Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 16 of 328
Found at i:4861936 original size:21 final size:22
Alignment explanation
Indices: 4861912--4861965 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
4861902 TAGGGATTAT
*
4861912 GGTTTATGGTTCAGGGGTT-GG
1 GGTTTAAGGTTCAGGGGTTAGG
*
4861933 GGTTTAAGGTTTAGGGGTTAGG
1 GGTTTAAGGTTCAGGGGTTAGG
*
4861955 GGTTCAAGGTT
1 GGTTTAAGGTT
4861966 AATGGTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.15, C:0.04, G:0.44, T:0.37
Consensus pattern (22 bp):
GGTTTAAGGTTCAGGGGTTAGG
Found at i:4861963 original size:22 final size:21
Alignment explanation
Indices: 4861919--4861965 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
4861909 TATGGTTTAT
*
4861919 GGTTCAGGGGTTGGGGTTTAA
1 GGTTCAGGGGTTGGGGTTCAA
*
4861940 GGTTTAGGGGTTAGGGGTTCAA
1 GGTTCAGGGGTT-GGGGTTCAA
4861962 GGTT
1 GGTT
4861966 AATGGTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.15, C:0.04, G:0.47, T:0.34
Consensus pattern (21 bp):
GGTTCAGGGGTTGGGGTTCAA
Found at i:4862004 original size:8 final size:7
Alignment explanation
Indices: 4861878--4862011 Score: 61
Period size: 7 Copynumber: 18.7 Consensus size: 7
4861868 TGAGTTACTA
*
4861878 TTTAAGG
1 TTTAGGG
*
4861885 TTTATGG
1 TTTAGGG
*
4861892 ATTATGGG
1 TTTA-GGG
4861900 TTTAGGG
1 TTTAGGG
* *
4861907 ATTATGG
1 TTTAGGG
*
4861914 TTTATGG
1 TTTAGGG
*
4861921 TTCAGGG
1 TTTAGGG
* *
4861928 GTTGGGG
1 TTTAGGG
*
4861935 TTTAAGG
1 TTTAGGG
4861942 TTTAGGG
1 TTTAGGG
*
4861949 GTTAGGGG
1 TTTA-GGG
* *
4861957 TTCAAGG
1 TTTAGGG
* *
4861964 TTAATGG
1 TTTAGGG
* *
4861971 TTTATGT
1 TTTAGGG
* *
4861978 TTTAAGA
1 TTTAGGG
4861985 TTTAGGG
1 TTTAGGG
4861992 TTTAGGAG
1 TTTAGG-G
4862000 TTTAGGG
1 TTTAGGG
*
4862007 ATTAG
1 TTTAG
4862012 ATTAATTTGT
Statistics
Matches: 95, Mismatches: 29, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
7 78 0.82
8 17 0.18
ACGTcount: A:0.21, C:0.01, G:0.36, T:0.42
Consensus pattern (7 bp):
TTTAGGG
Found at i:4862691 original size:16 final size:16
Alignment explanation
Indices: 4862670--4862703 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
4862660 AGTAATTTTT
4862670 TTAATTTA-TATATTAA
1 TTAATTTATTATA-TAA
4862686 TTAATTTATTATATAA
1 TTAATTTATTATATAA
4862702 TT
1 TT
4862704 GTAAAGACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAATTTATTATATAA
Found at i:4862749 original size:17 final size:18
Alignment explanation
Indices: 4862727--4862760 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4862717 TATTTATTTT
4862727 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
4862744 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
4862761 TTAAGAGATA
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:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:4866463 original size:22 final size:23
Alignment explanation
Indices: 4866412--4866464 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
4866402 AGAAAACCAT
4866412 TTTAT-GTGTTAAATGCTGAAAA
1 TTTATGGTGTTAAATGCTGAAAA
* *
4866434 TTTA-GGTGTTAAATGTTG-CAA
1 TTTATGGTGTTAAATGCTGAAAA
4866455 TTTATGGTGT
1 TTTATGGTGT
4866465 CTGAAAGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.28, C:0.04, G:0.23, T:0.45
Consensus pattern (23 bp):
TTTATGGTGTTAAATGCTGAAAA
Found at i:4867516 original size:43 final size:43
Alignment explanation
Indices: 4867454--4867577 Score: 167
Period size: 43 Copynumber: 2.9 Consensus size: 43
4867444 GCGACATTTT
* * * *
4867454 TGGGAAAAGCGCCGTTAAAGGTCATGATCTTTATCGGCGCTTG
1 TGGGAAAAGCGACGCTAAAGGTCATGACCTTTAACGGCGCTTG
*
4867497 TGGGAAAAGCGACGCTAAAGGTCATGACCTTTAACGGCGTTTG
1 TGGGAAAAGCGACGCTAAAGGTCATGACCTTTAACGGCGCTTG
* * * *
4867540 TGGAAAAAGTGTCGCTAAAGGTCATGACCTTTAGCGGC
1 TGGGAAAAGCGACGCTAAAGGTCATGACCTTTAACGGC
4867578 ATTTTTTAGA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (43 bp):
TGGGAAAAGCGACGCTAAAGGTCATGACCTTTAACGGCGCTTG
Found at i:4868628 original size:21 final size:21
Alignment explanation
Indices: 4868603--4868673 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
4868593 TTCTGCTCTG
4868603 CTCTG-CTACCATCGCTGCTGC
1 CTCTGCCT-CCATCGCTGCTGC
*
4868624 CTCTGCCTCCTTCGCTGCTGC
1 CTCTGCCTCCATCGCTGCTGC
* * * *
4868645 CGCTACCTCCCTCCCTGCTGC
1 CTCTGCCTCCATCGCTGCTGC
*
4868666 CGCTGCCT
1 CTCTGCCT
4868674 TCCTTGCTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 41 0.95
22 2 0.05
ACGTcount: A:0.04, C:0.49, G:0.18, T:0.28
Consensus pattern (21 bp):
CTCTGCCTCCATCGCTGCTGC
Found at i:4868686 original size:21 final size:21
Alignment explanation
Indices: 4868616--4868686 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
4868606 TGCTACCATC
*
4868616 GCTGCTGCCTCTGCC-TCCTT
1 GCTGCTGCCGCTGCCTTCCTT
* * *
4868636 CGCTGCTGCCGCTACCTCCCTC
1 -GCTGCTGCCGCTGCCTTCCTT
*
4868658 CCTGCTGCCGCTGCCTTCCTT
1 GCTGCTGCCGCTGCCTTCCTT
*
4868679 GCTACTGC
1 GCTGCTGC
4868687 ATCCGCTCTA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 36 0.92
22 3 0.08
ACGTcount: A:0.03, C:0.48, G:0.20, T:0.30
Consensus pattern (21 bp):
GCTGCTGCCGCTGCCTTCCTT
Found at i:4874180 original size:9 final size:9
Alignment explanation
Indices: 4874166--4874309 Score: 82
Period size: 9 Copynumber: 16.0 Consensus size: 9
4874156 TAAGTATAAT
4874166 TAAGTTATG
1 TAAGTTATG
4874175 TAAGTTATG
1 TAAGTTATG
* * *
4874184 ATATGATATA
1 -TAAGTTATG
*
4874194 T-ATTTATG
1 TAAGTTATG
4874202 T-A-TTATG
1 TAAGTTATG
4874209 TAAGTTATG
1 TAAGTTATG
*
4874218 TAAATTATG
1 TAAGTTATG
* *
4874227 TAAGTTGTT
1 TAAGTTATG
**
4874236 TATCTTATG
1 TAAGTTATG
*
4874245 TAAATTATG
1 TAAGTTATG
*
4874254 TAAGATATGATA
1 TAAG-T-T-ATG
*
4874266 TATATTTATG
1 TA-AGTTATG
4874276 T-A-TTATG
1 TAAGTTATG
4874283 TAAGTTATG
1 TAAGTTATG
*
4874292 TAAATTATG
1 TAAGTTATG
*
4874301 TAAGATATG
1 TAAGTTATG
4874310 ATACATATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
7 12 0.12
8 8 0.08
9 64 0.63
10 10 0.10
11 2 0.02
12 5 0.05
13 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:4874226 original size:18 final size:18
Alignment explanation
Indices: 4874203--4874309 Score: 92
Period size: 18 Copynumber: 5.8 Consensus size: 18
4874193 ATATTTATGT
4874203 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
* * *
4874221 ATTATGTAAGTTGTTTAT
1 ATTATGTAAGTTATGTAA
* *
4874239 CTTATGTAAATTATGTAA
1 ATTATGTAAGTTATGTAA
* *
4874257 GATATGATATATATTTATGT--
1 -AT-T-ATGTA-AGTTATGTAA
4874277 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
*
4874295 ATTATGTAAGATATG
1 ATTATGTAAGTTATG
4874310 ATACATATTT
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
16 7 0.10
17 4 0.06
18 43 0.62
19 3 0.04
20 1 0.01
21 4 0.06
22 7 0.10
