Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 230 of 322
Found at i:76378624 original size:49 final size:49
Alignment explanation
Indices: 76378544--76378640 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
76378534 TTATGCTATG
* * * *
76378544 CATTTCTAAACTTGGTCTTCCACTGCCTACACTCTTATCACTATTTATA
1 CATTGCTAAACTTAGTCTCCCACAGCCTACACTCTTATCACTATTTATA
*
76378593 CATTGCTAAACTTAGTCTCCCACAGTCTACACTCTTATCACTATTTAT
1 CATTGCTAAACTTAGTCTCCCACAGCCTACACTCTTATCACTATTTAT
76378641 CCCTTCCAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (49 bp):
CATTGCTAAACTTAGTCTCCCACAGCCTACACTCTTATCACTATTTATA
Found at i:76401646 original size:15 final size:15
Alignment explanation
Indices: 76401626--76401665 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
76401616 AAACAAGTAA
*
76401626 ACATACATTTTTGAG
1 ACATACATTTTCGAG
76401641 ACATACATTTTCGAG
1 ACATACATTTTCGAG
*
76401656 CCATACATTT
1 ACATACATTT
76401666 GTGTCCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (15 bp):
ACATACATTTTCGAG
Found at i:76408000 original size:20 final size:21
Alignment explanation
Indices: 76407975--76408015 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
76407965 ACACTTTCAA
76407975 TTTTCTCTTTTTC-TTCTTTC
1 TTTTCTCTTTTTCTTTCTTTC
*
76407995 TTTTCTTTTTTTCTTTCTTTC
1 TTTTCTCTTTTTCTTTCTTTC
76408016 CTTCCGCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTCTCTTTTTCTTTCTTTC
Found at i:76408008 original size:17 final size:18
Alignment explanation
Indices: 76407980--76408014 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
76407970 TTCAATTTTC
76407980 TCTTTTTCTTCTTTCTTT
1 TCTTTTTCTTCTTTCTTT
76407998 TCTTTTT-TTCTTTCTTT
1 TCTTTTTCTTCTTTCTTT
76408015 CCTTCCGCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TCTTTTTCTTCTTTCTTT
Found at i:76409204 original size:40 final size:41
Alignment explanation
Indices: 76409150--76409246 Score: 137
Period size: 40 Copynumber: 2.4 Consensus size: 41
76409140 TAAATCAGTA
*
76409150 TCGCACACTTAGTGCC-TTCTATAGCCGAAGCTAT-GCCAAC
1 TCGCACACTTAGTGCCATT-TATAGCCGAAGCTATAGCAAAC
**
76409190 TCGCACACTTAGTGCCATTTATAGCCGAAGCTATATTAAAC
1 TCGCACACTTAGTGCCATTTATAGCCGAAGCTATAGCAAAC
76409231 -CGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
76409247 ATCATAGTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 47 0.90
41 5 0.10
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTTATAGCCGAAGCTATAGCAAAC
Found at i:76410568 original size:12 final size:12
Alignment explanation
Indices: 76410546--76410584 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
76410536 TAATATGAAT
76410546 AAAA-AAATAAA
1 AAAAGAAATAAA
*
76410557 AAAAGGAATAAA
1 AAAAGAAATAAA
*
76410569 AGAAGAAATAAA
1 AAAAGAAATAAA
76410581 AAAA
1 AAAA
76410585 TAAGTGTTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (12 bp):
AAAAGAAATAAA
Found at i:76411907 original size:49 final size:48
Alignment explanation
Indices: 76411850--76411957 Score: 123
Period size: 49 Copynumber: 2.2 Consensus size: 48
76411840 AGAAATATCA
* **
76411850 GCACTATGTGTGCA-AGGTTATGCGGCACTATGTGTGC-A-AAAACTAAGTG
1 GCACTATGTGTG-AGAGATTACACGGCACTATGTGTGCGAGAAAAC---GTG
*
76411899 GCACTATGTGTGAGAGATTACATGGCACTATGTGTGCGAGAAAACGTG
1 GCACTATGTGTGAGAGATTACACGGCACTATGTGTGCGAGAAAACGTG
76411947 GCACTATGTGT
1 GCACTATGTGT
76411958 ACGAATAAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
48 15 0.29
49 31 0.60
50 1 0.02
51 5 0.10
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (48 bp):
GCACTATGTGTGAGAGATTACACGGCACTATGTGTGCGAGAAAACGTG
Found at i:76411929 original size:24 final size:24
Alignment explanation
Indices: 76411897--76411957 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
76411887 AAAAACTAAG
**
76411897 TGGCACTATGTGTGAGAGATTACA
1 TGGCACTATGTGTGAGAGAAAACA
* *
76411921 TGGCACTATGTGTGCGAGAAAACG
1 TGGCACTATGTGTGAGAGAAAACA
76411945 TGGCACTATGTGT
1 TGGCACTATGTGT
76411958 ACGAATAAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (24 bp):
TGGCACTATGTGTGAGAGAAAACA
Found at i:76416131 original size:16 final size:16
Alignment explanation
Indices: 76416110--76416174 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 16
76416100 ATCTCAGAAT
76416110 CATTTCTCATATTTTC
1 CATTTCTCATATTTTC
*
76416126 CATTTC-AATATTTTC
1 CATTTCTCATATTTTC
76416141 TCA--TCTCATA--TT-
1 -CATTTCTCATATTTTC
*
76416153 CATTTCTCATTTTTTC
1 CATTTCTCATATTTTC
*
76416169 TATTTC
1 CATTTC
76416175 AATATCAATC
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
11 2 0.05
13 8 0.21
14 2 0.05
15 13 0.34
16 13 0.34
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (16 bp):
CATTTCTCATATTTTC
Found at i:76416144 original size:43 final size:43
Alignment explanation
Indices: 76416094--76416179 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
76416084 TCATATTTCA
76416094 TTTCTCATCTCAGAATCATTTCTCATATTTTCCATTTCAATAT
1 TTTCTCATCTCAGAATCATTTCTCATATTTTCCATTTCAATAT
* * * *
76416137 TTTCTCATCTCATATTCATTTCTCATTTTTTCTATTTCAATAT
1 TTTCTCATCTCAGAATCATTTCTCATATTTTCCATTTCAATAT
76416180 CAATCACATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.23, C:0.22, G:0.01, T:0.53
Consensus pattern (43 bp):
TTTCTCATCTCAGAATCATTTCTCATATTTTCCATTTCAATAT
Found at i:76434404 original size:17 final size:17
Alignment explanation
Indices: 76434382--76434442 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
76434372 TTTTATTGCA
76434382 TTTTATTTTTGTTTTAG
1 TTTTATTTTTGTTTTAG
* *
76434399 TTTTATTTTTAATTACTA-
1 TTTTATTTTT-GTT-TTAG
*
76434417 ATTT-TTTTTGTTTTAG
1 TTTTATTTTTGTTTTAG
76434433 TTTTATTTTT
1 TTTTATTTTT
76434443 AATTACTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
15 2 0.06
16 5 0.15
17 20 0.59
18 5 0.15
19 2 0.06
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.75
Consensus pattern (17 bp):
TTTTATTTTTGTTTTAG
Found at i:76434430 original size:34 final size:34
Alignment explanation
Indices: 76434387--76434459 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
76434377 TTGCATTTTA
76434387 TTTTTGTTTTAGTTTTATTTTTAATTACTAATTT
1 TTTTTGTTTTAGTTTTATTTTTAATTACTAATTT
76434421 TTTTTGTTTTAGTTTTATTTTTAATTACTAATTT
1 TTTTTGTTTTAGTTTTATTTTTAATTACTAATTT
76434455 TTTTT
1 TTTTT
76434460 ACTTCTGGCG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.73
Consensus pattern (34 bp):
TTTTTGTTTTAGTTTTATTTTTAATTACTAATTT
Found at i:76434458 original size:17 final size:17
Alignment explanation
Indices: 76434404--76434460 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
76434394 TTTAGTTTTA
76434404 TTTTTAATTACTAATTT
1 TTTTTAATTACTAATTT
* * *
76434421 TTTTT-GTT-TTAGTTTT
1 TTTTTAATTACTA-ATTT
76434437 ATTTTTAATTACTAATTT
1 -TTTTTAATTACTAATTT
76434455 TTTTTA
1 TTTTTA
76434461 CTTCTGGCGG
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
15 2 0.07
16 5 0.17
17 16 0.53
18 5 0.17
19 2 0.07
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (17 bp):
TTTTTAATTACTAATTT
Found at i:76437774 original size:16 final size:16
Alignment explanation
Indices: 76437753--76437791 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
76437743 ATTCTTATAC
*
76437753 TTATATTTTTACTTTT
1 TTATATTTTTAATTTT
76437769 TTATA-TTTTAATTTT
1 TTATATTTTTAATTTT
76437784 TATATATT
1 T-TATATT
76437792 ATTATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 10 0.50
16 9 0.45
17 1 0.05
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TTATATTTTTAATTTT
Found at i:76437962 original size:15 final size:14
Alignment explanation
Indices: 76437918--76437964 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
76437908 TTATCTTCCT
76437918 TTTTAATTTTATTTA
1 TTTT-ATTTTATTTA
* *
76437933 -GTTGTTTTATTTA
1 TTTTATTTTATTTA
76437946 TTTTATTTTATTTTA
1 TTTTATTTTA-TTTA
76437961 TTTT
1 TTTT
76437965 CTTCAACTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 9 0.35
14 9 0.35
15 8 0.31
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:76440347 original size:42 final size:42
Alignment explanation
Indices: 76440229--76440400 Score: 152
Period size: 43 Copynumber: 4.0 Consensus size: 42
76440219 AGCTTGTATA
* *
76440229 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCC-ATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
76440272 ATGCCACTGTCCCAGACAGGGTATTACACGAAATCAAATA-CG
1 ATGCCA-TGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * *
76440314 ATGACGATGTCCCAGACATAG-CTTACACGGAAATCTCAA-ATCG
1 ATG-CCATGTCCCAGACATGGTCTTACAC-GAAATC-AAATATCG
* * ** * *
76440357 ATGCCAACGTCCCACATGTGGTCTTACAGGAAATCACATATCG
1 ATGCC-ATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
76440400 A
1 A
76440401 AAATCCTATG
Statistics
Matches: 103, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
41 6 0.06
42 27 0.26
43 64 0.62
44 6 0.06
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:76448005 original size:43 final size:44
Alignment explanation
Indices: 76447885--76448005 Score: 133
Period size: 43 Copynumber: 2.8 Consensus size: 44
76447875 AGGTCGTACA
* * * *
76447885 ATGCCAATGTCTCAGACGTGGTCTTACATGT-AATCAAATGTCG
1 ATGCCACTGTCCCAGACATGGTCTTACATGTAAATCAAATGACG
* *
