTTAT
21221102 AATTTTATTT-T
1 AATTTT-TTTAT
21221113 AATTT
1 AATTT
21221118 AAAAGTGTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 21 0.62
12 5 0.15
13 8 0.24
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (11 bp):
AATTTTTTTAT
Found at i:21233359 original size:23 final size:23
Alignment explanation
Indices: 21233325--21233427 Score: 84
Period size: 23 Copynumber: 4.2 Consensus size: 23
21233315 TGACCTATTC
* *
21233325 ACTTTGACTGAA-CAAAATCGTTG
1 ACTTTGATTGAATC-AAACCGTTG
*
21233348 ACTTTGATTGAATCGAACCGTTG
1 ACTTTGATTGAATCAAACCGTTG
*
21233371 ACTTTGATTAAACTC-AACCTGTTG
1 ACTTTGATTGAA-TCAAACC-GTTG
21233395 ACTTTGACCGAATTGAATCAAACCGTTG
1 ACTTT----G-ATTGAATCAAACCGTTG
21233423 ACTTT
1 ACTTT
21233428 AACCAAACTG
Statistics
Matches: 66, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
23 33 0.50
24 12 0.18
28 12 0.18
29 9 0.14
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (23 bp):
ACTTTGATTGAATCAAACCGTTG
Found at i:21238383 original size:22 final size:19
Alignment explanation
Indices: 21238349--21238392 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
21238339 TTGTATATTA
21238349 TAAATAGGATTAATTAAGGT
1 TAAATAGGATTAATTAA-GT
21238369 TAAATAAGTGATTAATTAAGT
1 TAAAT-AG-GATTAATTAAGT
21238390 TAA
1 TAA
21238393 TCAAGAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.23
21 7 0.32
22 10 0.45
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (19 bp):
TAAATAGGATTAATTAAGT
Found at i:21243390 original size:21 final size:20
Alignment explanation
Indices: 21243373--21243418 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
21243363 CAGATGCATT
21243373 CACATCAAGAATAGATGCAGC
1 CACATC-AGAATAGATGCAGC
*
21243394 CACATCAGAATCGTATGCAGC
1 CACATCAGAATAG-ATGCAGC
21243415 CACA
1 CACA
21243419 ACAATCTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.15
Consensus pattern (20 bp):
CACATCAGAATAGATGCAGC
Found at i:21251577 original size:7 final size:7
Alignment explanation
Indices: 21251517--21251575 Score: 86
Period size: 7 Copynumber: 8.7 Consensus size: 7
21251507 TAAAACAGAA
21251517 GGGAAAG
1 GGGAAAG
21251524 GGGAAAG
1 GGGAAAG
21251531 GGGAAAG
1 GGGAAAG
21251538 GGGAAAG
1 GGGAAAG
*
21251545 AGGAAAG
1 GGGAAAG
21251552 GGGAAA-
1 GGGAAAG
21251558 GGG-AAG
1 GGGAAAG
*
21251564 GGGAAGG
1 GGGAAAG
21251571 GGGAA
1 GGGAA
21251576 GGTAACAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
5 2 0.04
6 6 0.13
7 39 0.83
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (7 bp):
GGGAAAG
Found at i:21251694 original size:38 final size:37
Alignment explanation
Indices: 21251615--21251699 Score: 102
Period size: 38 Copynumber: 2.3 Consensus size: 37
21251605 ATGATGATGA
* * *
21251615 TTTAATAATTTTATATTTTAAATTAATTTTAAAATAGT
1 TTTAATAATTTTATATTTAAAAATAATTTT-AAATAAT
21251653 TTTAATAATTTTATATTTAAAAAAATAATTTT-AATAAT
1 TTTAATAATTTTATATTT--AAAAATAATTTTAAATAAT
21251691 TTTAA-AATT
1 TTTAATAATT
21251700 ATTTGTTGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
37 4 0.10
38 28 0.67
40 10 0.24
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (37 bp):
TTTAATAATTTTATATTTAAAAATAATTTTAAATAAT
Found at i:21251697 original size:20 final size:18
Alignment explanation
Indices: 21251618--21251703 Score: 59
Period size: 20 Copynumber: 4.4 Consensus size: 18
21251608 ATGATGATTT
21251618 AATAATTTTATATTTTAA
1 AATAATTTTATATTTTAA
*
21251636 ATTAATTTTAAAATAGTTTT--
1 AATAATTTT---ATA-TTTTAA
*
21251656 AATAATTTTATATTTAAAAA
1 AATAATTTTATATTT--TAA
21251676 AATAATTTTAATAATTTTAA
1 AATAATTTT-AT-ATTTTAA
*
21251696 AATTATTT
1 AATAATTT
21251704 GTTGATGTGG
Statistics
Matches: 53, Mismatches: 5, Indels: 18
0.70 0.07 0.24
Matches are distributed among these distances:
16 3 0.06
17 3 0.06
18 8 0.15
20 26 0.49
21 5 0.09
22 8 0.15
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (18 bp):
AATAATTTTATATTTTAA
Found at i:21254464 original size:13 final size:13
Alignment explanation
Indices: 21254446--21254470 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21254436 AAACTACTTT
21254446 ATGAAGGAATAAC
1 ATGAAGGAATAAC
21254459 ATGAAGGAATAA
1 ATGAAGGAATAA
21254471 ATTAGAAAGT
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:0.56, C:0.04, G:0.24, T:0.16
Consensus pattern (13 bp):
ATGAAGGAATAAC
Found at i:21264856 original size:40 final size:40
Alignment explanation
Indices: 21264812--21264892 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 40
21264802 CAGTATAAAT
*
21264812 AGGAGCA-CAAATGTGCTATCAGGAGCA-CTGTAGTGCTAAC
1 AGGAGCATCAAA-GTACTATCAGGAGCATC-GTAGTGCTAAC
* * *
21264852 AGGAGTATGAAAGTACTATCAGTAGCATCGTAGTGCTAAC
1 AGGAGCATCAAAGTACTATCAGGAGCATCGTAGTGCTAAC
21264892 A
1 A
21264893 AGATAAGCGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
40 31 0.89
41 4 0.11
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (40 bp):
AGGAGCATCAAAGTACTATCAGGAGCATCGTAGTGCTAAC
Found at i:21265975 original size:7 final size:6
Alignment explanation
Indices: 21265965--21266026 Score: 52
Period size: 7 Copynumber: 9.3 Consensus size: 6
21265955 GTTTATTAGC
* *
21265965 CCCTTAT CCCTTT CCCCTTT CCCCTTT CCCCTTT CCCTTC CCCTTTT TCCTTT
1 CCCTT-T CCCTTT -CCCTTT -CCCTTT -CCCTTT CCCTTT CCC-TTT CCCTTT
21266018 CTCCTTT CC
1 C-CCTTT CC
21266027 ACCATTGTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
6 13 0.27
7 35 0.73
ACGTcount: A:0.02, C:0.52, G:0.00, T:0.47
Consensus pattern (6 bp):
CCCTTT
Found at i:21265983 original size:14 final size:13
Alignment explanation
Indices: 21265964--21266026 Score: 74
Period size: 14 Copynumber: 4.7 Consensus size: 13
21265954 TGTTTATTAG
21265964 CCCCTTATCCCTTT
1 CCCCTT-TCCCTTT
21265978 CCCCTTTCCCCTTT
1 CCCCTTT-CCCTTT
21265992 CCCCTTTCCC-TT
1 CCCCTTTCCCTTT
*
21266004 CCCCTTTTTCCTTT
1 CCCC-TTTCCCTTT
*
21266018 CTCCTTTCC
1 CCCCTTTCC
21266027 ACCATTGTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
12 6 0.14
13 13 0.30
14 24 0.56
ACGTcount: A:0.02, C:0.52, G:0.00, T:0.46
Consensus pattern (13 bp):
CCCCTTTCCCTTT
Found at i:21265990 original size:21 final size:20
Alignment explanation
Indices: 21265972--21266026 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 20
21265962 AGCCCCTTAT
21265972 CCCTTTCCCCTTTCCCCTTTC
1 CCCTTT-CCCTTTCCCCTTTC
*
21265993 CCCTTTCCC-TTCCCCTTTT
1 CCCTTTCCCTTTCCCCTTTC
*
21266012 TCCTTTCTCCTTTCC
1 CCCTTTC-CCTTTCC
21266027 ACCATTGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 15 0.50
20 5 0.17
21 10 0.33
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (20 bp):
CCCTTTCCCTTTCCCCTTTC
Found at i:21266413 original size:21 final size:21
Alignment explanation
Indices: 21266375--21266415 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21266365 GTTGATCTCT
* * *
21266375 TTCTTCAATTTTTCTTTTTAA
1 TTCTTCAAGTGTTATTTTTAA
21266396 TTCTTCAAGTGTTATTTTTA
1 TTCTTCAAGTGTTATTTTTA
21266416 TTGGATTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.12, G:0.05, T:0.63
Consensus pattern (21 bp):
TTCTTCAAGTGTTATTTTTAA
Found at i:21273602 original size:170 final size:172
Alignment explanation
Indices: 21273297--21273617 Score: 538
Period size: 170 Copynumber: 1.9 Consensus size: 172
21273287 GCGGCACCAC
* *
21273297 TTCATGTCCATATAGGTGGATTTCATGACAATTAACGTCCATCCATTAAAAGTAAAACACATCCT
1 TTCATGTCCATATAGGTGGATTTCATGACAATTAACGCCCATCCA-TAAAAGTAAAAAACATCCT
* * *
21273362 CCTAAAATATAAACACTAAATCCTGATTCTTAGTGCACGTTTTCATTCGATAACTTGTTATTATC
65 CCTAAAATATAAACACTAAATCCTAATTCTTAGTGCACGTTGTCATTCGATAACTTGTTATTACC
21273427 CTTTGAACCTCGAAACTAACTTTTGGCTAGAGCAAGGTAGGGT
130 CTTTGAACCTCGAAACTAACTTTTGGCTAGAGCAAGGTAGGGT
* * *
21273470 TTCATGTCCATAT-GGTGGATTTCATGACAATTAATGCCCATCCA-AAGAGTAAAAAACATCCTT
1 TTCATGTCCATATAGGTGGATTTCATGACAATTAACGCCCATCCATAAAAGTAAAAAACATCCTC
*
21273533 CTAAAATATAAACACTAAATCCTAATTCTTAGTGCATGTTGTCATTCGATAACTTGTTATTACCC
66 CTAAAATATAAACACTAAATCCTAATTCTTAGTGCACGTTGTCATTCGATAACTTGTTATTACCC
21273598 TTTGAACCTCGAAACTAACT
131 TTTGAACCTCGAAACTAACT
21273618 GTAACACCTT
Statistics
Matches: 139, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
170 97 0.70
172 29 0.21
173 13 0.09
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (172 bp):
TTCATGTCCATATAGGTGGATTTCATGACAATTAACGCCCATCCATAAAAGTAAAAAACATCCTC
CTAAAATATAAACACTAAATCCTAATTCTTAGTGCACGTTGTCATTCGATAACTTGTTATTACCC
TTTGAACCTCGAAACTAACTTTTGGCTAGAGCAAGGTAGGGT
Found at i:21274529 original size:23 final size:23
Alignment explanation
Indices: 21274502--21274562 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
21274492 AACCCGACCT
* * *
21274502 ATTGACTTTGATCGAACCGAATC
1 ATTGACTTTGACCAAACCGAACC
* *
21274525 GTTGACTTTGACCAAATCGAACC
1 ATTGACTTTGACCAAACCGAACC
21274548 ATTGACTTTGACCAA
1 ATTGACTTTGACCAA
21274563 TCATTGACTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (23 bp):
ATTGACTTTGACCAAACCGAACC
Found at i:21282865 original size:16 final size:14
Alignment explanation
Indices: 21282838--21282908 Score: 69
Period size: 15 Copynumber: 5.1 Consensus size: 14
21282828 ATTAAAAATA
21282838 AAAGGAAAAAAGAG
1 AAAGGAAAAAAGAG
21282852 AAAGAGAGAAAAAGA-
1 AAAG-GA-AAAAAGAG
21282867 AAAGGAAAAAAGAAG
1 AAAGGAAAAAAG-AG
*
21282882 AAAAGAAAAGAA-A-
1 AAAGGAAAA-AAGAG
21282895 AAA-GAAAAAAGAG
1 AAAGGAAAAAAGAG
21282908 A
1 A
21282909 GGTCGAGGTG
Statistics
Matches: 49, Mismatches: 1, Indels: 15
0.75 0.02 0.23
Matches are distributed among these distances:
11 2 0.04
12 6 0.12
13 10 0.20
14 8 0.16
15 14 0.29
16 9 0.18
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAAGGAAAAAAGAG
Found at i:21282885 original size:21 final size:20
Alignment explanation
Indices: 21282861--21282906 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
21282851 GAAAGAGAGA
21282861 AAAAGAAAAGGAAAAAAGAAG
1 AAAAGAAAA-GAAAAAAGAAG
21282882 AAAAGAAAAGAAAAAAGAA-
1 AAAAGAAAAGAAAAAAGAAG
21282901 AAAAGA
1 AAAAGA
21282907 GAGGTCGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 6 0.24
20 10 0.40
21 9 0.36
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAGAAAAAAGAAG
Found at i:21282888 original size:27 final size:30
Alignment explanation
Indices: 21282831--21282906 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 30
21282821 CAAAAAAATT
*
21282831 AAAAATAAAAGGAAAAAAG-AGAAAGAGAG
1 AAAAAGAAAAGGAAAAAAGAAGAAAGAGAG
21282860 AAAAAGAAAAGGAAAAAAGAAGAAA-AGA-
1 AAAAAGAAAAGGAAAAAAGAAGAAAGAGAG
21282888 AAAGAA-AAAA-GAAAAAAGA
1 AAA-AAGAAAAGGAAAAAAGA
21282907 GAGGTCGAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
27 9 0.20
28 7 0.16
29 23 0.52
30 5 0.11
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (30 bp):
AAAAAGAAAAGGAAAAAAGAAGAAAGAGAG
Found at i:21282906 original size:7 final size:7
Alignment explanation
Indices: 21282802--21282906 Score: 69
Period size: 7 Copynumber: 14.9 Consensus size: 7
21282792 AAAGAAATTT
21282802 AAAA-AA
1 AAAAGAA
*
21282808 AAAACAA
1 AAAAGAA
21282815 AAAAGACA
1 AAAAGA-A
21282823 AAAA-AA
1 AAAAGAA
21282829 TTAAAA-ATA
1 --AAAAGA-A
*
21282838 AAAGGAA
1 AAAAGAA
21282845 AAAAGAGA
1 AAAAGA-A
*
21282853 AAGAGAGA
1 AAAAGA-A
21282861 AAAAG-A
1 AAAAGAA
*
21282867 AAAGGAA
1 AAAAGAA
21282874 AAAAGAA
1 AAAAGAA
21282881 GAAAAG--
1 -AAAAGAA
21282887 AAAAGAA
1 AAAAGAA
21282894 AAAAGAA
1 AAAAGAA
21282901 AAAAGA
1 AAAAGA
21282907 GAGGTCGAGG
Statistics
Matches: 81, Mismatches: 7, Indels: 21
0.74 0.06 0.19
Matches are distributed among these distances:
5 5 0.06
6 10 0.12
7 37 0.46
8 28 0.35
9 1 0.01