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:4877995 original size:7 final size:7
Alignment explanation
Indices: 4877983--4878118 Score: 57
Period size: 7 Copynumber: 19.6 Consensus size: 7
4877973 AACCAATAGA
4877983 CTAAACC
1 CTAAACC
4877990 CTAAA-C
1 CTAAACC
4877996 CTAATACC
1 CTAA-ACC
*
4878004 CTAAGCC
1 CTAAACC
4878011 C-AATACC
1 CTAA-ACC
*
4878018 TTAAACC
1 CTAAACC
*
4878025 C-AATGCC
1 CTAA-ACC
*
4878032 CTAAACA
1 CTAAACC
*
4878039 TTAAACC
1 CTAAACC
*
4878046 TTAAACC
1 CTAAACC
*
4878053 CTATAA-A
1 CTA-AACC
*
4878060 CTAAATC
1 CTAAACC
4878067 CTAAACC
1 CTAAACC
** *
4878074 AAAAACA
1 CTAAACC
4878081 CTAAACC
1 CTAAACC
* *
4878088 TTAAA-T
1 CTAAACC
**
4878094 CTAAATT
1 CTAAACC
4878101 CTAAACC
1 CTAAACC
*
4878108 ATAAACC
1 CTAAACC
4878115 CTAA
1 CTAA
4878119 TTCCATACAC
Statistics
Matches: 94, Mismatches: 26, Indels: 18
0.68 0.19 0.13
Matches are distributed among these distances:
6 15 0.16
7 68 0.72
8 11 0.12
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:4878006 original size:14 final size:14
Alignment explanation
Indices: 4877987--4878037 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
4877977 AATAGACTAA
*
4877987 ACCCTAAACCTAAT
1 ACCCTAAACCCAAT
*
4878001 ACCCTAAGCCCAAT
1 ACCCTAAACCCAAT
*
4878015 ACCTTAAACCCAAT
1 ACCCTAAACCCAAT
*
4878029 GCCCTAAAC
1 ACCCTAAAC
4878038 ATTAAACCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.39, C:0.39, G:0.04, T:0.18
Consensus pattern (14 bp):
ACCCTAAACCCAAT
Found at i:4878105 original size:34 final size:35
Alignment explanation
Indices: 4878047--4878118 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
4878037 CATTAAACCT
4878047 TAAACCCTATAAACTAAATCCTAAACCAAAAACAC
1 TAAACCCTATAAACTAAATCCTAAACCAAAAACAC
* * *
4878082 TAAA-CCT-TAAATCTAAATTCTAAACCATAAACCC
1 TAAACCCTATAAA-CTAAATCCTAAACCAAAAACAC
4878116 TAA
1 TAA
4878119 TTCCATACAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 4 0.12
34 25 0.76
35 4 0.12
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.22
Consensus pattern (35 bp):
TAAACCCTATAAACTAAATCCTAAACCAAAAACAC
Found at i:4881339 original size:16 final size:16
Alignment explanation
Indices: 4881318--4881358 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
4881308 CAATACTCCT
4881318 TACCCTAAAACCATAA
1 TACCCTAAAACCATAA
4881334 TACCCTAAAACCATAA
1 TACCCTAAAACCATAA
*
4881350 TACCTTAAA
1 TACCCTAAA
4881359 CACGTACTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (16 bp):
TACCCTAAAACCATAA
Found at i:4882105 original size:40 final size:41
Alignment explanation
Indices: 4882008--4882092 Score: 140
Period size: 41 Copynumber: 2.1 Consensus size: 41
4881998 GCTGCTCAAC
4882008 TTTTT-GTGGCATTTGT-AACAAAAACGCCGCTATTGCTCAG
1 TTTTTAGTGGCATTT-TCAACAAAAACGCCGCTATTGCTCAG
4882048 TTTTTAGTGGCATTTTCAACAAAAACGCCG-TATTGCTCAG
1 TTTTTAGTGGCATTTTCAACAAAAACGCCGCTATTGCTCAG
4882088 TTTTT
1 TTTTT
4882093 TGCTGCGTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
40 21 0.49
41 22 0.51
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.39
Consensus pattern (41 bp):
TTTTTAGTGGCATTTTCAACAAAAACGCCGCTATTGCTCAG
Found at i:4887515 original size:17 final size:16
Alignment explanation
Indices: 4887493--4887536 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
4887483 TAAATTTATA
4887493 ATATTTTATATTATGTT
1 ATATTTTATATTATG-T
*
4887510 ATATTTATTTATTATGT
1 ATATTT-TATATTATGT
4887527 AT-TTTTATAT
1 ATATTTTATAT
4887537 AGACAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 4 0.17
16 3 0.12
17 9 0.38
18 8 0.33
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (16 bp):
ATATTTTATATTATGT
Found at i:4888543 original size:2 final size:2
Alignment explanation
Indices: 4888490--4888527 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
4888480 ACACTAATGC
* *
4888490 AT AT AT AC AT AT -T AT AG AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4888528 ACGTAGATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4889632 original size:14 final size:13
Alignment explanation
Indices: 4889594--4889633 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 13
4889584 CATGCATATC
4889594 ATATATATTATGTAA
1 ATATATA-T-TGTAA
4889609 ATATATATTGTAA
1 ATATATATTGTAA
4889622 ATATCATATTGT
1 ATAT-ATATTGT
4889634 TTGTACATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.38
14 8 0.33
15 7 0.29
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (13 bp):
ATATATATTGTAA
Found at i:4905794 original size:43 final size:44
Alignment explanation
Indices: 4905731--4905817 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
4905721 ATTCACCAAG
*
4905731 CCTTAAACCCCTAAGAAGTAGGGTAACAGG-TTAAATTTACAGA
1 CCTTAAACCCCTAAGAAGTAGGGTAACAGGCTGAAATTTACAGA
* * *
4905774 CCTTAACCCCCTAAGCAGTAGGGTAATAGGCTGAAATTTACAGA
1 CCTTAAACCCCTAAGAAGTAGGGTAACAGGCTGAAATTTACAGA
4905818 TTTCGTCTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 27 0.69
44 12 0.31
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (44 bp):
CCTTAAACCCCTAAGAAGTAGGGTAACAGGCTGAAATTTACAGA
Found at i:4906365 original size:43 final size:42
Alignment explanation
Indices: 4906312--4906412 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
4906302 TCAACCCTTG
* *
4906312 AGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTA
1 AGCAGTAGGGTAACAAGCCAAATTTACAAACC-TAAACCCCTA
* *** * *
4906355 AGCAGTAGGGTAACAGGTTGAATTTACAGATCTAAACCCCTA
1 AGCAGTAGGGTAACAAGCCAAATTTACAAACCTAAACCCCTA
*
4906397 AGCAGTAGGGAAACAA
1 AGCAGTAGGGTAACAA
4906413 ATCAATGATG
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 24 0.50
43 24 0.50
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.20
Consensus pattern (42 bp):
AGCAGTAGGGTAACAAGCCAAATTTACAAACCTAAACCCCTA
Found at i:4906908 original size:11 final size:11
Alignment explanation
Indices: 4906892--4906917 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4906882 CAATAGGCCA
4906892 ACTAAATACCC
1 ACTAAATACCC
4906903 ACTAAATACCC
1 ACTAAATACCC
4906914 ACTA
1 ACTA
4906918 CACCCTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (11 bp):
ACTAAATACCC
Found at i:4909753 original size:16 final size:16
Alignment explanation
Indices: 4909717--4909761 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
4909707 ATGTGGGTAA
4909717 ATAAAAATAT-TTTAT
1 ATAAAAATATATTTAT
4909732 ATTAAAAATATATATT-T
1 A-TAAAAATATAT-TTAT
4909749 ATAAAAATATATT
1 ATAAAAATATATT
4909762 AATAAATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 2 0.07
16 20 0.74
17 3 0.11
18 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:4914050 original size:3 final size:3
Alignment explanation
Indices: 4914044--4914075 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4914034 ACAACACAGT
