Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 73 of 284
Found at i:25054978 original size:250 final size:248
Alignment explanation
Indices: 25054682--25055134 Score: 683
Period size: 250 Copynumber: 1.8 Consensus size: 248
25054672 TCTGCTATAC
* *
25054682 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCATCTTCGATCTACTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACCGCTTAGGGGATTAAGGCGCATCTTCGATCTACTCCACTACTGCTTA
* * *
25054747 GGAAGATAAGATCTGCAAATTTAACTTATTACCCTACTGCTTAGTGGATTAAGGCAAGTCGCCGT
66 GGAAGATAAGATCTGCAAATTTAACCTATTACCCTACTGCTTAGGGGATTAAGGCAAAT---CGT
** *
25054812 CGATCTGCTCCGTTACTGCTTAGGGAGATAAGATCTGC-GAACCTGTTACCCTACTGTTTAGGGG
128 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAGAACCTGTTACCCTACTGCTTAGGGG
25054876 ATTAAGGTGAGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAA
193 ATTAAGGTGAGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAA
** * *
25054932 TTTAACCTGTTACCCTACCGCTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCTACTACTGCTTA
1 TTTAACCTGTTACCCTACCGCTTAGGGGATTAAGGCGCATCTTCGATCTACTCCACTACTGCTTA
* * *
25054997 GGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCAAATCTTCGA
66 GGAAGATAAGATCTGCAAATTTAACCTATTACCCTACTGCTTAGGGGATTAAGGCAAATCGTCGA
* *
25055062 TCTGCTCCACTACTGTTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGG
131 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGC--A--GAACCTGTTACCCTACTGCTTAGGG
25055127 GATTAAGG
192 GATTAAGG
25055135 CGCTGAATTT
Statistics
Matches: 181, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
247 37 0.20
250 113 0.62
252 31 0.17
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (248 bp):
TTTAACCTGTTACCCTACCGCTTAGGGGATTAAGGCGCATCTTCGATCTACTCCACTACTGCTTA
GGAAGATAAGATCTGCAAATTTAACCTATTACCCTACTGCTTAGGGGATTAAGGCAAATCGTCGA
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAGAACCTGTTACCCTACTGCTTAGGGGATT
AAGGTGAGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAA
Found at i:25055037 original size:43 final size:43
Alignment explanation
Indices: 25054903--25055126 Score: 173
Period size: 43 Copynumber: 5.3 Consensus size: 43
25054893 ATCTGCTCCA
* *
25054903 CTACTACTTAGGGAGATAAGATCTACAAATTTAACCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
* * **** ** *
25054946 CTACCGCTTAGGG-GATTAAG-GC-GGGTCTTCGATCTGCTCTA--
1 CTACTGCTTAGGGAGA-TAAGATCTGCAAATTTAACCTG-T-TACC
25054987 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
* * *
25055030 CTACTGCTTAGGG-GATTAAG----GCAAATCTTCGATCTGCT-CC
1 CTACTGCTTAGGGAGA-TAAGATCTGCAAAT-TT-AACCTGTTACC
*
25055070 ACTACTGTTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
25055114 CTACTGCTTAGGG
1 CTACTGCTTAGGG
25055127 GATTAAGGCG
Statistics
Matches: 135, Mismatches: 28, Indels: 36
0.68 0.14 0.18
Matches are distributed among these distances:
39 6 0.04
40 4 0.03
41 45 0.33
42 12 0.09
43 58 0.43
44 4 0.03
45 6 0.04
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
Found at i:25056109 original size:21 final size:21
Alignment explanation
Indices: 25056085--25056143 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
25056075 GGCCTCTCCA
25056085 TTTTTCTTTTTTCTTTTTATT
1 TTTTTCTTTTTTCTTTTTATT
*
25056106 TTTTTCTCTTTTTC-TTTTCTT
1 TTTTTCT-TTTTTCTTTTTATT
*
25056127 TTTTCCTTTTTT-TTTTT
1 TTTTTCTTTTTTCTTTTT
25056144 GAAATAGAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 9 0.26
21 19 0.56
22 6 0.18
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTCTTTTTTCTTTTTATT
Found at i:25056130 original size:13 final size:13
Alignment explanation
Indices: 25056093--25056143 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
25056083 CATTTTTCTT
*
25056093 TTTTCTTTTTATTT
1 TTTTCTTTTT-TTC
*
25056107 TTTTCTCTTTTTC
1 TTTTCTTTTTTTC
*
25056120 TTTTCTTTTTTCC
1 TTTTCTTTTTTTC
25056133 TTTT-TTTTTTT
1 TTTTCTTTTTTT
25056144 GAAATAGAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
12 6 0.19
13 17 0.53
14 9 0.28
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:25061782 original size:21 final size:22
Alignment explanation
Indices: 25061749--25061795 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
25061739 TACAAATTAA
25061749 ATCTCCAAGAATT-CAAGATCAT
1 ATCTCCAAGAATTGC-AGATCAT
* *
25061771 ATCTTCAA-AATTGCATATCAT
1 ATCTCCAAGAATTGCAGATCAT
25061792 ATCT
1 ATCT
25061796 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.34
Consensus pattern (22 bp):
ATCTCCAAGAATTGCAGATCAT
Found at i:25061808 original size:14 final size:14
Alignment explanation
Indices: 25061789--25061839 Score: 75
Period size: 14 Copynumber: 3.4 Consensus size: 14
25061779 AATTGCATAT
25061789 CATATCTAAGATTG
1 CATATCTAAGATTG
25061803 CATATCTAAGATTG
1 CATATCTAAGATTG
25061817 TATCATATCTAAGATTG
1 ---CATATCTAAGATTG
25061834 CATATC
1 CATATC
25061840 CTTAAAGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
14 20 0.59
17 14 0.41
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (14 bp):
CATATCTAAGATTG
Found at i:25063631 original size:43 final size:42
Alignment explanation
Indices: 25063557--25063662 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 42
25063547 TTCGTGCAAT
* * * ** *
25063557 ACCATATCTGGGATATGGCATCGATATGAGATTTCATTTAAG
1 ACCATAGCTGGGATATGGCATCAATACGAGATCCCATGTAAG
* *
25063599 ACCTTAGCTGGGCTATTGGCATCAATACGAGATCCCATGTAAG
1 ACCATAGCTGGGATA-TGGCATCAATACGAGATCCCATGTAAG
*
25063642 ACCATATCTGGGATATGGCAT
1 ACCATAGCTGGGATATGGCAT
25063663 TGGTGTGGTA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 18 0.35
43 34 0.65
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (42 bp):
ACCATAGCTGGGATATGGCATCAATACGAGATCCCATGTAAG
Found at i:25069350 original size:21 final size:20
Alignment explanation
Indices: 25069324--25069363 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
25069314 AAAGGTTAAA
*
25069324 TAAGTAAATTAATAATAAACT
1 TAAGTAAAATAATAA-AAACT
25069345 TAAGTAAAATAATAAAAAC
1 TAAGTAAAATAATAAAAAC
25069364 AATGTATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (20 bp):
TAAGTAAAATAATAAAAACT
Found at i:25069693 original size:28 final size:28
Alignment explanation
Indices: 25069656--25069717 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
25069646 AGATTTTTGT
25069656 TAAAATTGTAAATTAGG-GGTTAAATTG
1 TAAAATTGTAAATTAGGTGGTTAAATTG
*
25069683 TAAAATGTGTAAATTTGGTGGTTAAATTG
1 TAAAAT-TGTAAATTAGGTGGTTAAATTG
*
25069712 TGAAAT
1 TAAAAT
25069718 AAATGAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 6 0.19
28 10 0.32
29 15 0.48
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (28 bp):
TAAAATTGTAAATTAGGTGGTTAAATTG
Found at i:25073985 original size:93 final size:93
Alignment explanation
Indices: 25073874--25074044 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
25073864 GCCCCTAAGT
* * *
25073874 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
25073939 CGAGTTCAGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* *
25073967 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
25074032 CGAGTTCGGATGC
66 CGAGTTCAGATGC
25074045 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:25074034 original size:46 final size:46
Alignment explanation
Indices: 25073869--25074041 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
25073859 AACCCGCCCC
* * * *
25073869 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
25073915 TAAATGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC-A-TTCGCATCCA
* *
25073963 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
25074008 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25074042 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 2 0.02
46 58 0.55
47 27 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:25080135 original size:33 final size:33
Alignment explanation
Indices: 25080098--25080160 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
25080088 CAAAATTTCT
25080098 AAATCTCTAATGGATACCAAAATTTGTAACCAA
1 AAATCTCTAATGGATACCAAAATTTGTAACCAA
25080131 AAATCTCTAATGGATACCAAAATTTGTAAC
1 AAATCTCTAATGGATACCAAAATTTGTAAC
25080161 GAAATATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (33 bp):
AAATCTCTAATGGATACCAAAATTTGTAACCAA
Found at i:25080202 original size:19 final size:19
Alignment explanation
Indices: 25080148--25080219 Score: 63
Period size: 20 Copynumber: 3.7 Consensus size: 19
25080138 TAATGGATAC
*
25080148 CAAAATTTGTAACGAAATAT
1 CAAAATTTCTAAC-AAATAT
*
25080168 CAAAATCTCTTAACAAATAT
1 CAAAATTTC-TAACAAATAT
** * *
25080188 TGAAATTTCTAACAAACAC
1 CAAAATTTCTAACAAATAT
*
25080207 CAAATTTTCTAAC
1 CAAAATTTCTAAC
25080220 CGAATGTCAA
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
19 18 0.44
20 19 0.46
21 4 0.10
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (19 bp):
CAAAATTTCTAACAAATAT
Found at i:25082543 original size:128 final size:128
Alignment explanation
Indices: 25082368--25082612 Score: 393
Period size: 128 Copynumber: 1.9 Consensus size: 128
25082358 GACCAGGACC
* * *
25082368 TTTAGCGGCGCTTTTTATAAAAGCGCCGGTAAAGACCAGGACCTTTAGCGGCGCTTTTTTAAAAA
1 TTTAGCGGCGCTTTTTATAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTGTAAAAA
25082433 ACACCGCTATAGACCAAGAACTTTAGCGGCGCTTTTATAAAAAACGCCGCTATAGACCTTACT
66 ACACCGCTATAGACCAAGAACTTTAGCGGCGCTTTTATAAAAAACGCCGCTATAGACCTTACT
* * * * *
25082496 TTTAGCGGCGC-TTTTATAAAAAACGCCGCTATAGACCTGTACTTTTAGTGGCGCTTTTGTAAAA
1 TTTAGCGGCGCTTTTTAT-AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTGTAAAA
*
25082560 AACGCCGCTATAGACCAAGAACTTTAGCGGCGCTTTTATAAAAAACGCCGCTA
65 AACACCGCTATAGACCAAGAACTTTAGCGGCGCTTTTATAAAAAACGCCGCTA
25082613 ATTTGCCCAG
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
127 6 0.06
128 101 0.94
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (128 bp):
TTTAGCGGCGCTTTTTATAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTGTAAAAA
ACACCGCTATAGACCAAGAACTTTAGCGGCGCTTTTATAAAAAACGCCGCTATAGACCTTACT
Found at i:25082610 original size:43 final size:43
Alignment explanation
Indices: 25082314--25082612 Score: 338
Period size: 43 Copynumber: 7.0 Consensus size: 43
25082304 TTTCTTCTAA
* * * * * *
25082314 AGACCAGGACCTTTAGCGGC-ATTTTTTACAAAAGCGCCGGTAA
1 AGACCAGGAACTTTAGCGGCGCTTTTATA-AAAAACGCCGCTAT
* * * *
25082357 AGACCAGGACCTTTAGCGGCGCTTTT-TATAAAAGCGCCGGTAA
1 AGACCAGGAACTTTAGCGGCGCTTTTATA-AAAAACGCCGCTAT
* * *
25082400 AGACCAGGACCTTTAGCGGCGCTTTTTTAAAAAACACCGCTAT
1 AGACCAGGAACTTTAGCGGCGCTTTTATAAAAAACGCCGCTAT
*
25082443 AGACCAAGAACTTTAGCGGCGCTTTTATAAAAAACGCCGCTAT
1 AGACCAGGAACTTTAGCGGCGCTTTTATAAAAAACGCCGCTAT
**
25082486 AGACC--TTACTTTTAGCGGCGCTTTTATAAAAAACGCCGCTAT
1 AGACCAGGAAC-TTTAGCGGCGCTTTTATAAAAAACGCCGCTAT
* * * *
25082528 AGACC-TGTACTTTTAGTGGCGCTTTTGTAAAAAACGCCGCTAT
1 AGACCAGGAAC-TTTAGCGGCGCTTTTATAAAAAACGCCGCTAT
*
25082571 AGACCAAGAACTTTAGCGGCGCTTTTATAAAAAACGCCGCTA
1 AGACCAGGAACTTTAGCGGCGCTTTTATAAAAAACGCCGCTA
25082613 ATTTGCCCAG
Statistics
Matches: 232, Mismatches: 19, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
41 2 0.01
42 37 0.16
43 184 0.79
44 9 0.04
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.26