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.03
Consensus pattern (7 bp):
AAAAGAA
Found at i:21283945 original size:49 final size:49
Alignment explanation
Indices: 21283826--21284009 Score: 127
Period size: 49 Copynumber: 3.8 Consensus size: 49
21283816 CAAATCTAAA
* * * * ***
21283826 ACCCTAGAGATATGAAGAGAAAGGTTGAAGTCGCAACGACAAACCTTGT
1 ACCCTAAAGATATGAAGGGAAAGATTGAAGCCGCAACGGTGAACCTTGT
* ** ** * * *
21283875 ACCTTAGGGACGTGATA-GGAAAGATTGAAGCCGCGATGGTGAATCTTGT
1 ACCCTAAAGATATGA-AGGGAAAGATTGAAGCCGCAACGGTGAACCTTGT
* * * * * * *
21283924 ACCTTAGAGTTATGGAGGGAAAGGTTGAAGCTGTAACGGTGAACCTTGT
1 ACCCTAAAGATATGAAGGGAAAGATTGAAGCCGCAACGGTGAACCTTGT
* **
21283973 ACCCTAAAGATGTGAAGGGAAAGATTGGGGCCGCAAC
1 ACCCTAAAGATATGAAGGGAAAGATTGAAGCCGCAAC
21284010 AACGAATCTT
Statistics
Matches: 99, Mismatches: 34, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
48 1 0.01
49 97 0.98
50 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (49 bp):
ACCCTAAAGATATGAAGGGAAAGATTGAAGCCGCAACGGTGAACCTTGT
Found at i:21284368 original size:40 final size:40
Alignment explanation
Indices: 21284299--21284375 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
21284289 CAATCATCTA
* * ** *
21284299 ATCTTTTACCCTAATCGGAGGGTATATTGAAGACCATTAG
1 ATCTTTTACCCTAACCAGAGGACAAATTGAAGACCATTAG
21284339 ATCTTTTACCCTAACCAGAGGACAAATTGAAGACCAT
1 ATCTTTTACCCTAACCAGAGGACAAATTGAAGACCAT
21284376 CCAATCTCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (40 bp):
ATCTTTTACCCTAACCAGAGGACAAATTGAAGACCATTAG
Found at i:21284444 original size:79 final size:79
Alignment explanation
Indices: 21284339--21284508 Score: 197
Period size: 79 Copynumber: 2.2 Consensus size: 79
21284329 AGACCATTAG
* * **
21284339 ATCTTTTACCCTAACCAGAGGACAAATTGAAG-ACCATCCA-ATCTCTTACCCCGATTATG-GGG
1 ATCTTTTACCCTAACCAGAGGACAAATTAAAGTA--ATCCAGATCTCTTACCCCAACCA-GAGGG
21284401 CAGATTGAAGTAATCCA
63 CAGATTGAAGTAATCCA
* * *
21284418 ATCTTTTA-CCTCAACCATGAGG-CAAATTAAAGTAATTCAGATCTTTTACCCTAACCAGAGGGC
1 ATCTTTTACCCT-AACCA-GAGGACAAATTAAAGTAATCCAGATCTCTTACCCCAACCAGAGGGC
21284481 AGATTGAAGTAATCCA
64 AGATTGAAGTAATCCA
21284497 ATCTTTTACCCT
1 ATCTTTTACCCT
21284509 TAAAGCTATG
Statistics
Matches: 78, Mismatches: 7, Indels: 11
0.81 0.07 0.11
Matches are distributed among these distances:
78 8 0.10
79 62 0.79
80 8 0.10
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (79 bp):
ATCTTTTACCCTAACCAGAGGACAAATTAAAGTAATCCAGATCTCTTACCCCAACCAGAGGGCAG
ATTGAAGTAATCCA
Found at i:21284508 original size:39 final size:40
Alignment explanation
Indices: 21284339--21284508 Score: 172
Period size: 40 Copynumber: 4.3 Consensus size: 40
21284329 AGACCATTAG
*
21284339 ATCTTTTACCCTAACCA-GAGGACAAATTGAAG-ACCATCCA
1 ATCTTTTACCCTAACCATGAGGGCAAATTGAAGTA--ATCCA
* ** ** *
21284379 ATCTCTTACCCCGATTATG-GGGCAGATTGAAGTAATCCA
1 ATCTTTTACCCTAACCATGAGGGCAAATTGAAGTAATCCA
* *
21284418 ATCTTTTA-CCTCAACCATGA-GGCAAATTAAAGTAATTCA
1 ATCTTTTACCCT-AACCATGAGGGCAAATTGAAGTAATCCA
*
21284457 GATCTTTTACCCTAACCA-GAGGGCAGATTGAAGTAATCCA
1 -ATCTTTTACCCTAACCATGAGGGCAAATTGAAGTAATCCA
21284497 ATCTTTTACCCT
1 ATCTTTTACCCT
21284509 TAAAGCTATG
Statistics
Matches: 105, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
38 2 0.02
39 46 0.44
40 52 0.50
41 5 0.05
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (40 bp):
ATCTTTTACCCTAACCATGAGGGCAAATTGAAGTAATCCA
Found at i:21284691 original size:40 final size:40
Alignment explanation
Indices: 21284638--21284929 Score: 235
Period size: 40 Copynumber: 7.4 Consensus size: 40
21284628 AGTTACAACC
*
21284638 TCCAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACCA
1 TCCAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACAA
* * * *
21284678 TCCGATCTCTTA-CCTCAATCATG-GGGCAGATTGAAAACTA
1 TCCAATCTCTTACCCT-AACCA-GAGGGCAGATTGAAGACAA
* * * ** *
21284718 TCGAATCTTTTACCCTAATCAGAGGATAGATTGAAAACCAA
1 TCCAATCTCTTACCCTAACCAGAGGGCAGATTGAAGA-CAA
* * * * *
21284759 -CCAATCTTTTACCCTAATCAGAAGGCAAATTGAAGGCAA
1 TCCAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACAA
21284798 TCCAATCTCTTATCCC-AACCATGA-GGCAGATTGAA-ACAA
1 TCCAATCTCTTA-CCCTAACCA-GAGGGCAGATTGAAGACAA
* * *
21284837 TTCAATCTTTTACCCTAACCAAAGGGCAGATTGAAG-CAA
1 TCCAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACAA
* * * *
21284876 TCTAGTCTTTTACTCC-GACCATG-GGGCAGATTGAA-ACAA
1 TCCAATCTCTTAC-CCTAACCA-GAGGGCAGATTGAAGACAA
*
21284915 TCCAATCTTTTACCC
1 TCCAATCTCTTACCC
21284930 CTAAAGTTAT
Statistics
Matches: 207, Mismatches: 31, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
38 6 0.03
39 79 0.38
40 111 0.54
41 11 0.05
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (40 bp):
TCCAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACAA
Found at i:21284932 original size:79 final size:79
Alignment explanation
Indices: 21284745--21284929 Score: 234
Period size: 78 Copynumber: 2.3 Consensus size: 79
21284735 ATCAGAGGAT
*
21284745 AGATTGAAAACCAA-CCAATCTTTTACCCTAATCAGAAGGCAAATTGAAGGCAATCCAATCTCTT
1 AGATTG-AAA-CAATCCAATCTTTTACCCTAACCAGAAGGCAAATTGAAGGCAATCCAATCTCTT
21284809 ATCCCAACCATGAGGC
64 ATCCCAACCATGAGGC
* * * * *
21284825 AGATTGAAACAATTCAATCTTTTACCCTAACCA-AAGGGCAGATTGAA-GCAATCTAGTCTTTTA
1 AGATTGAAACAATCCAATCTTTTACCCTAACCAGAA-GGCAAATTGAAGGCAATCCAATCTCTTA
* *
21284888 -CTCCGACCATGGGGC
65 TC-CCAACCATGAGGC
21284903 AGATTGAAACAATCCAATCTTTTACCC
1 AGATTGAAACAATCCAATCTTTTACCC
21284930 CTAAAGTTAT
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
77 1 0.01
78 55 0.59
79 31 0.33
80 6 0.06
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (79 bp):
AGATTGAAACAATCCAATCTTTTACCCTAACCAGAAGGCAAATTGAAGGCAATCCAATCTCTTAT
CCCAACCATGAGGC
Found at i:21285213 original size:154 final size:154
Alignment explanation
Indices: 21284930--21285284 Score: 547
Period size: 154 Copynumber: 2.3 Consensus size: 154
21284920 TCTTTTACCC
* ** * *
21284930 CTAAAGTTATAG-AGAGGTAGATTGAAGCTACAAAAGCAAATCCTATACCCCTAAAGTTGTAGAG
1 CTAAAGTTACAGTAGAGCAAGA-TGAAGCTACAAAAGCAAATCCTATACCCCTAAAATTGTAGAA
*
21284994 AGGCGGATTAAAACTCACAGTAGTAGACCTCGATCTTCACTGAAGTTACAAAGAAATAGAGTGAA
65 AGGCGGATTAAAACTCACAGTAGTAGACCTCGATCTTCACTGAAGTTACAAAAAAATAGAGTGAA
*
21285059 GATACGAAGGTGAATCCTTATCTCT
130 GATACGAAGGCGAATCCTTATCTCT
* * *
21285084 CTGAAGTTGCAGTAGAGCAAGATGAAGCTACAGAAGCAAATCCTATACCCCTAAAATTGTAGAAA
1 CTAAAGTTACAGTAGAGCAAGATGAAGCTACAAAAGCAAATCCTATACCCCTAAAATTGTAGAAA
* *
21285149 GGTGGATTAAAACTCACAGTAGTAGACCTCGATCTTCACTGAAGTTGCAAAAAAATAGAGTGAAG
66 GGCGGATTAAAACTCACAGTAGTAGACCTCGATCTTCACTGAAGTTACAAAAAAATAGAGTGAAG
*
21285214 CTACGAAGGCGAATCCTTATCTCT
131 ATACGAAGGCGAATCCTTATCTCT
*
21285238 CTAAAGTTACAGTAGAGCAAGATGAAGC-A-ACAA-CAAATCCTATACCC
1 CTAAAGTTACAGTAGAGCAAGATGAAGCTACAAAAGCAAATCCTATACCC
21285285 TTGAAGTTAA
Statistics
Matches: 184, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
151 14 0.08
152 3 0.02
153 1 0.01
154 159 0.86
155 7 0.04
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.23
Consensus pattern (154 bp):
CTAAAGTTACAGTAGAGCAAGATGAAGCTACAAAAGCAAATCCTATACCCCTAAAATTGTAGAAA
GGCGGATTAAAACTCACAGTAGTAGACCTCGATCTTCACTGAAGTTACAAAAAAATAGAGTGAAG
ATACGAAGGCGAATCCTTATCTCT
Found at i:21298125 original size:30 final size:29
Alignment explanation
Indices: 21298091--21298364 Score: 246
Period size: 30 Copynumber: 9.1 Consensus size: 29
21298081 ATTTTGTTTT
*
21298091 AAAATTACATTTTGATCCCTAAACTTTCTA
1 AAAATT-CATTTTGACCCCTAAACTTTCTA
* * *
21298121 AAAATGTCATTTCGACCCTTTAACTTTCTA
1 AAAAT-TCATTTTGACCCCTAAACTTTCTA
* * *
21298151 AAAATGTCATTTTGATCCC-AACACTTTTTG
1 AAAAT-TCATTTTGACCCCTAA-ACTTTCTA
* *
21298181 GAAATGTCATTTTGACCCATAAACTTTCTA
1 AAAAT-TCATTTTGACCCCTAAACTTTCTA
21298211 AAAATTACATTTTGACCCCTAAACTTTCTA
1 AAAATT-CATTTTGACCCCTAAACTTTCTA
* * *
21298241 AAATTTCATTTTTAACCCATAAACTTTCTA
1 AAAATTCA-TTTTGACCCCTAAACTTTCTA
* *
21298271 AAAATTTTATTTTAACCCCCT-AACTTTCTA
1 AAAA-TTCATTTTGA-CCCCTAAACTTTCTA
*
21298301 AAAATTACATTTTGACCCCCAAACTTTCTA
1 AAAATT-CATTTTGACCCCTAAACTTTCTA
* * * * *
21298331 GAAACTTGCATTTTAACCACAAAACTTTCCA
1 -AAAATT-CATTTTGACCCCTAAACTTTCTA
21298362 AAA
1 AAA
21298365 TTTTGATTTT
Statistics
Matches: 202, Mismatches: 32, Indels: 20
0.80 0.13 0.08
Matches are distributed among these distances:
29 10 0.05
30 158 0.78
31 34 0.17
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (29 bp):
AAAATTCATTTTGACCCCTAAACTTTCTA
Found at i:21298267 original size:90 final size:89
Alignment explanation
Indices: 21298098--21298364 Score: 288
Period size: 90 Copynumber: 3.0 Consensus size: 89
21298088 TTTAAAATTA
* * * * *
21298098 CATTTTGATCCCTAAACTTTCTAAAAATGT-CATTTCGACCCTTTAACTTTCTAAAAATGTCATT
1 CATTTTGACCCCTAAACTTTCTAAAAAT-TACATTTTGACCCCTAAACTTTCT-AAAATTTCATT
* * * * **
21298162 TTGATCCCAACACTTTTTGGAAATGT
64 TTTAACCCAAAACTTTCTAAAAATGT
*
21298188 CATTTTGACCCATAAACTTTCTAAAAATTACATTTTGACCCCTAAACTTTCTAAAATTTCATTTT
1 CATTTTGACCCCTAAACTTTCTAAAAATTACATTTTGACCCCTAAACTTTCTAAAATTTCATTTT
*
21298253 TAACCCATAAACTTTCTAAAAATTT
66 TAACCCA-AAACTTTCTAAAAATGT
* * * *
21298278 TATTTTAACCCCCT-AACTTTCTAAAAATTACATTTTGACCCCCAAACTTTCTAGAAACTTGCA-
1 CATTTTGA-CCCCTAAACTTTCTAAAAATTACATTTTGACCCCTAAACTTTCTA-AAA-TTTCAT
*
21298341 TTTTAACCACAAAACTTTCCAAAA
63 TTTTAACC-CAAAACTTTCTAAAA
21298365 TTTTGATTTT
Statistics
Matches: 152, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
89 18 0.12
90 101 0.66
91 27 0.18
92 6 0.04
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (89 bp):
CATTTTGACCCCTAAACTTTCTAAAAATTACATTTTGACCCCTAAACTTTCTAAAATTTCATTTT
TAACCCAAAACTTTCTAAAAATGT
Found at i:21302964 original size:81 final size:81
Alignment explanation
Indices: 21302829--21302995 Score: 280
Period size: 81 Copynumber: 2.1 Consensus size: 81
21302819 AGGCAGTTAA
* *
21302829 CAAGAATATCAAGAAGATCGAGGCCTACAAAGATTGGCATGAGAAGTTATCATTTACTCTCAACG
1 CAAGAATATCAAGAAGATCGAGACCTACAAAGATTGGCATAAGAAGTTATCATTTACTCTCAACG
21302894 CTTATTGAACATCAAT
66 CTTATTGAACATCAAT
* * * *
21302910 CAAGAATATCAAGAAGATCGAGACTTATAAAGATTGGCATAAGAAGTTATCATTTGCTCTCTACG
1 CAAGAATATCAAGAAGATCGAGACCTACAAAGATTGGCATAAGAAGTTATCATTTACTCTCAACG
21302975 CTTATTGAACATCAAT
66 CTTATTGAACATCAAT
21302991 CAAGA
1 CAAGA
21302996 TTTTGTTAAG
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (81 bp):
CAAGAATATCAAGAAGATCGAGACCTACAAAGATTGGCATAAGAAGTTATCATTTACTCTCAACG
CTTATTGAACATCAAT
Found at i:21304462 original size:99 final size:99
Alignment explanation
Indices: 21304291--21305175 Score: 868
Period size: 99 Copynumber: 8.9 Consensus size: 99
21304281 ACTGAGGGAA
** * *
21304291 CATGAAGATATGAAGGGAAAGGTTGAGGTTGTAACGGCGAACCCGATACCTTAGAAGATGTGATG
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAGAAGATGTGATG
***
21304356 GGAAGGATTGAGGCCGCAACAACGAATCCGGTAC
66 GGAAGGATTGAGGCCGCAACGGTGAATCCGGTAC
* * * * *
21304390 CATGAAGATATGATGGGAAAGGTTGAGGCCGCAACGATGAACCTGGTACCTTAGAAGATATGATG
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAGAAGATGTGATG
** *
21304455 GGAAGGATTGAGGCCGCAATAGTGAATCTGGTAC
66 GGAAGGATTGAGGCCGCAACGGTGAATCCGGTAC
* ** * *
21304489 CATGAAGATATGAAGGGAAAGGTGGAGGCTACAACGGTGAACTCGGTACCTTAGAAGATGTGATG
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAGAAGATGTGATG
* * *
21304554 GGAAGGATTGAGGCCACAACGGTGAATCTGATAC
66 GGAAGGATTGAGGCCGCAACGGTGAATCCGGTAC
* * * *
21304588 CATAAAGATATGAAGGAAAAGGTTGAGGCCACAACGGTGAACCCGGTACCTTAGAAGATGTGATG
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAGAAGATGTGATG
* * * *
21304653 GG-AGTGATTAAGGCCGCAACGGTAAATTCGATAC