4914044 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
4914076 GTAGGCATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4916833 original size:19 final size:20
Alignment explanation
Indices: 4916809--4916850 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
4916799 AATTATATAC
*
4916809 TTTTTAATAATTT-TAATTT
1 TTTTTAAAAATTTATAATTT
4916828 TTTTTAAAAATTTATAATTT
1 TTTTTAAAAATTTATAATTT
4916848 TTT
1 TTT
4916851 GAATTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTAAAAATTTATAATTT
Found at i:4919098 original size:13 final size:13
Alignment explanation
Indices: 4919080--4919176 Score: 88
Period size: 13 Copynumber: 8.2 Consensus size: 13
4919070 TTTTCACTCC
*
4919080 AACCACCCCACTA
1 AACCACTCCACTA
4919093 AACCACTCCACTA
1 AACCACTCCACTA
4919106 AACCACTCCACTA
1 AACCACTCCACTA
*
4919119 AACCA-TTC-C--
1 AACCACTCCACTA
*
4919128 AACCATTCCACTA
1 AACCACTCCACTA
4919141 AACCAC-CC-C--
1 AACCACTCCACTA
4919150 AACCA-T-CACTA
1 AACCACTCCACTA
*
4919161 AACCACCCCACTA
1 AACCACTCCACTA
4919174 AAC
1 AAC
4919177 TATCTCAACC
Statistics
Matches: 69, Mismatches: 5, Indels: 20
0.73 0.05 0.21
Matches are distributed among these distances:
8 1 0.01
9 11 0.16
10 2 0.03
11 8 0.12
12 4 0.06
13 43 0.62
ACGTcount: A:0.39, C:0.47, G:0.00, T:0.13
Consensus pattern (13 bp):
AACCACTCCACTA
Found at i:4919102 original size:22 final size:22
Alignment explanation
Indices: 4919074--4919166 Score: 100
Period size: 22 Copynumber: 4.1 Consensus size: 22
4919064 CAAATATTTT
*
4919074 CACTCCAACCACCCCACTAAAC
1 CACTCCAACCACTCCACTAAAC
4919096 CACTCCACTAAACCACTCCACTAAAC
1 CACT-C-C--AACCACTCCACTAAAC
* *
4919122 CATTCCAACCATTCCACTAAAC
1 CACTCCAACCACTCCACTAAAC
*
4919144 CACCCCAACCA-T-CACTAAAC
1 CACTCCAACCACTCCACTAAAC
4919164 CAC
1 CAC
4919167 CCCACTAAAC
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
20 11 0.18
21 1 0.02
22 28 0.45
23 1 0.02
24 2 0.03
25 1 0.02
26 18 0.29
ACGTcount: A:0.38, C:0.48, G:0.00, T:0.14
Consensus pattern (22 bp):
CACTCCAACCACTCCACTAAAC
Found at i:4919783 original size:17 final size:17
Alignment explanation
Indices: 4919758--4919795 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
4919748 AATTTAATAA
4919758 ATATATATTTT-TTTAAC
1 ATATATATTTTATTT-AC
*
4919775 ATATTTATTTTATTTAC
1 ATATATATTTTATTTAC
4919792 ATAT
1 ATAT
4919796 CATTACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (17 bp):
ATATATATTTTATTTAC
Found at i:4920645 original size:23 final size:23
Alignment explanation
Indices: 4920619--4920703 Score: 55
Period size: 23 Copynumber: 3.6 Consensus size: 23
4920609 ACAAAAAAGG
4920619 AAAATATAATAATAATAATAGTA
1 AAAATATAATAATAATAATAGTA
* * * * *
4920642 AAAACACAATAGTTATAATAATGA
1 AAAATATAATAATAATAATAGT-A
* *
4920666 AAAGGTATTATAAT-ATAATAGTA
1 AAA-ATATAATAATAATAATAGTA
* *
4920689 ATAATGATGATAATA
1 AAAAT-ATAATAATA
4920704 GTGGTATTAG
Statistics
Matches: 44, Mismatches: 14, Indels: 7
0.68 0.22 0.11
Matches are distributed among these distances:
22 1 0.02
23 27 0.61
24 11 0.25
25 5 0.11
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (23 bp):
AAAATATAATAATAATAATAGTA
Found at i:4920693 original size:33 final size:38
Alignment explanation
Indices: 4920649--4920730 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 38
4920639 GTAAAAACAC
*
4920649 AATAGTTATAATAATGA-AA-A-GGTATTA-TAAT-AT
1 AATAGTAATAATAATGATAATAGGGTATTAGTAATAAT
*
4920682 AATAGTAATAATGATGATAATAGTGGTATTAGTAATAAT
1 AATAGTAATAATAATGATAATAG-GGTATTAGTAATAAT
*
4920721 AATAATAATA
1 AATAGTAATA
4920731 GAAAATAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 15 0.38
34 2 0.05
35 1 0.03
37 7 0.17
38 4 0.10
39 11 0.28
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.35
Consensus pattern (38 bp):
AATAGTAATAATAATGATAATAGGGTATTAGTAATAAT
Found at i:4920726 original size:9 final size:9
Alignment explanation
Indices: 4920715--4920758 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
4920705 TGGTATTAGT
*
4920715 AATAATAAT
1 AATAATAAA
4920724 AATAATAGAA
1 AATAATA-AA
*
4920734 AATAATAAC
1 AATAATAAA
*
4920743 AATATTAAA
1 AATAATAAA
4920752 AATAATA
1 AATAATA
4920759 CTCTCCCCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (9 bp):
AATAATAAA
Found at i:4921178 original size:22 final size:22
Alignment explanation
Indices: 4921120--4921180 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
4921110 TTTGTAGGCA
* *
4921120 AGTGGAGTGGTTGG-GATGGTTT
1 AGTGGGGTGGTTGGAG-TAGTTT
4921142 AGTGGGGTGGTTGGAGTAGTTT
1 AGTGGGGTGGTTGGAGTAGTTT
4921164 AGTGGGGTGGTTGGAGT
1 AGTGGGGTGGTTGGAGT
4921181 GAAGATATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 35 0.97
23 1 0.03
ACGTcount: A:0.13, C:0.00, G:0.52, T:0.34
Consensus pattern (22 bp):
AGTGGGGTGGTTGGAGTAGTTT
Found at i:4922130 original size:3 final size:3
Alignment explanation
Indices: 4922098--4922155 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
4922088 GGGGAGAGTG
* * * *
4922098 TTA TTT TTA ATA TTG TTA TTA TTT TCTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
4922144 TTA TTA TTA TTA
1 TTA TTA TTA TTA
4922156 CTAATACCAC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
3 44 0.96
4 2 0.04
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4922213 original size:33 final size:39
Alignment explanation
Indices: 4922127--4922220 Score: 101
Period size: 39 Copynumber: 2.6 Consensus size: 39
4922117 TATTTTCTAT
* * *
4922127 TATTATTATTATTATTATTATTATTATTACTAATACCAC
1 TATTATCATTATTATAACTATTATTATTACTAATACCAC
* *
4922166 TATTATCATCATTATGACTATTA-TATTA-TAATA-C-C
1 TATTATCATTATTATAACTATTATTATTACTAATACCAC
4922201 T-TT-TCATTATTATAACTATT
1 TATTATCATTATTATAACTATT
4922221 GTGTTTTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
33 15 0.31
34 2 0.04
35 2 0.04
36 1 0.02
37 5 0.10
38 5 0.10
39 19 0.39
ACGTcount: A:0.35, C:0.12, G:0.01, T:0.52
Consensus pattern (39 bp):
TATTATCATTATTATAACTATTATTATTACTAATACCAC
Found at i:4924336 original size:28 final size:28
Alignment explanation
Indices: 4924303--4924360 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
4924293 GAAAAGAGGA
4924303 TAAACTACCTTGTTAGTCATTCTAAAAT
1 TAAACTACCTTGTTAGTCATTCTAAAAT
4924331 TAAACTACCTTGTTAGTCATTCTAAAAT
1 TAAACTACCTTGTTAGTCATTCTAAAAT
4924359 TA
1 TA
4924361 GGTTGTCCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.40
Consensus pattern (28 bp):
TAAACTACCTTGTTAGTCATTCTAAAAT
Found at i:4924845 original size:22 final size:22
Alignment explanation
Indices: 4924814--4924855 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4924804 TTTGATGATC
4924814 ACAACAGTGAT-AGTGAGAAGCG
1 ACAACAGTGATAAG-GAGAAGCG
*
4924836 ACAACTGTGATAAGGAGAAG