Consensus pattern (43 bp):
AGACCAGGAACTTTAGCGGCGCTTTTATAAAAAACGCCGCTAT
Found at i:25083524 original size:18 final size:18
Alignment explanation
Indices: 25083492--25083529 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
25083482 TACAATATAG
25083492 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
25083511 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
25083528 TA
1 TA
25083530 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:25089984 original size:21 final size:21
Alignment explanation
Indices: 25089960--25089999 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
25089950 AAATTAATTC
*
25089960 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
25089981 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
25090000 ATATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:25090602 original size:21 final size:21
Alignment explanation
Indices: 25090578--25090617 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
25090568 AAATTAATTC
*
25090578 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
25090599 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
25090618 ATATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:25095523 original size:10 final size:11
Alignment explanation
Indices: 25095502--25095552 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
25095492 ACTAAACCAC
25095502 TTTTCATATATA
1 TTTT-ATATATA
25095514 TATTTATATATA
1 T-TTTATATATA
*
25095526 TTTTAAAATAATA
1 TTTT-ATAT-ATA
25095539 TTTTATATATA
1 TTTTATATATA
25095550 TTT
1 TTT
25095553 ATCTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 10 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATATATA
Found at i:25095561 original size:15 final size:15
Alignment explanation
Indices: 25095541--25095572 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25095531 AAATAATATT
*
25095541 TTATATATATTTATC
1 TTATATACATTTATC
25095556 TTATATACATTTATC
1 TTATATACATTTATC
25095571 TT
1 TT
25095573 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:25096449 original size:14 final size:14
Alignment explanation
Indices: 25096430--25096469 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
25096420 ATTAAACCTG
* *
25096430 CTTAAACCATATAT
1 CTTAAACCATAAAC
25096444 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
25096458 CTTAAACTATAA
1 CTTAAACCATAA
25096470 TGATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:25096724 original size:40 final size:41
Alignment explanation
Indices: 25096631--25096845 Score: 330
Period size: 40 Copynumber: 5.3 Consensus size: 41
25096621 ATGGGATTTG
* *
25096631 TAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTCTGGTTTTT
1 TAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTGG-TTTT
*
25096673 TAGCGGCGTTTT-CCCAAAGCGCAGCTAATGCTCTGGTTTT
1 TAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTGGTTTT
25096713 TAGCGGCGTTTT-CCCAAAGCGCCGCTAATGCTCTGGTTTT
1 TAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTGGTTTT
*
25096753 TAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGG-TTT
1 TAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTGGTTTT
* * *
25096793 TAGCAGCGTTTTACCTAAAGCGCCGCTAATGCCCT-GTTTT
1 TAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTGGTTTT
25096833 TAGCGGCGTTTTA
1 TAGCGGCGTTTTA
25096846 GTAAAAAACG
Statistics
Matches: 162, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 1 0.01
40 105 0.65
41 44 0.27
42 12 0.07
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.33
Consensus pattern (41 bp):
TAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTGGTTTT
Found at i:25096773 original size:81 final size:81
Alignment explanation
Indices: 25096631--25096845 Score: 328
Period size: 81 Copynumber: 2.7 Consensus size: 81
25096621 ATGGGATTTG
*
25096631 TAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTCTGGTTTTTTAGCGGCGTTTT-CCCAAAGCGC
1 TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG-TTTTTAGCGGCGTTTTACCCAAAGCGC
25096695 AGCTAATGCTCTGGTTTT
65 AGCTAATGCTCTGG-TTT
* * *
25096713 TAGCGGCGTTTT-CCCAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCC
1 TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCCAAAGCGCA
25096777 GCTAATGCTCTGGTTT
66 GCTAATGCTCTGGTTT
* * *
25096793 TAGCAGCGTTTTACCTAAAGCGCCGCTAATGCCCT-GTTTTTAGCGGCGTTTTA
1 TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTA
25096846 GTAAAAAACG
Statistics
Matches: 124, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
80 48 0.39
81 64 0.52
82 12 0.10
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.33
Consensus pattern (81 bp):
TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCCAAAGCGCA
GCTAATGCTCTGGTTT
Found at i:25099718 original size:23 final size:24
Alignment explanation
Indices: 25099664--25099721 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
25099654 ATTAGTATTA
25099664 TTCGTGAACATGTTCAATTATATG
1 TTCGTGAACATGTTCAATTATATG
** **
25099688 TTTATGAACATGTTCGTTTA-ATG
1 TTCGTGAACATGTTCAATTATATG
25099711 TTCGTGAACAT
1 TTCGTGAACAT
25099722 TAAACAAACA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (24 bp):
TTCGTGAACATGTTCAATTATATG
Found at i:25100896 original size:26 final size:27
Alignment explanation
Indices: 25100867--25100945 Score: 63
Period size: 28 Copynumber: 2.9 Consensus size: 27
25100857 TGAGAGTACC
25100867 ATCA-AAATGAGAGTGTTTTGTAGTGT
1 ATCACAAATGAGAGTGTTTTGTAGTGT
** * *
25100893 ATCATCAAATGAGTTTTTTTTGTAGTGG
1 ATCA-CAAATGAGAGTGTTTTGTAGTGT
** *
25100921 ATTGCATATG-GAAGTGTTTTGTAGT
1 ATCACAAATGAG-AGTGTTTTGTAGT
25100946 TTAGAATCGA
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
26 5 0.12
27 15 0.38
28 20 0.50
ACGTcount: A:0.27, C:0.05, G:0.25, T:0.43
Consensus pattern (27 bp):
ATCACAAATGAGAGTGTTTTGTAGTGT
Found at i:25101375 original size:89 final size:89
Alignment explanation
Indices: 25101224--25101435 Score: 320
Period size: 89 Copynumber: 2.4 Consensus size: 89
25101214 TGTACTATTT
** *
25101224 TTGTATCTGTAAATCAAATTTAGTCAGTATTATTTGTTGTTCGAATTTTATATTTTCGTGTATTA
1 TTGTATCTGTAAATTTAATTTAGTCAGTATTATTTATTGTTCGAATTTTATATTTTCGTGTATTA
* *
25101289 ATTTTTTAGAATGTTTGTATTTTC
66 ATATTCTAGAATGTTTGTATTTTC
*
25101313 TTGTATCCGTAAATTTAATTTAGT-ATGTATTATTTATTGTTCGAATTTTATATTTTCGTGTATT
1 TTGTATCTGTAAATTTAATTTAGTCA-GTATTATTTATTGTTCGAATTTTATATTTTCGTGTATT
25101377 AATATTCTAGAATGTTTGTATTTTC
65 AATATTCTAGAATGTTTGTATTTTC
* *
25101402 TTGTATCTATAAATTTAATTT-GTTCCGTATTATT
1 TTGTATCTGTAAATTTAATTTAG-TCAGTATTATT
25101436 ATTTTTTTGA
Statistics
Matches: 111, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
88 2 0.02
89 109 0.98
ACGTcount: A:0.25, C:0.07, G:0.12, T:0.55
Consensus pattern (89 bp):
TTGTATCTGTAAATTTAATTTAGTCAGTATTATTTATTGTTCGAATTTTATATTTTCGTGTATTA
ATATTCTAGAATGTTTGTATTTTC
Found at i:25101448 original size:89 final size:89
Alignment explanation
Indices: 25101251--25101456 Score: 274
Period size: 89 Copynumber: 2.3 Consensus size: 89
25101241 ATTTAGTCAG
* *
25101251 TATTATTTGTTGTTCGAATTTTATATTTTCGTGTATTAATTTTTTAGAATGTTTGTATTTTCTTG
1 TATTATTT-TT-TT-GAATTTTATATTTTCGTGTATTAATATTCTAGAATGTTTGTATTTTCTTG
*
25101316 TATCCGTAAATTTAATTTAGTATGTAT
63 TATCCATAAATTTAATTTAGTATGTAT
* *
25101343 TATT-TATTGTTCGAATTTTATATTTTCGTGTATTAATATTCTAGAATGTTTGTATTTTCTTGTA
1 TATTAT-TTTTTTGAATTTTATATTTTCGTGTATTAATATTCTAGAATGTTTGTATTTTCTTGTA
*
25101407 TCTATAAATTTAATTT-GT-TCCGTAT
65 TCCATAAATTTAATTTAGTAT--GTAT
*
25101432 TATTATTTTTTTGAATTATATATTT
1 TATTATTTTTTTGAATTTTATATTT
25101457 GTTCTATTAA
Statistics
Matches: 101, Mismatches: 9, Indels: 11
0.83 0.07 0.09
Matches are distributed among these distances:
87 1 0.01
88 2 0.02
89 88 0.87
90 2 0.02
91 2 0.02
92 6 0.06
ACGTcount: A:0.25, C:0.06, G:0.11, T:0.58
Consensus pattern (89 bp):
TATTATTTTTTTGAATTTTATATTTTCGTGTATTAATATTCTAGAATGTTTGTATTTTCTTGTAT
CCATAAATTTAATTTAGTATGTAT
Found at i:25101470 original size:89 final size:88
Alignment explanation
Indices: 25101240--25101471 Score: 258
Period size: 89 Copynumber: 2.6 Consensus size: 88
25101230 CTGTAAATCA
* * * * *
25101240 AATTTAGTCA-GTATTATTTGTTGTTCGAATTTTATATTTTCGTGTATTAATTTTTTAGAATGTT
1 AATTTAGT-ATGTATTATTTATTGTTCGAATTATATATTTTC-TCTATTAATATTCTAGAATGTT
*
25101304 TGTATTTTCTTGTATCCGTAAATTT
64 TGTATTTTCTTGTATCCATAAATTT
* *
25101329 AATTTAGTATGTATTATTTATTGTTCGAATTTTATATTTTCGTGTATTAATATTCTAGAATGTTT
1 AATTTAGTATGTATTATTTATTGTTCGAATTATATATTTTC-TCTATTAATATTCTAGAATGTTT
*
25101394 GTATTTTCTTGTATCTATAAATTT
65 GTATTTTCTTGTATCCATAAATTT
* *
25101418 AATTT-GT-TCCGTATTA-TTATTTTTTTGAATTATATATTTGT-TCTATTAAATATT
1 AATTTAGTAT--GTATTATTTA-TTGTTCGAATTATATATTT-TCTCTATT-AATATT
25101472 TTGAAGTCAT
Statistics
Matches: 128, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
87 1 0.01
88 11 0.09
89 115 0.90
90 1 0.01
ACGTcount: A:0.26, C:0.06, G:0.11, T:0.57
Consensus pattern (88 bp):
AATTTAGTATGTATTATTTATTGTTCGAATTATATATTTTCTCTATTAATATTCTAGAATGTTTG
TATTTTCTTGTATCCATAAATTT
Found at i:25102996 original size:13 final size:13
Alignment explanation
Indices: 25102978--25103003 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25102968 ATAAATGCCC
25102978 TTGCAACGTAGAT
1 TTGCAACGTAGAT
25102991 TTGCAACGTAGAT
1 TTGCAACGTAGAT
25103004 AATGTCCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
TTGCAACGTAGAT
Found at i:25104721 original size:79 final size:79
Alignment explanation
Indices: 25104589--25104738 Score: 194
Period size: 79 Copynumber: 1.9 Consensus size: 79
25104579 ATATTCTTAA
* * ***
25104589 TTATAAATCAGAATCAGTAACAATCAGTCTAACATATTCAGATATCGTGTATTCCTCATCAACAA
1 TTATAAATCAGAATCAATAACAATCAATCTAACATATTCAGATATCACATATTCCTCATCAACAA
25104654 AGTAACGTAGAGGG
66 AGTAACGTAGAGGG
* * * *
25104668 TTATAAATCAGAATCAATAACAATCAATCTGACATAATT-AGATGTCACATATTCTTCATCAATA
1 TTATAAATCAGAATCAATAACAATCAATCTAACAT-ATTCAGATATCACATATTCCTCATCAACA
*
25104732 GAGTAAC
65 AAGTAAC
25104739 ACAGAGGCAT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 57 0.95
80 3 0.05
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.29
Consensus pattern (79 bp):
TTATAAATCAGAATCAATAACAATCAATCTAACATATTCAGATATCACATATTCCTCATCAACAA
AGTAACGTAGAGGG
Found at i:25106118 original size:10 final size:10
Alignment explanation
Indices: 25106103--25106132 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
25106093 GGATTCACGG
25106103 AGTGATCAAC
1 AGTGATCAAC
*
25106113 AGTGATCAGC
1 AGTGATCAAC
25106123 AGTGATCAAC
1 AGTGATCAAC
25106133 GAGGATCGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (10 bp):
AGTGATCAAC
Found at i:25106251 original size:30 final size:30
Alignment explanation
Indices: 25106206--25106273 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
25106196 ATGAACGGTA
*
25106206 GTGATCGACGATGATCCAC-TGTGATTAGTG
1 GTGATCGACGATGATCCACAT-TGATTAGAG
* *
25106236 GTGATCGACTG-TGATCGACATTGATTGGAG
1 GTGATCGAC-GATGATCCACATTGATTAGAG
25106266 GTGATCGA
1 GTGATCGA
25106274 TAGTAAACGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 31 0.94
31 2 0.06
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (30 bp):