66 GGAAG-GATTGAGGCCGCAACGGTGAATCCGGTAC
* * * * ** * *
21304687 CATGAAGATATGAAAGGAAAGGTGGAGGCTGTAATAGCGAACCCGATACCTTAAAAGATGTGATG
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAGAAGATGTGATG
* * * **
21304752 GGAAAGATTGAGGCTGCAACGGCGAATCTAGTAC
66 GGAAGGATTGAGGCCGCAACGGTGAATCCGGTAC
* * * * *
21304786 CATAAAGATATGAAGGGAAAGGTTGAGGCTGTAACGGCGAACCCGATACCTTAGAAGATGTGAAG
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAGAAGATGTGATG
* * * *
21304851 GGAAAGG-TTGAGGCCTCAATGGTGAACCCAGTAC
66 GG-AAGGATTGAGGCCGCAACGGTGAATCCGGTAC
* * * * * * * * * * *
21304885 CTTAGAAGATATGATGGGAAAGATTGAGGCCGCAACAGCGAATCTGGTACCAT-GAAGATATGAA
1 CAT-GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAGAAGATGTGAT
* * *
21304949 GGGAAAGG-TTGAGGCCGCAACGGCGAACCCGATAC
65 GGG-AAGGATTGAGGCCGCAACGGTGAATCCGGTAC
* * * *
21304984 CATAGAAGATGTGATA-GG-AAGGATTGAGGCCGCAACGATGAGCCCGATATCTTAGAAGATGTG
1 CAT-GAAGATATGA-AGGGAAAGG-TTGAGGCCGCAACGGTGAACCCGATACCTTAGAAGATGTG
* * * **
21305047 ATAGGAAGGATTGAAGCCGCAATGGTGAATCTTGTAC
63 ATGGGAAGGATTGAGGCCGCAACGGTGAATCCGGTAC
* * * *** * *
21305084 CATGGAA-ATATGGAGGGAAAGGTTGAAGCCGCAATGGTGAACTTTATACCTTAG-AGATATGAA
1 CAT-GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAGAAGATGTGAT
* *
21305147 GGGAAAGATTGAGGCCGCAACGGCGAATC
65 GGGAAGGATTGAGGCCGCAACGGTGAATC
21305176 TCATATCCTA
Statistics
Matches: 648, Mismatches: 128, Indels: 21
0.81 0.16 0.03
Matches are distributed among these distances:
98 37 0.06
99 527 0.81
100 84 0.13
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.19
Consensus pattern (99 bp):
CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAGAAGATGTGATG
GGAAGGATTGAGGCCGCAACGGTGAATCCGGTAC
Found at i:21304546 original size:149 final size:149
Alignment explanation
Indices: 21304344--21305168 Score: 758
Period size: 149 Copynumber: 5.6 Consensus size: 149
21304334 CGATACCTTA
* * *** * *
21304344 GAAGATGTGATGGG-AAGGATTGAGGCCGCAACAACGAA-TCCGGTACCAT-GAAGATATGATGG
1 GAAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGTGAACT-CGATACCATAGAAGATATGAAGG
* *
21304406 GAAAGGTTGAGGCCGCAACGATGAACCTGGTACCTTAGAAGATATGATGGGAAGGATTGAGGCCG
64 GAAAGGTTGAGGCCGCAACGATGAACCCGATACCTTAGAAGATATGATGGGAAGGATTGAGGCCG
**
21304471 CAATAGTGAATCTGGTACCAT
129 CAACGGTGAATCTGGTACCAT
* ** * * * *
21304492 GAAGATATGAAGGGAAAGGTGGAGGCTACAACGGTGAACTCGGTACCTTAGAAGATGTGATGGG-
1 GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCATAGAAGATATGAAGGGA
* * * * * * * *
21304556 AAGGATTGAGGCCACAACGGTGAATCTGATACCATA-AAGATATGAAGGAAAAGG-TTGAGGCCA
66 AAGG-TTGAGGCCGCAACGATGAACCCGATACCTTAGAAGATATGATGG-GAAGGATTGAGGCCG
* * *
21304619 CAACGGTGAACCCGGTACCTT
129 CAACGGTGAATCTGGTACCAT
* * ** * * * * *
21304640 AGAAGATGTGATGGGAGTGATTAAGGCCGCAACGGTAAATTCGATACCAT-GAAGATATGAAAGG
1 -GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCATAGAAGATATGAAGGG
* * * * * * * * *
21304704 AAAGGTGGAGGCTGTAA-TAGCGAACCCGATACCTTAAAAGATGTGATGGGAAAGATTGAGGCTG
65 AAAGGTTGAGGCCGCAACGA-TGAACCCGATACCTTAGAAGATATGATGGGAAGGATTGAGGCCG
* *
21304768 CAACGGCGAATCTAGTACCAT
129 CAACGGTGAATCTGGTACCAT
* * * * * * *
21304789 AAAGATATGAAGGGAAAGGTTGAGGCTGTAACGGCGAACCCGATACCTTAGAAGATGTGAAGGGA
1 GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCATAGAAGATATGAAGGGA
* * * *
21304854 AAGGTTGAGGCCTCAATGGTGAACCC-AGTACCTTAGAAGATATGATGGGAAAGATTGAGGCCGC
66 AAGGTTGAGGCCGCAACGATGAACCCGA-TACCTTAGAAGATATGATGGGAAGGATTGAGGCCGC
* *
21304918 AACAGCGAATCTGGTACCAT
130 AACGGTGAATCTGGTACCAT
* * *
21304938 GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATAGAAGATGTGATA-GG
1 GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCATAGAAGATATGA-AGGG
* * * * *
21305002 -AAGGATTGAGGCCGCAACGATGAGCCCGATATCTTAGAAGATGTGATAGGAAGGATTGAAGCCG
65 AAAGG-TTGAGGCCGCAACGATGAACCCGATACCTTAGAAGATATGATGGGAAGGATTGAGGCCG
* *
21305066 CAATGGTGAATCTTGTACCAT
129 CAACGGTGAATCTGGTACCAT
* * * ** *
21305087 GGAA-ATATGGAGGGAAAGGTTGAAGCCGCAATGGTGAACTTTATACCTTAG-AGATATGAAGGG
1 -GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCATAGAAGATATGAAGGG
*
21305150 AAAGATTGAGGCCGCAACG
65 AAAGGTTGAGGCCGCAACG
21305169 GCGAATCTCA
Statistics
Matches: 543, Mismatches: 115, Indels: 38
0.78 0.17 0.05
Matches are distributed among these distances:
147 1 0.00
148 169 0.31
149 368 0.68
150 5 0.01
ACGTcount: A:0.34, C:0.15, G:0.32, T:0.19
Consensus pattern (149 bp):
GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCATAGAAGATATGAAGGGA
AAGGTTGAGGCCGCAACGATGAACCCGATACCTTAGAAGATATGATGGGAAGGATTGAGGCCGCA
ACGGTGAATCTGGTACCAT
Found at i:21305112 original size:49 final size:49
Alignment explanation
Indices: 21304387--21305176 Score: 212
Period size: 50 Copynumber: 16.0 Consensus size: 49
21304377 ACGAATCCGG
* * * * * **
21304387 TACCAT-GAAGATATGATGGGAAAGGTTGAGGCCGCAACGATGAACCTGG
1 TACCATAGAA-ATATGAAGGGAAAGGTTGAAGCCGCAATGGTGAATCTTA
* * * * **
21304436 TACCTTAGAAGATATGATGGG-AAGGATTGAGGCCGCAATAGTGAATCTGG
1 TACCATAGAA-ATATGAAGGGAAAGG-TTGAAGCCGCAATGGTGAATCTTA
* * ** * **
21304486 TACCAT-GAAGATATGAAGGGAAAGGTGGAGGCTACAACGGTGAA-CTCGG
1 TACCATAGAA-ATATGAAGGGAAAGGTTGAAGCCGCAATGGTGAATCT-TA
* * * * * * *
21304535 TACCTTAGAAGATGTGATGGG-AAGGATTGAGGCCACAACGGTGAATCTGA
1 TACCATAGAA-ATATGAAGGGAAAGG-TTGAAGCCGCAATGGTGAATCTTA
* * * * * ***
21304585 TACCATA-AAGATATGAAGGAAAAGGTTGAGGCCACAACGGTGAACCCGG
1 TACCATAGAA-ATATGAAGGGAAAGGTTGAAGCCGCAATGGTGAATCTTA
* * * ** * * * *
21304634 TACCTTAGAAGATGTGATGGGAGTGATT-AAGGCCGCAACGGTAAAT-TCGA
1 TACCATAGAA-ATATGAAGGGAAAGGTTGAA-GCCGCAATGGTGAATCT-TA
* * * * * * * * **
21304684 TACCAT-GAAGATATGAAAGGAAAGGTGGAGGCTGTAATAGCGAACCCGA
1 TACCATAGAA-ATATGAAGGGAAAGGTTGAAGCCGCAATGGTGAATCTTA
* * * * * * * * *
21304733 TACCTTAAAAGATGTGATGGGAAAGATTGAGGCTGCAACGGCGAATC-TA
1 TACCATAGAA-ATATGAAGGGAAAGGTTGAAGCCGCAATGGTGAATCTTA
* * * * * * **
21304782 GTACCATA-AAGATATGAAGGGAAAGGTTGAGGCTGTAACGGCGAACCCGA
1 -TACCATAGAA-ATATGAAGGGAAAGGTTGAAGCCGCAATGGTGAATCTTA
* * * * **
21304832 TACCTTAGAAGATGTGAAGGGAAAGGTTGAGGCCTCAATGGTGAA-CCCA
1 TACCATAGAA-ATATGAAGGGAAAGGTTGAAGCCGCAATGGTGAATCTTA
* * * * ** * **
21304881 GTACCTTAGAAGATATGATGGGAAAGATTGAGGCCGCAACAGCGAATCTGG
1 -TACCATAGAA-ATATGAAGGGAAAGGTTGAAGCCGCAATGGTGAATCTTA
* * * * **
21304932 TACCAT-GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGA
1 TACCATAGAA-ATATGAAGGGAAAGGTTGAAGCCGCAATGGTGAATCTTA
* * * * ** **
21304981 TACCATAGAAGATGTGATA-GG-AAGGATTGAGGCCGCAACGATGAGCCCGA
1 TACCATAGAA-ATATGA-AGGGAAAGG-TTGAAGCCGCAATGGTGAATCTTA
* * * *
21305031 TATCTTAGAAGATGTGATA-GG-AAGGATTGAAGCCGCAATGGTGAATCTTG
1 TACCATAGAA-ATATGA-AGGGAAAGG-TTGAAGCCGCAATGGTGAATCTTA
* *
21305081 TACCATGGAAATATGGAGGGAAAGGTTGAAGCCGCAATGGTGAA-CTTTA
1 TACCATAGAAATATGAAGGGAAAGGTTGAAGCCGCAATGGTGAATC-TTA
* * * * * *
21305130 TACCTTAGAGATATGAAGGGAAAGATTGAGGCCGCAACGGCGAATCT
1 TACCATAGAAATATGAAGGGAAAGGTTGAAGCCGCAATGGTGAATCT
21305177 CATATCCTAA
Statistics
Matches: 588, Mismatches: 127, Indels: 52
0.77 0.17 0.07
Matches are distributed among these distances:
48 4 0.01
49 269 0.46
50 311 0.53
51 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.19
Consensus pattern (49 bp):
TACCATAGAAATATGAAGGGAAAGGTTGAAGCCGCAATGGTGAATCTTA
Found at i:21305451 original size:39 final size:40
Alignment explanation
Indices: 21305405--21305786 Score: 504
Period size: 39 Copynumber: 9.5 Consensus size: 40
21305395 AGCGAAGACA
*
21305405 TCATCCAATCTCTTACCTCGATCATGGGGCAGATTGAAGC
1 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGC
* *
21305445 T-ATCCAATCTCTTACCCCGATTATGAGGCAGATTGAAGAC
1 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG-C
21305485 ATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGC
1 -TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGC
* *
21305526 -CATACAATCTCTTACCCCGATCATGTGGCAGATTGAAGAC
1 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG-C
* * *
21305566 ATCAACCAATCTCTTACCCCGATCATGAGGCAAATTGAAG-
1 -TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGC
* *
21305606 TCATCCAATCTCTTACCCCGATCATGAGGCAAATTGAAGTC
1 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG-C
* * * *
21305647 ATCATCCAATCTTTTAACCCGACCATGGGGAAGATTGAAGC
1 -TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGC
*
21305688 -CATCCAATCTCTTACCCCCATCATGGGGCAGATTGAAGAC
1 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG-C
*
21305728 ATCATCCAATCTTTTACCCCGATCATGGGGCAGATTGAAG-
1 -TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGC
*
21305768 TCATCCAATCTTTTACCCC
1 TCATCCAATCTCTTACCCC
21305787 TAAGTCAAGA
Statistics
Matches: 305, Mismatches: 25, Indels: 25
0.86 0.07 0.07
Matches are distributed among these distances:
39 160 0.52
40 4 0.01
41 3 0.01
42 138 0.45
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (40 bp):
TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGC
Found at i:21305491 original size:81 final size:81
Alignment explanation
Indices: 21305398--21305786 Score: 575
Period size: 81 Copynumber: 4.8 Consensus size: 81
21305388 AGAGCAAAGC
*
21305398 GAAGACATCATCCAATCTCTTACCTCGATCATGGGGCAGATTGAAGCTATCCAATCTCTTACCCC
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCTATCCAATCTCTTACCCC
*
21305463 GATTATGAGGCAGATT
66 GATCATGAGGCAGATT
* *
21305479 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATACAATCTCTTACCCC
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCTATCCAATCTCTTACCCC
*
21305544 GATCATGTGGCAGATT
66 GATCATGAGGCAGATT
* * *
21305560 GAAGACATCAACCAATCTCTTACCCCGATCATGAGGCAAATTGAAG-TCATCCAATCTCTTACCC
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCT-ATCCAATCTCTTACCC
*
21305624 CGATCATGAGGCAAATT
65 CGATCATGAGGCAGATT
* * * * * *
21305641 GAAGTCATCATCCAATCTTTTAACCCGACCATGGGGAAGATTGAAGCCATCCAATCTCTTACCCC
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCTATCCAATCTCTTACCCC
* *
21305706 CATCATGGGGCAGATT
66 GATCATGAGGCAGATT
* *
21305722 GAAGACATCATCCAATCTTTTACCCCGATCATGGGGCAGATTGAAG-TCATCCAATCTTTTACCC
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCT-ATCCAATCTCTTACCC
21305786 C
65 C
21305787 TAAGTCAAGA
Statistics
Matches: 275, Mismatches: 30, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
81 275 1.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (81 bp):
GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCTATCCAATCTCTTACCCC
GATCATGAGGCAGATT
Found at i:21306914 original size:10 final size:9
Alignment explanation
Indices: 21306895--21306919 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
21306885 TATTTGTTTC
21306895 AAAAATAAA
1 AAAAATAAA
21306904 AAAAATAAA
1 AAAAATAAA
21306913 AAAAATA
1 AAAAATA
21306920 TGATTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAATAAA
Found at i:21307590 original size:30 final size:29
Alignment explanation
Indices: 21307552--21307801 Score: 188
Period size: 30 Copynumber: 8.4 Consensus size: 29
21307542 CCTTGTTTTG
*
21307552 TTCT-AAAATTACATTTTGATCTCTAAACT
1 TTCTAAAAATTACATTTTGA-CCCTAAACT
* * *
21307581 TTCTGAAAA-TATCATTTCGACCCTTTAACT
1 TTCTAAAAATTA-CATTTTGACCC-TAAACT
*
21307611 TTCTAAATA-TATCATTTTGACCCTTAAACT
1 TTCTAAAAATTA-CATTTTGACCC-TAAACT
* *
21307641 TTCAAAAAATGT-CATTTTGACCCTTGAACT
1 TTCTAAAAAT-TACATTTTGACCC-TAAACT
* * *
21307671 TTCTAAAAATGT-CTTTTTAACCCCTGAACT
1 TTCTAAAAAT-TACATTTTGA-CCCTAAACT
*
21307701 TTCT-AAAATTTCATTTTTGACCCTCAAACT
1 TTCTAAAAATTACA-TTTTGACCCT-AAACT
* * *
21307731 TTTTAAAAATTTCATTTTAACCCCTAAACT
1 TTCTAAAAATTACATTTTGA-CCCTAAACT
* *
21307761 TTTTAAAAATTACATTTTAACCCCTAAACT