1 ACAACAGTGATAAGGAGAAG
4924856 AAAGGAGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.43, C:0.12, G:0.31, T:0.14
Consensus pattern (22 bp):
ACAACAGTGATAAGGAGAAGCG
Found at i:4925041 original size:21 final size:22
Alignment explanation
Indices: 4925010--4925052 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
4925000 TAGAAGGGAG
4925010 AAGATAAAAAA-AATAAGAAAAA
1 AAGATAAAAAAGAA-AAGAAAAA
4925032 AAGA-AAAAAAGAAAAGAAAAA
1 AAGATAAAAAAGAAAAGAAAAA
4925053 GGAAATGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.05
Consensus pattern (22 bp):
AAGATAAAAAAGAAAAGAAAAA
Found at i:4928827 original size:18 final size:17
Alignment explanation
Indices: 4928791--4928829 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
4928781 ATATATTAAA
*
4928791 TTTTTTATTTATAATAT
1 TTTTTTATTTATAAAAT
*
4928808 TTTTTTATTTTTGAAAAT
1 TTTTTTATTTAT-AAAAT
4928826 TTTT
1 TTTT
4928830 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTTTTATTTATAAAAT
Found at i:4930785 original size:19 final size:19
Alignment explanation
Indices: 4930747--4930785 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4930737 CTTAATGATA
* *
4930747 TATAATTGTAACATTAATT
1 TATAATAGTAAAATTAATT
*
4930766 TATAATAGTAAAATTTATT
1 TATAATAGTAAAATTAATT
4930785 T
1 T
4930786 TTTAATTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (19 bp):
TATAATAGTAAAATTAATT
Found at i:4934138 original size:16 final size:16
Alignment explanation
Indices: 4934117--4934165 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 16
4934107 AAGTATTGAA
4934117 GAAAATATGTTTTATT
1 GAAAATATGTTTTATT
* *
4934133 G-AAA-AT-TTTGA-A
1 GAAAATATGTTTTATT
4934145 GAAAATATGTTTTATT
1 GAAAATATGTTTTATT
4934161 GAAAA
1 GAAAA
4934166 ATTTTAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
12 1 0.04
13 7 0.28
14 4 0.16
15 7 0.28
16 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (16 bp):
GAAAATATGTTTTATT
Found at i:4934144 original size:28 final size:29
Alignment explanation
Indices: 4934112--4934170 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 29
4934102 AATGAAAGTA
4934112 TTGAAGAAAATATGTTTTATTG-AAAATT
1 TTGAAGAAAATATGTTTTATTGAAAAATT
4934140 TTGAAGAAAATATGTTTTATTGAAAAATT
1 TTGAAGAAAATATGTTTTATTGAAAAATT
4934169 TT
1 TT
4934171 AAAAATAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 22 0.73
29 8 0.27
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (29 bp):
TTGAAGAAAATATGTTTTATTGAAAAATT
Found at i:4937202 original size:9 final size:9
Alignment explanation
Indices: 4937172--4937228 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
4937162 AAGTAAGTGC
4937172 AAAATTATA
1 AAAATTATA
* *
4937181 AAATTTTTAA
1 AAAATTAT-A
4937191 AAAATTATA
1 AAAATTATA
*
4937200 AAAAGTACTA
1 AAAATTA-TA
*
4937210 AACATTATA
1 AAAATTATA
4937219 AAAATT-TA
1 AAAATTATA
4937227 AA
1 AA
4937229 TATGTAAAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
8 4 0.11
9 20 0.53
10 14 0.37
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:4937978 original size:21 final size:21
Alignment explanation
Indices: 4937940--4937979 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4937930 CAAGCATGTT
*
4937940 AATTATAATTTTTTAAATAAA
1 AATTATAATTTTTAAAATAAA
4937961 AATTAT-ATTTATTAAAATA
1 AATTATAATTT-TTAAAATA
4937980 TTATTTGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTATAATTTTTAAAATAAA
Found at i:4949929 original size:13 final size:13
Alignment explanation
Indices: 4949911--4949963 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
4949901 TATTATGTAT
4949911 ATTTAATCAATTA
1 ATTTAATCAATTA
* *
4949924 ATTTAATTAATTG
1 ATTTAATCAATTA
*
4949937 ATTTAACTAAATTA
1 ATTTAA-TCAATTA
*
4949951 ATTT-CTCAATTA
1 ATTTAATCAATTA
4949963 A
1 A
4949964 AATATTTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
12 7 0.21
13 17 0.52
14 9 0.27
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (13 bp):
ATTTAATCAATTA
Found at i:4952388 original size:22 final size:23
Alignment explanation
Indices: 4952361--4952411 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
4952351 TAATCAATAT
*
4952361 ATACATAACTACAATTAGAATCA
1 ATACATAACTACAACTAGAATCA
* *
4952384 A-ACATAAGTACAACTATAATCA
1 ATACATAACTACAACTAGAATCA
4952406 ATACAT
1 ATACAT
4952412 CCGTTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.53, C:0.18, G:0.04, T:0.25
Consensus pattern (23 bp):
ATACATAACTACAACTAGAATCA
Found at i:4956017 original size:2 final size:2
Alignment explanation
Indices: 4956012--4956062 Score: 61
Period size: 2 Copynumber: 26.5 Consensus size: 2
4956002 AAATAGTGTG
* * *
4956012 TA TA TA TA TA -A CA CA TA T- TA CA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4956052 TA TA TA TA TA T
1 TA TA TA TA TA T
4956063 TAACAGGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:4956352 original size:10 final size:10
Alignment explanation
Indices: 4956316--4956376 Score: 54
Period size: 10 Copynumber: 6.3 Consensus size: 10
4956306 GCCCTTGCTC
4956316 TTATTAAAAA
1 TTATTAAAAA
**
4956326 TTAAAAAAAA
1 TTATTAAAAA
4956336 TTA-TAAAAA
1 TTATTAAAAA
**
4956345 TTATTAAATT
1 TTATTAAAAA
*
4956355 TTAATAAAAA
1 TTATTAAAAA
*
4956365 -TATAAAAAA
1 TTATTAAAAA
4956374 TTA
1 TTA
4956377 AATTTTTTAA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
9 15 0.38
10 24 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
TTATTAAAAA
Found at i:4956376 original size:29 final size:29
Alignment explanation
Indices: 4956316--4956372 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
4956306 GCCCTTGCTC
4956316 TTATTAAAAATTAAAAAAAATTATAAAAA
1 TTATTAAAAATTAAAAAAAATTATAAAAA
** *
4956345 TTATTAAATTTTAATAAAAA-TATAAAAA
1 TTATTAAAAATTAAAAAAAATTATAAAAA
4956373 ATTAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
TTATTAAAAATTAAAAAAAATTATAAAAA
Found at i:4956377 original size:19 final size:20
Alignment explanation
Indices: 4956320--4956377 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
4956310 TTGCTCTTAT
*
4956320 TAAAAATTAAAAAAAATT-A
1 TAAAAATTATAAAAAATTAA
* **
4956339 TAAAAATTATTAAATTTTAA
1 TAAAAATTATAAAAAATTAA
4956359 TAAAAA-TATAAAAAATTAA
1 TAAAAATTATAAAAAATTAA
4956378 ATTTTTTAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
19 24 0.77
20 7 0.23
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAAATTATAAAAAATTAA
Found at i:4956389 original size:18 final size:18
Alignment explanation
Indices: 4956367--4956410 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
4956357 AATAAAAATA
*
4956367 TAAAAAATTA-AATTTTT
1 TAAAAAATCAGAATTTTT
4956384 T-AAAAATCAGAATTTTT
1 TAAAAAATCAGAATTTTT
4956401 TAAAAAATCA
1 TAAAAAATCA
4956411 TAAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 9 0.38