GTGATCGACGATGATCCACATTGATTAGAG
Found at i:25106675 original size:17 final size:17
Alignment explanation
Indices: 25106648--25106686 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
25106638 ATTTTTTTTA
25106648 ATTTC-ATTTGAATTTC
1 ATTTCAATTTGAATTTC
25106664 ATTTCAATTTGAATTTC
1 ATTTCAATTTGAATTTC
25106681 ATTTCA
1 ATTTCA
25106687 CTTTTTCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.28, C:0.13, G:0.05, T:0.54
Consensus pattern (17 bp):
ATTTCAATTTGAATTTC
Found at i:25106828 original size:6 final size:6
Alignment explanation
Indices: 25106808--25106856 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
25106798 TTGATATTTT
* * *
25106808 ATTTGA ATTTC- ATTTCA ATTTCA ATTTTA ATTTCA A-TTCA CTTTCA
1 ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA
25106854 ATT
1 ATT
25106857 AAACTTTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
5 9 0.25
6 27 0.75
ACGTcount: A:0.31, C:0.14, G:0.02, T:0.53
Consensus pattern (6 bp):
ATTTCA
Found at i:25106834 original size:23 final size:23
Alignment explanation
Indices: 25106808--25106856 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
25106798 TTGATATTTT
*
25106808 ATTTGAATTTCATTTCAATTTCA
1 ATTTGAATTTCAATTCAATTTCA
* *
25106831 ATTTTAATTTCAATTCACTTTCA
1 ATTTGAATTTCAATTCAATTTCA
25106854 ATT
1 ATT
25106857 AAACTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.14, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTTGAATTTCAATTCAATTTCA
Found at i:25106839 original size:12 final size:12
Alignment explanation
Indices: 25106808--25106856 Score: 57
Period size: 11 Copynumber: 4.2 Consensus size: 12
25106798 TTGATATTTT
*
25106808 ATTTGAATTTC-
1 ATTTCAATTTCA
25106819 ATTTCAATTTCA
1 ATTTCAATTTCA
*
25106831 ATTTTAATTTCA
1 ATTTCAATTTCA
*
25106843 A-TTCACTTTCA
1 ATTTCAATTTCA
25106854 ATT
1 ATT
25106857 AAACTTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
11 19 0.59
12 13 0.41
ACGTcount: A:0.31, C:0.14, G:0.02, T:0.53
Consensus pattern (12 bp):
ATTTCAATTTCA
Found at i:25106908 original size:25 final size:25
Alignment explanation
Indices: 25106866--25106930 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
25106856 TAAACTTTAT
**
25106866 TTGAATTTGAATTTATA-TACTTAAA
1 TTGAATTT-AATAAATATTACTTAAA
* * *
25106891 TTGTAATTTAATAAATATTGCTTTAT
1 TTG-AATTTAATAAATATTACTTAAA
25106917 TTGAATTTAATAAA
1 TTGAATTTAATAAA
25106931 AGCATGGACA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 20 0.61
26 13 0.39
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (25 bp):
TTGAATTTAATAAATATTACTTAAA
Found at i:25113087 original size:40 final size:40
Alignment explanation
Indices: 25113027--25113209 Score: 303
Period size: 40 Copynumber: 4.6 Consensus size: 40
25113017 CAAGCTCAAT
* * * *
25113027 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* *
25113067 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
25113107 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
25113147 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
25113187 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
25113210 GTATTCAAAT
Statistics
Matches: 134, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
Found at i:25116145 original size:19 final size:19
Alignment explanation
Indices: 25116103--25116146 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
25116093 AGAAAGATGA
*
25116103 AGAGAAAAGAGAGGAAGAC
1 AGAGAAAAGAAAGGAAGAC
* * *
25116122 GGAGATAAGAAAGGAAGAT
1 AGAGAAAAGAAAGGAAGAC
25116141 AGAGAA
1 AGAGAA
25116147 GTAGGATACA
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.57, C:0.02, G:0.36, T:0.05
Consensus pattern (19 bp):
AGAGAAAAGAAAGGAAGAC
Found at i:25124725 original size:50 final size:50
Alignment explanation
Indices: 25124605--25124837 Score: 240
Period size: 50 Copynumber: 4.7 Consensus size: 50
25124595 TGGGTTAAGT
* * * * *
25124605 TGCTGATGCCATGTCCCAGACAAGGTCTTACACTGGCTATCCT-CAT-CGA
1 TGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTACTTAC-A
* *
25124654 AGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTACTTACA
1 TGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTACTTACA
* * *
25124704 TGCTGATGCCATGTCCTAGACATGGTTTTATACTAGCTCTCGTACTTACA
1 TGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTACTTACA
** * * * * * *
25124754 TGCTGATGCCATGTTTCAAATATGGTATTACAATAACTCTTGCGTA--TCCA
1 TGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-T-CGTACTTACA
*
25124804 TGTTGATGCCATGTCCCAGACATGGTCTTACACT
1 TGCTGATGCCATGTCCCAGACATGGTCTTACACT
25124838 GACATGTCTC
Statistics
Matches: 151, Mismatches: 29, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
49 37 0.25
50 108 0.72
51 2 0.01
52 4 0.03
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (50 bp):
TGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTACTTACA
Found at i:25124909 original size:46 final size:47
Alignment explanation
Indices: 25124808--25124980 Score: 160
Period size: 46 Copynumber: 3.7 Consensus size: 47
25124798 TATCCATGTT
* * * * *
25124808 GATGCCATGTCCCAGACATGGTCTTACACTGACA-T-GTCTC-GTAGCA
1 GATGACATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCAAT-GCC
* * * *
25124854 GATG-CATGTCCTAGACATGCCTTACACTGGC-TTACATCTCGATGCC
1 GATGACATGTCCCAGACATGTCTTACACTGGCACT-CATCTCAATGCC
*
25124900 GAT-ACATGTCCCGGACATGTCTTACACTGGCACTCATCTCAATGCC
1 GATGACATGTCCCAGACATGTCTTACACTGGCACTCATCTCAATGCC
* *
25124946 GATGCCATGTCCCAAACATGGTCTTACACTGGCAC
1 GATGACATGTCCCAGACAT-GTCTTACACTGGCAC
25124981 ACAAATTACC
Statistics
Matches: 105, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
44 12 0.11
45 13 0.12
46 51 0.49
47 14 0.13
48 15 0.14
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (47 bp):
GATGACATGTCCCAGACATGTCTTACACTGGCACTCATCTCAATGCC
Found at i:25127983 original size:40 final size:40
Alignment explanation
Indices: 25127939--25128017 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
25127929 CAGTATGTAA
*
25127939 GGAAAACCCATTCAAAGCCCAAGTCAGCTCAAGTCCATTG
1 GGAAAACCCATTCAAAGCCCAAGTCAGCTCAAGCCCATTG
*
25127979 GGAAAACCTATTCAAAGCCCAAGTCAGCTCAAGCCCATT
1 GGAAAACCCATTCAAAGCCCAAGTCAGCTCAAGCCCATT
25128018 AGGCCTAAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.35, C:0.30, G:0.16, T:0.18
Consensus pattern (40 bp):
GGAAAACCCATTCAAAGCCCAAGTCAGCTCAAGCCCATTG
Found at i:25128489 original size:231 final size:231
Alignment explanation
Indices: 25128086--25128547 Score: 906
Period size: 231 Copynumber: 2.0 Consensus size: 231
25128076 TAAACTGGGC
25128086 CTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTGGAAATACATTCAACATCAAT
1 CTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTGGAAATACATTCAACATCAAT
25128151 AACATATACAAGCCCATTTGAGGAGACTACTCAACCCACCAACCACTACACTCCACCCGTACCAG
66 AACATATACAAGCCCATTTGAGGAGACTACTCAACCCACCAACCACTACACTCCACCCGTACCAG
*
25128216 CCATACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCAACACTCCACAGTTGCAGCCTTGC
131 CCATACACTCCATGTGGGGAAAAGCTCAACCCACCCAGCCCAACACTCCACAGTTGCAGCCTTGC
25128281 TGCTCAGTTAACAGTAAATTGAGGCAAAGCCTCTAG
196 TGCTCAGTTAACAGTAAATTGAGGCAAAGCCTCTAG
25128317 CTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTGGAAATACATTCAACATCAAT
1 CTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTGGAAATACATTCAACATCAAT
*
25128382 AACATATACAAGCCCATTTGGGGAGACTACTCAACCCACCAACCACTACACTCCACCCGTACCAG
66 AACATATACAAGCCCATTTGAGGAGACTACTCAACCCACCAACCACTACACTCCACCCGTACCAG
25128447 CCATACACTCCATGTGGGGAAAAGCTCAACCCACCCAGCCCAACACTCCACAGTTGCAGCCTTGC
131 CCATACACTCCATGTGGGGAAAAGCTCAACCCACCCAGCCCAACACTCCACAGTTGCAGCCTTGC
25128512 TGCTCAGTTAACAGTAAATTGAGGCAAAGCCTCTAG
196 TGCTCAGTTAACAGTAAATTGAGGCAAAGCCTCTAG
25128548 TATGTGGACA
Statistics
Matches: 229, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
231 229 1.00
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.21
Consensus pattern (231 bp):
CTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTGGAAATACATTCAACATCAAT
AACATATACAAGCCCATTTGAGGAGACTACTCAACCCACCAACCACTACACTCCACCCGTACCAG
CCATACACTCCATGTGGGGAAAAGCTCAACCCACCCAGCCCAACACTCCACAGTTGCAGCCTTGC
TGCTCAGTTAACAGTAAATTGAGGCAAAGCCTCTAG
Found at i:25129005 original size:8 final size:8
Alignment explanation
Indices: 25128992--25129018 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
25128982 ATTTTTGGCA
25128992 TTTCGGCT
1 TTTCGGCT
25129000 TTTCGGCT
1 TTTCGGCT
25129008 TTTCGGCT
1 TTTCGGCT
25129016 TTT
1 TTT
25129019 GCCGATCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.22, G:0.22, T:0.56
Consensus pattern (8 bp):
TTTCGGCT
Found at i:25130078 original size:8 final size:8
Alignment explanation
Indices: 25130065--25130091 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
25130055 ATTTTTGGCA
25130065 TTTCGGCT
1 TTTCGGCT
25130073 TTTCGGCT
1 TTTCGGCT
25130081 TTTCGGCT
1 TTTCGGCT
25130089 TTT
1 TTT
25130092 GCCGATCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.22, G:0.22, T:0.56
Consensus pattern (8 bp):
TTTCGGCT
Found at i:25130390 original size:540 final size:540
Alignment explanation
Indices: 25128735--25130849 Score: 4050
Period size: 540 Copynumber: 3.9 Consensus size: 540
25128725 TAAAGGTATT
*
25128735 TCAGTAATTTATCTATTTTAGGGTTTTTCATGCATATTCCTACTTTTCACGTACTAACATAATCA
1 TCAGTAATTTATCTATTTTAGGGTTTTTCATGCATATTCCTACTTTTCACATACTAACATAATCA
25128800 CGTACCGAGGGTTCTTACCGAATTGGGCCCGTTGGCCCATCATTCAAATTTTGGCCCATTAAGCC
66 CGTACCGAGGGTTCTTACCGAATTGGGCCCGTTGGCCCATCATTCAAATTTTGGCCCATTAAGCC
25128865 CAAAAATATCGAGGGCACAGAAATCATGCACTTTGCAGTCCAAACATTGCAGCTTACCAAAAACA
131 CAAAAATATCGAGGGCACAGAAATCATGCACTTTGCAGTCCAAACATTGCAGCTTACCAAAAACA
25128930 TTAATCGATTTACCTCACGAGCATTCGCACACTCGCAAATCTACAAATACTGATTTTTGGCATTT
196 TTAATCGATTTACCTCACGAGCATTCGCACACTCGCAAATCTACAAATACTGATTTTTGGCATTT
25128995 CGGCTTTTCGGCTTTTCGGCTTTTGCCGATCTAGACTAAGAAAGAGGGTGTTAGTTACACACCTG
261 CGGCTTTTCGGCTTTTCGGCTTTTGCCGATCTAGACTAAGAAAGAGGGTGTTAGTTACACACCTG
25129060 TTTGCGACGATATGCTGACGAGATCCACACACGAACCGCCTACAATTGGTTTACTAACACGTTAA
326 TTTGCGACGATATGCTGACGAGATCCACACACGAACCGCCTACAATTGGTTTACTAACACGTTAA
25129125 TCTAACTATTCAAATACAAACTACGTATTAACCCCTTACAATATTCGGCCAACCACACCTACAGA
391 TCTAACTATTCAAATACAAACTACGTATTAACCCCTTACAATATTCGGCCAACCACACCTACAGA
25129190 TCATAGTAAGCTTATAAGAAATCAATAAGCAACTCATTAACAAATTTGGCCCATTAAGCATGAAA
456 TCATAGTAAGCTTATAAGAAATCAATAAGCAACTCATTAACAAATTTGGCCCATTAAGCATGAAA
25129255 CATTTACCTAACCCGTACCA
521 CATTTACCTAACCCGTACCA
25129275 TCAGTAATTTATCTATTTTAGGGTTTTTCATGCATATTCCTACTTTTCACATACTAACATAATCA
1 TCAGTAATTTATCTATTTTAGGGTTTTTCATGCATATTCCTACTTTTCACATACTAACATAATCA
25129340 CGTACCGAGGGTTCTTACCGAATTGGGCCCGTTGGCCCATCATTCAAATTTTGGCCCATTAAGCC
66 CGTACCGAGGGTTCTTACCGAATTGGGCCCGTTGGCCCATCATTCAAATTTTGGCCCATTAAGCC
25129405 CAAAAATATCGAGGGCACAGAAATCATGCACTTTGCAGTCCAAACATTGCAGCTTACCAAAAACA
131 CAAAAATATCGAGGGCACAGAAATCATGCACTTTGCAGTCCAAACATTGCAGCTTACCAAAAACA
* *
25129470 TTAATCGATTTACCTCACGAGCATTCGCACACTCGCAAATCTACAAAATAC-CAGTTTTCGGCAT
196 TTAATCGATTTACCTCACGAGCATTCGCACACTCGCAAATCTAC-AAATACTGA-TTTTTGGCAT
* *