1 TTCTAAAAATTACATTTTGA-CCCTAAACT
*
21307791 TTCTATAAATT
1 TTCTAAAAATT
21307802 TCCATTTTAA
Statistics
Matches: 189, Mismatches: 21, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
28 1 0.01
29 18 0.10
30 153 0.81
31 16 0.08
32 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (29 bp):
TTCTAAAAATTACATTTTGACCCTAAACT
Found at i:21307627 original size:60 final size:59
Alignment explanation
Indices: 21307552--21307812 Score: 238
Period size: 60 Copynumber: 4.4 Consensus size: 59
21307542 CCTTGTTTTG
* * * * * *
21307552 TTCTAAAATTA-CATTTTGATCTCTAAACTTTCTGAAAATATCATTTCGACCCTTTAACT
1 TTCTAAAAATATCATTTTAACCCCTAAACTTTCT-AAAATATCATTTTGACCCTTAAACT
* * * * * *
21307611 TTCTAAATATATCATTTTGACCCTTAAACTTTCAAAAAATGTCATTTTGACCCTTGAACT
1 TTCTAAAAATATCATTTTAACCCCTAAACTTTC-TAAAATATCATTTTGACCCTTAAACT
* * * * *
21307671 TTCTAAAAATGTCTTTTTAACCCCTGAACTTTCTAAAATTTCATTTTTGACCCTCAAACT
1 TTCTAAAAATATCATTTTAACCCCTAAACTTTCTAAAATATCA-TTTTGACCCTTAAACT
* * * * *
21307731 TTTTAAAAATTTCATTTTAACCCCTAAACTTTTTAAAA-ATTACATTTTAACCCCTAAACT
1 TTCTAAAAATATCATTTTAACCCCTAAACTTTCTAAAATA-T-CATTTTGACCCTTAAACT
* *
21307791 TTCTATAAATTTCCATTTTAAC
1 TTCTAAAAATAT-CATTTTAAC
21307813 ATTAAAACTT
Statistics
Matches: 166, Mismatches: 30, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
59 17 0.10
60 138 0.83
61 11 0.07
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (59 bp):
TTCTAAAAATATCATTTTAACCCCTAAACTTTCTAAAATATCATTTTGACCCTTAAACT
Found at i:21307701 original size:90 final size:90
Alignment explanation
Indices: 21307574--21307809 Score: 253
Period size: 90 Copynumber: 2.6 Consensus size: 90
21307564 ATTTTGATCT
* ** * * *
21307574 CTAAACTTTCTGAAAA-TATCATTTCGACCCTTTAACTTTCTAAATATATCA-TTTTGACCCTTA
1 CTAAACTTTCTAAAAATTA-CATTTTAACCCCTAAACTTTCTAAA-ATATCATTTTTGACCCTCA
*
21307637 AACTTTCAAAAAATGTCATTTTGACCC
64 AACTTTCAAAAAATGTCATTTTAACCC
* * * * *
21307664 TTGAACTTTCTAAAAATGT-CTTTTTAACCCCTGAACTTTCTAAAATTTCATTTTTGACCCTCAA
1 CTAAACTTTCTAAAAAT-TACATTTTAACCCCTAAACTTTCTAAAATATCATTTTTGACCCTCAA
** *
21307728 ACTTTTTAAAAATTTCATTTTAACCC
65 ACTTTCAAAAAATGTCATTTTAACCC
* *
21307754 CTAAACTTTTTAAAAATTACATTTTAACCCCTAAACTTTCTATAAATTTCCATTTT
1 CTAAACTTTCTAAAAATTACATTTTAACCCCTAAACTTTCTA-AAATAT-CATTTT
21307810 AACATTAAAA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
89 6 0.05
90 102 0.84
91 6 0.05
92 7 0.06
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (90 bp):
CTAAACTTTCTAAAAATTACATTTTAACCCCTAAACTTTCTAAAATATCATTTTTGACCCTCAAA
CTTTCAAAAAATGTCATTTTAACCC
Found at i:21307830 original size:90 final size:89
Alignment explanation
Indices: 21307556--21307832 Score: 236
Period size: 90 Copynumber: 3.1 Consensus size: 89
21307546 GTTTTGTTCT
* * * * * * ** * *
21307556 AAAATTACATTTTGATCTCTAAACTTTCTGAAAATATCATTTCGACCCTTTAACTTTCTAAATAT
1 AAAATTTCATTTTAACCCCTAAACTTTCTAAAAATGTCATTTTAACCCCTAAACTTTCTAAA-AT
* * * *
21307621 ATCA-TTTTGACCCTTAAACTTTCAA
65 TTCATTTTTAACACTAAAACTTTC-A
* * * * * *
21307646 AAAATGTCATTTTGACCCTTGAACTTTCTAAAAATGTCTTTTTAACCCCTGAACTTTCTAAAATT
1 AAAATTTCATTTTAACCCCTAAACTTTCTAAAAATGTCATTTTAACCCCTAAACTTTCTAAAATT
* * * *
21307711 TCATTTTTGACCCTCAAACTTTTTA
66 TCATTTTTAACACTAAAAC-TTTCA
*
21307736 AAAATTTCATTTTAACCCCTAAACTTTTTAAAAAT-TACATTTTAACCCCTAAACTTTCTATAAA
1 AAAATTTCATTTTAACCCCTAAACTTTCTAAAAATGT-CATTTTAACCCCTAAACTTTCTA-AAA
* *
21307800 TTTCCA-TTTTAACATTAAAACTTTCC
64 TTT-CATTTTTAACACTAAAACTTTCA
21307826 AAAATTT
1 AAAATTT
21307833 TGATTTTACC
Statistics
Matches: 153, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
89 6 0.04
90 125 0.82
91 20 0.13
92 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.42
Consensus pattern (89 bp):
AAAATTTCATTTTAACCCCTAAACTTTCTAAAAATGTCATTTTAACCCCTAAACTTTCTAAAATT
TCATTTTTAACACTAAAACTTTCA
Found at i:21312525 original size:21 final size:21
Alignment explanation
Indices: 21312473--21312532 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
21312463 GATACCTGAT
* *
21312473 AAAAGGTATCAATACATTTTG
1 AAAAGGTATCGATACTTTTTG
*
21312494 ACAAGGTATCGATACTTTTTG
1 AAAAGGTATCGATACTTTTTG
* *
21312515 AAAATGTATCGACACTTT
1 AAAAGGTATCGATACTTT
21312533 GTGTCATTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (21 bp):
AAAAGGTATCGATACTTTTTG
Found at i:21318144 original size:194 final size:195
Alignment explanation
Indices: 21317806--21318241 Score: 474
Period size: 194 Copynumber: 2.2 Consensus size: 195
21317796 AAATGGTTGA
* * * * * * *
21317806 GGTACCGCATATGTTACGAGTCCTCGACAGCTCATGTGAGCAGCATCGTGTGTCGGGAAATGAGT
1 GGTACCGCATATGTTGCGAGTCCTCGACAGTTCGTGTGAGCAGCATCATGAGTCGAGAAAAGAGT
* *
21317871 AAAGAATCCAAGAATGGATTACAAGCCCTACTATGGCTGAGATTTATGCATAAGTGCATATTATC
66 AAAGAATCCAAGAATGGATTACAAGCCCTACTATGGCTGAGACTTATGCATAAGTGCATATTACC
* * * * * * *
21317936 TACAGCTCGTGTGAGCAGCATCGTTAGG-GAATAGTTATAT-GCACAGATATCGTA-TCGATGGC
131 GACACCTCGTGTGAGCAGCATCGTCAGGAG-ACAGTTATATAG-ACAAAAACCGTACT-GATGGC
21317998 TGG
193 TGG
*
21318001 GGTACCGCATATGTTGCGAGTCCTCGACAGTTCGTGTGAGTAGCATCATGAGTC-AGAAAAGAG-
1 GGTACCGCATATGTTGCGAGTCCTCGACAGTTCGTGTGAGCAGCATCATGAGTCGAGAAAAGAGT
* * * * ** *
21318064 ATATGAATCCTAGAATGGATTA-TAGGCCTTGTGATGGTTGAGACTTATGCATAAGTGCATA-TA
66 A-AAGAATCCAAGAATGGATTACAAGCCCTACT-ATGGCTGAGACTTATGCATAAGTGCATATTA
* * *
21318127 CCCGATACCTTGTGTGAGCATCATCGTCAGGAGACAGTTATATAGACAAAAACCGTACTGATGGC
129 -CCGACACCTCGTGTGAGCAGCATCGTCAGGAGACAGTTATATAGACAAAAACCGTACTGATGGC
21318192 TGG
193 TGG
* * * *
21318195 GATACCACATATGTTGCTAGTCCTCGACAGCTT-GTGTGTGCAGCATC
1 GGTACCGCATATGTTGCGAGTCCTCGACAG-TTCGTGTGAGCAGCATC
21318242 GGATACTAGT
Statistics
Matches: 202, Mismatches: 32, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
193 9 0.04
194 140 0.69
195 53 0.26
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (195 bp):
GGTACCGCATATGTTGCGAGTCCTCGACAGTTCGTGTGAGCAGCATCATGAGTCGAGAAAAGAGT
AAAGAATCCAAGAATGGATTACAAGCCCTACTATGGCTGAGACTTATGCATAAGTGCATATTACC
GACACCTCGTGTGAGCAGCATCGTCAGGAGACAGTTATATAGACAAAAACCGTACTGATGGCTGG
Found at i:21337742 original size:12 final size:13
Alignment explanation
Indices: 21337705--21337758 Score: 56
Period size: 12 Copynumber: 4.1 Consensus size: 13
21337695 CAATCACTTG
*
21337705 AAAGAGGAAAATAA
1 AAAGAAGAAAA-AA
*
21337719 ATAGAAAGAAAAAA
1 AAAG-AAGAAAAAA
*
21337733 AAAG-AGAAAAGA
1 AAAGAAGAAAAAA
21337745 AAAGAAGAAAAAA
1 AAAGAAGAAAAAA
21337758 A
1 A
21337759 TTTTATTGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
12 11 0.33
13 8 0.24
14 8 0.24
15 6 0.18
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.04
Consensus pattern (13 bp):
AAAGAAGAAAAAA
Found at i:21337756 original size:26 final size:28
Alignment explanation
Indices: 21337705--21337758 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 28
21337695 CAATCACTTG
*
21337705 AAAGAGGAAAATAAATAGAAAGAAAAAA
1 AAAGAGGAAAAGAAATAGAAAGAAAAAA
21337733 AAAGA-GAAAAGAAA-AG-AAGAAAAAA
1 AAAGAGGAAAAGAAATAGAAAGAAAAAA
21337758 A
1 A
21337759 TTTTATTGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 10 0.40
26 2 0.08
27 8 0.32
28 5 0.20
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.04
Consensus pattern (28 bp):
AAAGAGGAAAAGAAATAGAAAGAAAAAA
Found at i:21347088 original size:52 final size:52
Alignment explanation
Indices: 21346936--21347225 Score: 377
Period size: 52 Copynumber: 5.6 Consensus size: 52
21346926 TTCTCATTAA
* * *
21346936 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATCAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCAT
* * **
21346988 ATATTCACGATAACA-ATAGTCATCGGACCTTATAATTTGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCAT
* * * *
21347039 ATACTCACGATGACACATAATCATTGGACCTTATAATCCGTAAATGATTCAA
1 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCAT
* * *
21347091 ATACTCACGATGACACATAGTCATCAGACCTTATAATCTGTAAACGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCAT
* * * * * *
21347143 ATACTC-TGATGACACATAGCCATCAGACCTCATAACCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCAT
*
21347194 CTACTCACGATGACACATAGTCATCGGACCTT
1 ATACTCACGATGACACATAGTCATCGGACCTT
21347226 TCACATTTTA
Statistics
Matches: 203, Mismatches: 33, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
51 87 0.43
52 116 0.57
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.28
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCAT
Found at i:21347154 original size:103 final size:104
Alignment explanation
Indices: 21346936--21347225 Score: 413
Period size: 103 Copynumber: 2.8 Consensus size: 104
21346926 TTCTCATTAA
* * *
21346936 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATCAAGGATTCATATATTCACGATAA
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATATACTCACGATGA
* *
21347001 CA-ATAGTCATCGGACCTTATAATTTGTAAAGGATTCAT
66 CACATAGTCATCGGACCTTATAATCTGTAAACGATTCAT
* * * * * *
21347039 ATACTCACGATGACACATAATCATTGGACCTTATAATCCGTAAATGATTCAAATACTCACGATGA
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATATACTCACGATGA
*
21347104 CACATAGTCATCAGACCTTATAATCTGTAAACGATTCAT
66 CACATAGTCATCGGACCTTATAATCTGTAAACGATTCAT
* * * * *
21347143 ATACTC-TGATGACACATAGCCATCAGACCTCATAACCCATAAAGGATTCATCTACTCACGATGA
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATATACTCACGATGA
21347207 CACATAGTCATCGGACCTT
66 CACATAGTCATCGGACCTT
21347226 TCACATTTTA
Statistics
Matches: 162, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
103 123 0.76
104 39 0.24
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.28
Consensus pattern (104 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATATACTCACGATGA
CACATAGTCATCGGACCTTATAATCTGTAAACGATTCAT
Found at i:21347223 original size:155 final size:155
Alignment explanation
Indices: 21346934--21347225 Score: 397
Period size: 155 Copynumber: 1.9 Consensus size: 155
21346924 GTTTCTCATT
* * * *
21346934 AAATACTCACGATGACACATAGTCATCGGACCTCATAATCCATCAAGGATTCATATATTCACGAT
1 AAATACTCACGATGACACATAGTCATCAGACCTCATAATCCATAAACGATTCATATACTCACGAT
* * * **** *
21346999 AACAATAGTCATCGGACCTTATAATTTGTAAAGGATTCATATACTCACGATGACACATAATCATT
66 AACAATAGCCATCAGACCTCATAACCCATAAAGGATTCATATACTCACGATGACACATAATCATC
21347064 GGACCTTATAATCCGTAAATGATTC
131 GGACCTTATAATCCGTAAATGATTC
* ** *
21347089 AAATACTCACGATGACACATAGTCATCAGACCTTATAATCTGTAAACGATTCATATACTC-TGAT
1 AAATACTCACGATGACACATAGTCATCAGACCTCATAATCCATAAACGATTCATATACTCACGAT
* * *
21347153 GACACATAGCCATCAGACCTCATAACCCATAAAGGATTCATCTACTCACGATGACACATAGTCAT
66 AACA-ATAGCCATCAGACCTCATAACCCATAAAGGATTCATATACTCACGATGACACATAATCAT
21347218 CGGACCTT
130 CGGACCTT
21347226 TCACATTTTA
Statistics
Matches: 117, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
154 6 0.05
155 111 0.95
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (155 bp):
AAATACTCACGATGACACATAGTCATCAGACCTCATAATCCATAAACGATTCATATACTCACGAT
AACAATAGCCATCAGACCTCATAACCCATAAAGGATTCATATACTCACGATGACACATAATCATC
GGACCTTATAATCCGTAAATGATTC
Found at i:21356233 original size:228 final size:228
Alignment explanation
Indices: 21355836--21356279 Score: 741
Period size: 228 Copynumber: 1.9 Consensus size: 228
21355826 GTCTAAGTCC
* *
21355836 TTCCACTTATAACTCCACGATTTCAAAGGAGCGAATGTTGTTGCTCCATTCTATCATGATGGGGA
1 TTCCACTCATAACTCCACGATTTCAAAGGAGCGAATGCTGTTGCTCCATTCTATCATGATGGGGA
*
21355901 GGAAAATCAATGTAGGAAAAATCATATTTAAAGAAGCCACAAATGCGCACAGAAGAATGGTAAGA
66 GGAAAATCAATGTAGGAAAAATCATATTTAAAGAAGCCACAAATGCGCAAAGAAGAATGGTAAGA
21355966 GCCTTAATTTTCCCTCTCTCATTACTGCCCTTTGCCAACGTGTGAATGTCT-CTGTCCAAGCTAA