18 8 0.33
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (18 bp):
TAAAAAATCAGAATTTTT
Found at i:4956389 original size:26 final size:27
Alignment explanation
Indices: 4956329--4956382 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
4956319 TTAAAAATTA
4956329 AAAAAAATTATAAAAATTATTAAATTTT
1 AAAAAAATTATAAAAA-TATTAAATTTT
4956357 AATAAAAA-TATAAAAA-ATTAAATTTT
1 AA-AAAAATTATAAAAATATTAAATTTT
4956383 TTAAAAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 10 0.40
28 10 0.40
29 5 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (27 bp):
AAAAAAATTATAAAAATATTAAATTTT
Found at i:4956736 original size:18 final size:18
Alignment explanation
Indices: 4956663--4956735 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 18
4956653 TTTATATATA
4956663 TTTTATAATTTTTTAAGGT
1 TTTTATAATTTTTTAA-GT
**
4956682 TTTTATAAAATTTTACAGT
1 TTTTATAATTTTTTA-AGT
*
4956701 TTTTATATATTTTCTAA-T
1 TTTTATA-ATTTTTTAAGT
4956719 TTTTAATAATTTTTTAA
1 TTTT-ATAATTTTTTAA
4956736 TATTTGAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
18 13 0.29
19 26 0.58
20 6 0.13
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTTATAATTTTTTAAGT
Found at i:4956800 original size:38 final size:38
Alignment explanation
Indices: 4956710--4956801 Score: 98
Period size: 38 Copynumber: 2.4 Consensus size: 38
4956700 TTTTTATATA
*
4956710 TTTTCTAATTTTTAATAATTTTTTAATATTTGAATTTT
1 TTTTCTAATTTTTAATAATTTATTAATATTTGAATTTT
*** * *
4956748 TTAAATAATATTTAATACTATTTATTGAT-TTT-AATTTT
1 TTTTCTAATTTTTAATA--ATTTATTAATATTTGAATTTT
4956786 TTTTCTAATTTTTAAT
1 TTTTCTAATTTTTAAT
4956802 GAAAGTAGGA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
38 31 0.74
39 3 0.07
40 8 0.19
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (38 bp):
TTTTCTAATTTTTAATAATTTATTAATATTTGAATTTT
Found at i:4956960 original size:89 final size:88
Alignment explanation
Indices: 4956815--4957022 Score: 267
Period size: 89 Copynumber: 2.3 Consensus size: 88
4956805 AGTAGGAACA
* * * * *
4956815 TAATTGCTTTTTTTGAAAAAAGTTTTAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCTAA
1 TAATTGCTTTTTTT-AAAAAAGTTTGAGGGCCATTTTGATGCATTTTGAAAATTCAAGTACCCAA
* **
4956880 TTGAGTG-CAAAAAGAAAGTAGGGGCT
65 ATGAGTGCCAAAAA-AAA--AAAGGCT
* *
4956906 TAATTG-TTTTTTTTAAAAGGTTTGAGGGCCATTTTGATGCATTTTGAAAATTCAAGTACCCAAA
1 TAATTGCTTTTTTTAAAAAAGTTTGAGGGCCATTTTGATGCATTTTGAAAATTCAAGTACCCAAA
4956970 TGAGTGCCAAAAAAAAAAAGGCT
66 TGAGTGCCAAAAAAAAAAAGGCT
*
4956993 TAATTGCTTTTTTTGAAAAAGTTTGAGGGC
1 TAATTGCTTTTTTTAAAAAAGTTTGAGGGC
4957023 TTTTTGCACC
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
87 11 0.11
88 21 0.20
89 52 0.50
90 13 0.13
91 6 0.06
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.37
Consensus pattern (88 bp):
TAATTGCTTTTTTTAAAAAAGTTTGAGGGCCATTTTGATGCATTTTGAAAATTCAAGTACCCAAA
TGAGTGCCAAAAAAAAAAAGGCT
Found at i:4959676 original size:355 final size:355
Alignment explanation
Indices: 4959025--4959733 Score: 1364
Period size: 355 Copynumber: 2.0 Consensus size: 355
4959015 CGGTTTTTCC
* *
4959025 TAGCCATCTTAAGGAACTTGCTAGTGCAAGGGCCTTAGCCAAAAGTGTATCAAATGCATCATCTA
1 TAGCCATCTTAAGGAACTTGCTAGTGCAAGGGCCTTAGCCAAAAGTGTATCAAAGGCACCATCTA
4959090 AACATCAAGCACAACCTTTTGGATGGTGCCTTTGATTCTTTTTTATTCTTGATAAACCATAATAT
66 AACATCAAGCACAACCTTTTGGATGGTGCCTTTGATTCTTTTTTATTCTTGATAAACCATAATAT
*
4959155 ATACATATTTTTACCCTATGCTTGGCATATTTTTTAGATGATTTATCTTAAGATTTAATGAATTT
131 ATACATATTTTTACCCCATGCTTGGCATATTTTTTAGATGATTTATCTTAAGATTTAATGAATTT
4959220 GACGCTCCTAATCCTTTAATTTCATGTTTTATACTCAGGACAGCTTAAGAAAGCGAAAAGAGCAA
196 GACGCTCCTAATCCTTTAATTTCATGTTTTATACTCAGGACAGCTTAAGAAAGCGAAAAGAGCAA
4959285 GAAACAGTGGACAAAATGGGTCTAATTCAGTGTTTCACACGGCCTAGGCACTCTTACACGGGTAA
261 GAAACAGTGGACAAAATGGGTCTAATTCAGTGTTTCACACGGCCTAGGCACTCTTACACGGGTAA
4959350 TCCACACGCCCGTGTGTCATGGCCGTGTCT
326 TCCACACGCCCGTGTGTCATGGCCGTGTCT
* *
4959380 TAGCCATCTTAAGGAACTTGCTAGTGCAAGGGCCTTGGCCGAAAGTGTATCAAAGGCACCATCTA
1 TAGCCATCTTAAGGAACTTGCTAGTGCAAGGGCCTTAGCCAAAAGTGTATCAAAGGCACCATCTA
4959445 AACATCAAGCACAACCTTTTGGATGGTGCCTTTGATTCTTTTTTATTCTTGATAAACCATAATAT
66 AACATCAAGCACAACCTTTTGGATGGTGCCTTTGATTCTTTTTTATTCTTGATAAACCATAATAT
*
4959510 ATACATATTTTTACCCCATGCTTGGCATATTTTTTGGATGATTTATCTTAAGATTTAATGAATTT
131 ATACATATTTTTACCCCATGCTTGGCATATTTTTTAGATGATTTATCTTAAGATTTAATGAATTT
4959575 GACGCTCCTAATCCTTTAATTTCATGTTTTATACTCAGGACAGCTTAAGAAAGCGAAAAGAGCAA
196 GACGCTCCTAATCCTTTAATTTCATGTTTTATACTCAGGACAGCTTAAGAAAGCGAAAAGAGCAA
4959640 GAAACAGTGGACAAAATGGGTCTAATTCAGTGTTTCACACGGCCTAGGCACTCTTACACGGGTAA
261 GAAACAGTGGACAAAATGGGTCTAATTCAGTGTTTCACACGGCCTAGGCACTCTTACACGGGTAA
4959705 TCCACACGCCCGTGTGTCATGGCCGTGTC
326 TCCACACGCCCGTGTGTCATGGCCGTGTC
4959734 GACATTAAAC
Statistics
Matches: 348, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
355 348 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (355 bp):
TAGCCATCTTAAGGAACTTGCTAGTGCAAGGGCCTTAGCCAAAAGTGTATCAAAGGCACCATCTA
AACATCAAGCACAACCTTTTGGATGGTGCCTTTGATTCTTTTTTATTCTTGATAAACCATAATAT
ATACATATTTTTACCCCATGCTTGGCATATTTTTTAGATGATTTATCTTAAGATTTAATGAATTT
GACGCTCCTAATCCTTTAATTTCATGTTTTATACTCAGGACAGCTTAAGAAAGCGAAAAGAGCAA
GAAACAGTGGACAAAATGGGTCTAATTCAGTGTTTCACACGGCCTAGGCACTCTTACACGGGTAA
TCCACACGCCCGTGTGTCATGGCCGTGTCT
Found at i:4963727 original size:14 final size:14
Alignment explanation
Indices: 4963708--4963737 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4963698 TAAGAAAGGA
4963708 GGCATGACTATTGT
1 GGCATGACTATTGT
*
4963722 GGCATGACTGTTGT
1 GGCATGACTATTGT
4963736 GG
1 GG
4963738 TTAATGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.13, G:0.37, T:0.33
Consensus pattern (14 bp):
GGCATGACTATTGT
Found at i:4974703 original size:17 final size:17
Alignment explanation
Indices: 4974661--4974708 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
4974651 TTTGAGTCCA
4974661 TTTATTTTTAC-TTTGTT
1 TTTATTTTT-CTTTTGTT
**
4974678 TTTCCTTTTCTTTTGTT
1 TTTATTTTTCTTTTGTT
*
4974695 TTTATTTTTATTTT
1 TTTATTTTTCTTTT
4974709 TATTTCTCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 1 0.04
17 24 0.96
ACGTcount: A:0.08, C:0.08, G:0.04, T:0.79
Consensus pattern (17 bp):
TTTATTTTTCTTTTGTT
Found at i:4983925 original size:40 final size:39
Alignment explanation
Indices: 4983876--4984023 Score: 138
Period size: 40 Copynumber: 3.7 Consensus size: 39
4983866 TGCGGCGTTT
* * *
4983876 TTAGTGGCGTTTAAACAAAAAACGCCGCTATAGTTCAGCA
1 TTAGCGGCGTTT-TACAAAAAACGCCGCTATAGATCAGCA
* *
4983916 TTAGCGGCGTTTCTA-AACAAACGCCACTATAGAT-AGGACA
1 TTAGCGGCGTTT-TACAAAAAACGCCGCTATAGATCA-G-CA
* * * *
4983956 TTAGCGGCGTTTTTCTAAAAGCACCGCTATAGATCGAGCA