25129534 TTCGGCTTTTCAGCTTTT--GC---T---GATCTAGACTAAGAAAGACGGTGTTAGTTACACACC
259 TTCGGCTTTTCGGCTTTTCGGCTTTTGCCGATCTAGACTAAGAAAGAGGGTGTTAGTTACACACC
* * *
25129591 TGTTTGCGACGATATGCTGACGAGATCCACGCACGAACCGCTTACAATTGGATTACTAACACGTT
324 TGTTTGCGACGATATGCTGACGAGATCCACACACGAACCGCCTACAATTGGTTTACTAACACGTT
25129656 AATCTAACTATTCAAATACAAACTACGTATTAACCCCTTACAATATTCGGCCAACCACACCTACA
389 AATCTAACTATTCAAATACAAACTACGTATTAACCCCTTACAATATTCGGCCAACCACACCTACA
25129721 GATCATAGTAAGCTTATAAGAAATCAATAAGCAACTCATTAACAAATTTGGCCCATTAAGCATGA
454 GATCATAGTAAGCTTATAAGAAATCAATAAGCAACTCATTAACAAATTTGGCCCATTAAGCATGA
25129786 AACATTTACCTAACCCGTACCA
519 AACATTTACCTAACCCGTACCA
*
25129808 TCAGTAATTTATCTATTTTAGGGTTTTTCATGCATATTCCTACTTTTCACGTACTAACATAATCA
1 TCAGTAATTTATCTATTTTAGGGTTTTTCATGCATATTCCTACTTTTCACATACTAACATAATCA
**
25129873 CGTACCGAGGGTTCTTACCGAATTGGGCCCGTTGGCCCATCATTCCGATTTTGGCCCATTAAGCC
66 CGTACCGAGGGTTCTTACCGAATTGGGCCCGTTGGCCCATCATTCAAATTTTGGCCCATTAAGCC
25129938 CAAAAATATCGAGGGCACAGAAATCATGCACTTTGCAGTCCAAACATTGCAGCTTACCAAAAACA
131 CAAAAATATCGAGGGCACAGAAATCATGCACTTTGCAGTCCAAACATTGCAGCTTACCAAAAACA
25130003 TTAATCGATTTACCTCACGAGCATTCGCACACTCGCAAATCTACAAATACTGATTTTTGGCATTT
196 TTAATCGATTTACCTCACGAGCATTCGCACACTCGCAAATCTACAAATACTGATTTTTGGCATTT
25130068 CGGCTTTTCGGCTTTTCGGCTTTTGCCGATCTAGACTAAGAAAGAGGGTGTTAGTTACACACCTG
261 CGGCTTTTCGGCTTTTCGGCTTTTGCCGATCTAGACTAAGAAAGAGGGTGTTAGTTACACACCTG
25130133 TTTGCGACGATATGCTGACGAGATCCACACACGAACCGCCTACAATTGGTTTACTAACACGTTAA
326 TTTGCGACGATATGCTGACGAGATCCACACACGAACCGCCTACAATTGGTTTACTAACACGTTAA
25130198 TCTAACTATTCAAATACAAACTACGTATTAACCCCTTACAATATTCGGCCAACCACACCTACAGA
391 TCTAACTATTCAAATACAAACTACGTATTAACCCCTTACAATATTCGGCCAACCACACCTACAGA
25130263 TCATAGTAAGCTTATAAGAAATCAATAAGCAACTCATTAACAAATTTGGCCCATTAAGCATGAAA
456 TCATAGTAAGCTTATAAGAAATCAATAAGCAACTCATTAACAAATTTGGCCCATTAAGCATGAAA
25130328 CATTTACCTAACCCGTACCA
521 CATTTACCTAACCCGTACCA
25130348 TCAGTAATTTATCTATTTTAGGGTTTTTCATGCATATTCCTACTTTTCACATACTAACATAATCA
1 TCAGTAATTTATCTATTTTAGGGTTTTTCATGCATATTCCTACTTTTCACATACTAACATAATCA
25130413 CGTACCGAGGGTTCTTACCGAATTGGGCCCGTTGGCCCATCATTCAAATTTTGGCCCATTAAGCC
66 CGTACCGAGGGTTCTTACCGAATTGGGCCCGTTGGCCCATCATTCAAATTTTGGCCCATTAAGCC
25130478 CAAAAATATCGAGGGCACAGAAATCATGCACTTTGCAGTCCAAACATTGCAGCTTACCAAAAACA
131 CAAAAATATCGAGGGCACAGAAATCATGCACTTTGCAGTCCAAACATTGCAGCTTACCAAAAACA
25130543 TTAATCGATTTACCTCACGAGCATTCGCACACTCGCAAATCTACAAATACTGATTTTTGGCATTT
196 TTAATCGATTTACCTCACGAGCATTCGCACACTCGCAAATCTACAAATACTGATTTTTGGCATTT
25130608 CGGCTTTTCGGCTTTTCGGCTTTTGCCGATCTAGACTAAGAAAGAGGGTGTTAGTTACACACCTG
261 CGGCTTTTCGGCTTTTCGGCTTTTGCCGATCTAGACTAAGAAAGAGGGTGTTAGTTACACACCTG
25130673 TTTGCGACGATATGCTGACGAGATCCACACACGAACCGCCTACAATTGGTTTACTAACACGTTAA
326 TTTGCGACGATATGCTGACGAGATCCACACACGAACCGCCTACAATTGGTTTACTAACACGTTAA
25130738 TCTAACTATTCAAATACAAACTACGTATTAACCCCTTACAATATTCGGCCAACCACACCTACAGA
391 TCTAACTATTCAAATACAAACTACGTATTAACCCCTTACAATATTCGGCCAACCACACCTACAGA
25130803 TCATAGTAAGCTTATAAGAAATCAATAAGCAACTCATTAACAAATTT
456 TCATAGTAAGCTTATAAGAAATCAATAAGCAACTCATTAACAAATTT
25130850 TTGTCAATGT
Statistics
Matches: 1543, Mismatches: 21, Indels: 22
0.97 0.01 0.01
Matches are distributed among these distances:
532 32 0.02
533 486 0.31
534 2 0.00
536 1 0.00
537 1 0.00
539 2 0.00
540 987 0.64
541 32 0.02
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.29
Consensus pattern (540 bp):
TCAGTAATTTATCTATTTTAGGGTTTTTCATGCATATTCCTACTTTTCACATACTAACATAATCA
CGTACCGAGGGTTCTTACCGAATTGGGCCCGTTGGCCCATCATTCAAATTTTGGCCCATTAAGCC
CAAAAATATCGAGGGCACAGAAATCATGCACTTTGCAGTCCAAACATTGCAGCTTACCAAAAACA
TTAATCGATTTACCTCACGAGCATTCGCACACTCGCAAATCTACAAATACTGATTTTTGGCATTT
CGGCTTTTCGGCTTTTCGGCTTTTGCCGATCTAGACTAAGAAAGAGGGTGTTAGTTACACACCTG
TTTGCGACGATATGCTGACGAGATCCACACACGAACCGCCTACAATTGGTTTACTAACACGTTAA
TCTAACTATTCAAATACAAACTACGTATTAACCCCTTACAATATTCGGCCAACCACACCTACAGA
TCATAGTAAGCTTATAAGAAATCAATAAGCAACTCATTAACAAATTTGGCCCATTAAGCATGAAA
CATTTACCTAACCCGTACCA
Found at i:25130618 original size:8 final size:8
Alignment explanation
Indices: 25130605--25130631 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
25130595 ATTTTTGGCA
25130605 TTTCGGCT
1 TTTCGGCT
25130613 TTTCGGCT
1 TTTCGGCT
25130621 TTTCGGCT
1 TTTCGGCT
25130629 TTT
1 TTT
25130632 GCCGATCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.22, G:0.22, T:0.56
Consensus pattern (8 bp):
TTTCGGCT
Found at i:25131847 original size:26 final size:26
Alignment explanation
Indices: 25131811--25131918 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
25131801 TGAAATTCCA
25131811 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
25131837 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25131863 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25131889 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25131915 ATCA
1 ATCA
25131919 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:25135920 original size:52 final size:52
Alignment explanation
Indices: 25135839--25135946 Score: 180
Period size: 52 Copynumber: 2.1 Consensus size: 52
25135829 ATATGCAAGC
25135839 CCATTTGGGGAGACTACTCAACCCACCAACCACTACACTCCACCCGTACCAG
1 CCATTTGGGGAGACTACTCAACCCACCAACCACTACACTCCACCCGTACCAG
* * * *
25135891 CCATTTGGGGAGACTCCTCAACCCCCCAACCACTACCCTCCCCCCGTACCAG
1 CCATTTGGGGAGACTACTCAACCCACCAACCACTACACTCCACCCGTACCAG
25135943 CCAT
1 CCAT
25135947 ACACTCCATG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.25, C:0.46, G:0.13, T:0.16
Consensus pattern (52 bp):
CCATTTGGGGAGACTACTCAACCCACCAACCACTACACTCCACCCGTACCAG
Found at i:25136502 original size:8 final size:8
Alignment explanation
Indices: 25136489--25136523 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
25136479 ATTTTTGGCA
25136489 TTTCGGCT
1 TTTCGGCT
25136497 TTTCGGCT
1 TTTCGGCT
25136505 TTTCGGCT
1 TTTCGGCT
25136513 TTTCGGCT
1 TTTCGGCT
25136521 TTT
1 TTT
25136524 GCCGATCTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.00, C:0.23, G:0.23, T:0.54
Consensus pattern (8 bp):
TTTCGGCT
Found at i:25137740 original size:26 final size:26
Alignment explanation
Indices: 25137702--25137809 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
25137692 TGAAATTCCA
25137702 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25137728 ATCAT-GAATCATTTACCTAACCCATT
1 ATCATGGAA-CATTTACCTAACCCATT
*
25137754 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25137780 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25137806 ATCA
1 ATCA
25137810 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
25 3 0.04
26 73 0.94
27 2 0.03
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:25142280 original size:23 final size:23
Alignment explanation
Indices: 25142253--25142299 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
25142243 TTATATCTAC
25142253 TATTTATATTATTAAATTAAATT
1 TATTTATATTATTAAATTAAATT
25142276 TATTTATATTATTAAATTAAATT
1 TATTTATATTATTAAATTAAATT
25142299 T
1 T
25142300 CACATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTTATATTATTAAATTAAATT
Found at i:25142289 original size:18 final size:19
Alignment explanation
Indices: 25142234--25142293 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 19
25142224 TAAATAGTAA
* *
25142234 TAAATTTATTTATATCTAC
1 TAAATTTATTTATATATAT
*
25142253 T--ATTTATATTAT-TAAAT
1 TAAATTTAT-TTATATATAT
25142270 TAAATTTATTTATAT-TAT
1 TAAATTTATTTATATATAT
25142288 TAAATT
1 TAAATT
25142294 AAATTTCACA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
17 9 0.27
18 16 0.48
19 8 0.24
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
TAAATTTATTTATATATAT
Found at i:25147663 original size:26 final size:26
Alignment explanation
Indices: 25147611--25147672 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
25147601 TTTTATTAAA
* *
25147611 ATACCCCTAAGTATGAAAATTATCGTT
1 ATACCCCTAAG-ATGAAAATGACCGTT
*
25147638 TTACCCCTAAG-TGCAAAATGACCGTT
1 ATACCCCTAAGATG-AAAATGACCGTT
25147664 ATACCCCTA
1 ATACCCCTA
25147673 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.07
26 18 0.60
27 10 0.33
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (26 bp):
ATACCCCTAAGATGAAAATGACCGTT
Found at i:25148005 original size:20 final size:20
Alignment explanation
Indices: 25147980--25148019 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25147970 TTGTTATAGG
25147980 CCAACTGTATTGAAATGGGC
1 CCAACTGTATTGAAATGGGC
* *
25148000 CCAACTGTGTTGATATGGGC
1 CCAACTGTATTGAAATGGGC
25148020 AAGGCCCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (20 bp):
CCAACTGTATTGAAATGGGC
Found at i:25148133 original size:60 final size:59
Alignment explanation
Indices: 25148009--25148149 Score: 169
Period size: 60 Copynumber: 2.4 Consensus size: 59
25147999 CCCAACTGTG
* *
25148009 TTGATATGGGCAAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTGATA
1 TTGATATGGGCTAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
* * * * *
25148068 CTGATATGGGCTAGGCCCAGTATA-CTCTATTACTGTA-AGGGGCTATGGCCCAGATTAATA
1 TTGATATGGGCTAGGCCCAATATATCTCGACT--TGTATA-GGGCTACGGCCCAGATTAATA
25148128 TTGATATGGGCTAAGGCCCAAT
1 TTGATATGGGCT-AGGCCCAAT
25148150 TAACACTGAT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
58 5 0.07
59 22 0.32
60 34 0.49
61 8 0.12
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (59 bp):
TTGATATGGGCTAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
Found at i:25148159 original size:27 final size:28
Alignment explanation
Indices: 25148107--25148159 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
25148097 TTACTGTAAG
* * *
25148107 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
25148135 GGGCTAAGGCCCA-ATTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
25148160 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:25157330 original size:36 final size:36
Alignment explanation
Indices: 25157288--25157359 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
25157278 ATTTTTCAGT
*
25157288 GGCTCTACCTCAATGACCGAAGCAAAAAGAGTTATA
1 GGCTCTAACTCAATGACCGAAGCAAAAAGAGTTATA
*
25157324 GGCTCTAACTCAATGACCGAAGCAGAAAGAGTTATA
1 GGCTCTAACTCAATGACCGAAGCAAAAAGAGTTATA
25157360 TACTCTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (36 bp):
GGCTCTAACTCAATGACCGAAGCAAAAAGAGTTATA
Found at i:25168422 original size:141 final size:141
Alignment explanation
Indices: 25168175--25168453 Score: 468
Period size: 141 Copynumber: 2.0 Consensus size: 141
25168165 ACGAAAATTA
* * *
25168175 AGAAAACATTGGGAGTCGATTACGTACGAGGAAGGATTAGCACCCTCGCAACGTCCAAAATTGGT
1 AGAAAACATCGGGAGTCGATTACGTACGAGGAAAGATTAGCACCCTCGCAACGCCCAAAATTGGT
* *
25168240 ACCAAATTGAATAGTTTTCTGTCTTAATGTCAAAAATTTGAAAGGATTTAAAAATAGGATCCCTT
66 AACAAATTGAATAATTTTCTGTCTTAATGTCAAAAATTTGAAAGGATTTAAAAATAGGATCCCTT
25168305 TTTTAAAATCG
131 TTTTAAAATCG
* *
25168316 AGAAAACATCGGGAGTCGGTTACGTACGATGAAAGATTAGCACCCTCGCAACGCCCAAAATTGGT
1 AGAAAACATCGGGAGTCGATTACGTACGAGGAAAGATTAGCACCCTCGCAACGCCCAAAATTGGT
* * *
25168381 AACAAATTGAATAATTTTCTGTCTTAATGTCAAAATTTTGAAAGGATTTAAAGATAGGATCCTTT