131 GCCTTAATTTTCCCTCTCTCATTACTGCCCTTTGCCAACGTGTGAATGTCTCCT-TCCAAGCTAA
21356030 CGAAGATATCACCCCAAACAAAGGGGAGGATTTG
195 CGAAGATATCACCCCAAACAAAGGGGAGGATTTG
21356064 TTCCACTCATAACTCCACGATTTCAAAGGAGCGAATGCTGTTGCTCCATTCTATCATGATGGGGA
1 TTCCACTCATAACTCCACGATTTCAAAGGAGCGAATGCTGTTGCTCCATTCTATCATGATGGGGA
* ** * **
21356129 GGAAAATCAATGTGGGAAAAATCATATTTAAAGAAGTCCACAGTTGCTCAAAGAAGAAT-GTCGG
66 GGAAAATCAATGTAGGAAAAATCATATTTAAAGAAG-CCACAAATGCGCAAAGAAGAATGGT-AA
*
21356193 GAGCCTTAA-TTTCCCTCTCTCATTACTTCCCTTTGCCAACGTGTGAATGTCTCCTTCCAAGCTA
129 GAGCCTTAATTTTCCCTCTCTCATTACTGCCCTTTGCCAACGTGTGAATGTCTCCTTCCAAGCTA
*
21356257 ACGAAGGTATCACCCCAAACAAA
194 ACGAAGATATCACCCCAAACAAA
21356280 AGGGCAATTA
Statistics
Matches: 202, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
228 173 0.86
229 29 0.14
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (228 bp):
TTCCACTCATAACTCCACGATTTCAAAGGAGCGAATGCTGTTGCTCCATTCTATCATGATGGGGA
GGAAAATCAATGTAGGAAAAATCATATTTAAAGAAGCCACAAATGCGCAAAGAAGAATGGTAAGA
GCCTTAATTTTCCCTCTCTCATTACTGCCCTTTGCCAACGTGTGAATGTCTCCTTCCAAGCTAAC
GAAGATATCACCCCAAACAAAGGGGAGGATTTG
Found at i:21358350 original size:21 final size:20
Alignment explanation
Indices: 21358323--21358393 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
21358313 AACACAACAC
* *
21358323 TAAAATAATAACCAAAACAA
1 TAAAAAAATAACCAAAAAAA
* * *
21358343 TAAAAATAGT-ACCAAAATAG
1 TAAAAA-AATAACCAAAAAAA
*
21358363 TAAAAAAACACACCAAAAAAA
1 TAAAAAAATA-ACCAAAAAAA
*
21358384 CAAAAAAATA
1 TAAAAAAATA
21358394 GCATCAAAAT
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
19 1 0.03
20 19 0.50
21 18 0.47
ACGTcount: A:0.70, C:0.14, G:0.03, T:0.13
Consensus pattern (20 bp):
TAAAAAAATAACCAAAAAAA
Found at i:21358401 original size:22 final size:22
Alignment explanation
Indices: 21358336--21358408 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
21358326 AATAATAACC
*
21358336 AAAACAATAAAAATAGTACCAAA
1 AAAACAA-AAAAATAGCACCAAA
* ** *
21358359 ATAGTAAAAAAACA-CACCAAA
1 AAAACAAAAAAATAGCACCAAA
*
21358380 AAAACAAAAAAATAGCATCAAA
1 AAAACAAAAAAATAGCACCAAA
*
21358402 ATAACAA
1 AAAACAA
21358409 TATAATTTTT
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
21 16 0.42
22 18 0.47
23 4 0.11
ACGTcount: A:0.70, C:0.15, G:0.04, T:0.11
Consensus pattern (22 bp):
AAAACAAAAAAATAGCACCAAA
Found at i:21362998 original size:3 final size:3
Alignment explanation
Indices: 21362990--21363017 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
21362980 GATTTGCTGG
21362990 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
21363018 TTTGCATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:21365855 original size:20 final size:20
Alignment explanation
Indices: 21365814--21365854 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
21365804 TGATTTAGAT
21365814 AATTCTAAAAATATATTTAA
1 AATTCTAAAAATATATTTAA
*
21365834 AATTTTAAAAAT-TATTTAA
1 AATTCTAAAAATATATTTAA
21365853 AA
1 AA
21365855 AAATACTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTCTAAAAATATATTTAA
Found at i:21376684 original size:7 final size:7
Alignment explanation
Indices: 21376668--21376734 Score: 73
Period size: 7 Copynumber: 9.7 Consensus size: 7
21376658 CTCAAAAAAC
*
21376668 GTCAACG
1 GTCAATG
21376675 GTCAATG
1 GTCAATG
*
21376682 GTCAATA
1 GTCAATG
21376689 GTCAATG
1 GTCAATG
*
21376696 ATCAATG
1 GTCAATG
*
21376703 GTCAA-A
1 GTCAATG
**
21376709 GTCAACA
1 GTCAATG
21376716 GTCAATG
1 GTCAATG
21376723 GTCAATG
1 GTCAATG
21376730 GTCAA
1 GTCAA
21376735 CGGGTATGGT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
6 5 0.10
7 46 0.90
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (7 bp):
GTCAATG
Found at i:21376713 original size:20 final size:21
Alignment explanation
Indices: 21376668--21376735 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
21376658 CTCAAAAAAC
*
21376668 GTCAACGGTCAATGGTCAATA
1 GTCAACAGTCAATGGTCAATA
*
21376689 GTCAA-TGATCAATGGTCAA-A
1 GTCAACAG-TCAATGGTCAATA
*
21376709 GTCAACAGTCAATGGTCAATG
1 GTCAACAGTCAATGGTCAATA
21376730 GTCAAC
1 GTCAAC
21376736 GGGTATGGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 18 0.44
21 23 0.56
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (21 bp):
GTCAACAGTCAATGGTCAATA
Found at i:21376719 original size:27 final size:27
Alignment explanation
Indices: 21376682--21376734 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
21376672 ACGGTCAATG
*
21376682 GTCAATAGTCAATGATCAATGGTCAAA
1 GTCAACAGTCAATGATCAATGGTCAAA
*
21376709 GTCAACAGTCAATGGTCAATGGTCAA
1 GTCAACAGTCAATGATCAATGGTCAA
21376735 CGGGTATGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (27 bp):
GTCAACAGTCAATGATCAATGGTCAAA
Found at i:21383523 original size:20 final size:20
Alignment explanation
Indices: 21383484--21383525 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
21383474 TTTCTAAAAA
*
21383484 AAAGTCAACGATCAATGGTC
1 AAAGTCAACGATCAACGGTC
* *
21383504 AAAGTCAACGGTCAGCGGTC
1 AAAGTCAACGATCAACGGTC
21383524 AA
1 AA
21383526 CGGGTTGGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (20 bp):
AAAGTCAACGATCAACGGTC
Found at i:21391429 original size:37 final size:37
Alignment explanation
Indices: 21391373--21391598 Score: 137
Period size: 37 Copynumber: 6.5 Consensus size: 37
21391363 TCTAACTTAT
*
21391373 GACCATGGTTGGACC-ATGGCAGTGTATATAGATGTAA
1 GACCATAGTTGG-CCTATGGCAGTGTATATAGATGTAA
** *
21391410 GACCATAACTGGCCTATGGCA---T-TCT-GATGTAA
1 GACCATAGTTGGCCTATGGCAGTGTATATAGATGTAA
* *
21391442 GACCATGGTTGGACC-ATAGCAGTGTATATAGATGTAA
1 GACCATAGTTGG-CCTATGGCAGTGTATATAGATGTAA
* * *
21391479 GACCATAGTTGGGCTATGGCATTCTA-AT-G-T-TAA
1 GACCATAGTTGGCCTATGGCAGTGTATATAGATGTAA
* *
21391512 GACCATAGCTAGG-CTATGGCA---T-TCTA-ATGTAA
1 GACCATAG-TTGGCCTATGGCAGTGTATATAGATGTAA
** * * *
21391544 GACTTTTGTTGGACC-ATGACAGTGTATATATATGTAA
1 GACCATAGTTGG-CCTATGGCAGTGTATATAGATGTAA
*
21391581 GACCATAGTTGGGCTATG
1 GACCATAGTTGGCCTATG
21391599 ACATTCTGAT
Statistics
Matches: 142, Mismatches: 26, Indels: 42
0.68 0.12 0.20
Matches are distributed among these distances:
30 2 0.01
31 4 0.03
32 34 0.24
33 24 0.17
34 5 0.04
35 3 0.02
36 11 0.08
37 59 0.42
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (37 bp):
GACCATAGTTGGCCTATGGCAGTGTATATAGATGTAA
Found at i:21391484 original size:69 final size:70
Alignment explanation
Indices: 21391373--21391517 Score: 238
Period size: 69 Copynumber: 2.1 Consensus size: 70
21391363 TCTAACTTAT
* *
21391373 GACCATGGTTGGACCATGGCAGTGTATATAGATGTAAGACCATAACTGGCCTATGGCATTCTGAT
1 GACCATGGTTGGACCATAGCAGTGTATATAGATGTAAGACCATAACTGGCCTATGGCATTCTAAT
21391438 G-TAA
66 GTTAA
** *
21391442 GACCATGGTTGGACCATAGCAGTGTATATAGATGTAAGACCATAGTTGGGCTATGGCATTCTAAT
1 GACCATGGTTGGACCATAGCAGTGTATATAGATGTAAGACCATAACTGGCCTATGGCATTCTAAT
21391507 GTTAA
66 GTTAA
21391512 GACCAT
1 GACCAT
21391518 AGCTAGGCTA
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
69 61 0.87
70 9 0.13
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (70 bp):
GACCATGGTTGGACCATAGCAGTGTATATAGATGTAAGACCATAACTGGCCTATGGCATTCTAAT
GTTAA
Found at i:21391518 original size:33 final size:32
Alignment explanation
Indices: 21391404--21391700 Score: 164
Period size: 33 Copynumber: 8.8 Consensus size: 32
21391394 GTGTATATAG
** * *
21391404 ATGTAAGACCATAACTGGCCTATGGCATTCTG
1 ATGTAAGACCATAGTTGGGCTATGGCATTCTA
* * * * *
21391436 ATGTAAGACCATGGTTGGACCATAGCAGTGTATATA
1 ATGTAAGACCATAGTTGGGCTATGGCA---T-TCTA
21391472 GATGTAAGACCATAGTTGGGCTATGGCATTCTA
1 -ATGTAAGACCATAGTTGGGCTATGGCATTCTA
* *
21391505 ATGTTAAGACCATAGCTAGGCTATGGCATTCTA
1 ATG-TAAGACCATAGTTGGGCTATGGCATTCTA
** * * * * *
21391538 ATGTAAGACTTTTGTTGGACCATGACAGTGTATATA
1 ATGTAAGACCATAGTTGGGCTATGGCA---T-TCTA
* *
21391574 TATGTAAGACCATAGTTGGGCTATGACATTCTG
1 -ATGTAAGACCATAGTTGGGCTATGGCATTCTA
** * * *
21391607 ATGTTAAGACCATAACTAGGTTATGGCATTATGA
1 ATG-TAAGACCATAGTTGGGCTATGGCATTCT-A
* ** * *
21391641 ATGTAAGACCATGGTCAGGCCATGGCAATGC-A
1 ATGTAAGACCATAGTTGGGCTATGGC-ATTCTA
* *
21391673 CATGTAAGACCATTGTTGGACTATGGCA
1 -ATGTAAGACCATAGTTGGGCTATGGCA
21391701 CAATATGAAA
Statistics
Matches: 199, Mismatches: 51, Indels: 30
0.71 0.18 0.11
Matches are distributed among these distances:
32 45 0.23
33 95 0.48
34 7 0.04
35 2 0.01
36 5 0.03
37 45 0.23
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (32 bp):
ATGTAAGACCATAGTTGGGCTATGGCATTCTA
Found at i:21391555 original size:102 final size:102
Alignment explanation
Indices: 21391407--21391655 Score: 367
Period size: 102 Copynumber: 2.4 Consensus size: 102
21391397 TATATAGATG
*
21391407 TAAGACCATAACT-GGCCTATGGCATTCTGATGTAAGACCATGGTTGGACCAT-AGCAGTGTATA
1 TAAGACCATAACTAGG-CTATGGCATTCTAATGTAAGACCATGGTTGGACCATGA-CAGTGTATA
*
21391470 TAGATGTAAGACCATAGTTGGGCTATGGCATTCTAATGT
64 TAGATGTAAGACCATAGTTGGGCTATGACATTCTAATGT
* ** *
21391509 TAAGACCATAGCTAGGCTATGGCATTCTAATGTAAGACTTTTGTTGGACCATGACAGTGTATATA
1 TAAGACCATAACTAGGCTATGGCATTCTAATGTAAGACCATGGTTGGACCATGACAGTGTATATA
* *
21391574 TATGTAAGACCATAGTTGGGCTATGACATTCTGATGT
66 GATGTAAGACCATAGTTGGGCTATGACATTCTAATGT
* *
21391611 TAAGACCATAACTAGGTTATGGCATTATGAATGTAAGACCATGGT
1 TAAGACCATAACTAGGCTATGGCATTCT-AATGTAAGACCATGGT
21391656 CAGGCCATGG
Statistics
Matches: 130, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
102 114 0.88
103 16 0.12
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (102 bp):
TAAGACCATAACTAGGCTATGGCATTCTAATGTAAGACCATGGTTGGACCATGACAGTGTATATA
GATGTAAGACCATAGTTGGGCTATGACATTCTAATGT
Found at i:21394681 original size:13 final size:14
Alignment explanation
Indices: 21394663--21394692 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
21394653 GTCAACACAA
21394663 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
21394676 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
21394690 TCA
1 TCA
21394693 ATGTACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:21396878 original size:19 final size:20
Alignment explanation
Indices: 21396835--21396878 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
21396825 AGTGACAAAA
21396835 TAAAATGCAGGGAAAATAAC
1 TAAAATGCAGGGAAAATAAC
* * *
21396855 AAAAATGCA-TGAAAATATC
1 TAAAATGCAGGGAAAATAAC
21396874 TAAAA
1 TAAAA
21396879 GAAATGTACC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.59, C:0.09, G:0.14, T:0.18
Consensus pattern (20 bp):
TAAAATGCAGGGAAAATAAC
Found at i:21404528 original size:27 final size:28
Alignment explanation
Indices: 21404477--21404535 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
21404467 TATTAACTGC
*
21404477 TTGTGGCAGCATTGGAGGAATATCATT-
1 TTGTGGCAGCAATGGAGGAATATCATTG
*
21404504 TTGTGGCAGCAATGGTGGTAA-ATCATTG
1 TTGTGGCAGCAATGGAGG-AATATCATTG
21404532 TTGT
1 TTGT
21404536 TTCAAGCCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.24, C:0.10, G:0.31, T:0.36
Consensus pattern (28 bp):
TTGTGGCAGCAATGGAGGAATATCATTG
Found at i:21410640 original size:40 final size:38
Alignment explanation
Indices: 21410572--21410706 Score: 96
Period size: 40 Copynumber: 3.4 Consensus size: 38
21410562 ACCAGAATGG
* *
21410572 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAAAGTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAG-AATAAAGTGA
* *
21410612 CACCCAGTGTCTCATCGGCCTAGCCGAAG--TAAAGTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAATAAAGTGA
* * * * *
21410649 TACCCAGTACCTCATCGAATCTATCCGAAGTAA-AATAATGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAG-AATAA-AGTGA
*
21410690 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