76447928 ATGCCACTGTCCCAGACAGGGTCTTACACG-AAATCAAAT-ACG
1 ATGCCACTGTCCCAGACATGGTCTTACATGTAAATCAAATGACG
* *
76447970 ATGTCGA-TGTCCCAGTCATGGTCTTACATGTAAATC
1 ATG-CCACTGTCCCAGACATGGTCTTACATGTAAATC
76448006 TCAAACCGAT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
42 25 0.38
43 40 0.62
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (44 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGTAAATCAAATGACG
Found at i:76449503 original size:10 final size:10
Alignment explanation
Indices: 76449488--76449527 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
76449478 CCATTGTTCT
76449488 AAAAAAAATG
1 AAAAAAAATG
*
76449498 AAAAAAAGTG
1 AAAAAAAATG
76449508 AAAAAAAAGTG
1 AAAAAAAA-TG
*
76449519 GAAAAAAAT
1 AAAAAAAAT
76449528 ACATTTATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (10 bp):
AAAAAAAATG
Found at i:76449504 original size:11 final size:10
Alignment explanation
Indices: 76449488--76449526 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
76449478 CCATTGTTCT
*
76449488 AAAAAAAATG
1 AAAAAAAGTG
76449498 AAAAAAAGTG
1 AAAAAAAGTG
76449508 AAAAAAAAGTGG
1 -AAAAAAAGT-G
76449520 AAAAAAA
1 AAAAAAA
76449527 TACATTTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 9 0.35
11 16 0.62
12 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (10 bp):
AAAAAAAGTG
Found at i:76459032 original size:28 final size:27
Alignment explanation
Indices: 76458969--76459120 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
76458959 ATATTAAGTC
* *
76458969 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
76458996 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
76459024 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
76459051 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
76459079 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
76459106 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
76459121 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:76459053 original size:55 final size:55
Alignment explanation
Indices: 76458969--76459145 Score: 264
Period size: 55 Copynumber: 3.2 Consensus size: 55
76458959 ATATTAAGTC
* * *
76458969 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
76459024 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
76459079 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
76459135 CGCACACTTAG
1 CGCACACTTAG
76459146 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
55 95 0.86
56 16 0.14
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:76466984 original size:27 final size:27
Alignment explanation
Indices: 76466954--76467131 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
76466944 ATATTGAGTC
* * * *
76466954 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
76466981 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
76467008 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
76467036 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
76467063 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
76467090 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
76467117 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
76467132 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:76467093 original size:82 final size:81
Alignment explanation
Indices: 76466975--76467130 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
76466965 TGCTATATAA
* *
76466975 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
76467040 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
76467057 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
76467121 CACTTAGTGC
65 CACTTAGTGC
76467131 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:76467632 original size:12 final size:12
Alignment explanation
Indices: 76467615--76467641 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
76467605 ATGGCATACT
76467615 TATGTATATATA
1 TATGTATATATA
76467627 TATGTATATATA
1 TATGTATATATA
76467639 TAT
1 TAT
76467642 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:76471472 original size:39 final size:39
Alignment explanation
Indices: 76471413--76471592 Score: 333
Period size: 39 Copynumber: 4.6 Consensus size: 39
76471403 TGTGTGTGTG
*
76471413 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATA
* *
76471452 TCTGAGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATA
76471491 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATA
76471530 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATA
76471569 TCCGGGCTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
76471593 TGTGTTGGGA
Statistics
Matches: 136, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 136 1.00
ACGTcount: A:0.18, C:0.23, G:0.31, T:0.28
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATA
Found at i:76474589 original size:73 final size:73
Alignment explanation
Indices: 76474463--76474612 Score: 228
Period size: 73 Copynumber: 2.1 Consensus size: 73
76474453 TCTCTGAACT
* * *
76474463 CCCACAAATATCAAACACAGTCCACCGAGTTGATTGGGCCGAAACACGCGCTTCCTTATAGCACC
1 CCCACAAATATCAAACACAGTCCACCGAATTGAGTGGGCCGAAACACACGCTTCCTTATAGCACC
76474528 TCAAATAA
66 TCAAATAA
* * * * *
76474536 CCCACAAATATTAAATACAGTCCACCGAATTGAGTGGGCCGAAGCACATGCTTCCTTATAGCGCC
1 CCCACAAATATCAAACACAGTCCACCGAATTGAGTGGGCCGAAACACACGCTTCCTTATAGCACC
76474601 TCAAATAA
66 TCAAATAA
76474609 CCCA
1 CCCA
76474613 ATGAATGGAG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.34, C:0.31, G:0.15, T:0.20
Consensus pattern (73 bp):
CCCACAAATATCAAACACAGTCCACCGAATTGAGTGGGCCGAAACACACGCTTCCTTATAGCACC
TCAAATAA
Found at i:76490025 original size:27 final size:27
Alignment explanation
Indices: 76489995--76490172 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
76489985 ATATTGAGTC
* * * *
76489995 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
76490022 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
76490049 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
76490077 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
76490104 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
76490131 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
76490158 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
76490173 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:76490134 original size:82 final size:81
Alignment explanation
Indices: 76490016--76490171 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
76490006 TGCTATATAA
* *
76490016 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
76490081 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
76490098 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
76490162 CACTTAGTGC
65 CACTTAGTGC
76490172 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:76499396 original size:41 final size:37
Alignment explanation
Indices: 76499336--76499484 Score: 147
Period size: 41 Copynumber: 3.9 Consensus size: 37
76499326 GTACTCAATA
* *
76499336 TCTCGCACACTAAGTGCCATACATAGCCAAAGCTATC
1 TCTCACACACTAAGTGCCATATATAGCCAAAGCTATC
*
76499373 TTGGTCTCACACACTAAGTGCCATATATATCCAAAGCTATC
1 ----TCTCACACACTAAGTGCCATATATAGCCAAAGCTATC
* *
76499414 -CTCACAAACTAAGTGCCATATATAGCCGAAGCTATC
1 TCTCACACACTAAGTGCCATATATAGCCAAAGCTATC
* * * *
76499450 CCGAATCGCACACTAAGTGCTATATATAGTCAAAG
1 TC---TCACACACTAAGTGCCATATATAGCCAAAG
76499485 TTATTCTGAA
Statistics
Matches: 93, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
36 33 0.35
37 1 0.01
40 25 0.27
41 34 0.37
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (37 bp):
TCTCACACACTAAGTGCCATATATAGCCAAAGCTATC
Found at i:76499418 original size:36 final size:36
Alignment explanation
Indices: 76499341--76499484 Score: 144
Period size: 36 Copynumber: 3.8 Consensus size: 36
76499331 CAATATCTCG
*
76499341 CACACTAAGTGCCATACATAGCCAAAGCTATCTTGGTCTCA
1 CACACTAAGTGCCATATATAGCCAAAGCTATC-----CTCA
*
76499382 CACACTAAGTGCCATATATATCCAAAGCTATCCTCA
1 CACACTAAGTGCCATATATAGCCAAAGCTATCCTCA
* * *
76499418 CAAACTAAGTGCCATATATAGCCGAAGCTATCCCGAATCG
1 CACACTAAGTGCCATATATAGCCAAAGCTAT-CC---TCA
* *
76499458 CACACTAAGTGCTATATATAGTCAAAG
1 CACACTAAGTGCCATATATAGCCAAAG
76499485 TTATTCTGAA
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
36 32 0.36
37 2 0.02
40 25 0.28
41 30 0.34
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (36 bp):
CACACTAAGTGCCATATATAGCCAAAGCTATCCTCA
Found at i:76499475 original size:40 final size:40
Alignment explanation
Indices: 76499338--76499517 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 40
76499328 ACTCAATATC
* ** **
76499338 TCGCACACTAAGTGCCATACATAGCCAAAGCTATCTTGGTC
1 TCGCACACTAAGTGCCATATATAGCCAAAGCTATC-CCGAA
* *
76499379 TCACACACTAAGTGCCATATATATCCAAAGCTAT-CC---
1 TCGCACACTAAGTGCCATATATAGCCAAAGCTATCCCGAA
* * *
76499415 TCACAAACTAAGTGCCATATATAGCCGAAGCTATCCCGAA
1 TCGCACACTAAGTGCCATATATAGCCAAAGCTATCCCGAA
* * * * *
76499455 TCGCACACTAAGTGCTATATATAGTCAAAGTTATTCTGAA
1 TCGCACACTAAGTGCCATATATAGCCAAAGCTATCCCGAA
* *
76499495 TTGCACACTAAGTGCAATATATA
1 TCGCACACTAAGTGCCATATATA
76499518 TATCTGAATC