66 AACAAATTGAATAATTTTCTGTCTTAATGTCAAAAATTTGAAAGGATTTAAAAATAGGATCCCTT
25168446 TTTTAAAA
131 TTTTAAAA
25168454 CCAGAATTAT
Statistics
Matches: 128, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
141 128 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (141 bp):
AGAAAACATCGGGAGTCGATTACGTACGAGGAAAGATTAGCACCCTCGCAACGCCCAAAATTGGT
AACAAATTGAATAATTTTCTGTCTTAATGTCAAAAATTTGAAAGGATTTAAAAATAGGATCCCTT
TTTTAAAATCG
Found at i:25168684 original size:147 final size:147
Alignment explanation
Indices: 25168417--25168709 Score: 516
Period size: 147 Copynumber: 2.0 Consensus size: 147
25168407 ATGTCAAAAT
* * *
25168417 TTTGAAAGGATTTAAAGATAGGATCCTTTTTTTAAAACCAGAATTATTTAAGTTGAAAAATCGAG
1 TTTGAAAGGATTTAAAAATAGGATCCCTTTTTTAAAACCAGAATTATTTAAGTTGAAAAATCAAG
* *
25168482 ATTCCTTAGCTTCGAAAGAATACAAACATCACATCCAGCATGATAGGACACGATATTCTTAAACT
66 ATTCCTTAGCTCCGAAAGAATACAAACATCACATCCAACATGATAGGACACGATATTCTTAAACT
25168547 CTCGTAACTGAAATCAA
131 CTCGTAACTGAAATCAA
*
25168564 TTTGAAAGGATTTAAAAATAGGATCCCTTTTTTAAAATC-GAAATTATTTAAGTTGAAAAATCAA
1 TTTGAAAGGATTTAAAAATAGGATCCCTTTTTTAAAACCAG-AATTATTTAAGTTGAAAAATCAA
25168628 GATTCCTTAGCTCCGAAAGAATACAAACATCACATCCAACATGATAGGACACGATATTCTTAAAC
65 GATTCCTTAGCTCCGAAAGAATACAAACATCACATCCAACATGATAGGACACGATATTCTTAAAC
25168693 TCTCGTAACTGAAATCA
130 TCTCGTAACTGAAATCA
25168710 TCTCGTGATT
Statistics
Matches: 139, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
146 1 0.01
147 138 0.99
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (147 bp):
TTTGAAAGGATTTAAAAATAGGATCCCTTTTTTAAAACCAGAATTATTTAAGTTGAAAAATCAAG
ATTCCTTAGCTCCGAAAGAATACAAACATCACATCCAACATGATAGGACACGATATTCTTAAACT
CTCGTAACTGAAATCAA
Found at i:25168919 original size:73 final size:73
Alignment explanation
Indices: 25168800--25168945 Score: 274
Period size: 73 Copynumber: 2.0 Consensus size: 73
25168790 CACAATTTCT
* *
25168800 CGAATTCCTAAATACGAAAAATATTGCCTCATTTTAGAAAAACTTTTGGATAAAATATTACAATT
1 CGAATTCCTAAATACGAAAAACATTGCCTCATTTTAGAAAAACTTTTGGATAAAATATGACAATT
25168865 AAATGAAA
66 AAATGAAA
25168873 CGAATTCCTAAATACGAAAAACATTGCCTCATTTTAGAAAAACTTTTGGATAAAATATGACAATT
1 CGAATTCCTAAATACGAAAAACATTGCCTCATTTTAGAAAAACTTTTGGATAAAATATGACAATT
25168938 AAATGAAA
66 AAATGAAA
25168946 TATATTTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (73 bp):
CGAATTCCTAAATACGAAAAACATTGCCTCATTTTAGAAAAACTTTTGGATAAAATATGACAATT
AAATGAAA
Found at i:25169071 original size:17 final size:17
Alignment explanation
Indices: 25169049--25169081 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
25169039 GATATGATAC
25169049 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
25169066 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
25169082 AATCAGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:25169082 original size:18 final size:17
Alignment explanation
Indices: 25169049--25169082 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
25169039 GATATGATAC
*
25169049 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
25169066 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
25169083 ATCAGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:25169220 original size:120 final size:120
Alignment explanation
Indices: 25169080--25169322 Score: 450
Period size: 120 Copynumber: 2.0 Consensus size: 120
25169070 ATATATAAAA
*
25169080 AAAATCAGGGAAACATGGATTAAATCAAAATAAAAATGGTTAAAAAACGAAGATGAACAAAGAAT
1 AAAATCAGGGAAACATGGATTAAATCAAAATAAAAAGGGTTAAAAAACGAAGATGAACAAAGAAT
25169145 AAAATAAGAACAAACCATAGAAAATAAGAACGTAAGAGGGAGAGAAATTTGAGTG
66 AAAATAAGAACAAACCATAGAAAATAAGAACGTAAGAGGGAGAGAAATTTGAGTG
*
25169200 AAAATCAGGGAAACATGGATTAAATCAAAATAAAAAGGGTTGAAAAACGAAGATGAACAAAGAAT
1 AAAATCAGGGAAACATGGATTAAATCAAAATAAAAAGGGTTAAAAAACGAAGATGAACAAAGAAT
* *
25169265 AAAATAAGAACAAACCGTAGAAAATAAGAATGTAAGAGGGAGAGAAATTTGAGTG
66 AAAATAAGAACAAACCATAGAAAATAAGAACGTAAGAGGGAGAGAAATTTGAGTG
25169320 AAA
1 AAA
25169323 GCTCTCAAAA
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.56, C:0.07, G:0.21, T:0.16
Consensus pattern (120 bp):
AAAATCAGGGAAACATGGATTAAATCAAAATAAAAAGGGTTAAAAAACGAAGATGAACAAAGAAT
AAAATAAGAACAAACCATAGAAAATAAGAACGTAAGAGGGAGAGAAATTTGAGTG
Found at i:25169493 original size:22 final size:21
Alignment explanation
Indices: 25169458--25169587 Score: 77
Period size: 19 Copynumber: 6.7 Consensus size: 21
25169448 AAAAGGTATC
* *
25169458 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
25169479 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
25169502 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
25169521 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
25169539 T--ATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
25169556 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
25169575 TGC-AATCATATCT
1 TACAAATCATATCT
25169588 AAGATTGTAT
Statistics
Matches: 95, Mismatches: 7, Indels: 15
0.81 0.06 0.13
Matches are distributed among these distances:
17 15 0.16
18 21 0.22
19 30 0.32
20 1 0.01
21 3 0.03
22 15 0.16
23 10 0.11
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:25169501 original size:23 final size:22
Alignment explanation
Indices: 25169458--25169515 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
25169448 AAAAGGTATC
* *
25169458 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
25169479 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
25169502 TGCATATCATATCT
1 TACAAATCATATCT
25169516 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:25169518 original size:19 final size:19
Alignment explanation
Indices: 25169494--25169638 Score: 239
Period size: 19 Copynumber: 7.9 Consensus size: 19
25169484 AATCATATCT
25169494 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
25169513 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
25169531 TCTAAGATT--ATATCATA
1 TCTAAGATTGCATATCATA
25169548 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
25169567 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
25169585 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
25169602 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
25169621 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
25169639 TGAAGATTAT
Statistics
Matches: 118, Mismatches: 2, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
16 1 0.01
17 30 0.25
18 31 0.26
19 56 0.47
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:25169562 original size:54 final size:54
Alignment explanation
Indices: 25169494--25169650 Score: 264
Period size: 54 Copynumber: 2.9 Consensus size: 54
25169484 AATCATATCT
25169494 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTATATCATA
*
25169548 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTATATCATA
* *
25169602 TCTAAAATTGCATATCATATCTAAGATTGCATATCAT-T-GAAGATTATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATATCTAAGATTATAT
25169651 TTCCATATGA
Statistics
Matches: 98, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
53 9 0.09
54 84 0.86
55 5 0.05
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTATATCATA
Found at i:25169575 original size:73 final size:71
Alignment explanation
Indices: 25169487--25169639 Score: 238
Period size: 73 Copynumber: 2.1 Consensus size: 71
25169477 ATTACAAAAT
*
25169487 CATATC-TTCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATT-ATATCATATC
1 CATATCATTCTAAGATTGCA-ATCATATCTAAGATTG-AATCATATCTAAAATTCATATCATATC
25169550 TAAGATTG
64 TAAGATTG
*
25169558 CATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAAATTGCATATCATATC
1 CATATCAT-TCTAAGATTGCAATCATATCTAAGATTGAATCATATCTAAAATT-CATATCATATC
25169623 TAAGATTG
64 TAAGATTG
25169631 CATATCATT
1 CATATCATT
25169640 GAAGATTATA
Statistics
Matches: 76, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
71 20 0.26
72 18 0.24
73 38 0.50
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (71 bp):
CATATCATTCTAAGATTGCAATCATATCTAAGATTGAATCATATCTAAAATTCATATCATATCTA
AGATTG
Found at i:25172719 original size:50 final size:50
Alignment explanation
Indices: 25172601--25172832 Score: 342
Period size: 50 Copynumber: 4.7 Consensus size: 50
25172591 CTGGTACGCA
* * ** * *
25172601 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
25172650 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
*
25172700 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * *
25172750 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
*
25172799 TAGTAGCCTGCACTTAGTACTACACACATGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
25172833 CACAATAGCT
Statistics
Matches: 166, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
49 74 0.45
50 92 0.55
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:25172797 original size:99 final size:100
Alignment explanation
Indices: 25172589--25172832 Score: 348
Period size: 99 Copynumber: 2.5 Consensus size: 100
25172579 AGCCGAAGCT
* * * * ** **
25172589 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACGTAG
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCAATACACGTAG
* *
25172653 TAGCCTGCACTTAGTACTACACACGTGACCTAACC
66 TAGCCTGCACTTAGTACTACACACGCGACCTAACA
* *
25172688 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACGTAG
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCAATACACGTAG
*
25172753 TAGCCTGCACTTAGTACTACACATGCGACC-AACA
66 TAGCCTGCACTTAGTACTACACACGCGACCTAACA
*
25172787 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
25172833 CACAATAGCT
Statistics
Matches: 129, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
99 87 0.67
100 42 0.33
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (100 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCAATACACGTAG
TAGCCTGCACTTAGTACTACACACGCGACCTAACA
Found at i:25173514 original size:30 final size:30
Alignment explanation
Indices: 25173479--25173538 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
25173469 CTTTAATACC
25173479 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
25173509 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
25173539 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:25176706 original size:29 final size:30
Alignment explanation
Indices: 25176673--25176731 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
25176663 CAAGTTATAC
25176673 AACTTTGGCAAAATTAC-CATTTT-CCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
25176702 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
25176732 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:25178029 original size:46 final size:46
Alignment explanation
Indices: 25177979--25178212 Score: 301
Period size: 46 Copynumber: 5.1 Consensus size: 46
25177969 AAATGTGTAG
* *
25177979 GACCATGGTTGAAAGATACCATAGCAACATGATAGAAAATGAATAA
1 GACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAA
* *
25178025 GACCATGGTTGAAAGATACCATGGCAGCGTGACATG-AAATGAATAA
1 GACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATAA
* *
25178071 GACCATGGTTGAAAGATACTATGGCAACATGACGGGAAAATGAATAA
1 GACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAAATGAATAA
* *