21410707 ACTCAAGGTC
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
37 21 0.28
38 9 0.12
40 24 0.32
41 20 0.27
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAATAAAGTGA
Found at i:21410704 original size:41 final size:38
Alignment explanation
Indices: 21410604--21410707 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 38
21410594 TTCGAAGCAA
* *
21410604 TAAAGTGACACCCAGTGTCTCATCG-GCCTAGCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
* ** ** * *
21410641 TAAAGTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
21410679 TAAAATAATGACACCCAGTGTCTCATCGA
1 T--AA-AATGACACCCAGTGTCTCATCGA
21410708 CTCAAGGTCG
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 21 0.41
38 10 0.20
40 2 0.04
41 18 0.35
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (38 bp):
TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
Found at i:21415385 original size:40 final size:38
Alignment explanation
Indices: 21415317--21415451 Score: 96
Period size: 40 Copynumber: 3.4 Consensus size: 38
21415307 ACCAGAATGG
* *
21415317 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAAAGTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAG-AATAAAGTGA
* *
21415357 CACCCAGTGTCTCATCGGCCTAGCCGAAG--TAAAGTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAATAAAGTGA
* * * * *
21415394 TACCCAGTACCTCATCGAATCTATCCGAAGTAA-AATAATGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAG-AATAA-AGTGA
*
21415435 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
21415452 ACTCAAGGTC
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
37 21 0.28
38 9 0.12
40 24 0.32
41 20 0.27
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAATAAAGTGA
Found at i:21415449 original size:41 final size:38
Alignment explanation
Indices: 21415349--21415452 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 38
21415339 TTCGAAGCAA
* *
21415349 TAAAGTGACACCCAGTGTCTCATCG-GCCTAGCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
* ** ** * *
21415386 TAAAGTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
21415424 TAAAATAATGACACCCAGTGTCTCATCGA
1 T--AA-AATGACACCCAGTGTCTCATCGA
21415453 CTCAAGGTCG
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 21 0.41
38 10 0.20
40 2 0.04
41 18 0.35
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (38 bp):
TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
Found at i:21423711 original size:29 final size:30
Alignment explanation
Indices: 21423644--21423713 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
21423634 GTTAATAATT
21423644 GAAATTAAA-TTTTTAAAATCTAAAAATAAA
1 GAAATTAAATTTTTTAAAA-CTAAAAATAAA
* * * *
21423674 GAGACTAAATTTTTTGAAA-TAAAAATAGA
1 GAAATTAAATTTTTTAAAACTAAAAATAAA
21423703 GAAATTAAATT
1 GAAATTAAATT
21423714 CCAAATACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 18 0.55
30 7 0.21
31 8 0.24
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.33
Consensus pattern (30 bp):
GAAATTAAATTTTTTAAAACTAAAAATAAA
Found at i:21425488 original size:17 final size:17
Alignment explanation
Indices: 21425466--21425502 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
21425456 ATAATATTAC
*
21425466 TTAAATAATTTACAAAT
1 TTAAATAATTGACAAAT
*
21425483 TTAAATTATTGACAAAT
1 TTAAATAATTGACAAAT
21425500 TTA
1 TTA
21425503 TCCAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (17 bp):
TTAAATAATTGACAAAT
Found at i:21428353 original size:27 final size:27
Alignment explanation
Indices: 21428315--21428367 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
21428305 TTTTGATTAG
21428315 TATTTGTTTATGTTTGTAATATATATA
1 TATTTGTTTATGTTTGTAATATATATA
21428342 TATTTGTTTATGTTTGTAATATATAT
1 TATTTGTTTATGTTTGTAATATATAT
21428368 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.60
Consensus pattern (27 bp):
TATTTGTTTATGTTTGTAATATATATA
Found at i:21428382 original size:27 final size:27
Alignment explanation
Indices: 21428323--21428385 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
21428313 AGTATTTGTT
* *
21428323 TATGTTTGTAATATATATATATTTGTT
1 TATGTTTGTAATATATATATATGTGTG
* *
21428350 TATGTTTGTAATATATATGTGTGTGTG
1 TATGTTTGTAATATATATATATGTGTG
*
21428377 TGTGTTTGT
1 TATGTTTGT
21428386 GTTTGAGTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.22, C:0.00, G:0.21, T:0.57
Consensus pattern (27 bp):
TATGTTTGTAATATATATATATGTGTG
Found at i:21439654 original size:45 final size:46
Alignment explanation
Indices: 21439560--21439659 Score: 157
Period size: 46 Copynumber: 2.2 Consensus size: 46
21439550 TAAAAAAACA
*
21439560 AAAAAAAAGTTTGAGTTGAAAACCTAAAAGGGCAGCTCAAACTAGG
1 AAAAAAAAGTTCGAGTTGAAAACCTAAAAGGGCAGCTCAAACTAGG
* * *
21439606 AAAAAAAAGTTCGAGTTGAAAACCTGAAAGGGTAGTTCAAACTA-G
1 AAAAAAAAGTTCGAGTTGAAAACCTAAAAGGGCAGCTCAAACTAGG
21439651 AAAAAAAAG
1 AAAAAAAAG
21439660 GGAAAAAGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 10 0.20
46 40 0.80
ACGTcount: A:0.51, C:0.11, G:0.21, T:0.17
Consensus pattern (46 bp):
AAAAAAAAGTTCGAGTTGAAAACCTAAAAGGGCAGCTCAAACTAGG
Found at i:21441866 original size:12 final size:12
Alignment explanation
Indices: 21441849--21441893 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
21441839 TTTTTCTTCG
21441849 TTTCTTTTCTCT
1 TTTCTTTTCTCT
*
21441861 TTTCTTTTTTC-
1 TTTCTTTTCTCT
21441872 TTTCTTTTTCTCAT
1 TTTC-TTTTCTC-T
21441886 TTTCTTTT
1 TTTCTTTT
21441894 TTCAAGTGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 4 0.14
12 16 0.57
13 4 0.14
14 4 0.14
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTCTTTTCTCT
Found at i:21441888 original size:18 final size:18
Alignment explanation
Indices: 21441849--21441892 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
21441839 TTTTTCTTCG
*
21441849 TTTCTTTTCTCTTTTCTTT
1 TTTC-TTTCTCTTTTCTAT
21441868 TTTCTTTCT-TTTTCTCAT
1 TTTCTTTCTCTTTTCT-AT
21441886 TTTCTTT
1 TTTCTTT
21441893 TTTCAAGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 6 0.26
18 13 0.57
19 4 0.17
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTCTTTCTCTTTTCTAT
Found at i:21441893 original size:24 final size:24
Alignment explanation
Indices: 21441835--21441894 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
21441825 TTATAGTAAA
21441835 CATTTT-TTTCTTCGTTTCTTTTCT
1 CATTTTCTTT-TTCGTTTCTTTTCT
21441859 C-TTTTCTTTTTTC-TTTCTTTTTCT
1 CATTTTC-TTTTTCGTTTC-TTTTCT
21441883 CATTTTCTTTTT
1 CATTTTCTTTTT
21441895 TCAAGTGACT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
23 8 0.25
24 16 0.50
25 8 0.25
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (24 bp):
CATTTTCTTTTTCGTTTCTTTTCT
Found at i:21443734 original size:145 final size:145
Alignment explanation
Indices: 21443558--21443841 Score: 469
Period size: 145 Copynumber: 2.0 Consensus size: 145
21443548 TTCAAGTTTC
* * **
21443558 TGAGGTTGTTTTGCTGTAGCATTTGTGGCGACAAAGTGATCTGATTCTATCGCCGTAATATTTTG
1 TGAGGCTGTTTTGCTGTAGCATTTGTAGCGACAAAGTGATCTGATTCTATCGCCACAATATTTTG
* *
21443623 TTTAACCTCTTCAGTTGCAGTTTGCTTTTCAGATTGCGCTGACATCTTTCCATTGTTGAGATTTG
66 TTTAACCTCTTCAGCTGCAGTTTGCTTTTCAGATTACGCTGACATCTTTCCATTGTTGAGATTTG
*
21443688 TATTATCTTCTCTTG
131 AATTATCTTCTCTTG
* *
21443703 TGAGGCTGTTTTGCTGTAGCATTTGTAGCGACAAAGTGATCTGATTCTGTCGCTACAATATTTTG
1 TGAGGCTGTTTTGCTGTAGCATTTGTAGCGACAAAGTGATCTGATTCTATCGCCACAATATTTTG
* *
21443768 TTTAACCTCTTCAGCTGCAGTTTGTTTTTCAGATTACGCTGACATCTTTCCATTGTTGATATTTG
66 TTTAACCTCTTCAGCTGCAGTTTGCTTTTCAGATTACGCTGACATCTTTCCATTGTTGAGATTTG
21443833 AATTATCTT
131 AATTATCTT
21443842 GTTTTACTGT
Statistics
Matches: 128, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
145 128 1.00
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.44
Consensus pattern (145 bp):
TGAGGCTGTTTTGCTGTAGCATTTGTAGCGACAAAGTGATCTGATTCTATCGCCACAATATTTTG
TTTAACCTCTTCAGCTGCAGTTTGCTTTTCAGATTACGCTGACATCTTTCCATTGTTGAGATTTG
AATTATCTTCTCTTG
Found at i:21447288 original size:42 final size:39
Alignment explanation
Indices: 21447192--21447319 Score: 143
Period size: 39 Copynumber: 3.2 Consensus size: 39
21447182 TTACATCATC
21447192 CCAT-CAATCTTTTACCCCAACAATGAGGCAGATTGAAG
1 CCATCCAATCTTTTACCCCAACAATGAGGCAGATTGAAG
* * *
21447230 CCATCTAATCTTTTACCCTAAC-ATGAGGGTAGATTGAAG
1 CCATCCAATCTTTTACCCCAACAATGA-GGCAGATTGAAG
* * * *
21447269 ACACCATCCAATCTCTTACCCCAACCATGGGGCAAATTGAAG
1 ---CCATCCAATCTTTTACCCCAACAATGAGGCAGATTGAAG
21447311 CCATCCAAT
1 CCATCCAAT
21447320 ACCTTTGTAT
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
38 8 0.11
39 35 0.47
42 29 0.39
43 3 0.04
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (39 bp):
CCATCCAATCTTTTACCCCAACAATGAGGCAGATTGAAG
Found at i:21449186 original size:52 final size:52
Alignment explanation
Indices: 21449106--21449286 Score: 245
Period size: 52 Copynumber: 3.5 Consensus size: 52
21449096 TGAAAAGTCA
* * * * * *
21449106 GATGACTATGTGTCATCATGAGTGTATGAATCCTATACGAATTTTGAGGTTT
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCT
* *
21449158 GATGACTATGTGACATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCC
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCT
* * *
21449210 GATGACTATGTTTCATCGTGAGTGTATGAATCCTTTACGGATTATAAGGTCT
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCT
* *
21449262 AATGACTATGTGTTATCGTGAGTAT
1 GATGACTATGTGTCATCGTGAGTAT
21449287 TAAAAGAAAT
Statistics
Matches: 112, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 112 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.37
Consensus pattern (52 bp):
GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCT
Found at i:21456407 original size:52 final size:52
Alignment explanation
Indices: 21456342--21456520 Score: 252
Period size: 52 Copynumber: 3.4 Consensus size: 52
21456332 TGAAAAGTCA
* * * *
21456342 GATGACTAAGTGTCATCGTGAGTGTATGAATCCTTTATGAATTTTGAGATCC
1 GATGACTATGTGTCATCGTGAGTGTATGAATCCTTTATGGATTATGAGGTCC
* *
21456394 GATGACTATGTGTCATCATGAGTATATGAATCCTTTATGGATTATGAGGTCC
1 GATGACTATGTGTCATCGTGAGTGTATGAATCCTTTATGGATTATGAGGTCC
* * *
21456446 GATGACTATGTTTCATCG-GAAGTGTATGAATCCTTTACGGATTATAAGGTCC
1 GATGACTATGTGTCATCGTG-AGTGTATGAATCCTTTATGGATTATGAGGTCC
*
21456498 GATGACTATGTGTTATCGTGAGT
1 GATGACTATGTGTCATCGTGAGT
21456521 ATTAAAAGAA
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
51 1 0.01
52 110 0.98
53 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (52 bp):
GATGACTATGTGTCATCGTGAGTGTATGAATCCTTTATGGATTATGAGGTCC
Found at i:21463391 original size:52 final size:52
Alignment explanation
Indices: 21463309--21463541 Score: 340
Period size: 52 Copynumber: 4.5 Consensus size: 52
21463299 GAAAAGGTTA
* * *
21463309 GATGACTATGTGTCATCGTGAGTATGTGAATCCTTTACGAATTTTGAGGTCC
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCC
* * *
21463361 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTTTGAGGTTC
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCC
* * *
21463413 GATGACTATGTGTTATCGTGAGTACATGAATCCTTTATGGATTATGAGGTCC
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCC
* * * *
21463465 GATAACTATGTGTCTTCATGAGTGTATGAATCCTTTACGGATTATGAGGTCC
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCC
*
21463517 GATGACTATGTGTTATCGTGAGTAT
1 GATGACTATGTGTCATCGTGAGTAT
21463542 TAAAAGAAAT
Statistics
Matches: 161, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 161 1.00
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (52 bp):
GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCC
Found at i:21470373 original size:52 final size:52