Statistics
Matches: 117, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
36 31 0.26
37 2 0.02
40 53 0.45
41 31 0.26
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCAAAGCTATCCCGAA
Found at i:76504124 original size:17 final size:17
Alignment explanation
Indices: 76504104--76504173 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 17
76504094 GAAATTATTA
76504104 AAACAACTTAATTAATT
1 AAACAACTTAATTAATT
*
76504121 --A-AAC-TAATTATTT
1 AAACAACTTAATTAATT
* *
76504134 AAACAACTAAATACAATT
1 AAACAACTTAAT-TAATT
*
76504152 AAAACAACTTAGTTAATT
1 -AAACAACTTAATTAATT
76504170 AAAC
1 AAAC
76504174 TAAAATAACT
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
13 8 0.20
14 3 0.08
15 2 0.05
16 3 0.08
17 7 0.17
18 7 0.17
19 10 0.25
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.31
Consensus pattern (17 bp):
AAACAACTTAATTAATT
Found at i:76522648 original size:14 final size:14
Alignment explanation
Indices: 76522629--76522662 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
76522619 AGTGCATGAA
*
76522629 AATTTTAGTGAATT
1 AATTTTAGCGAATT
*
76522643 AATTTTGGCGAATT
1 AATTTTAGCGAATT
76522657 AATTTT
1 AATTTT
76522663 GGCGTTTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.50
Consensus pattern (14 bp):
AATTTTAGCGAATT
Found at i:76522663 original size:14 final size:14
Alignment explanation
Indices: 76522638--76522666 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
76522628 AAATTTTAGT
76522638 GAATTAATTTTGGC
1 GAATTAATTTTGGC
76522652 GAATTAATTTTGGC
1 GAATTAATTTTGGC
76522666 G
1 G
76522667 TTTGAGTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (14 bp):
GAATTAATTTTGGC
Found at i:76523605 original size:43 final size:43
Alignment explanation
Indices: 76523557--76523642 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
76523547 AAGTTCGTAT
76523557 GACTAAATAAGCATGTTATCCATGTTATTGTTAATATACTTGA
1 GACTAAATAAGCATGTTATCCATGTTATTGTTAATATACTTGA
76523600 GACTAAATAAGCATGTTATCCATGTTATTGTTAATATACTTGA
1 GACTAAATAAGCATGTTATCCATGTTATTGTTAATATACTTGA
76523643 ATCTATCTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.40
Consensus pattern (43 bp):
GACTAAATAAGCATGTTATCCATGTTATTGTTAATATACTTGA
Found at i:76524168 original size:47 final size:48
Alignment explanation
Indices: 76524046--76524177 Score: 153
Period size: 47 Copynumber: 2.8 Consensus size: 48
76524036 GGATATGTGA
* * *
76524046 GAGCCAGTGTAAGACCATGTTTGGGACATGGCGTCAGCCTCGATTTCGAT
1 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATC-GACTCGA-TTCGAT
* * *
76524096 -AG-TCAGTGTAAGACTATGTTTGGGACATGGCATCGACTTGA-TGGAT
1 GAGCT-AGTGTAAGACCATGTTTGGGACATGGCATCGACTCGATTCGAT
*
76524142 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCG
76524178 GTATTATACC
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
46 4 0.06
47 31 0.44
48 6 0.08
49 30 0.42
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACTCGATTCGAT
Found at i:76524870 original size:18 final size:18
Alignment explanation
Indices: 76524847--76524902 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
76524837 ATGAGTTAAA
76524847 ATTTATATTCTTAGAATT
1 ATTTATATTCTTAGAATT
76524865 ATTTATGA-T-TTA-AA--
1 ATTTAT-ATTCTTAGAATT
76524879 ATTTATATTCTTAGAATT
1 ATTTATATTCTTAGAATT
76524897 ATTTAT
1 ATTTAT
76524903 GAGTCTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 1 0.03
14 7 0.22
15 3 0.09
16 4 0.12
17 3 0.09
18 13 0.41
19 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (18 bp):
ATTTATATTCTTAGAATT
Found at i:76524872 original size:32 final size:32
Alignment explanation
Indices: 76524834--76524906 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
76524824 TAAAAAAATG
76524834 TTTATGAGTTAAAATTTATATTCTTAGAATTA
1 TTTATGAGTTAAAATTTATATTCTTAGAATTA
*
76524866 TTTATGATTTAAAATTTATATTCTTAGAATTA
1 TTTATGAGTTAAAATTTATATTCTTAGAATTA
76524898 TTTATGAGT
1 TTTATGAGT
76524907 CTATTTTCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.52
Consensus pattern (32 bp):
TTTATGAGTTAAAATTTATATTCTTAGAATTA
Found at i:76526465 original size:49 final size:49
Alignment explanation
Indices: 76526391--76526564 Score: 258
Period size: 49 Copynumber: 3.5 Consensus size: 49
76526381 TGAGGTCACG
*
76526391 TGTGTAGTACTAAGCGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
* * * * ** * *
76526440 TGTGTAGTACTAAGTGCAGGTTACTATGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
76526490 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
76526539 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
76526565 TGCATACCAG
Statistics
Matches: 107, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 66 0.62
50 41 0.38
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
Found at i:76526554 original size:99 final size:99
Alignment explanation
Indices: 76526383--76526566 Score: 350
Period size: 99 Copynumber: 1.9 Consensus size: 99
76526373 ATCTATTGTG
76526383 AGGTCACGTGTGTAGTACTAAGCGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGCGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
*
76526448 ACTAAGTGCAGGTTACTATGTGTATCAGATGGTT
66 ACTAAGTGCAGGCTACTATGTGTATCAGATGGTT
*
76526482 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGCGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
76526547 ACTAAGTGCAGGCTACTATG
66 ACTAAGTGCAGGCTACTATG
76526567 CATACCAGAT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 83 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (99 bp):
AGGTCACGTGTGTAGTACTAAGCGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGTGTATCAGATGGTT
Found at i:76528653 original size:26 final size:26
Alignment explanation
Indices: 76528613--76528722 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
76528603 TGATACAAAT
*
76528613 TGATAATAGGCTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
76528639 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
76528665 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
76528691 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
76528717 TGATAA
1 TGATAA
76528723 GAATTTCATG
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 77 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:76538762 original size:26 final size:26
Alignment explanation
Indices: 76538731--76538838 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
76538721 TGAAATGCCC
*
76538731 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
76538757 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
76538783 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
76538809 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
76538835 ATCA
1 ATCA
76538839 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:76547749 original size:13 final size:13
Alignment explanation
Indices: 76547683--76547754 Score: 56
Period size: 13 Copynumber: 5.3 Consensus size: 13
76547673 AAAAAGTTAT
*
76547683 TAATAAAAAAT-A
1 TAATTAAAAATAA
76547695 TGAATTAAAAATAA
1 T-AATTAAAAATAA
* *
76547709 AAACTTTTAAAATAA
1 TAA--TTAAAAATAA
* *
76547724 TATATTTAAAATAT
1 TA-ATTAAAAATAA
76547738 TAATTAAAAATAA
1 TAATTAAAAATAA
76547751 TAAT
1 TAAT
76547755 AATAAAAAGC
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
12 1 0.02
13 24 0.50
14 12 0.25
15 10 0.21
16 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (13 bp):
TAATTAAAAATAA
Found at i:76550402 original size:19 final size:19
Alignment explanation
Indices: 76550362--76550402 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
76550352 TTCTTAGATT
* * *
76550362 ATTTAAGATTTTGGGTAGA
1 ATTTAAAATTTTGGATAAA
76550381 ATTTAAAATTTTGGATAAA
1 ATTTAAAATTTTGGATAAA
76550400 ATT
1 ATT
76550403 ACCCTTTATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (19 bp):
ATTTAAAATTTTGGATAAA
Found at i:76557768 original size:8 final size:8
Alignment explanation
Indices: 76557752--76557789 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
76557742 CTTATTTATC
*
76557752 GTGACGTT
1 GTGATGTT
76557760 GTGATGTT
1 GTGATGTT
*
76557768 GTGCTG-T
1 GTGATGTT
76557775 GTGATGTT
1 GTGATGTT
76557783 GTGATGT
1 GTGATGT
76557790 CACTGTCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.11, C:0.05, G:0.39, T:0.45
Consensus pattern (8 bp):
GTGATGTT
Found at i:76561046 original size:48 final size:49
Alignment explanation
Indices: 76560943--76561062 Score: 152
Period size: 48 Copynumber: 2.5 Consensus size: 49
76560933 ACTTAATCAC
* * * * *
76560943 TTTAATATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAA
1 TTTAATATTAAATTAATAAAATACTAATCAAGATAAATATAAAATTAAA
* *
76560992 TTTAATATTAAATTAATAAAATACTAAT-TAGATGAATATAAAATTAAA
1 TTTAATATTAAATTAATAAAATACTAATCAAGATAAATATAAAATTAAA
* *
76561040 TTTAATATTAAACTATTAAAATA
1 TTTAATATTAAATTAATAAAATA
76561063 ATATTATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
48 37 0.60
49 25 0.40
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (49 bp):
TTTAATATTAAATTAATAAAATACTAATCAAGATAAATATAAAATTAAA
Found at i:76562578 original size:39 final size:39
Alignment explanation
Indices: 76562535--76562614 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