25178118 GAACATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAA
1 GACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAA
* * * * * * *
25178164 GACCATAGTTGAAAGACACTATGGCATCATGTCA-AAGATAAATAA
1 GACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAA
25178209 GACC
1 GACC
25178213 GTGGATGGGA
Statistics
Matches: 164, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
45 12 0.07
46 110 0.67
47 42 0.26
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.19
Consensus pattern (46 bp):
GACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAA
Found at i:25178142 original size:93 final size:92
Alignment explanation
Indices: 25177979--25178194 Score: 308
Period size: 93 Copynumber: 2.3 Consensus size: 92
25177969 AAATGTGTAG
* * * *
25177979 GACCATGGTTGAAAGATACCATAGCAACATGATAGAAAATGAATAAGACCATGGTTGAAAGATAC
1 GACCATGGTTGAAAGATACTATGGCAACATGAGAGAAAATGAATAAGAACATGGTTGAAAGATAC
* *
25178044 CATGGCAGCGTGACATG-AAATGAATAA
66 CATGGCAACATGACA-GAAAATGAATAA
*
25178071 GACCATGGTTGAAAGATACTATGGCAACATGACGGGAAAATGAATAAGAACATGGTTGAAAGATA
1 GACCATGGTTGAAAGATACTATGGCAACATGA-GAGAAAATGAATAAGAACATGGTTGAAAGATA
*
25178136 CCATGGCAACATGACAGAAAATGAGTAA
65 CCATGGCAACATGACAGAAAATGAATAA
* * *
25178164 GACCATAGTTGAAAGACACTATGGCATCATG
1 GACCATGGTTGAAAGATACTATGGCAACATG
25178195 TCAAAGATAA
Statistics
Matches: 111, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
92 31 0.28
93 80 0.72
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (92 bp):
GACCATGGTTGAAAGATACTATGGCAACATGAGAGAAAATGAATAAGAACATGGTTGAAAGATAC
CATGGCAACATGACAGAAAATGAATAA
Found at i:25178496 original size:16 final size:17
Alignment explanation
Indices: 25178475--25178507 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25178465 ATGATGGAAC
25178475 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
25178491 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
25178508 TATACTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:25180945 original size:15 final size:16
Alignment explanation
Indices: 25180925--25180954 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25180915 GAACAAATAT
25180925 ATTCGATTC-AATTCA
1 ATTCGATTCGAATTCA
25180940 ATTCGATTCGAATTC
1 ATTCGATTCGAATTC
25180955 CATCTGACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (16 bp):
ATTCGATTCGAATTCA
Found at i:25183517 original size:28 final size:29
Alignment explanation
Indices: 25183453--25183508 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
25183443 CTATTTTAAC
25183453 AATAA-TTA-TATTTAATATAAGTAAAAA
1 AATAATTTATTATTTAATATAAGTAAAAA
25183480 AATAATTTATTATTTAATAT-AGATAAAAA
1 AATAATTTATTATTTAATATAAG-TAAAAA
25183509 TTATTTTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 5 0.19
28 5 0.19
29 16 0.62
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (29 bp):
AATAATTTATTATTTAATATAAGTAAAAA
Found at i:25197193 original size:21 final size:22
Alignment explanation
Indices: 25197167--25197225 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
25197157 GTTTTAAGAA
*
25197167 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
25197188 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
25197210 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
25197226 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:25197240 original size:26 final size:24
Alignment explanation
Indices: 25197196--25197245 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
25197186 ATTTGTTTTA
*
25197196 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
25197220 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
25197246 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:25205031 original size:43 final size:43
Alignment explanation
Indices: 25204962--25205043 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
25204952 GTTACATGAA
* **
25204962 TCGCATCTATTATGAACTTGGACCTCTCAACGAGCTCAGGTGC
1 TCGCATCTATAATGAACTCAGACCTCTCAACGAGCTCAGGTGC
* *
25205005 TCGCATCTATAATGAACTCAGTCCTCTTAACGAGCTCAG
1 TCGCATCTATAATGAACTCAGACCTCTCAACGAGCTCAG
25205044 ATGCCATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (43 bp):
TCGCATCTATAATGAACTCAGACCTCTCAACGAGCTCAGGTGC
Found at i:25211051 original size:779 final size:779
Alignment explanation
Indices: 25209554--25211093 Score: 2990
Period size: 779 Copynumber: 2.0 Consensus size: 779
25209544 AAGGACATTT
*
25209554 CTTACATACTTTATCAGCTATCACATGCTTTCCTAGCAGGTTAGACACCTTAATTACGAATTATG
1 CTTACATACTTTATCAACTATCACATGCTTTCCTAGCAGGTTAGACACCTTAATTACGAATTATG
25209619 TAGACTCGACAGGTATATTCATACTAGATGCCAATTTCATACACACATACAAATGAGTGGAGCCA
66 TAGACTCGACAGGTATATTCATACTAGATGCCAATTTCATACACACATACAAATGAGTGGAGCCA
25209684 GGGTCTATCAAAGCAATAACATTAGTATCATAGAGAGAAAATTTACCAGTGATCACATCAGGAGA
131 GGGTCTATCAAAGCAATAACATTAGTATCATAGAGAGAAAATTTACCAGTGATCACATCAGGAGA
*
25209749 ACTTGCGTCTTCGCGTGCACGTATGGCATAAGCTCTAGCCAGAGCCCTAGCTTCGAACCTCACTG
196 ACTTGCGTCTTCGCGTGCACATATGGCATAAGCTCTAGCCAGAGCCCTAGCTTCGAACCTCACTG
25209814 CTATGTCTCGCGTCACATTTTACTACCGGACCTATTCCCGACATTTCTCGAGGGTCTTCCCCTAG
261 CTATGTCTCGCGTCACATTTTACTACCGGACCTATTCCCGACATTTCTCGAGGGTCTTCCCCTAG
25209879 AAGTTGCGCCACTCGGTCTTGGATTCTAGAATCTTTCTTTTTCCATCATCTCGGGACAGTCCTTT
326 AAGTTGCGCCACTCGGTCTTGGATTCTAGAATCTTTCTTTTTCCATCATCTCGGGACAGTCCTTT
25209944 ATAAAGTGGTCTAAAGAACCACATTTAAAACATGATCCTTCACTCACTCTATAGTTACCAGAATG
391 ATAAAGTGGTCTAAAGAACCACATTTAAAACATGATCCTTCACTCACTCTATAGTTACCAGAATG
25210009 ACGTCTACCACATTACGGACATTCAGCCTTGGAAGGTTTAGCGTTACCCACGCTTGCCACAGACG
456 ACGTCTACCACATTACGGACATTCAGCCTTGGAAGGTTTAGCGTTACCCACGCTTGCCACAGACG
25210074 TAGCCTGAGATCTAAAACCCGAATTTTTCTTTTTACGATTCCCATATGAATGTCCAATTGACATA
521 TAGCCTGAGATCTAAAACCCGAATTTTTCTTTTTACGATTCCCATATGAATGTCCAATTGACATA
*
25210139 TGTGAAAGAGAATACATCTCTCTAGATTTCTTAGACTGGAACGACAATGACTTACTCGTGTACCT
586 TGTGAAAGAGAATACATCTCTCTAGATTTCTTAGACTGGAACGACAATGACTTACTCATGTACCT
25210204 CTTTCTTATATCTCTTGCATTAGACTCGGCCTTCTTCCTTTCTTTAACCAAGCCTTCGTCTTTAC
651 CTTTCTTATATCTCTTGCATTAGACTCGGCCTTCTTCCTTTCTTTAACCAAGCCTTCGTCTTTAC
* *
25210269 AAGCTCGTTCTACAAGTACCACAAATTCTTTCGACTCGAGAATACCTTTATCAACTATCACATG
716 AAGCCCGTTCTACAAGTACCACAAATTCTTTCAACTCGAGAATACCTTTATCAACTATCACATG
25210333 CTTACATACTTTATCAACTATCACATGCTTTCCTAGCAGGTTAGACACCTTAATTACGAATTATG
1 CTTACATACTTTATCAACTATCACATGCTTTCCTAGCAGGTTAGACACCTTAATTACGAATTATG
25210398 TAGACTCGACAGGTATATTCATACTAGATGCCAATTTCATACACACATACAAATGAGTGGAGCCA
66 TAGACTCGACAGGTATATTCATACTAGATGCCAATTTCATACACACATACAAATGAGTGGAGCCA
25210463 GGGTCTATCAAAGCAATAACATTAGTATCATAGAGAGAAAATTTACCAGTGATCACATCAGGAGA
131 GGGTCTATCAAAGCAATAACATTAGTATCATAGAGAGAAAATTTACCAGTGATCACATCAGGAGA
* *
25210528 ACTTGTGTCTTCGCGTGCACATATGGCATAAGCTCTAGCCGGAGCCCTAGCTTCGAACCTCACTG
196 ACTTGCGTCTTCGCGTGCACATATGGCATAAGCTCTAGCCAGAGCCCTAGCTTCGAACCTCACTG
* *
25210593 CTATGTCTCGCGTCACATTTTACTATCGGACCTATTCCCGTCATTTCTCGAGGGTCTTCCCCTAG
261 CTATGTCTCGCGTCACATTTTACTACCGGACCTATTCCCGACATTTCTCGAGGGTCTTCCCCTAG
25210658 AAGTTGCGCCACTCGGTCTTGGATTCTAGAATCTTTCTTTTTCCATCATCTCGGGACAGTCCTTT
326 AAGTTGCGCCACTCGGTCTTGGATTCTAGAATCTTTCTTTTTCCATCATCTCGGGACAGTCCTTT
25210723 ATAAAGTGGTCTAAAGAACCACATTTAAAACATGATCCTTCACTCACTCTATAGTTACCAGAATG
391 ATAAAGTGGTCTAAAGAACCACATTTAAAACATGATCCTTCACTCACTCTATAGTTACCAGAATG
25210788 ACGTCTACCACATTACGGACATTCAGCCTTGGAAGGTTTAGCGTTACCCACGCTTGCCACAGACG
456 ACGTCTACCACATTACGGACATTCAGCCTTGGAAGGTTTAGCGTTACCCACGCTTGCCACAGACG
25210853 TAGCCTGAGATCTAAAACCCGAATTTTTCTTTTTACGATTCCCATATGAATGTCCAATTGACATA
521 TAGCCTGAGATCTAAAACCCGAATTTTTCTTTTTACGATTCCCATATGAATGTCCAATTGACATA
25210918 TGTGAAAGAGAATACATCTCTCTAGATTTCTTAGACTGGAACGACAATGACTTACTCATGTACCT
586 TGTGAAAGAGAATACATCTCTCTAGATTTCTTAGACTGGAACGACAATGACTTACTCATGTACCT
*
25210983 CTTTTTTATATCTCTTGCATTAGACTCGGCCTTCTTCCTTTCTTTAACCAAGCCTTCGTCTTTAC
651 CTTTCTTATATCTCTTGCATTAGACTCGGCCTTCTTCCTTTCTTTAACCAAGCCTTCGTCTTTAC
25211048 AAGCCCGTTCTACAAGTACCACAAATTCTTTCAACTCGAGAATACC
716 AAGCCCGTTCTACAAGTACCACAAATTCTTTCAACTCGAGAATACC
25211094 CACTAATGTC
Statistics
Matches: 751, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
779 751 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (779 bp):
CTTACATACTTTATCAACTATCACATGCTTTCCTAGCAGGTTAGACACCTTAATTACGAATTATG
TAGACTCGACAGGTATATTCATACTAGATGCCAATTTCATACACACATACAAATGAGTGGAGCCA
GGGTCTATCAAAGCAATAACATTAGTATCATAGAGAGAAAATTTACCAGTGATCACATCAGGAGA
ACTTGCGTCTTCGCGTGCACATATGGCATAAGCTCTAGCCAGAGCCCTAGCTTCGAACCTCACTG
CTATGTCTCGCGTCACATTTTACTACCGGACCTATTCCCGACATTTCTCGAGGGTCTTCCCCTAG
AAGTTGCGCCACTCGGTCTTGGATTCTAGAATCTTTCTTTTTCCATCATCTCGGGACAGTCCTTT
ATAAAGTGGTCTAAAGAACCACATTTAAAACATGATCCTTCACTCACTCTATAGTTACCAGAATG
ACGTCTACCACATTACGGACATTCAGCCTTGGAAGGTTTAGCGTTACCCACGCTTGCCACAGACG
TAGCCTGAGATCTAAAACCCGAATTTTTCTTTTTACGATTCCCATATGAATGTCCAATTGACATA
TGTGAAAGAGAATACATCTCTCTAGATTTCTTAGACTGGAACGACAATGACTTACTCATGTACCT
CTTTCTTATATCTCTTGCATTAGACTCGGCCTTCTTCCTTTCTTTAACCAAGCCTTCGTCTTTAC
AAGCCCGTTCTACAAGTACCACAAATTCTTTCAACTCGAGAATACCTTTATCAACTATCACATG
Found at i:25214019 original size:46 final size:46
Alignment explanation
Indices: 25213969--25214144 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
25213959 TGGTTGAGCA
25213969 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
25214015 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
25214060 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
25214108 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25214145 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 63 0.56
47 29 0.26
48 3 0.03
50 5 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:25214125 original size:93 final size:93
Alignment explanation
Indices: 25213966--25214137 Score: 326
Period size: 93 Copynumber: 1.8 Consensus size: 93
25213956 GGATGGTTGA
*
25213966 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
25214031 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
25214059 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
25214124 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
25214138 CTTATGGGCG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:25216575 original size:33 final size:33
Alignment explanation
Indices: 25216527--25216594 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
25216517 TGTGGGTCCT
*
25216527 AAATCCTAGACTACTTCGGCAGCCAGTGTAGGG
1 AAATCCTAGAATACTTCGGCAGCCAGTGTAGGG
* *
25216560 AAATCTTAGAATACTTCTGCAGCCAGTGTAGGG
1 AAATCCTAGAATACTTCGGCAGCCAGTGTAGGG
25216593 AA
1 AA
25216595 CTCGAGATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (33 bp):
AAATCCTAGAATACTTCGGCAGCCAGTGTAGGG
Found at i:25221799 original size:233 final size:233
Alignment explanation
Indices: 25221392--25221839 Score: 887
Period size: 233 Copynumber: 1.9 Consensus size: 233
25221382 TTATGAAATG
25221392 TATGCTTTGTGGGTAATTTCAAATAATATGTAAATTATGTGAGCTACTTGTTAAATATAATTGTT
1 TATGCTTTGTGGGTAATTTCAAATAATATGTAAATTATGTGAGCTACTTGTTAAATATAATTGTT
*
25221457 ACCGAGTATTGATTTCGGCATTCTACGGAAGACGGCAAGGATAAGTGTTCGAGAAAAATCCCGTT
66 ACCGAGTATTGATTCCGGCATTCTACGGAAGACGGCAAGGATAAGTGTTCGAGAAAAATCCCGTT