Alignment explanation
Indices: 21470306--21470440 Score: 198
Period size: 52 Copynumber: 2.6 Consensus size: 52
21470296 ATAAATGAAA
* *
21470306 AGGTTCGATGACTATGTGTTATCGTGAGTATATGAATCCTTTATGGATTATG
1 AGGTCCGATGACTATGTGTTATCGTGAGTATATGAATCCTTTATAGATTATG
* * * *
21470358 AGGTCCGATGACTATGTGTCATCATGAGTGTATGAATCCTTTATATATTATG
1 AGGTCCGATGACTATGTGTTATCGTGAGTATATGAATCCTTTATAGATTATG
* *
21470410 AGGTCCGATAACTTTGTGTTATCGTGAGTAT
1 AGGTCCGATGACTATGTGTTATCGTGAGTAT
21470441 TAAAAGAAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTTATCGTGAGTATATGAATCCTTTATAGATTATG
Found at i:21492211 original size:18 final size:18
Alignment explanation
Indices: 21492167--21492218 Score: 72
Period size: 17 Copynumber: 2.9 Consensus size: 18
21492157 TTATTCTTTA
21492167 TTATCTAAATTTTATTTG
1 TTATCTAAATTTTATTTG
*
21492185 TCA-CTAAATTTTATTCT-
1 TTATCTAAATTTTATT-TG
21492202 TTATCTAAATTTTATTT
1 TTATCTAAATTTTATTT
21492219 TTCTTTTAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (18 bp):
TTATCTAAATTTTATTTG
Found at i:21505076 original size:56 final size:56
Alignment explanation
Indices: 21505010--21505125 Score: 225
Period size: 56 Copynumber: 2.1 Consensus size: 56
21505000 GCTTTCAGAG
21505010 GTTGAATGTATTTAATCCAAAAGATGTTTTGCAACTAAATAGAAATCAATCACAAA
1 GTTGAATGTATTTAATCCAAAAGATGTTTTGCAACTAAATAGAAATCAATCACAAA
21505066 GTTGAATGTATTTAATCCAAAAGATGTTTTGCAACTAAATAGAAATCAATCACAAA
1 GTTGAATGTATTTAATCCAAAAGATGTTTTGCAACTAAATAGAAATCAATCACAAA
21505122 -TTGA
1 GTTGA
21505126 TAGTAAAACG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 4 0.07
56 56 0.93
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (56 bp):
GTTGAATGTATTTAATCCAAAAGATGTTTTGCAACTAAATAGAAATCAATCACAAA
Found at i:21508669 original size:19 final size:20
Alignment explanation
Indices: 21508627--21508670 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
21508617 AACTCAAAGG
21508627 CCCAATTTGTGAACCTAATA
1 CCCAATTTGTGAACCTAATA
* *
21508647 CCCAATTTGT-AATCTACTA
1 CCCAATTTGTGAACCTAATA
21508666 CCCAA
1 CCCAA
21508671 CCCAAAACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.34, C:0.30, G:0.07, T:0.30
Consensus pattern (20 bp):
CCCAATTTGTGAACCTAATA
Found at i:21515372 original size:21 final size:21
Alignment explanation
Indices: 21515346--21515397 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
21515336 TGAGACAATA
21515346 CTACCGATACAAAT-ATGACTT
1 CTACCGATACAAATCATG-CTT
* **
21515367 CTACCGAAACATGTCATGCTT
1 CTACCGATACAAATCATGCTT
21515388 CTACCGATAC
1 CTACCGATAC
21515398 TAAAAACTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (21 bp):
CTACCGATACAAATCATGCTT
Found at i:21522531 original size:29 final size:29
Alignment explanation
Indices: 21522489--21522553 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
21522479 CCCACTTGAG
* *
21522489 GTGTGTCTCTATCTATGCTACATAT-TGTT
1 GTGTGTTTCCATCTATGCTACAT-TCTGTT
* *
21522518 GTGTGTTTCCATCTGTGTTACATTCTGTT
1 GTGTGTTTCCATCTATGCTACATTCTGTT
*
21522547 ATGTGTT
1 GTGTGTT
21522554 AATGCTCTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.14, C:0.15, G:0.20, T:0.51
Consensus pattern (29 bp):
GTGTGTTTCCATCTATGCTACATTCTGTT
Found at i:21528360 original size:4 final size:4
Alignment explanation
Indices: 21528351--21528389 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
21528341 AACTAGATGA
*
21528351 ATAC ATAC ATTC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
21528390 TATATATACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (4 bp):
ATAC
Found at i:21530784 original size:24 final size:24
Alignment explanation
Indices: 21530753--21530798 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
21530743 CGTTACAGAT
21530753 TATTCCAAATATGAATATTTTTTA
1 TATTCCAAATATGAATATTTTTTA
*
21530777 TATTCCAAATATGGATATTTTT
1 TATTCCAAATATGAATATTTTT
21530799 ACTGAATGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.50
Consensus pattern (24 bp):
TATTCCAAATATGAATATTTTTTA
Found at i:21532091 original size:22 final size:21
Alignment explanation
Indices: 21532054--21532114 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
21532044 TTATTTTGAA
* * *
21532054 ATAAAATATAATTTTACCATT
1 ATAAATTAAAATTTTACAATT
* *
21532075 ATTAATTTAAAATTTTATAAATT
1 A-TAAATTAAAATTTTA-CAATT
21532098 ATAAATTAAAATTTTAC
1 ATAAATTAAAATTTTAC
21532115 TGTTTTAAGA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
21 1 0.03
22 26 0.84
23 4 0.13
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAAATTAAAATTTTACAATT
Found at i:21533441 original size:24 final size:24
Alignment explanation
Indices: 21533414--21533543 Score: 188
Period size: 24 Copynumber: 5.4 Consensus size: 24
21533404 GAGAACGTAT
* * *
21533414 GTTTATGCTCGTTAGTCGCTATAC
1 GTTTATGCTCGTCAGCCACTATAC
*
21533438 GTTTATGCTCGCCAGCCACTATAC
1 GTTTATGCTCGTCAGCCACTATAC
* *
21533462 GTTTGTGCTCGTCATCCACTATAC
1 GTTTATGCTCGTCAGCCACTATAC
* *
21533486 GTTTATGCTCGTCAACCACTATAT
1 GTTTATGCTCGTCAGCCACTATAC
21533510 GTTTATGCTCGTCAGCCACTATAC
1 GTTTATGCTCGTCAGCCACTATAC
21533534 GTTTATGCTC
1 GTTTATGCTC
21533544 ATATATTTGG
Statistics
Matches: 94, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 94 1.00
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (24 bp):
GTTTATGCTCGTCAGCCACTATAC
Found at i:21539517 original size:71 final size:72
Alignment explanation
Indices: 21539425--21539559 Score: 166
Period size: 71 Copynumber: 1.9 Consensus size: 72
21539415 ATAGCTAGAG
* * * **
21539425 ATTCTTTCTCCTATACATTCTACTGATACTTCATTGAGTTGTTTTGAAACAACGCAAGTCAGTAG
1 ATTCTTTCTCCTATACATTCTACCGATACCTCATAGAGTTGTTCCGAAACAACGCAAGTCAGTAG
21539490 CTGAAGT
66 CTGAAGT
* * * *
21539497 ATTCTTTC-CCT-TGCACTTCTACCGATACCTCCTAGAGTTGTTCCGAAACAACTCGAGTCAGTA
1 ATTCTTTCTCCTATACA-TTCTACCGATACCTCATAGAGTTGTTCCGAAACAACGCAAGTCAGTA
21539560 TCAAAATAAC
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
70 3 0.06
71 42 0.79
72 8 0.15
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (72 bp):
ATTCTTTCTCCTATACATTCTACCGATACCTCATAGAGTTGTTCCGAAACAACGCAAGTCAGTAG
CTGAAGT
Found at i:21541123 original size:21 final size:21
Alignment explanation
Indices: 21541097--21541201 Score: 102
Period size: 21 Copynumber: 5.0 Consensus size: 21
21541087 GAAGTTGTCG
* *
21541097 TGAATGTTGCAATATTAAAAT
1 TGAATGTTGCAACATTGAAAT
* *
21541118 TGAATGTCGCGACATTGAAAT
1 TGAATGTTGCAACATTGAAAT
*
21541139 TGAATGTTGCAACATTGGAAT
1 TGAATGTTGCAACATTGAAAT
* ** * **
21541160 TGAATGTCGTGACATGGGGAT
1 TGAATGTTGCAACATTGAAAT
*
21541181 TGAATGATGCAACATTGAAAT
1 TGAATGTTGCAACATTGAAAT
21541202 CTGAGTGTCG
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (21 bp):
TGAATGTTGCAACATTGAAAT
Found at i:21541161 original size:42 final size:42
Alignment explanation
Indices: 21541097--21541212 Score: 142
Period size: 42 Copynumber: 2.7 Consensus size: 42
21541087 GAAGTTGTCG
* * *
21541097 TGAATGTTGCAATATTAAAATTGAATGTCGCGACATTGAAAT
1 TGAATGTTGCAACATTGAAATTGAATGTCGCGACATGGAAAT
* * **
21541139 TGAATGTTGCAACATTGGAATTGAATGTCGTGACATGGGGAT
1 TGAATGTTGCAACATTGAAATTGAATGTCGCGACATGGAAAT
* *
21541181 TGAATGATGCAACATTGAAATCTGAGTGTCGC
1 TGAATGTTGCAACATTGAAAT-TGAATGTCGC
21541213 ATTATTGAAG
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 54 0.87
43 8 0.13
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (42 bp):
TGAATGTTGCAACATTGAAATTGAATGTCGCGACATGGAAAT
Found at i:21549086 original size:37 final size:38
Alignment explanation
Indices: 21549014--21549112 Score: 96
Period size: 37 Copynumber: 2.7 Consensus size: 38
21549004 GAACTTATAG
* * *
21549014 ATTGCGCCCAAAACTGTCGCCGCATGAGCACTTCCA-A
1 ATTGCACCCAAAACTATCGCCGCATGAACACTTCCAGA
* *
21549051 ATTGCACCCAAAACTATCGTCGCA-GTAACATTTCCAGA
1 ATTGCACCCAAAACTATCGCCGCATG-AACACTTCCAGA
* * *
21549089 A-TGCACCCAAGACTGTCGCTGCAT
1 ATTGCACCCAAAACTATCGCCGCAT
21549113 AAATATTCTT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
36 1 0.02
37 47 0.94
38 2 0.04
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.21
Consensus pattern (38 bp):
ATTGCACCCAAAACTATCGCCGCATGAACACTTCCAGA
Found at i:21549183 original size:37 final size:38
Alignment explanation
Indices: 21549090--21549187 Score: 128
Period size: 38 Copynumber: 2.6 Consensus size: 38
21549080 ATTTCCAGAA
*
21549090 TGCACCCAAGACTGTCGCTGCATAAATATTCTTCAAAT
1 TGCACCCAAGAATGTCGCTGCATAAATATTCTTCAAAT
* * * *
21549128 TGCATCC-AGAACTATCGCTGTATAAGTATTCTTC-AAT
1 TGCACCCAAGAA-TGTCGCTGCATAAATATTCTTCAAAT
21549165 TGCACCCAAGAATGTCGCTGCAT
1 TGCACCCAAGAATGTCGCTGCAT
21549188 GAACATGTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
37 21 0.42
38 29 0.58
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (38 bp):
TGCACCCAAGAATGTCGCTGCATAAATATTCTTCAAAT
Found at i:21549211 original size:26 final size:26
Alignment explanation
Indices: 21549173--21549231 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
21549163 ATTGCACCCA
21549173 AGAA-TGTCGCTGCATGAACATGTAC
1 AGAATTGTCGCTGCATGAACATGTAC
* * *
21549198 AGAATTGTTGCTGCATGAACGTGTCC
1 AGAATTGTCGCTGCATGAACATGTAC
21549224 AGAATTGT
1 AGAATTGT
21549232 GCCCAGAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (26 bp):
AGAATTGTCGCTGCATGAACATGTAC
Found at i:21552492 original size:175 final size:174
Alignment explanation
Indices: 21552202--21552525 Score: 490
Period size: 175 Copynumber: 1.9 Consensus size: 174
21552192 CAAAAAATAA
* * *
21552202 TTCTCTCATTTTCTCTCTTGCCAAACACCATATTTTTTTTCAAAACACATAGTTGGCTCATTTCA
1 TTCTCTCATTTTCTCTCTTACCAAACACCATATTTTCTTTCAAAACACATAGTTGGCTCATTTAA
* * * *
21552267 TCTACAAGAATTTTCATTACCATGATTATAGTCATGCTTTTGTGTAATTTTTGTAAACTCACACC
66 CCTACAAGAATTTTCATTACCATGATTATAATCATACTTTTGTGTAATTTTTGTAAACACACACC
21552332 ACACTTTCAGCTTAAAATCATTGTTTTCTTCCCACTGCCATTTT
131 ACACTTTCAGCTTAAAATCATTGTTTTCTTCCCACTGCCATTTT
* *
21552376 TTCTCTCATTTTCTCTCTTACCAAACATCAT-TTCCCTTCTTT-AAAACACATGGTTGGCTCATT
1 TTCTCTCATTTTCTCTCTTACCAAACACCATATT---TTCTTTCAAAACACATAGTTGGCTCATT
* *
21552439 TAACCTACAAGAATTTTTATTACCATGATTATAATCATACTTTTGTGTAATTTTTGTAAACACAT
63 TAACCTACAAGAATTTTCATTACCATGATTATAATCATACTTTTGTGTAATTTTTGTAAACACAC
* *
21552504 ATCACACTTTCAGTTTAAAATC
128 ACCACACTTTCAGCTTAAAATC
21552526 TTTCCCCTCA
Statistics
Matches: 134, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
173 2 0.01
174 29 0.22
175 98 0.73
176 5 0.04
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (174 bp):
TTCTCTCATTTTCTCTCTTACCAAACACCATATTTTCTTTCAAAACACATAGTTGGCTCATTTAA
CCTACAAGAATTTTCATTACCATGATTATAATCATACTTTTGTGTAATTTTTGTAAACACACACC
ACACTTTCAGCTTAAAATCATTGTTTTCTTCCCACTGCCATTTT
Found at i:21552827 original size:30 final size:30
Alignment explanation
Indices: 21552791--21552890 Score: 107
Period size: 30 Copynumber: 3.4 Consensus size: 30
21552781 TAAAAGTTGG
* * *
21552791 AAAAAAAATTTAGGTCTCTTAAAATTTGAT
1 AAAAAAAATTTAGGACCCTTAAAAATTGAT
* * *
21552821 AAAAAAAATTGAAGACCCTTAAAAACT-A-
1 AAAAAAAATTTAGGACCCTTAAAAATTGAT
*
21552849 AAAAAAAATTT-GAGACCCTTAAAAGTTGAT
1 AAAAAAAATTTAG-GACCCTTAAAAATTGAT
21552879 AAAAAAAATTTA
1 AAAAAAAATTTA
21552891 ATTGTAAAAG
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
28 22 0.39
29 2 0.04
30 32 0.57
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (30 bp):
AAAAAAAATTTAGGACCCTTAAAAATTGAT
Found at i:21552882 original size:28 final size:28
Alignment explanation
Indices: 21552781--21552885 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 28
21552771 GGTAAAATAA
* *
21552781 TAAAAGTTGGAAAAAAAATTT-AGGTCTCT