76562525 ATCTACTGAA
76562535 GTAAGTCATCTTTCTCGCAATGTAAATGTCCTCTACAAT
1 GTAAGTCATCTTTCTCGCAATGTAAATGTCCTCTACAAT
* *
76562574 GTAAGTCATCTTTCTCGCAATGTAAATGTTCTTTACAAT
1 GTAAGTCATCTTTCTCGCAATGTAAATGTCCTCTACAAT
76562613 GT
1 GT
76562615 CACTTATCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.39
Consensus pattern (39 bp):
GTAAGTCATCTTTCTCGCAATGTAAATGTCCTCTACAAT
Found at i:76562596 original size:21 final size:21
Alignment explanation
Indices: 76562535--76562598 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
76562525 ATCTACTGAA
76562535 GTAAGTCATCTTTCTCGCAAT
1 GTAAGTCATCTTTCTCGCAAT
* * * *
76562556 GTAAAT-GTC-CTCT-ACAAT
1 GTAAGTCATCTTTCTCGCAAT
76562574 GTAAGTCATCTTTCTCGCAAT
1 GTAAGTCATCTTTCTCGCAAT
76562595 GTAA
1 GTAA
76562599 ATGTTCTTTA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 9 0.28
19 5 0.16
20 5 0.16
21 13 0.41
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (21 bp):
GTAAGTCATCTTTCTCGCAAT
Found at i:76562606 original size:21 final size:20
Alignment explanation
Indices: 76562543--76562607 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
76562533 AAGTAAGTCA
76562543 TCTTTCTCGCAATGTAAATG
1 TCTTTCTCGCAATGTAAATG
* * * *
76562563 TC-CTCT-ACAATGTAAGTCA
1 TCTTTCTCGCAATGTAAAT-G
76562582 TCTTTCTCGCAATGTAAATG
1 TCTTTCTCGCAATGTAAATG
76562602 TTCTTT
1 -TCTTT
76562608 ACAATGTCAC
Statistics
Matches: 33, Mismatches: 8, Indels: 7
0.69 0.17 0.15
Matches are distributed among these distances:
18 9 0.27
19 5 0.15
20 5 0.15
21 14 0.42
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.42
Consensus pattern (20 bp):
TCTTTCTCGCAATGTAAATG
Found at i:76562624 original size:39 final size:39
Alignment explanation
Indices: 76562535--76562624 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
76562525 ATCTACTGAA
*
76562535 GTAAGTCATCTTTCTCGCAATGTAAATGTCCTCTACAAT
1 GTAACTCATCTTTCTCGCAATGTAAATGTCCTCTACAAT
* * *
76562574 GTAAGTCATCTTTCTCGCAATGTAAATGTTCTTTACAAT
1 GTAACTCATCTTTCTCGCAATGTAAATGTCCTCTACAAT
* *
76562613 GTCACTTATCTT
1 GTAACTCATCTT
76562625 CAGTTTAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (39 bp):
GTAACTCATCTTTCTCGCAATGTAAATGTCCTCTACAAT
Found at i:76572714 original size:38 final size:38
Alignment explanation
Indices: 76572658--76572734 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
76572648 GTTACAATCT
* *
76572658 TACACGATATGGTCTTCTTTCCATATGATGTCATAACC
1 TACACAATATGGTCTTCTTTCCATATGATGCCATAACC
*
76572696 TACACAATATGGTTTTCTTTCCATATGATGCCATAACC
1 TACACAATATGGTCTTCTTTCCATATGATGCCATAACC
76572734 T
1 T
76572735 GCCAGTTACG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (38 bp):
TACACAATATGGTCTTCTTTCCATATGATGCCATAACC
Found at i:76572817 original size:53 final size:53
Alignment explanation
Indices: 76572704--76572822 Score: 139
Period size: 53 Copynumber: 2.2 Consensus size: 53
76572694 CCTACACAAT
* ** ** ** * *
76572704 ATGGTTTTCTTTCCATATGATGCCATAACCTGCCAGTTACGGTCTTACATGAT
1 ATGGTCTTCTTTCCATATGAAACCATAACCCACCAGTTACAATCTTACACGAC
* *
76572757 ATAGTCTTGTTTCCATATGAAACCATAACCCACCAGTTACAATCTTACACGAC
1 ATGGTCTTCTTTCCATATGAAACCATAACCCACCAGTTACAATCTTACACGAC
76572810 ATGGTCTTCTTTC
1 ATGGTCTTCTTTC
76572823 AGTGCCGTGG
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.35
Consensus pattern (53 bp):
ATGGTCTTCTTTCCATATGAAACCATAACCCACCAGTTACAATCTTACACGAC
Found at i:76572950 original size:23 final size:19
Alignment explanation
Indices: 76572927--76572965 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
76572917 ACATTGACTC
*
76572927 ACTCACGACAAACATTTTT
1 ACTCATGACAAACATTTTT
76572946 ACTCATGACAAACATTTTT
1 ACTCATGACAAACATTTTT
76572965 A
1 A
76572966 TACTTATCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.33
Consensus pattern (19 bp):
ACTCATGACAAACATTTTT
Found at i:76576648 original size:8 final size:8
Alignment explanation
Indices: 76576631--76576689 Score: 50
Period size: 8 Copynumber: 7.1 Consensus size: 8
76576621 AAATTTATTG
76576631 AAAAATTAT
1 AAAAA-TAT
76576640 AAAAATAT
1 AAAAATAT
*
76576648 --ATATAT
1 AAAAATAT
76576654 AACAAATAT
1 AA-AAATAT
76576663 AAAAATTAAT
1 AAAAA-T-AT
*
76576673 AAAAATTT
1 AAAAATAT
76576681 AAAAATAT
1 AAAAATAT
76576689 A
1 A
76576690 TTAGAAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
6 5 0.12
8 15 0.37
9 14 0.34
10 7 0.17
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (8 bp):
AAAAATAT
Found at i:76577089 original size:17 final size:20
Alignment explanation
Indices: 76577067--76577139 Score: 73
Period size: 21 Copynumber: 3.8 Consensus size: 20
76577057 ATGTGATTTA
76577067 TAAAATTTTTAA-A-ATA-T
1 TAAAATTTTTAATATATATT
*
76577084 TAAAATTTCTAATATATATT
1 TAAAATTTTTAATATATATT
* * *
76577104 TAAAATTTTTATATAAACATA
1 TAAAATTTTTA-ATATATATT
76577125 TAAAATTTTT-ATATA
1 TAAAATTTTTAATATA
76577140 AACGTATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
17 11 0.24
18 1 0.02
19 7 0.15
20 11 0.24
21 16 0.35
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAAATTTTTAATATATATT
Found at i:76577130 original size:21 final size:21
Alignment explanation
Indices: 76577104--76577148 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
76577094 AATATATATT
76577104 TAAAATTTTTATATAAACATA
1 TAAAATTTTTATATAAACATA
*
76577125 TAAAATTTTTATATAAACGTA
1 TAAAATTTTTATATAAACATA
76577146 TAA
1 TAA
76577149 TTTTCTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (21 bp):
TAAAATTTTTATATAAACATA
Found at i:76577461 original size:88 final size:87
Alignment explanation
Indices: 76577233--76577474 Score: 236
Period size: 88 Copynumber: 2.7 Consensus size: 87
76577223 TTAAGGGTGT
* * * *
76577233 AAAAAGCCCTCAAACTTTTTCAAAAAAAGTAACTAAGCCCCTGCTTTTTTCTTTTTGCACTCAAT
1 AAAAAGCCCTCAAACTTTTTC-AAAAAAGAAATTAAG-CCCTG-ATTTTT-TTTAT-CACTCAAT
* * **
76577298 TGGATACTTAAATTTTCAAAATACATCA
61 CGGATACTTAAACTGCCAAAATACAT-A
* * * * *
76577326 AAAAGGCCCTCAAACTTTTTCAAAAATAGAAATGAAGCACTGGTTTTTTTTAT-ACTCAATCGGG
1 AAAAAGCCCTCAAACTTTTTCAAAAA-AGAAATTAAGCCCTGATTTTTTTTATCACTCAATCGGA
* *
76577390 TACTTGAACTGCCAAAATGCATA
65 TACTTAAACTGCCAAAATACATA
*
76577413 AAAAAGACCCTCAAACTTTTTCAAAAAAGCAATTAAGCCCATGATTTTTTTT-TGCACTCAAT
1 AAAAAG-CCCTCAAACTTTTTCAAAAAAGAAATTAAGCCC-TGATTTTTTTTAT-CACTCAAT
76577475 TGCCAAAATG
Statistics
Matches: 125, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
87 17 0.14
88 56 0.45
89 7 0.06
90 4 0.03
91 5 0.04
92 9 0.07
93 27 0.22
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.32
Consensus pattern (87 bp):
AAAAAGCCCTCAAACTTTTTCAAAAAAGAAATTAAGCCCTGATTTTTTTTATCACTCAATCGGAT
ACTTAAACTGCCAAAATACATA
Found at i:76577659 original size:27 final size:28
Alignment explanation
Indices: 76577620--76577673 Score: 67
Period size: 27 Copynumber: 1.9 Consensus size: 28
76577610 AATAAAGATC
76577620 AATAAAAGTTATAA-AAATTATTAAATTGT
1 AATAAAAG-TATAAGAAA-TATTAAATTGT
*
76577649 AATAAAA-TATAAGAAATATTTAATT
1 AATAAAAGTATAAGAAATATTAAATT
76577674 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 13 0.57
28 3 0.13
29 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (28 bp):
AATAAAAGTATAAGAAATATTAAATTGT
Found at i:76577736 original size:21 final size:20
Alignment explanation
Indices: 76577708--76577770 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
76577698 ATAAAAACAT
* *
76577708 AAAATGTAAAATTTTATAAA
1 AAAATGTAAAAATCTATAAA
76577728 AAAAGTGTAAAAATCTATAAA
1 AAAA-TGTAAAAATCTATAAA
* * *
76577749 AATATAGAAAAAATATATAAA
1 AAAAT-GTAAAAATCTATAAA
76577770 A
1 A
76577771 TTTTATAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 5 0.14
21 31 0.86
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAATGTAAAAATCTATAAA
Found at i:76578057 original size:30 final size:29
Alignment explanation
Indices: 76578023--76578164 Score: 107
Period size: 30 Copynumber: 4.9 Consensus size: 29
76578013 TTTTTGATGT
76578023 ATTTTATAATTTTTTATGATTTTTATAAAA
1 ATTTTATAATTTTTTAT-ATTTTTATAAAA
* * * *
76578053 ATTTTAGAGTTTTTTATATTTTT-TTACA
1 ATTTTATAATTTTTTATATTTTTATAAAA
76578081 A-TTTATATATTTTTCTA-ATTTTTAGT-AAA
1 ATTTTATA-ATTTTT-TATATTTTTA-TAAAA
* * * *
76578110 GTTTAAATATTTTTTTATATTTTTATTAAA
1 ATTT-TATAATTTTTTATATTTTTATAAAA
* *
76578140 GTTTAATAA-TTTTTAT-TTTTTATAA
1 ATTTTATAATTTTTTATATTTTTATAA
76578165 TTTTTTTGTC
Statistics
Matches: 92, Mismatches: 12, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
27 13 0.14
28 22 0.24
29 17 0.18
30 37 0.40
31 3 0.03
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (29 bp):
ATTTTATAATTTTTTATATTTTTATAAAA
Found at i:76578094 original size:29 final size:28
Alignment explanation
Indices: 76578023--76578162 Score: 108
Period size: 29 Copynumber: 4.9 Consensus size: 28
76578013 TTTTTGATGT
* *
76578023 ATTTTATAATTTTTTATGATTTTTATAAAA
1 ATTTTATATTTTTTTAT-ATTTTTAT-TAA
* *
76578053 ATTTTAGAGTTTTTTATATTTTT-TTACA
1 ATTTTATATTTTTTTATATTTTTATTA-A
* *
76578081 ATTTATATATTTTTCTA-ATTTTTAGTAA
1 ATTT-TATATTTTTTTATATTTTTATTAA
*
76578109 AGTTTAAATATTTTTTTATATTTTTATTAA
1 A-TTT-TATATTTTTTTATATTTTTATTAA
* *
76578139 AGTTTA-ATAATTTTTAT-TTTTTAT