25221522 TGAACCTTAGGAATAGATTAGGATACAAGTGACATGTCACTAGGATGGTTGAGCATCCGAACTCG
131 TGAACCTTAGGAATAGATTAGGATACAAGTGACATGTCACTAGGATGGTTGAGCATCCGAACTCG
25221587 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
196 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
25221625 TATGCTTTGTGGGTAATTTCAAATAATATGTAAATTATGTGAGCTACTTGTTAAATATAATTGTT
1 TATGCTTTGTGGGTAATTTCAAATAATATGTAAATTATGTGAGCTACTTGTTAAATATAATTGTT
25221690 ACCGAGTATTGATTCCGGCATTCTACGGAAGACGGCAAGGATAAGTGTTCGAGAAAAATCCCGTT
66 ACCGAGTATTGATTCCGGCATTCTACGGAAGACGGCAAGGATAAGTGTTCGAGAAAAATCCCGTT
25221755 TGAACCTTAGGAATAGATTAGGATACAAGTGACATGTCACTAGGATGGTTGAGCATCCGAACTCG
131 TGAACCTTAGGAATAGATTAGGATACAAGTGACATGTCACTAGGATGGTTGAGCATCCGAACTCG
25221820 TTGAGTTGAGTCCGAGTTCA
196 TTGAGTTGAGTCCGAGTTCA
25221840 NNNNNNNNNN
Statistics
Matches: 214, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
233 214 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (233 bp):
TATGCTTTGTGGGTAATTTCAAATAATATGTAAATTATGTGAGCTACTTGTTAAATATAATTGTT
ACCGAGTATTGATTCCGGCATTCTACGGAAGACGGCAAGGATAAGTGTTCGAGAAAAATCCCGTT
TGAACCTTAGGAATAGATTAGGATACAAGTGACATGTCACTAGGATGGTTGAGCATCCGAACTCG
TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
Found at i:25223577 original size:34 final size:34
Alignment explanation
Indices: 25223534--25223604 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
25223524 TCCATAAATG
25223534 TCAGATTTATAGAGACAAGATTCATGTACCACCT
1 TCAGATTTATAGAGACAAGATTCATGTACCACCT
*
25223568 TCAGATTTATAGAGACAAGATTCATGTACCACTT
1 TCAGATTTATAGAGACAAGATTCATGTACCACCT
25223602 TCA
1 TCA
25223605 CCTCTACACG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (34 bp):
TCAGATTTATAGAGACAAGATTCATGTACCACCT
Found at i:25225723 original size:89 final size:87
Alignment explanation
Indices: 25225594--25225754 Score: 200
Period size: 89 Copynumber: 1.8 Consensus size: 87
25225584 ATTCGACGGA
* *
25225594 GAGCAGATCGAAGACATAGTAGATCTAACCTTCGGATGTTT-TCACATCGAAGTAGATCCAAGAT
1 GAGCAGATCAAAGACATAGTAGATCTAACCTTCCGATGTTTAT-AC-T-GAAGTAGATCCAAGAT
25225658 GATTTGGCATCCTTGCGTTTACAAG
63 GATTTGGCATCCTTGCGTTTACAAG
* ** * * *
25225683 GAGCAGATCAAAGACATAGTAGATTTGGCTTTCACG-TGTTTATGCTGAAGTAGATCTAAGATGA
1 GAGCAGATCAAAGACATAGTAGATCTAACCTTC-CGATGTTTATACTGAAGTAGATCCAAGATGA
25225747 TTTGGCAT
65 TTTGGCAT
25225755 ATCTGTACTG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
87 25 0.40
88 1 0.02
89 34 0.55
90 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (87 bp):
GAGCAGATCAAAGACATAGTAGATCTAACCTTCCGATGTTTATACTGAAGTAGATCCAAGATGAT
TTGGCATCCTTGCGTTTACAAG
Found at i:25225920 original size:78 final size:77
Alignment explanation
Indices: 25225788--25226060 Score: 404
Period size: 78 Copynumber: 3.5 Consensus size: 77
25225778 CGAAGAAACA
* * * *
25225788 GATTTGGCATCT-TCATATTCGACGGAGAGCAAATCGAAGACATAGCAGATCTGACCTTCATTGA
1 GATTTGGCATCTCT-GTATTAGACGGGGAGCAGATCGAAGACATAGCAGA-CTGACCTTCATTGA
*
25225852 AGTAGATCCAAGAT
64 AGCAGATCCAAGAT
* *
25225866 GATTTGGCATCTCTGTATTAGACGGGGAACAGATCGAAGACACAGCAGACCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGA-CTGACCTTCATTGAA
25225931 GCAGATCCAAGAT
65 GCAGATCCAAGAT
* * *
25225944 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGATTGGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGACT-GACCTTCATTGAA
*
25226009 GCAAATCCAAGAT
65 GCAGATCCAAGAT
25226022 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG
25226061 CAGATCCAAG
Statistics
Matches: 178, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
77 1 0.01
78 176 0.99
79 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (77 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGACTGACCTTCATTGAAG
CAGATCCAAGAT
Found at i:25226251 original size:45 final size:45
Alignment explanation
Indices: 25226059--25226258 Score: 206
Period size: 45 Copynumber: 4.5 Consensus size: 45
25226049 AGCAGATCGA
* * *
25226059 AGCAGATCCAAGATGACAGATTTGGCATCTTTATATTAGACGGGG
1 AGCAGATCAAAGATAACAGATTTGGCATCTCTATATTAGACGGGG
* ** *
25226104 AGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCAAAGATAACAGATTTGGCATCTCTATATTAGACGGGG
* * ** * *
25226149 AGCAGATTGAAA-A-AGCAGATTTGGTGTCTCTGTATTAGATGGGG
1 AGCAGA-TCAAAGATAACAGATTTGGCATCTCTATATTAGACGGGG
* * * * *
25226193 AGTAGATCGAAGATAACAGATTTGGCGTCTCTATATTAGACCGAG
1 AGCAGATCAAAGATAACAGATTTGGCATCTCTATATTAGACGGGG
*
25226238 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCAAAGATAACAGAT
25226259 ATCGCCTTCC
Statistics
Matches: 126, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
43 3 0.02
44 33 0.26
45 88 0.70
46 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.26
Consensus pattern (45 bp):
AGCAGATCAAAGATAACAGATTTGGCATCTCTATATTAGACGGGG
Found at i:25226619 original size:17 final size:19
Alignment explanation
Indices: 25226597--25226639 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
25226587 ATGGAAATAT
25226597 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
25226614 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
25226633 AATCTTA
1 AATCTTA
25226640 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:25226629 original size:19 final size:19
Alignment explanation
Indices: 25226605--25226641 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
25226595 ATAATCTTCA
25226605 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
25226624 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
25226642 AGATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:25226667 original size:22 final size:22
Alignment explanation
Indices: 25226605--25226664 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
25226595 ATAATCTTCA
25226605 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
25226624 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
25226646 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
25226665 GATTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.43
22 8 0.23
23 12 0.34
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:25226955 original size:17 final size:17
Alignment explanation
Indices: 25226931--25226965 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25226921 TGTTTCCCTG
*
25226931 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
25226949 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
25226966 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:25227725 original size:20 final size:21
Alignment explanation
Indices: 25227702--25227752 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
25227692 TATAATATAA
*
25227702 TTTTTTAAT-TAATAAATATC
1 TTTTATAATATAATAAATATC
*
25227722 TTTTATAATATCATAAATATC
1 TTTTATAATATAATAAATATC
*
25227743 TATT-TAATAT
1 TTTTATAATAT
25227753 CTAATACATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTTATAATATAATAAATATC
Found at i:25227753 original size:20 final size:21
Alignment explanation
Indices: 25227713--25227753 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
25227703 TTTTTAATTA
*
25227713 ATAAATATCTTTTATAATATC
1 ATAAATATCTATTATAATATC
25227734 ATAAATATCTATT-TAATATC
1 ATAAATATCTATTATAATATC
25227754 TAATACATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAAATATCTATTATAATATC
Found at i:25227921 original size:29 final size:27
Alignment explanation
Indices: 25227850--25227921 Score: 65
Period size: 29 Copynumber: 2.5 Consensus size: 27
25227840 TATCATATAA
* *
25227850 ATATCTTATAATATAATTATAATAAATT
1 ATATTTTATAAT-TTATTATAATAAATT
*
25227878 A-ATTTAATATCATTTATTACTAATAAATAT
1 ATATTT--TATAATTTATTA-TAATAAAT-T
25227908 ATATTTTATAATTT
1 ATATTTTATAATTT
25227922 TAAATCTAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
27 3 0.09
28 6 0.17
29 20 0.57
30 2 0.06
31 4 0.11
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (27 bp):
ATATTTTATAATTTATTATAATAAATT
Found at i:25228980 original size:27 final size:27
Alignment explanation
Indices: 25228942--25229100 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
25228932 GTGAGGCTGC
*
25228942 CAGATATTGTGGC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
25228969 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
25228995 CAGATATATGTGGCAGAGCCACCAAAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
25229022 CAGATAATCGTGGCATAGGCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
25229049 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
25229076 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
25229101 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.09
27 99 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:25229035 original size:54 final size:54
Alignment explanation
Indices: 25228942--25229100 Score: 234
Period size: 54 Copynumber: 3.0 Consensus size: 54
25228932 GTGAGGCTGC
* *
25228942 CAGATAT-TGTGGC-GAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAG-AGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
* * *
25228995 CAGATATATGTGGCAGAGCCACCAAATCAGATAATCGTGGCATAGGCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
25229049 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
25229101 GACGCTTCCT
Statistics
Matches: 95, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
53 12 0.13
54 82 0.86
55 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:25229268 original size:28 final size:26
Alignment explanation
Indices: 25229206--25229268 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
25229196 AAAGTAACCC
** * *
25229206 TAGGGGTATAATGGTAATTTTGCACT
1 TAGGGGTATAACAGTAATTTTCCACA
25229232 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
25229260 TAGGGGTAT
1 TAGGGGTAT
25229269 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:25234572 original size:27 final size:27
Alignment explanation
Indices: 25234524--25234682 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
25234514 GCGAGGCTGC
* *
25234524 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
25234551 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
25234577 CAGATATATGTGGCAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
25234604 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
25234631 CAGATATATGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
25234658 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
25234683 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 98 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:25234626 original size:54 final size:54
Alignment explanation
Indices: 25234542--25234682 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
25234532 GTGACGAAGT
*
25234542 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
25234596 CACTAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGTAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
25234650 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
25234683 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 75 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:25234850 original size:28 final size:26
Alignment explanation
Indices: 25234788--25234850 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