1 TAAAAGTT-GAAAAAAAATTTGA-GACCCT
* *
21552810 TAAAATTTGATAAAAAAAATTGAAGACCCT
1 TAAAAGTTGA-AAAAAAATTTG-AGACCCT
** *
21552840 TAAAAACTAAAAAAAAATTTGAGACCCT
1 TAAAAGTTGAAAAAAAATTTGAGACCCT
21552868 TAAAAGTTGATAAAAAAA
1 TAAAAGTTGA-AAAAAAA
21552886 ATTTAATTGT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
28 16 0.26
29 33 0.54
30 11 0.18
31 1 0.02
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.26
Consensus pattern (28 bp):
TAAAAGTTGAAAAAAAATTTGAGACCCT
Found at i:21553371 original size:6 final size:7
Alignment explanation
Indices: 21553352--21553376 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21553342 AGGCTTAACC
21553352 TCTTTTT
1 TCTTTTT
21553359 TCTTTTT
1 TCTTTTT
21553366 TCTTTTT
1 TCTTTTT
21553373 TCTT
1 TCTT
21553377 ACAGCAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TCTTTTT
Found at i:21553603 original size:17 final size:17
Alignment explanation
Indices: 21553576--21553620 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
21553566 TGTTTAGCAA
21553576 GAGAGAAAAAATTACAGC
1 GAGA-AAAAAATTACAGC
21553594 GAGAAAAAAATTACAGC
1 GAGAAAAAAATTACAGC
*
21553611 AAGAAAAAAA
1 GAGAAAAAAA
21553621 CAATGATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.64, C:0.09, G:0.18, T:0.09
Consensus pattern (17 bp):
GAGAAAAAAATTACAGC
Found at i:21555554 original size:23 final size:22
Alignment explanation
Indices: 21555528--21555572 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
21555518 ATCCGTTTCA
*
21555528 TCTCAATTTTATTTTCATATCAT
1 TCTCAATTTTA-GTTCATATCAT
*
21555551 TCTCATTTTTAGTTCATATCAT
1 TCTCAATTTTAGTTCATATCAT
21555573 GATCAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.24, C:0.18, G:0.02, T:0.56
Consensus pattern (22 bp):
TCTCAATTTTAGTTCATATCAT
Found at i:21557321 original size:46 final size:44
Alignment explanation
Indices: 21557256--21557348 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
21557246 TCTAAACTTA
*
21557256 AAAAATTTAATCTTATTTGCTTCGAAGTAA-AAAAAATAAAACAATT
1 AAAAATGTAATCTTATTTGCTT-GAA--AATAAAAAATAAAACAATT
* * *
21557302 AAAAATGTAATTTTTTTTGCTTTAAAATAAAAAATAAAACAATT
1 AAAAATGTAATCTTATTTGCTTGAAAATAAAAAATAAAACAATT
21557346 AAA
1 AAA
21557349 TTAAAGGGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.05
44 19 0.45
45 2 0.05
46 19 0.45
ACGTcount: A:0.54, C:0.06, G:0.05, T:0.34
Consensus pattern (44 bp):
AAAAATGTAATCTTATTTGCTTGAAAATAAAAAATAAAACAATT
Found at i:21559169 original size:30 final size:30
Alignment explanation
Indices: 21559111--21559173 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
21559101 TATGTTAACT
*
21559111 CTAATCAACCTAATCCTAATGTTATGTGGG
1 CTAATCAACCTAATCCTAATGTCATGTGGG
* *
21559141 CTAATCAATCTAATTCTAATG-CAGTGTGGG
1 CTAATCAACCTAATCCTAATGTCA-TGTGGG
21559171 CTA
1 CTA
21559174 CTACTAAGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (30 bp):
CTAATCAACCTAATCCTAATGTCATGTGGG
Found at i:21562994 original size:14 final size:14
Alignment explanation
Indices: 21562964--21562993 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
21562954 CATATGTTTC
21562964 TTTACTTACTGTAT
1 TTTACTTACTGTAT
21562978 TTTA-TTACTGTAT
1 TTTACTTACTGTAT
21562991 TTT
1 TTT
21562994 TGAGAGATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTACTTACTGTAT
Found at i:21567884 original size:18 final size:18
Alignment explanation
Indices: 21567861--21567896 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
21567851 ATCAACCTAA
21567861 CTCTCAAAAAGTGAATTT
1 CTCTCAAAAAGTGAATTT
21567879 CTCTCAAAAAGTGAATTT
1 CTCTCAAAAAGTGAATTT
21567897 GTGATAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
CTCTCAAAAAGTGAATTT
Found at i:21569763 original size:158 final size:158
Alignment explanation
Indices: 21569468--21569795 Score: 476
Period size: 158 Copynumber: 2.1 Consensus size: 158
21569458 ATTTTGGGAT
* * * *
21569468 TTACGTGTTATATGGGTATTGGTCTTAAATGTCCTACCGATGGCTGAGATCCGGCATATGTTACG
1 TTACATGTTATATGGGTACTAGTCTTAAATGTCCTACCGATGGCTGAGATCCAGCATATGTTACG
* * **
21569533 GATTTTCCACAGCTCGTGTGAGCAGCATCGTGTAGCTTAACATCTCGACCCACAGCTTGTGTAAG
66 GATTCTCCACAGCTCGTGTGAGCAGCATCATGTAGCTTAACATCTCGACCCACAGCTCATGTAAG
21569598 CAAACCCACTTAAAAGCTCGTGTGAGCA
131 CAAACCCACTTAAAAGCTCGTGTGAGCA
* * *
21569626 TTACATGTTATATGGGTGCTAGTCTTAGATGTCCTACCGATGGCTGAGATCCAGCATATGTTGCG
1 TTACATGTTATATGGGTACTAGTCTTAAATGTCCTACCGATGGCTGAGATCCAGCATATGTTACG
* * *
21569691 GATTCTCCATAGCTTGTGTGAGCAGCATCATGTAGCTTAACATCTCGACCCACAGCTCATGTGAG
66 GATTCTCCACAGCTCGTGTGAGCAGCATCATGTAGCTTAACATCTCGACCCACAGCTCATGTAAG
* * * *
21569756 CAGACCCATTTCACAGCTCGTGTGAGCA
131 CAAACCCACTTAAAAGCTCGTGTGAGCA
* *
21569784 CTACATGATATA
1 TTACATGTTATA
21569796 GGAAGCTTAC
Statistics
Matches: 150, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
158 150 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (158 bp):
TTACATGTTATATGGGTACTAGTCTTAAATGTCCTACCGATGGCTGAGATCCAGCATATGTTACG
GATTCTCCACAGCTCGTGTGAGCAGCATCATGTAGCTTAACATCTCGACCCACAGCTCATGTAAG
CAAACCCACTTAAAAGCTCGTGTGAGCA
Found at i:21576805 original size:131 final size:131
Alignment explanation
Indices: 21576571--21576830 Score: 412
Period size: 131 Copynumber: 2.0 Consensus size: 131
21576561 TACTGAGATT
* * *
21576571 TACATGTTATATGGGTGCTGGTCTTAGATGTTCTACCGATGGTTGAGATCTGGCATATGTTGCGG
1 TACATGTTATATGGGTGCTGATCTTAGATGTTCTACCGATGGCTGAGATCTGACATATGTTGCGG
* * * * * *
21576636 ATTCTCCACAGCTCGTGCGAGCAGCGTCGTGTAGCTTAACATCTCGACCCACAGCTCATGTGAGA
66 ATTCCCCACAGCTCATGCGAGCAACATCGTGCAGCTTAACATCTCAACCCACAGCTCATGTGAGA
21576701 A
131 A
*
21576702 TACATGTTATATGGGTGCTGATCTTAGATGTTCTACCGATGGCTGAGATCTGATATATGTTGCGG
1 TACATGTTATATGGGTGCTGATCTTAGATGTTCTACCGATGGCTGAGATCTGACATATGTTGCGG
* *
21576767 ATTCCCCACAGCTCATGTGAGTAACATCGTGCAGCTTAACATCTCAACCCACAGCTCATGTGAG
66 ATTCCCCACAGCTCATGCGAGCAACATCGTGCAGCTTAACATCTCAACCCACAGCTCATGTGAG
21576831 CAGACCCATT
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 117 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (131 bp):
TACATGTTATATGGGTGCTGATCTTAGATGTTCTACCGATGGCTGAGATCTGACATATGTTGCGG
ATTCCCCACAGCTCATGCGAGCAACATCGTGCAGCTTAACATCTCAACCCACAGCTCATGTGAGA
A
Found at i:21578249 original size:36 final size:36
Alignment explanation
Indices: 21578202--21578280 Score: 149
Period size: 36 Copynumber: 2.2 Consensus size: 36
21578192 ACAAAAAAAT
21578202 TTAATTATATAAATAAATGTGACATTGATCACACCC
1 TTAATTATATAAATAAATGTGACATTGATCACACCC
21578238 TTAATTATATAAATAAATGTGACATTGATCACACCC
1 TTAATTATATAAATAAATGTGACATTGATCACACCC
*
21578274 TAAATTA
1 TTAATTA
21578281 CTTGTGGAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (36 bp):
TTAATTATATAAATAAATGTGACATTGATCACACCC
Found at i:21580307 original size:18 final size:18
Alignment explanation
Indices: 21580264--21580307 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
21580254 AGTGAAATTT
*
21580264 ATATGAAAATCCCAGAATG
1 ATAT-AAAATCCCAGAAGG
* *
21580283 ATTTAAAATCCTAGAAGG
1 ATATAAAATCCCAGAAGG
21580301 ATATAAA
1 ATATAAA
21580308 GTTTCTCGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (18 bp):
ATATAAAATCCCAGAAGG
Found at i:21584879 original size:15 final size:17
Alignment explanation
Indices: 21584861--21584895 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
21584851 CGGGATTGAG
21584861 TTTTTA-TCTTCA-TCT
1 TTTTTACTCTTCATTCT
21584876 TTTTTACTCTTCATTCT
1 TTTTTACTCTTCATTCT
21584893 TTT
1 TTT
21584896 GCCATTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 6 0.33
17 6 0.33
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTACTCTTCATTCT
Found at i:21587728 original size:26 final size:26
Alignment explanation
Indices: 21587699--21587748 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
21587689 TAATCCAATC
*
21587699 CAATTCAATCTAATTAAACTCAGGTT
1 CAATCCAATCTAATTAAACTCAGGTT
*
21587725 CAATCCAATCTAATTTAACTCAGG
1 CAATCCAATCTAATTAAACTCAGG
21587749 GGTGAAGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (26 bp):
CAATCCAATCTAATTAAACTCAGGTT
Found at i:21594903 original size:3 final size:3
Alignment explanation
Indices: 21594895--21594939 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
21594885 ATTAGACAAT
* *
21594895 TTA TTA TTA TTA TTA TTA TTTA TCA -AA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
21594940 AAACAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
2 1 0.03
3 33 0.89
4 3 0.08
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:21595206 original size:7 final size:7
Alignment explanation
Indices: 21595196--21595220 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21595186 TGTTTTGGGT
21595196 ATTTAGA
1 ATTTAGA
21595203 ATTTAGA
1 ATTTAGA
21595210 ATTTAGA
1 ATTTAGA
21595217 ATTT
1 ATTT
21595221 TGATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (7 bp):
ATTTAGA
Found at i:21595953 original size:28 final size:28
Alignment explanation
Indices: 21595895--21595953 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
21595885 AAGCCCAAAG
* * * *
21595895 CCCAAAGCCCAAACCCATCTTATTTCTC
1 CCCAAAGCCCAAACCCACCCTATTCCCC
*
21595923 CCCAAAGTCCAAACCCACCCTATTCCCC
1 CCCAAAGCCCAAACCCACCCTATTCCCC
21595951 CCC
1 CCC
21595954 CCCCCAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.51, G:0.03, T:0.19
Consensus pattern (28 bp):
CCCAAAGCCCAAACCCACCCTATTCCCC
Found at i:21605597 original size:41 final size:41
Alignment explanation
Indices: 21605537--21605670 Score: 178
Period size: 41 Copynumber: 3.3 Consensus size: 41
21605527 AGCTTTGAAA
* *
21605537 AAACACTTATTCGCTTATAATATTAGCATTAAAACCGGCAT
1 AAACACTTATTCGCCTATAATATTAGCATTAAAATCGGCAT
* * **
21605578 AAACACTTATTCACCTATAATATTTGCATTAAAATCAACAT
1 AAACACTTATTCGCCTATAATATTAGCATTAAAATCGGCAT
* * *
21605619 AAACACTTATTCGCCTATAATATTAGCGTTAAAATTGGCAG
1 AAACACTTATTCGCCTATAATATTAGCATTAAAATCGGCAT
*
21605660 AAGCACTTATT
1 AAACACTTATT
21605671 TAATCTTAAC
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 79 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (41 bp):
AAACACTTATTCGCCTATAATATTAGCATTAAAATCGGCAT
Found at i:21605700 original size:82 final size:82
Alignment explanation
Indices: 21605537--21605729 Score: 195
Period size: 82 Copynumber: 2.4 Consensus size: 82
21605527 AGCTTTGAAA
* * * *
21605537 AAACACTTATTCGCTTATAATATTAGCATTAAAACCGGCATAAACACTTATTCACCTATAATATT
1 AAACACTTATTCGCCTATAATATTAGCATTAAAACCGGCAGAAACACTTATTAACCTATAACATT
* *
21605602 TGCATTAAAATCAACAT
66 TGAATTAAAATAAACAT
* ** * *
21605619 AAACACTTATTCGCCTATAATATTAGCGTTAAAATTGGCAGAAGCACTTATTTAATCT-TAACAT
1 AAACACTTATTCGCCTATAATATTAGCATTAAAACCGGCAGAAACACTTA-TTAACCTATAACAT
21605683 TT-AATT----TAAGA-A-
65 TTGAATTAAAATAA-ACAT
* *
21605695 AAACATTTATTCGCCTACAATATTAGCATTAAAAC
1 AAACACTTATTCGCCTATAATATTAGCATTAAAAC
21605730 ATGTTTTGGA
Statistics
Matches: 94, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
76 31 0.33
77 3 0.03
78 1 0.01
81 3 0.03
82 51 0.54
83 5 0.05
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.34
Consensus pattern (82 bp):
AAACACTTATTCGCCTATAATATTAGCATTAAAACCGGCAGAAACACTTATTAACCTATAACATT
TGAATTAAAATAAACAT
Found at i:21605750 original size:23 final size:23
Alignment explanation
Indices: 21605723--21605775 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
21605713 AATATTAGCA
* **
21605723 TTAAAACATGTTTTGGATGACAT
1 TTAAAACATATTTTGGACAACAT
21605746 TTAAAACATATTTTGGACAACAT
1 TTAAAACATATTTTGGACAACAT
21605769 TTAAAAC
1 TTAAAAC
21605776 TTAGACAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (23 bp):
TTAAAACATATTTTGGACAACAT
Done.