1 ATTTTATAT-TTTTTTATATTTTTAT
76578163 AATTTTTTTG
Statistics
Matches: 91, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
27 10 0.11
28 22 0.24
29 33 0.36
30 26 0.29
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (28 bp):
ATTTTATATTTTTTTATATTTTTATTAA
Found at i:76578580 original size:9 final size:9
Alignment explanation
Indices: 76578556--76578604 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
76578546 TTTTAAAAAA
76578556 TATATATTTT
1 TATAT-TTTT
*
76578566 TGTATTTTT
1 TATATTTTT
76578575 TATATTTTT
1 TATATTTTT
76578584 TAAATATTTTT
1 T--ATATTTTT
*
76578595 AATATTTTT
1 TATATTTTT
76578604 T
1 T
76578605 CAAATGATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
9 21 0.64
10 4 0.12
11 8 0.24
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (9 bp):
TATATTTTT
Found at i:76578590 original size:11 final size:10
Alignment explanation
Indices: 76578568--76578604 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
76578558 TATATTTTTG
76578568 TATTTTTT-A
1 TATTTTTTAA
76578577 TATTTTTTAA
1 TATTTTTTAA
76578587 -ATATTTTTAA
1 TAT-TTTTTAA
76578597 TATTTTTT
1 TATTTTTT
76578605 CAAATGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 10 0.40
10 13 0.52
11 2 0.08
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TATTTTTTAA
Found at i:76578593 original size:20 final size:21
Alignment explanation
Indices: 76578568--76578609 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
76578558 TATATTTTTG
*
76578568 TATTTTTTATATTTTTT-AAA
1 TATTTTTAATATTTTTTCAAA
76578588 TATTTTTAATATTTTTTCAAA
1 TATTTTTAATATTTTTTCAAA
76578609 T
1 T
76578610 GATGACATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTTTTAATATTTTTTCAAA
Found at i:76580589 original size:46 final size:46
Alignment explanation
Indices: 76580512--76580636 Score: 162
Period size: 46 Copynumber: 2.7 Consensus size: 46
76580502 GACTTGATGT
* * *
76580512 CATAGTGTCTTTT-AACCATGTTCTAATTCATTTTCTGTCGTGTCGC
1 CATAGTGT-TTTTCAACTATGGTCTTATTCATTTTCTGTCGTGTCGC
* * * *
76580558 CTTAGTGTTTTTCAACTATGGTCTTATTCATTTTCTTTCTTGTTGC
1 CATAGTGTTTTTCAACTATGGTCTTATTCATTTTCTGTCGTGTCGC
*
76580604 CATAGTGTCTTTCAACTATGGTCTTATTCATTT
1 CATAGTGTTTTTCAACTATGGTCTTATTCATTT
76580637 GATTCATGAT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 4 0.06
46 65 0.94
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.50
Consensus pattern (46 bp):
CATAGTGTTTTTCAACTATGGTCTTATTCATTTTCTGTCGTGTCGC
Found at i:76580668 original size:45 final size:45
Alignment explanation
Indices: 76580567--76580854 Score: 206
Period size: 45 Copynumber: 6.4 Consensus size: 45
76580557 CCTTAGTGTT
* *** * * *
76580567 TTTCAACTATGGTCTTATTCATTTTCTTTCTTGTTGCCATAGTGTC
1 TTTCAACTATGGTCTTACTCA-TTTGAATCATGATGCCATAATGTC
* *
76580613 TTTCAACTATGGTCTTATTCATTTGATTCATGATGCCATAATGTC
1 TTTCAACTATGGTCTTACTCATTTGAATCATGATGCCATAATGTC
* * * * * *
76580658 TTTCAGCTATGCTCTTACTCGA-TAGAATCGTGATGTCATAACGTC
1 TTTCAACTATGGTCTTACTC-ATTTGAATCATGATGCCATAATGTC
** * * * * *
76580703 TTTCAGTTATGGTCTTACTCAATAGAATCGTGATGTCATAACGTC
1 TTTCAACTATGGTCTTACTCATTTGAATCATGATGCCATAATGTC
* * * * *
76580748 TTTCAGCTATGGTCTTACTCGTTTCTAGT-ATGATGCCATAGTGTC
1 TTTCAACTATGGTCTTACTCATTT-GAATCATGATGCCATAATGTC
* * * * * *
76580793 TTTCAACTATGGTCTTATTTATTTCTG-GT-ATAATGTCATAGTGTC
1 TTTCAACTATGGTCTTACTCA-TT-TGAATCATGATGCCATAATGTC
76580838 TTTCAACTATGGTCTTA
1 TTTCAACTATGGTCTTA
76580855 ATAATTTCCT
Statistics
Matches: 205, Mismatches: 32, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
44 1 0.00
45 177 0.86
46 26 0.13
47 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (45 bp):
TTTCAACTATGGTCTTACTCATTTGAATCATGATGCCATAATGTC
Found at i:76581813 original size:23 final size:24
Alignment explanation
Indices: 76581787--76581843 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
76581777 TTTAACACCC
*
76581787 TTAATTAATA-GAATTTAA-CTTTT
1 TTAATTAATACG-ATTTAATCCTTT
**
76581810 TTAATTTTTACGATTTAATCCTTT
1 TTAATTAATACGATTTAATCCTTT
76581834 TTAATTAATA
1 TTAATTAATA
76581844 ACCAAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (24 bp):
TTAATTAATACGATTTAATCCTTT
Found at i:76582774 original size:14 final size:14
Alignment explanation
Indices: 76582755--76582792 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
76582745 TTGGCGAGTG
76582755 AATAAGCCTAACCA
1 AATAAGCCTAACCA
76582769 AATAAGCCTAACCA
1 AATAAGCCTAACCA
76582783 AATAAGCCTA
1 AATAAGCCTA
76582793 CATACAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.50, C:0.26, G:0.08, T:0.16
Consensus pattern (14 bp):
AATAAGCCTAACCA
Found at i:76584845 original size:23 final size:23
Alignment explanation
Indices: 76584819--76584928 Score: 123
Period size: 23 Copynumber: 4.7 Consensus size: 23
76584809 TTATAAAAGT
*
76584819 TTACTGTTTCAGCTCATTAGAGC
1 TTACTGTTTCAGCTCAATAGAGC
* * *
76584842 TTACCGATTCAGCTCGATAGAGC
1 TTACTGTTTCAGCTCAATAGAGC
*
76584865 TTACTG-TTCAGCTGAATAGAGC
1 TTACTGTTTCAGCTCAATAGAGC
* *
76584887 TTACTGTTTTTAGCTCAAAAGAGC
1 TTACTG-TTTCAGCTCAATAGAGC
76584911 TTACTGTTTATCAGCTCA
1 TTACTG-TT-TCAGCTCA
76584929 GAAGGAGTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
22 20 0.27
23 24 0.33
24 22 0.30
25 7 0.10
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (23 bp):
TTACTGTTTCAGCTCAATAGAGC
Found at i:76584869 original size:46 final size:46
Alignment explanation
Indices: 76584792--76584928 Score: 125
Period size: 46 Copynumber: 2.9 Consensus size: 46
76584782 CAGATCTTAC
* * * * *
76584792 GAGCTTACCAATTCAGCT-TATAAAAGTTTACTGTTTCAGCTCATTA
1 GAGCTTACCGATTCAGCTCAAT-AGAGCTTACTGTTTCAGCTCAATA
* *
76584838 GAGCTTACCGATTCAGCTCGATAGAGCTTACTG-TTCAGCTGAATA
1 GAGCTTACCGATTCAGCTCAATAGAGCTTACTGTTTCAGCTCAATA
* * * *
76584883 GAGCTTACTGTTTTTAGCTCAAAAGAGCTTACTGTTTATCAGCTCA
1 GAGCTTACCG-ATTCAGCTCAATAGAGCTTACTG-TT-TCAGCTCA
76584929 GAAGGAGTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
45 19 0.26
46 45 0.61
47 2 0.03
48 1 0.01
49 7 0.09
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (46 bp):
GAGCTTACCGATTCAGCTCAATAGAGCTTACTGTTTCAGCTCAATA
Found at i:76585163 original size:20 final size:21
Alignment explanation
Indices: 76585138--76585212 Score: 75
Period size: 20 Copynumber: 3.7 Consensus size: 21
76585128 GTATTAATGG
76585138 ATGAATTACTGTTGAAT-TGA
1 ATGAATTACTGTTGAATATGA
* *
76585158 ATGAATTATTGTTG-ATATGT
1 ATGAATTACTGTTGAATATGA
* **
76585178 TTGAATTACTGTT-AATACAA
1 ATGAATTACTGTTGAATATGA
*
76585198 ATGAATTACTTTTGA
1 ATGAATTACTGTTGA
76585213 TACGGATAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 2 0.05
20 40 0.93
21 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (21 bp):
ATGAATTACTGTTGAATATGA
Found at i:76585201 original size:40 final size:40
Alignment explanation
Indices: 76585139--76585214 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
76585129 TATTAATGGA
**
76585139 TGAATTACTGTTGAATTGAATGAATTA-TTGTTGATATGTT
1 TGAATTACTGTTGAATCAAATGAATTACTT-TTGATATGTT
76585179 TGAATTACTGTT-AATACAAATGAATTACTTTTGATA
1 TGAATTACTGTTGAAT-CAAATGAATTACTTTTGATA
76585215 CGGATAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
39 3 0.09
40 27 0.84
41 2 0.06
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (40 bp):
TGAATTACTGTTGAATCAAATGAATTACTTTTGATATGTT
Found at i:76585260 original size:20 final size:20
Alignment explanation
Indices: 76585237--76585285 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
76585227 TGTTATTACT
*
76585237 GATGAATTACGGGTTATACG
1 GATGAATTACGAGTTATACG
* * *
76585257 GATGAACTACTAGTTATATG
1 GATGAATTACGAGTTATACG
*
76585277 AATGAATTA
1 GATGAATTA
76585286 TAGTTTATAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (20 bp):
GATGAATTACGAGTTATACG
Found at i:76587925 original size:6 final size:7
Alignment explanation
Indices: 76587895--76587928 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
76587885 ACTTAAAAAA
76587895 TTTAATT
1 TTTAATT
*
76587902 TATTATTT
1 T-TTAATT
76587910 TTTAATT
1 TTTAATT
76587917 TTTAATT
1 TTTAATT
76587924 TTTAA
1 TTTAA
76587929 AAATCTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTAATT
Found at i:76588491 original size:40 final size:40
Alignment explanation
Indices: 76588429--76588506 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
76588419 CTCTTTTTCT
* * *
76588429 GCAAATCACATTCCTCTTTTTCTCTCTTTCTCTGGCAAAG
1 GCAAATCACATTCATCTCTTTCTCTCTTTCTCAGGCAAAG
*
76588469 GCAAATCTCATTCATCTCTTTCTCTCTTTCTCAGGCAA
1 GCAAATCACATTCATCTCTTTCTCTCTTTCTCAGGCAA
76588507 CTCTCATTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.21, C:0.31, G:0.09, T:0.40
Consensus pattern (40 bp):
GCAAATCACATTCATCTCTTTCTCTCTTTCTCAGGCAAAG
Found at i:76589501 original size:25 final size:25
Alignment explanation
Indices: 76589456--76589503 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
76589446 GCTTCGTCTA
**
76589456 TCTTGATTTGTTCATTTTTTTTTTT
1 TCTTGATTTGTTCATACTTTTTTTT
76589481 TCTTGATTTGTTTCA-ACTTTTTT
1 TCTTGATTTG-TTCATACTTTTTT
76589504 CAACCATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.10, C:0.10, G:0.08, T:0.71