25234778 AAAGTAATTC
** * *
25234788 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
25234814 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
25234842 TAGGGGTAT
1 TAGGGGTAT
25234851 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:25236318 original size:26 final size:26
Alignment explanation
Indices: 25236270--25236378 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
25236260 TGAAATGCCC
*
25236270 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
25236296 ATCACTGGAACATTTACCTAACCCATT
1 ATCA-TGGAACATTTACCTAACCCATT
* * *
25236323 ATCATGGAATATTTGCCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
25236349 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25236375 ATCA
1 ATCA
25236379 ATTTGTACAA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
26 50 0.67
27 25 0.33
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:25236375 original size:52 final size:53
Alignment explanation
Indices: 25236270--25236378 Score: 184
Period size: 53 Copynumber: 2.1 Consensus size: 53
25236260 TGAAATGCCC
25236270 ATCATGGAACATTTACCTAAACCATTATCACTGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCACTGGAACATTTACCTAACCCATT
* * *
25236323 ATCATGGAATATTTGCCTAATCCATTATCA-TGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCACTGGAACATTTACCTAACCCATT
25236375 ATCA
1 ATCA
25236379 ATTTGTACAA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
52 26 0.49
53 27 0.51
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.32
Consensus pattern (53 bp):
ATCATGGAACATTTACCTAAACCATTATCACTGGAACATTTACCTAACCCATT
Found at i:25238079 original size:37 final size:37
Alignment explanation
Indices: 25238034--25238105 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
25238024 GAATTTACTA
25238034 ATTACAACTTGAACCAGTAATACAAAATTAATTAATT
1 ATTACAACTTGAACCAGTAATACAAAATTAATTAATT
25238071 ATTACAACTTGAACCAGTAATACAAAATTAATTAA
1 ATTACAACTTGAACCAGTAATACAAAATTAATTAA
25238106 CCAAGTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.50, C:0.14, G:0.06, T:0.31
Consensus pattern (37 bp):
ATTACAACTTGAACCAGTAATACAAAATTAATTAATT
Found at i:25240763 original size:21 final size:21
Alignment explanation
Indices: 25240719--25240763 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
25240709 ACATAATCCA
**
25240719 ATATATATATATAAACAATTT
1 ATATATATATATAAACAACAT
* *
25240740 ATATATATATATACAGAACAT
1 ATATATATATATAAACAACAT
25240761 ATA
1 ATA
25240764 AAGAAATAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (21 bp):
ATATATATATATAAACAACAT
Found at i:25248773 original size:6 final size:6
Alignment explanation
Indices: 25248759--25248792 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
25248749 TTTTATTTTT
*
25248759 ATTTTC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
25248793 TTAGAAACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (6 bp):
ATTTCC
Found at i:25248774 original size:18 final size:18
Alignment explanation
Indices: 25248753--25248795 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
25248743 GCAAATTTTT
*
25248753 ATTTTTATTTTCATTTCC
1 ATTTTTATTTCCATTTCC
**
25248771 ATTTCCATTTCCATTTCC
1 ATTTTTATTTCCATTTCC
25248789 ATTTTTA
1 ATTTTTA
25248796 GAAACCTACA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.19, C:0.21, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTTATTTCCATTTCC
Found at i:25252245 original size:29 final size:29
Alignment explanation
Indices: 25252209--25252302 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
25252199 ATTGAATTCC
*
25252209 TTTA-AAATTGTAAACATTAAAGATTAAA
1 TTTATAAATTGTAAATATTAAAGATTAAA
* ** * *
25252237 TTTATAAATTTTTTATATTTAAGATCAAA
1 TTTATAAATTGTAAATATTAAAGATTAAA
* *
25252266 TTAATATAATGCGTAAATATTAAAGAATTAAA
1 TTTATA-AAT-TGTAAATATTAAAG-ATTAAA
25252298 TTTAT
1 TTTAT
25252303 TATTAGACCA
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
28 4 0.08
29 23 0.48
30 3 0.06
31 9 0.19
32 9 0.19
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (29 bp):
TTTATAAATTGTAAATATTAAAGATTAAA
Found at i:25255272 original size:11 final size:11
Alignment explanation
Indices: 25255235--25255300 Score: 52
Period size: 11 Copynumber: 6.3 Consensus size: 11
25255225 TTTCTTTTCC
*
25255235 ATTATATATAC
1 ATTATATATAT
25255246 A-TAT-TATAT
1 ATTATATATAT
*
25255255 ATAATATGAT-T
1 ATTATAT-ATAT
25255266 ATTATATATAT
1 ATTATATATAT
*
25255277 ATTATAAATAT
1 ATTATATATAT
25255288 -TTA-ATAATAT
1 ATTATAT-ATAT
25255298 ATT
1 ATT
25255301 TTTTATTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
9 6 0.14
10 14 0.32
11 22 0.50
12 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (11 bp):
ATTATATATAT
Found at i:25256815 original size:23 final size:22
Alignment explanation
Indices: 25256772--25256829 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
25256762 AAAAGGTATC
* *
25256772 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
25256793 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
25256816 TGCATATCATATCT
1 TACAAATCATATCT
25256830 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:25256832 original size:19 final size:19
Alignment explanation
Indices: 25256808--25256844 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
25256798 AATCATATCT
25256808 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
25256827 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
25256845 TGAAGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:25256852 original size:17 final size:19
Alignment explanation
Indices: 25256811--25256852 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
25256801 CATATCTTCT
*
25256811 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
25256830 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
25256847 AAGATT
1 AAGATT
25256853 ATATTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:25257000 original size:21 final size:20
Alignment explanation
Indices: 25256963--25257001 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
25256953 TTGGACTTCA
**
25256963 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
25256983 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
25257002 TCTGGGCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:25257254 original size:44 final size:45
Alignment explanation
Indices: 25257193--25257478 Score: 303
Period size: 44 Copynumber: 6.4 Consensus size: 45
25257183 GGAAGGCGAT
* * * *
25257193 ATCTGCTATCTTTGATCTGCTCCCTGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
25257238 ATCTGTTATC-TCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
25257282 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
25257326 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * * * *
25257371 ATATGTCATCTTGGATCTACT--TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
* *
25257416 ATCTGCTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
25257463 ATCTGTTATCTTCGAT
1 ATCTGTTATCTTCGAT
25257479 TTGTTCTCTA
Statistics
Matches: 196, Mismatches: 35, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
43 8 0.04
44 81 0.41
45 75 0.38
46 2 0.01
47 20 0.10
48 5 0.03
49 5 0.03
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:25257463 original size:137 final size:132
Alignment explanation
Indices: 25257277--25257572 Score: 357
Period size: 137 Copynumber: 2.2 Consensus size: 132
25257267 ATACAGAGAC
*
25257277 GCCAAATCTGC--T-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCC
1 GCCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCC
** * *
25257339 GATTTGCTCCCCGTCTAATACAGAGATGCCAAATATGTCATCTTGGATCTACTTC-GATGTAAAC
66 GATTTGCTCCCCAAC-AATACAGAGATGCC-AA-A--TCATCTTAGATCTACTTCAG-CGTAAAC
*
25257403 ACATGAAG
125 ACATGAAA
* * * *
25257411 GTCAGATCTGCTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCTGTTATCTTC
1 GCCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCC
* * * * * *
25257476 GATTTGTTCTCTAACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGA
66 GATTTGCTCCCCAACAATACAGAGATGCCAAATCATCTTAGATCTACTTCAGCGTAAACACATGA
25257541 AA
131 AA
*
25257543 GCCAAATCTGCTATGTCTTTGATCTGCTCC
1 GCCAAATCTGCTATGTCTTCGATCTGCTCC
25257573 TTGTAAACGC
Statistics
Matches: 139, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
132 55 0.40
133 1 0.01
134 10 0.07
135 2 0.01
136 14 0.10
137 57 0.41
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (132 bp):
GCCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCC
GATTTGCTCCCCAACAATACAGAGATGCCAAATCATCTTAGATCTACTTCAGCGTAAACACATGA
AA
Found at i:25257681 original size:221 final size:217
Alignment explanation
Indices: 25257376--25257781 Score: 591
Period size: 220 Copynumber: 1.9 Consensus size: 217
25257366 GCCAAATATG
* *
25257376 TCATCTTGGATCTACTTCGATGTAAACACATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
1 TCATCTTGGATCTACTTCAATGTAAACACATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
* * *
25257441 CTGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATTTGTTCTCTAACAGTACAGAGATGCCA
66 CTGTCGAATACAGAGATGCCAAATCTGTT-TCTTCGATTTATTCTCTAACAATACAGAGATGCCA
25257506 AATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTTGATCTGCT
130 AATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATG-CTTTGATCTGCT
25257571 CCTTGTAAACGCAAGGACGCCAAA
194 CCTTGTAAACGCAAGGACGCCAAA
* *
25257595 TCATCTTGGATCTACTTTAATGTGAAA-ACATCCAAAGGTTAGATCTGCTATGTCTTCGATCTGC
1 TCATCTTGGATCTACTTCAATGT-AAACACAT--AAAGGTCAGATCTGCTATGTCTTCGATCTGC
** * *
25257659 TCTCC-GTCGAATATGGAGATGCCAGATCTGTTTCTTCGATTTATTCTCTGACAATACAGAGATG
63 TC-CCTGTCGAATACAGAGATGCCAAATCTGTTTCTTCGATTTATTCTCTAACAATACAGAGATG
** * * * *
25257723 TTAAATCATCTTCGATCTGCTTCAGCGTAAACACTTGAAGGTCAAATCTGCTATGCTTT
127 CCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGCTTT
25257782 AGCCTGTTAC
Statistics
Matches: 166, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
219 29 0.17
220 81 0.49
221 54 0.33
222 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (217 bp):
TCATCTTGGATCTACTTCAATGTAAACACATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
CTGTCGAATACAGAGATGCCAAATCTGTTTCTTCGATTTATTCTCTAACAATACAGAGATGCCAA
ATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGCTTTGATCTGCTCC
TTGTAAACGCAAGGACGCCAAA
Found at i:25269520 original size:23 final size:22
Alignment explanation
Indices: 25269477--25269534 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
25269467 AAAAGGTATC
* *
25269477 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
25269498 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
25269521 TGCATATCATATCT
1 TACAAATCATATCT
25269535 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:25269537 original size:19 final size:19
Alignment explanation
Indices: 25269513--25269549 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
25269503 AATCATATCT
25269513 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
25269532 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
25269550 TGAAGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Done.