Consensus pattern (25 bp):
TCTTGATTTGTTCATACTTTTTTTT
Found at i:76593161 original size:32 final size:31
Alignment explanation
Indices: 76593124--76593207 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 31
76593114 TTGAAAATTT
*
76593124 AATTTGTTGGATTTTGAAATTATTATGTCTTG
1 AATTTGTTGGATATTGAAATTATTATGT-TTG
** * *
76593156 AATTTGTTACATATTGAATTTATTATGTTTT
1 AATTTGTTGGATATTGAAATTATTATGTTTG
*
76593187 AAGCTTGTTGGATATTGAAAT
1 AA-TTTGTTGGATATTGAAAT
76593208 GATTGACAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 4 0.10
32 38 0.90
ACGTcount: A:0.29, C:0.04, G:0.17, T:0.51
Consensus pattern (31 bp):
AATTTGTTGGATATTGAAATTATTATGTTTG
Found at i:76595286 original size:20 final size:19
Alignment explanation
Indices: 76595256--76595320 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
76595246 GTTTCAAGTT
76595256 TTTTATTTTTAATTAATAAA
1 TTTT-TTTTTAATTAATAAA
*
76595276 TATTTTTTTTAATT--TTAA
1 T-TTTTTTTTAATTAATAAA
76595294 TTTATCTTTTTAATTAATAAA
1 TTT-T-TTTTTAATTAATAAA
76595315 TCTTTT
1 T-TTTT
76595321 ATTCATAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
17 2 0.05
18 5 0.14
19 9 0.24
20 11 0.30
21 8 0.22
22 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTTTTTAATTAATAAA
Found at i:76596664 original size:24 final size:24
Alignment explanation
Indices: 76596633--76596692 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
76596623 TATTTAAATA
76596633 ATTT-AATATAATAAAAAAATAAT
1 ATTTAAATATAATAAAAAAATAAT
** * *
76596656 ATTTAAATATTTTAAAATAATGAT
1 ATTTAAATATAATAAAAAAATAAT
*
76596680 ATATAAAATATAA
1 AT-TTAAATATAA
76596693 ATTAATCTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 4 0.14
24 17 0.61
25 7 0.25
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
ATTTAAATATAATAAAAAAATAAT
Found at i:76599260 original size:23 final size:23
Alignment explanation
Indices: 76599230--76599275 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
76599220 AAAGCAAGGA
76599230 GATAATACACTGTGTACTAGATT
1 GATAATACACTGTGTACTAGATT
76599253 GATAATACACTGTGTACTAGATT
1 GATAATACACTGTGTACTAGATT
76599276 CTACTGCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (23 bp):
GATAATACACTGTGTACTAGATT
Found at i:76606715 original size:48 final size:48
Alignment explanation
Indices: 76606644--76606742 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
76606634 GTTCGACATC
76606644 CATCCATGCTTATTTCTGACCCCATATTGCCAAATATGGGTAATATTT
1 CATCCATGCTTATTTCTGACCCCATATTGCCAAATATGGGTAATATTT
76606692 CATCCATGCTTATTTCTGACCCCATATTGCCAAATATGGGTAATATTT
1 CATCCATGCTTATTTCTGACCCCATATTGCCAAATATGGGTAATATTT
76606740 CAT
1 CAT
76606743 ACTTCTATCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.37
Consensus pattern (48 bp):
CATCCATGCTTATTTCTGACCCCATATTGCCAAATATGGGTAATATTT
Found at i:76610157 original size:22 final size:22
Alignment explanation
Indices: 76610129--76610176 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
76610119 TTTAATCTTC
76610129 TTTTAAATTTTAAAATTTTATT
1 TTTTAAATTTTAAAATTTTATT
*
76610151 TTTTAAATTTTTAAATTTTATT
1 TTTTAAATTTTAAAATTTTATT
76610173 TTTT
1 TTTT
76610177 GTTCTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTAAATTTTAAAATTTTATT
Found at i:76610169 original size:15 final size:15
Alignment explanation
Indices: 76610129--76610170 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
76610119 TTTAATCTTC
76610129 TTTTAAATTTTAAAA
1 TTTTAAATTTTAAAA
** *
76610144 TTTTATTTTTTAAAT
1 TTTTAAATTTTAAAA
76610159 TTTTAAATTTTA
1 TTTTAAATTTTA
76610171 TTTTTTGTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTAAATTTTAAAA
Found at i:76615235 original size:12 final size:13
Alignment explanation
Indices: 76615218--76615246 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
76615208 AGAAAAGAAT
76615218 GAAAAC-AAAAAA
1 GAAAACAAAAAAA
76615230 GAAAACAAAAAAA
1 GAAAACAAAAAAA
76615243 GAAA
1 GAAA
76615247 GTTAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (13 bp):
GAAAACAAAAAAA
Found at i:76617829 original size:3 final size:3
Alignment explanation
Indices: 76617823--76617961 Score: 113
Period size: 3 Copynumber: 47.3 Consensus size: 3
76617813 CAAAAAAAAT
* * * *
76617823 ATA ATA ATG ATA ATA ATA ATA ATA AT- GTA AT- ACA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
76617869 ATA ACA AAA ATA GTA ATA ATA ATG GTA ATA AAA ATA ATA GTA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
76617917 ATA ATA ATA A-A AGA GTA ATA ATA ATA ATA TTA ATA ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
76617962 AATTAATTAA
Statistics
Matches: 103, Mismatches: 30, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
2 4 0.04
3 99 0.96
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:76617966 original size:18 final size:18
Alignment explanation
Indices: 76617932--76617968 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
76617922 AATAAAAGAG
* *
76617932 TAATAATAATAATATTAA
1 TAATAAAAATAAAATTAA
76617950 TAATAAAAATAAAATTAA
1 TAATAAAAATAAAATTAA
76617968 T
1 T
76617969 TAATTTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAATAAAAATAAAATTAA
Found at i:76640522 original size:24 final size:26
Alignment explanation
Indices: 76640490--76640538 Score: 75
Period size: 24 Copynumber: 1.9 Consensus size: 26
76640480 AATTCATGCA
76640490 ATATTAAAGC-ATTTAAC-TACAACT
1 ATATTAAAGCTATTTAACATACAACT
76640514 ATATTAAAGCTTATTTAACATACAA
1 ATATTAAAGC-TATTTAACATACAA
76640539 ACTTACCTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
26 7 0.32
27 5 0.23
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.35
Consensus pattern (26 bp):
ATATTAAAGCTATTTAACATACAACT
Found at i:76642437 original size:19 final size:20
Alignment explanation
Indices: 76642415--76642508 Score: 88
Period size: 20 Copynumber: 4.6 Consensus size: 20
76642405 AAAATTACAA
76642415 AAAAATTAAAATA-ATTTTT
1 AAAAATTAAAATATATTTTT
76642434 AAAAATTGAAAATA-ATTTTT
1 AAAAATT-AAAATATATTTTT
*
76642454 -AAAATTAAAA-ATATTTAT
1 AAAAATTAAAATATATTTTT
*
76642472 AGAAATTCTAAAATTTATATTTTT
1 A-AAAAT-TAAAA--TATATTTTT
76642496 AAAAATTATAAAT
1 AAAAATTA-AAAT
76642509 TTTAAAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
17 1 0.02
18 9 0.15
19 13 0.21
20 16 0.26
21 6 0.10
22 2 0.03
23 7 0.11
24 8 0.13
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAAATTAAAATATATTTTT
Found at i:76642501 original size:24 final size:24
Alignment explanation
Indices: 76642464--76642512 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
76642454 AAAATTAAAA
* *
76642464 ATATTTATAGAAATTCTAAAATTT
1 ATATTTATAAAAATTATAAAATTT
* *
76642488 ATATTTTTAAAAATTATAAATTTT
1 ATATTTATAAAAATTATAAAATTT
76642512 A
1 A
76642513 AAAAAATCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
ATATTTATAAAAATTATAAAATTT
Found at i:76642504 original size:15 final size:16
Alignment explanation
Indices: 76642474--76642516 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
76642464 ATATTTATAG
* *
76642474 AAATTCTAAAATTTAT
1 AAATTTTAAAAATTAT
*
76642490 -ATTTTTAAAAATTAT
1 AAATTTTAAAAATTAT
76642505 AAATTTTAAAAA
1 AAATTTTAAAAA
76642517 AATCTAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATTTTAAAAATTAT
Found at i:76642527 original size:19 final size:19
Alignment explanation
Indices: 76642496--76642541 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
76642486 TTATATTTTT
* *
76642496 AAAAATTATAAAT-TTTAA
1 AAAAATTAAAAATATATAA
76642514 AAAAATCTAAAAATATAT-A
1 AAAAAT-TAAAAATATATAA
76642533 AAAAATTAA
1 AAAAATTAA
76642542 TAAAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 9 0.38
19 13 0.54
20 2 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAATTAAAAATATATAA
Found at i:76642527 original size:42 final size:42
Alignment explanation
Indices: 76642416--76642532 Score: 104
Period size: 42 Copynumber: 2.9 Consensus size: 42
76642406 AAATTACAAA
* *
76642416 AAAATT-AAAATAATTT-TTAAAAAT-TGAAA-ATA-ATTTTT
1 AAAATTAAAAAT-ATTTATAAAAAATCTAAAATATATATTTTT
* * *
76642454 AAAATTAAAAATATTTATAGAAATTCTAAAATTTATATTTTT
1 AAAATTAAAAATATTTATAAAAAATCTAAAATATATATTTTT
*
76642496 AAAAATTATAAAT-TTTA-AAAAAATCTAAAAATATATA
1 -AAAATTAAAAATATTTATAAAAAATCT-AAAATATATA
76642533 AAAAATTAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
38 10 0.16
39 10 0.16
40 4 0.06
41 9 0.14
42 19 0.30
43 11 0.17
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (42 bp):
AAAATTAAAAATATTTATAAAAAATCTAAAATATATATTTTT
Found at i:76645116 original size:14 final size:15
Alignment explanation
Indices: 76645092--76645120 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
76645082 AAGAATTTGG
76645092 ATTTTTAATCCAAAT
1 ATTTTTAATCCAAAT
76645107 ATTTTT-ATCCAAAT
1 ATTTTTAATCCAAAT
76645121 CATGGTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTTTAATCCAAAT
Found at i:76646597 original size:15 final size:15
Alignment explanation
Indices: 76646577--76646610 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
76646567 ATATTTATAA
*
76646577 ATTTTTCTAACATAT
1 ATTTTTATAACATAT
*
76646592 ATTTTTATAATATAT
1 ATTTTTATAACATAT
76646607 ATTT
1 ATTT
76646611 CTAATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTTATAACATAT
Found at i:76646606 original size:13 final size:13
Alignment explanation
Indices: 76646588--76646621 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
76646578 TTTTTCTAAC
*
76646588 ATATATTTTTATA
1 ATATATATTTATA
*
76646601 ATATATATTTCTA
1 ATATATATTTATA
76646614 ATATATAT
1 ATATATAT
76646622 AAATTTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATATATTTATA
Found at i:76646771 original size:10 final size:11
Alignment explanation
Indices: 76646747--76646779 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
76646737 TTGATATTTT
*
76646747 ATAAAATAAAA
1 ATAAAATATAA
76646758 ATAAAA-ATAA
1 ATAAAATATAA
76646768 ATAAAATATAA
1 ATAAAATATAA
76646779 A
1 A
76646780 ATTACTATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
ATAAAATATAA
Found at i:76647263 original size:19 final size:17
Alignment explanation
Indices: 76647220--76647264 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
76647210 ATAAGAGTTG
76647220 ATATTTAAGTAAGAATT
1 ATATTTAAGTAAGAATT
*
76647237 ATACTTTACAGTAATGATTT
1 ATA-TTTA-AGTAA-GAATT
76647257 ATATTTAA
1 ATATTTAA
76647265 TACATTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 3 0.12
18 5 0.21
19 9 0.38
20 7 0.29
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (17 bp):
ATATTTAAGTAAGAATT
Found at i:76654759 original size:6 final size:6
Alignment explanation
Indices: 76654731--76654827 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
76654721 AAGAAACATT
* * *
76654731 ATCAGA A-CTAGA ATCAAA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
76654780 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
76654828 GTAATAGAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
5 4 0.06
6 60 0.83
7 6 0.08
8 2 0.03
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:76654783 original size:31 final size:31
Alignment explanation
Indices: 76654740--76654850 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
76654730 TATCAGAACT
* *
76654740 AGAATCAAAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
* *
76654771 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
* *
76654802 AGAATCAAAATCAGAATCAGTATCAGGTAAT
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
*
76654833 AGAATAAAAAATCAGAAT
1 AGAAT-CAAAATCAGAAT
76654851 GTAAATGCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
31 61 0.85
32 11 0.15
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:76655029 original size:27 final size:26
Alignment explanation
Indices: 76654987--76655088 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
76654977 GCTTAGTTAT
* *
76654987 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
76655014 TAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
76655040 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
76655068 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
76655089 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.09
27 52 0.79
28 8 0.12
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:76655275 original size:22 final size:22
Alignment explanation
Indices: 76655247--76655310 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
76655237 GCAAATACGT
*
76655247 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
76655269 TTGGCACAGAGTCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
76655291 TTGACACAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
76655311 AAAGGCTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:76655792 original size:27 final size:27
Alignment explanation
Indices: 76655756--76655897 Score: 180
Period size: 27 Copynumber: 5.3 Consensus size: 27
76655746 TACTCCACAA
* *
76655756 GGTATCTCGGTAATTCCACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
76655783 GGTATTTCGGTAATTCTACCCTAAAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
76655810 GGTA-TTCTGGTAATTCTACCCTATAGG
1 GGTATTTC-GGTAATTCTACCCTACAGG
* *
76655837 GGTATTTCAGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
76655864 GGTATTTCGAG-ATTTCTACCCTACAAG
1 GGTATTTCG-GTAATTCTACCCTACAGG
76655891 GGTATTT
1 GGTATTT
76655898 TAGTAATTTT
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
26 3 0.03
27 96 0.93
28 4 0.04
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:76655865 original size:81 final size:81
Alignment explanation
Indices: 76655756--76655905 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 81
76655746 TACTCCACAA
* *
76655756 GGTATCTCGGTAATTCCACCCTACAGGGGTATTTCG-GTAATTCTACCCTA-AAGGGGTATTCTG
1 GGTATCTCAGTAATTCCACCCTACAGGGGTATTTCGAG-AATTCTACCCTACAA-GGGTATTCTA
76655819 GTAATTCTACCCTATAGG
64 GTAATTCTACCCTATAGG
* * * * *
76655837 GGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGAGATTTCTACCCTACAAGGGTATTTTAGT
1 GGTATCTCAGTAATTCCACCCTACAGGGGTATTTCGAGAATTCTACCCTACAAGGGTATTCTAGT
76655902 AATT
66 AATT
76655906 TTGTAAATCG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
81 57 0.95
82 3 0.05
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (81 bp):
GGTATCTCAGTAATTCCACCCTACAGGGGTATTTCGAGAATTCTACCCTACAAGGGTATTCTAGT
AATTCTACCCTATAGG
Found at i:76655930 original size:27 final size:27
Alignment explanation
Indices: 76655900--76655975 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
76655890 GGGTATTTTA
76655900 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTTTGTAAATCGAGGGTAAAATG
* * ***
76655927 GTAATTCTGTAAATCAAGGGTACTTTG
1 GTAATTTTGTAAATCGAGGGTAAAATG
** *
76655954 GTAATTTTACAAGTCGAGGGTA
1 GTAATTTTGTAAATCGAGGGTA
76655976 TTTCAATAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (27 bp):
GTAATTTTGTAAATCGAGGGTAAAATG
Found at i:76655985 original size:27 final size:27
Alignment explanation
Indices: 76655955--76656073 Score: 107
Period size: 27 Copynumber: 4.4 Consensus size: 27
76655945 GGTACTTTGG
76655955 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* *
76655982 TAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTTTACAAGTCGAGGGTATTTCAA
* * * ***
76656009 TAATTTCACAAAT-TAGGGATATTTTGG
1 TAATTTTACAAGTCGAGGG-TATTTCAA
* **
76656036 TAATTTTACAA-ACGAGGGGTATTTTGA
1 TAATTTTACAAGTCGA-GGGTATTTCAA
76656063 TAATTTTACAA
1 TAATTTTACAA
76656074 ACCAGGGGTA
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 4 0.05
27 70 0.91
28 3 0.04
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:76657209 original size:27 final size:27
Alignment explanation
Indices: 76655998--76657202 Score: 2108
Period size: 27 Copynumber: 44.6 Consensus size: 27
76655988 TACAGGTCGA
** * **
76655998 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
76656025 GGATATTTTGGTAATTTTACAAACGAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
76656052 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656079 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
76656106 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
76656133 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656160 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656187 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656214 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656241 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656268 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656295 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656322 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656349 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656376 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656403 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656430 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656457 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656484 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656511 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656538 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656565 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656592 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656619 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656646 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656673 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656700 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656727 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656754 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656781 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656808 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656835 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656862 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
76656889 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
76656916 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
76656943 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
76656970 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
76656997 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
76657024 GGGTATTTTGGTGATTTTATAAACC-G
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
76657050 ATGGTATTTTAGTAATTTTACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACCAG
** *
76657078 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
76657105 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
76657132 GGGTATTTTGGTGATTTTATAAACC-G
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
76657158 ATGGTATTTTAGTAATTTTACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACCAG
76657186 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
76657203 GGTAAACTAA
Statistics
Matches: 1120, Mismatches: 54, Indels: 8
0.95 0.05 0.01
Matches are distributed among these distances:
26 2 0.00
27 1116 1.00
28 2 0.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:76664243 original size:19 final size:19
Alignment explanation
Indices: 76664219--76664256 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
76664209 TTAGTTTCGG
76664219 CTAGTTGAGATGGCACTAA
1 CTAGTTGAGATGGCACTAA
76664238 CTAGTTGAGATGGCACTAA
1 CTAGTTGAGATGGCACTAA
76664257 GTGTGCGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (19 bp):
CTAGTTGAGATGGCACTAA
Found at i:76671931 original size:40 final size:40
Alignment explanation
Indices: 76671873--76672019 Score: 249
Period size: 40 Copynumber: 3.7 Consensus size: 40
76671863 AGCATTGGAT
76671873 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
** *
76671913 TATATCCGGGCTGTGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
76671953 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
76671993 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
76672020 ATGTGTTTGC
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:76678440 original size:53 final size:53
Alignment explanation
Indices: 76678377--76678481 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
76678367 TCTAAATACA
*
76678377 TAAGGGGAATGAAACCTAAGATGAATCTTGTTATTATTTTCTGAATTGTATGC
1 TAAGGGGAATGAAACCTAAAATGAATCTTGTTATTATTTTCTGAATTGTATGC
76678430 TAAGGGGAATGAAACCTAAAATGAATCTTGTTATTATTTTCTGAATTGTATG
1 TAAGGGGAATGAAACCTAAAATGAATCTTGTTATTATTTTCTGAATTGTATG
76678482 ATAAATATTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (53 bp):
TAAGGGGAATGAAACCTAAAATGAATCTTGTTATTATTTTCTGAATTGTATGC
Found at i:76693082 original size:46 final size:46
Alignment explanation
Indices: 76693029--76693239 Score: 187
Period size: 46 Copynumber: 4.5 Consensus size: 46
76693019 ATTGTTGGCT
* *
76693029 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGACGAGAGCC
* * *
76693075 AGTGTAAGGCCATGTCTGGGACATGGCATCGG-CA-TTGAGACGAGAGCT
1 AGTGTAA-GACATGTCTGGGACAT-GCATCGGCCACAT--GACGAGAGCC
* * * *
76693123 AGTATAAGACATGTCTGGGGCATGCATCGGGCTCGA-GACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGACG-AGAGCC
* * * * *
76693169 AGTGTAAGACATGTCTGGGACATGCGTCGGCTACATGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGACGAGAGCC
* *
76693215 AATGTAAGAACATGTCTAGGACATG
1 AGTGTAAG-ACATGTCTGGGACATG
76693240 GCATTGACTT
Statistics
Matches: 133, Mismatches: 21, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
45 2 0.02
46 63 0.47
47 48 0.36
48 20 0.15
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGACGAGAGCC
Found at i:76701672 original size:45 final size:45
Alignment explanation
Indices: 76701555--76701660 Score: 176
Period size: 45 Copynumber: 2.3 Consensus size: 45
76701545 AACATATCTT
* *
76701555 AGCTATGGTCTTACTCATTTTAATTCATGTTGCCATAGTGTCTTTC
1 AGCTATGGTCTTACTCATTTTAA-TCATGTTGCCATAGCGTCTTCC
*
76701601 AACTATGGTCTTACTCATTTTAATCATGTTGCCATAGCGTCTTCC
1 AGCTATGGTCTTACTCATTTTAATCATGTTGCCATAGCGTCTTCC
76701646 AGCTATGGTCTTACT
1 AGCTATGGTCTTACT
76701661 TGTGTTAATC
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
45 34 0.61
46 22 0.39
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (45 bp):
AGCTATGGTCTTACTCATTTTAATCATGTTGCCATAGCGTCTTCC
Found at i:76718665 original size:46 final size:46
Alignment explanation
Indices: 76718611--76718786 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
76718601 TGGTTGAGCA
*
76718611 TCCGAACTCGTGGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
76718657 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
76718702 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
76718750 -CCGGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
76718787 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 60 0.57
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:76718767 original size:93 final size:93
Alignment explanation
Indices: 76718608--76718778 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
76718598 GGATGGTTGA
*
76718608 GCATCCGAACTCGTGGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTGGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAACTCGTTGAGT
76718673 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * *
76718701 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCGGAGCTCGTTGAG
1 GCATCCGAACTCGTGGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-AAACTCGTTGAG
76718765 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
76718779 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTGGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:76719044 original size:19 final size:20
Alignment explanation
Indices: 76719007--76719044 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
76718997 ATAAGGTGGT
76719007 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
76719027 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
76719045 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:76726247 original size:46 final size:46
Alignment explanation
Indices: 76726197--76726369 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
76726187 TGGTTGAGCA
76726197 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
76726243 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
76726288 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
76726336 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
76726370 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:76726353 original size:93 final size:93
Alignment explanation
Indices: 76726194--76726364 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
76726184 GGATGGTTGA
* *
76726194 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
76726259 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
76726287 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
76726352 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
76726365 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:76733836 original size:46 final size:46
Alignment explanation
Indices: 76733786--76733958 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
76733776 TGGTTGAGCA
76733786 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
76733832 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
76733877 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
76733925 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
76733959 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:76733942 original size:93 final size:93
Alignment explanation
Indices: 76733783--76733953 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
76733773 GGATGGTTGA
* *
76733783 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
76733848 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
76733876 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
76733941 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
76733954 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:76734219 original size:19 final size:20
Alignment explanation
Indices: 76734182--76734219 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
76734172 ATAAGGTGGT
76734182 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
76734202 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
76734220 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:76742600 original size:49 final size:49
Alignment explanation
Indices: 76742446--76742716 Score: 175
Period size: 49 Copynumber: 5.6 Consensus size: 49
76742436 GGTGGTATGT
* * * * *
76742446 GAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCATTG--AGACGA
1 GAGCCAGTGTAAGACCTATCTGGGACATGGCATCGACATCGATAGATGA
* * * * * * *
76742492 GAGCTAGTGTAAGGCATGTCTGGGACAT-GCATC-AGCCTCGGGATATA-CA
1 GAGCCAGTGTAAGACCTATCTGGGACATGGCATCGA-CATC--GATAGATGA
*
76742541 -AGCTAGTGTAAGACCTATCTGGGACATGGCATCGACATCGATAGATGA
1 GAGCCAGTGTAAGACCTATCTGGGACATGGCATCGACATCGATAGATGA
* * *
76742589 GAGCCAGTGTAAGACCTATCTGGGACATGGCATC-AGCCTCAATATATGA
1 GAGCCAGTGTAAGACCTATCTGGGACATGGCATCGA-CATCGATAGATGA
* * * * * * * * ** *
76742638 AAGTCAGTGTAAGACTTGTCTAGGACACGACATCGACTTTAAT-G-TGC
1 GAGCCAGTGTAAGACCTATCTGGGACATGGCATCGACATCGATAGATGA
*
76742685 TAGCCAGTGTAAGACCATATCTGGGACATGGC
1 GAGCCAGTGTAAGACC-TATCTGGGACATGGC
76742717 GTCGCCATTT
Statistics
Matches: 178, Mismatches: 35, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
46 33 0.19
47 20 0.11
48 38 0.21
49 83 0.47
50 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCTATCTGGGACATGGCATCGACATCGATAGATGA
Done.