1 TTAGCGGCGTTTTACAAAAAACGCCGCTATAGATC-AGCA
*
4983996 TTAGCGGCGCTTTTATAAAAAACGCCGC
1 TTAGCGGCG-TTTTACAAAAAACGCCGC
4984024 AAATGTCCTA
Statistics
Matches: 85, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
38 1 0.01
39 18 0.21
40 51 0.60
41 14 0.16
42 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (39 bp):
TTAGCGGCGTTTTACAAAAAACGCCGCTATAGATCAGCA
Found at i:4984732 original size:7 final size:7
Alignment explanation
Indices: 4984722--4984810 Score: 52
Period size: 7 Copynumber: 12.3 Consensus size: 7
4984712 AGTGGGTAAA
4984722 GGTTAAG
1 GGTTAAG
*
4984729 GGTTATG
1 GGTTAAG
* *
4984736 GATTATG
1 GGTTAAG
4984743 GGTTTAAG
1 GG-TTAAG
*
4984751 GATTAAG
1 GGTTAAG
* *
4984758 GGTCATG
1 GGTTAAG
*
4984765 GGTTATG
1 GGTTAAG
*
4984772 GGTTTAAT
1 GG-TTAAG
4984780 GGTTAAAG
1 GGTT-AAG
* *
4984788 GGATATG
1 GGTTAAG
*
4984795 GGTTAGG
1 GGTTAAG
4984802 GGTTAAG
1 GGTTAAG
4984809 GG
1 GG
4984811 GTTTAATTAA
Statistics
Matches: 62, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
7 47 0.76
8 15 0.24
ACGTcount: A:0.25, C:0.01, G:0.40, T:0.34
Consensus pattern (7 bp):
GGTTAAG
Found at i:4984765 original size:29 final size:28
Alignment explanation
Indices: 4984707--4984785 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
4984697 TAAAGTTTAG
* *
4984707 GGATTAGTGGG-TAAAGGTTAAGGGTTAT
1 GGATTA-TGGGTTTAAGGTTAAGGGTCAT
4984735 GGATTATGGGTTTAAGGATTAAGGGTCAT
1 GGATTATGGGTTTAAGG-TTAAGGGTCAT
*
4984764 GGGTTATGGGTTTAATGGTTAA
1 GGATTATGGGTTTAA-GGTTAA
4984786 AGGGATATGG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 4 0.09
28 11 0.24
29 28 0.62
30 2 0.04
ACGTcount: A:0.27, C:0.01, G:0.37, T:0.35
Consensus pattern (28 bp):
GGATTATGGGTTTAAGGTTAAGGGTCAT
Found at i:4985272 original size:26 final size:27
Alignment explanation
Indices: 4985199--4985273 Score: 109
Period size: 26 Copynumber: 2.9 Consensus size: 27
4985189 AATAATTTAA
*
4985199 AATTTTAAAGATTTCAAA-TTTAGAAT
1 AATTTTCAAGATTTCAAATTTTAGAAT
*
4985225 AAATTTCAAGATTTCAAATTTTA-AAT
1 AATTTTCAAGATTTCAAATTTTAGAAT
*
4985251 AATTTTCAATATTTCAAATTTTA
1 AATTTTCAAGATTTCAAATTTTA
4985274 TCTAATTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 40 0.91
27 4 0.09
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (27 bp):
AATTTTCAAGATTTCAAATTTTAGAAT
Found at i:4985417 original size:18 final size:17
Alignment explanation
Indices: 4985386--4985420 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4985376 ATAGTTGATT
*
4985386 TTTTTTAATTTATATTA
1 TTTTTAAATTTATATTA
4985403 TTTTTAAATTATATATTA
1 TTTTTAAATT-TATATTA
4985421 AATAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTAAATTTATATTA
Found at i:4985888 original size:13 final size:13
Alignment explanation
Indices: 4985855--4985888 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4985845 CCTTAAGTGT
*
4985855 TTTTCCCATAAAA
1 TTTTCCCCTAAAA
*
4985868 CTTTCCCCTAAAA
1 TTTTCCCCTAAAA
4985881 TTTTCCCC
1 TTTTCCCC
4985889 CTAACCCTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTTCCCCTAAAA
Found at i:4989539 original size:9 final size:9
Alignment explanation
Indices: 4989525--4989641 Score: 108
Period size: 9 Copynumber: 12.3 Consensus size: 9
4989515 CTTAAAGAAA
4989525 TTACATAAC
1 TTACATAAC
4989534 TTACATAAC
1 TTACATAAC
* *
4989543 TCATATAAC
1 TTACATAAC
*
4989552 TTACATAAT
1 TTACATAAC
4989561 TTACATAACAAC
1 TTACAT---AAC
4989573 TTACATAAC
1 TTACATAAC
*
4989582 TCACATAAC
1 TTACATAAC
*
4989591 TTACATAAT
1 TTACATAAC
*
4989600 TTACATATC
1 TTACATAAC
*
4989609 TCACATAAC
1 TTACATAAC
*
4989618 GTACATAACAAC
1 TTACAT---AAC
4989630 TTACATAAC
1 TTACATAAC
4989639 TTA
1 TTA
4989642 ACTAATACAT
Statistics
Matches: 86, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
9 70 0.81
12 16 0.19
ACGTcount: A:0.44, C:0.22, G:0.01, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:4989583 original size:39 final size:39
Alignment explanation
Indices: 4989531--4989606 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
4989521 GAAATTACAT
*
4989531 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
4989570 AACTTACATAACTCACATAACTTACATAATTTACATA
1 AACTTACATAACTCACATAACTTACATAATTTACATA
4989607 TCTCACATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:4989615 original size:57 final size:57
Alignment explanation
Indices: 4989527--4989639 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
4989517 TAAAGAAATT
* * **
4989527 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* * *
4989584 ACATAACTTACATAATTTACATATCTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
4989640 TAACTAATAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.31
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:4995691 original size:43 final size:43
Alignment explanation
Indices: 4995644--4995749 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
4995634 AAAGTCAAGG
4995644 CTTTTAGCGGCTCTTTTTTTACAAACACCGCTAAAAGCCTTGA
1 CTTTTAGCGGCTCTTTTTTTACAAACACCGCTAAAAGCCTTGA
* * *** * * *
4995687 CTTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAATCTTTGA
1 CTTTTAGCGGCTCTTTTTTTACAAACACCGCTAAAAGCCTTGA
4995730 CTTTTAGCGGCGT-TTTTTTT
1 CTTTTAGCGGC-TCTTTTTTT
4995750 CAATAAACGC
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (43 bp):
CTTTTAGCGGCTCTTTTTTTACAAACACCGCTAAAAGCCTTGA
Found at i:5006819 original size:44 final size:44
Alignment explanation
Indices: 5006734--5006957 Score: 286
Period size: 44 Copynumber: 5.1 Consensus size: 44
5006724 CGATACCTGC
* *** * *
5006734 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGT
1 TATCTTTGATCTGCTCTCCG-CCGCTACAGAAACGCCAAATCTGT
* * * *
5006779 CATCTTTGATCTGCTCTCCGCCACTACAGAGATGCCAAATCTGT
1 TATCTTTGATCTGCTCTCCGCCGCTACAGAAACGCCAAATCTGT
* *
5006823 TATATTTGATCTGCTCTCTGCCGCTACAGAAACGCCAAATCTGT
1 TATCTTTGATCTGCTCTCCGCCGCTACAGAAACGCCAAATCTGT
**
5006867 TATCTTCAATCTGCTCTCCGCCGCTACAGAAACGCCAAATCTGT
1 TATCTTTGATCTGCTCTCCGCCGCTACAGAAACGCCAAATCTGT
* * *
5006911 TATCTTCGATCTGCTCTCCGTCGCTACAGATACGCCAAATCTGT
1 TATCTTTGATCTGCTCTCCGCCGCTACAGAAACGCCAAATCTGT
5006955 TAT
1 TAT
5006958 TTTCAACTCG
Statistics
Matches: 160, Mismatches: 19, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
44 142 0.89
45 18 0.11
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (44 bp):
TATCTTTGATCTGCTCTCCGCCGCTACAGAAACGCCAAATCTGT
Found at i:5007041 original size:132 final size:132
Alignment explanation
Indices: 5006944--5007398 Score: 813
Period size: 132 Copynumber: 3.5 Consensus size: 132
5006934 CTACAGATAC
* *
5006944 GCCAAATCTGTTATTTTCAACTCGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCAATC
1 GCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCAATC
5007009 TGCTTCACTGTAAGCATAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGG
66 TGCTTCACTGTAAGCATAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGG
5007074 AT
131 AT
*
5007076 GCCAAATCTGCTATTTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCAATC
1 GCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCAATC
* * *
5007141 TGCTTCACTGTAAGCACAGGAATATCAGATCTGCTACCTTCGATCTGTTCCCTATAAGCACAGGG
66 TGCTTCACTGTAAGCATAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGG
5007206 AT
131 AT
* *
5007208 GCCAAATATGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATC
1 GCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCAATC
*
5007273 TGCTTCACCGTAAGCATAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGG
66 TGCTTCACTGTAAGCATAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGG
5007338 AT
131 AT
*
5007340 GCCAAATCTGCTATTTTCAACTTGTT-CCTATAAGCACAGGGATGCCATACTGAAATCTT
1 GCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTT
5007399 GTTCCCTTTA
Statistics
Matches: 308, Mismatches: 15, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
131 32 0.10
132 276 0.90
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (132 bp):
GCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCAATC
TGCTTCACTGTAAGCATAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGG
AT
Found at i:5007067 original size:44 final size:44
Alignment explanation
Indices: 5006944--5007386 Score: 370
Period size: 44 Copynumber: 10.1 Consensus size: 44
5006934 CTACAGATAC
* * *
5006944 GCCAAATCTGTTATTTTC-AACTCGTTCCCTATAAGCACAGGGAT
1 GCCAAATCTGCTATCTTCGATCT-GTTCCCTATAAGCACAGGGAT
** * * * * *
5006988 GCC--ATGCTGAAATCTTCAATCTGCTTCACTGTAAGCATAGGAAT
1 GCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGAT
* *
5007032 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
1 GCCAAATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
* * *
5007076 GCCAAATCTGCTATTTTC-AACTTGTTCCCTATAAACACAGGGAT
1 GCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGAT
** * * * *
5007120 GCC--ATGCTGAAATCTTCAATCTGCTTCACTGTAAGCACAGGAAT
1 GCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGAT
** * *
5007164 ATCAGATCTGCTACCTTCGATCTGTTCCCTATAAGCACAGGGAT
1 GCCAAATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
* * *
5007208 GCCAAATATGCTATTTTC-AACTTGTTCCCTATAAGCACAGGGAT
1 GCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGAT
** * * *
5007252 GCC--ATGCTGAAATCTTCGATCTGCTTCACC-GTAAGCATAGGAAT
1 GCCAAAT-CTGCTATCTTCGATCTG-TTC-CCTATAAGCACAGGGAT
* *
5007296 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
1 GCCAAATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
* *
5007340 GCCAAATCTGCTATTTTC-AACTTGTT-CCTATAAGCACAGGGAT
1 GCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGAT
5007383 GCCA
1 GCCA
5007387 TACTGAAATC
Statistics
Matches: 316, Mismatches: 63, Indels: 41
0.75 0.15 0.10
Matches are distributed among these distances:
42 6 0.02
43 57 0.18
44 203 0.64
45 44 0.14
46 6 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
Found at i:5007477 original size:68 final size:68
Alignment explanation
Indices: 5007425--5007735 Score: 426
Period size: 68 Copynumber: 4.6 Consensus size: 68
5007415 TCTACTGTAA
* * *
5007425 CTTTTAGTCGTTCCAACGCCATTTCAGGGAGAAGAGA-TCTACTGAAACTTTAAGGAGATCTGCT
1 CTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGATTC-ACTGAAACTTCAAGGAGATCTGCT
5007489 GTGG
65 GTGG
* * *
5007493 CTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAGAGGTTCACTAAAACTTCAAGGAGATCTGCTG
1 CTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTG
5007558 TGG
66 TGG
* * * * * *
5007561 GTTTTAACCGCTCCAACGCCATTTCAGGAAGAAGAGGTTCGCTGAAACTTCAAGGAGATCTGCTA
1 CTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTG
5007626 TGG
66 TGG
** * ** *
5007629 CTTTTAGCATCTCCAACGCCATTTCAGGGAAAAGAGACCCACTGAAACTTCAAGGAGATCTGATG
1 CTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTG
5007694 TGG
66 TGG
* *
5007697 CTTTTAGCCGCTCCAACGCCATTTTAGGGAAAAGAGATT
1 CTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGATT
5007736 TGATTTCTAG
Statistics
Matches: 214, Mismatches: 28, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
68 212 0.99
69 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (68 bp):
CTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTG
TGG
Found at i:5007985 original size:45 final size:45
Alignment explanation
Indices: 5007903--5008518 Score: 422
Period size: 43 Copynumber: 14.1 Consensus size: 45
5007893 TTAGGGAGAC
* *
5007903 AAGATCTGTAAA--TTCAACCTGTTACCCTACTGGTTAGGGGGTT
1 AAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* *
5007946 AAGATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTT
1 AAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* * * *
5007991 AAGGTTTGTAAA--TTCGGCTTGTTACCCTACTGCTTAGGGGGTT
1 AAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* ** * * * * *
5008034 AA-AGC-CCATCATCTT-TGATCTGTTTCCCTACTACTTAGGGGGTT
1 AAGATCTGTA-AATCTTCAG-CCTGTTACCCTACTGCTTAGGGGGTT
*
5008078 AAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTT
1 AAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* * *
5008123 AAGATTTGTAAA--TTCGGCTTGTTACCCTACTGCTTAGGGGGTT
1 AAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* ** * * * * *
5008166 AA-AGC-CCATCATCTT-TGATCTGTTTCCCTACTACTTAGGGGGTT
1 AAGATCTGTA-AATCTTCAG-CCTGTTACCCTACTGCTTAGGGGGTT
*
5008210 AAGATCTGTAAATCTTCAGCCTGTTACTCTACTGCTTAGGGGGTT
1 AAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* * * *
5008255 AAG-GCTTGTAAA--TTCGGCTTTTTACCCTACTGCTTAGGGGGTT
1 AAGATC-TGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* ** * * *
5008298 AA-AGC-CCATCATCTTC-GATCTGTTTCCCTACTGCTTAGGGGGTT
1 AAGATCTGTA-AATCTTCAG-CCTGTTACCCTACTGCTTAGGGGGTT
* * * * *
5008342 AAGATCT-T-CATCTTC-GATCTGTTTCCCTACTGCTTAGGGAGAT
1 AAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAGGGGGTT
* * * * * * * *
5008385 AAGATCTG-CAA--TTCGGTCTATTACTCTACCGATTAGGGGTTT
1 AAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* ** * * *
5008427 AAGACCCT-T-CGTCTT-TGATCTGTTTCCCTACTGCTTAGGGGGTT
1 AAGA-TCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAGGGGGTT
*
5008471 AAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTT
1 AAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTT
5008516 AAG
1 AAG
5008519 GCTTGTGAAT
Statistics
Matches: 445, Mismatches: 93, Indels: 68
0.73 0.15 0.11
Matches are distributed among these distances:
41 3 0.01
42 29 0.07
43 151 0.34
44 108 0.24
45 149 0.33
46 5 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (45 bp):
AAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTT
Found at i:5008057 original size:132 final size:132
Alignment explanation
Indices: 5007921--5008530 Score: 892
Period size: 132 Copynumber: 4.6 Consensus size: 132
5007911 TAAATTCAAC
* * *
5007921 CTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
5007986 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTG
66 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTG
5008051 AT
131 AT
*
5008053 CTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
*
5008118 GGTTTAAGATTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTG
66 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTG
5008183 AT
131 AT
* *
5008185 CTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACTCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* * * *
5008250 GGGTTAAGGCTTGTAAATTCGGCTTTTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
66 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTG
5008315 AT
131 AT
* * *
5008317 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTC-GATCTGTTTCCCTACTGCTTAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAG
* * * * * * * * * * *
5008379 GGAG-ATAAGATCTG-CAATTCGG-TCTATTACTCTACCGATTA-GGGGTTTAAGACCCTTCGTC
65 GG-GTTTAAGGTTTGTAAATTCGGCT-TGTTACCCTACTGCTTAGGGGGTTAAAG-CCCATCATC
5008440 TTTGAT
127 TTTGAT
5008446 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* *
5008511 GGTTTAAGGCTTGTGAATTC
66 GGTTTAAGGTTTGTAAATTC
5008531 ACTGATTCTA
Statistics
Matches: 432, Mismatches: 37, Indels: 18
0.89 0.08 0.04
Matches are distributed among these distances:
128 10 0.02
129 65 0.15
130 33 0.08
131 34 0.08
132 290 0.67
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (132 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTG
AT
Found at i:5008064 original size:44 final size:44
Alignment explanation
Indices: 5008010--5008472 Score: 252
Period size: 44 Copynumber: 10.6 Consensus size: 44
5008000 AAATTCGGCT
* *
5008010 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTGATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATC
* * ** * *
5008054 TGTTTCCCTACTACTTAGGGGGTT-AAGATCTGTAAATCTTC-AGCC
1 TGTTTCCCTACTGCTTAGGGGGTTAAAG-CCCAT-CATCTTCGA-TC
* * *** * ** *
5008099 TGTTACCCTACTGCTTA-GGGGTTTAAG-ATTTGTAAATTCG-GC
1 TGTTTCCCTACTGCTTAGGGGGTTAAAGCCCAT-CATCTTCGATC
* *
5008141 TTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTGATC
1 -TGTTTCCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATC
* * ** * *
5008186 TGTTTCCCTACTACTTAGGGGGTT-AAGATCTGTAAATCTTC-AGCC
1 TGTTTCCCTACTGCTTAGGGGGTTAAAG-CCCAT-CATCTTCGA-TC
* * * *** ** *
5008231 TGTTACTCTACTGCTTAGGGGGTTAAGGCTTGT-AAATTCG-GC
1 TGTTTCCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATC
*
5008273 TTTTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATC
1 TGTTT-CCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATC
** *
5008318 TGTTTCCCTACTGCTTAGGGGGTT-AAGATCTTCATCTTCGATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATC
* * ** * *
5008361 TGTTTCCCTACTGCTTAGGGAGAT-AAGATC-TGCA-ATTCGGTC
1 TGTTTCCCTACTGCTTAGGGGGTTAAAGCCCAT-CATCTTCGATC
* * * * * * * * *
5008403 TATTACTCTACCGATTA-GGGGTTTAAGACCCTTCGTCTTTGATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAAG-CCCATCATCTTCGATC
5008447 TGTTTCCCTACTGCTTAGGGGGTTAA
1 TGTTTCCCTACTGCTTAGGGGGTTAA
5008473 GATCTGTAAA
Statistics
Matches: 316, Mismatches: 80, Indels: 45
0.72 0.18 0.10
Matches are distributed among these distances:
41 4 0.01
42 27 0.09
43 104 0.33
44 111 0.35
45 68 0.22
46 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (44 bp):
TGTTTCCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATC
Found at i:5009866 original size:8 final size:8
Alignment explanation
Indices: 5009855--5009896 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
5009845 TAGAATTTTT
5009855 TTTTTGTG
1 TTTTTGTG
5009863 TTTTTGTG
1 TTTTTGTG
5009871 TTTTTGTG
1 TTTTTGTG
5009879 TTTTT-T-
1 TTTTTGTG
5009885 TTTTTG-G
1 TTTTTGTG
5009892 TTTTT
1 TTTTT
5009897 TTTTTTGCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 5 0.16
7 6 0.19
8 21 0.66
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (8 bp):
TTTTTGTG
Found at i:5009874 original size:16 final size:14
Alignment explanation
Indices: 5009850--5009903 Score: 83
Period size: 13 Copynumber: 3.8 Consensus size: 14
5009840 TTTTTTAGAA
5009850 TTTTTTTTTTGTGT
1 TTTTTTTTTTGTGT
5009864 TTTTGTGTTTTTGTGT
1 TTTT-T-TTTTTGTGT
5009880 TTTTTTTTTTG-GT
1 TTTTTTTTTTGTGT
5009893 TTTTTTTTTTG
1 TTTTTTTTTTG
5009904 CCTTTGCCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
13 13 0.34
14 10 0.26
15 2 0.05
16 13 0.34
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (14 bp):
TTTTTTTTTTGTGT
Found at i:5009909 original size:6 final size:6
Alignment explanation
Indices: 5009900--5009935 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
5009890 GGTTTTTTTT
5009900 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
1 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
5009936 ATATAACGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.17, T:0.50
Consensus pattern (6 bp):
TTTGCC
Found at i:5011505 original size:46 final size:46
Alignment explanation
Indices: 5011445--5011664 Score: 253
Period size: 46 Copynumber: 5.0 Consensus size: 46
5011435 TTTGACATGA
* * * * * *
5011445 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
*** *
5011491 TGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
*
5011537 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
5011583 TGCCATGGTATCTTTCAACCATGGTCTT--ACA----C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
5011621 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAG
5011665 AGAGCACACT
Statistics
Matches: 151, Mismatches: 13, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
38 34 0.23
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.03
46 103 0.68
47 3 0.02
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
Found at i:5011628 original size:38 final size:38
Alignment explanation
Indices: 5011577--5011652 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
5011567 ACATTTTATA
5011577 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
5011615 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
5011653 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:5013815 original size:11 final size:11
Alignment explanation
Indices: 5013799--5013850 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
5013789 TATACTAAAT
5013799 AAATAATAATA
1 AAATAATAATA
*
5013810 AAATAAT-ATT
1 AAATAATAATA
* *
5013820 AAATATCTCATA
1 AAATA-ATAATA
*
5013832 AAATATTAATA
1 AAATAATAATA
5013843 AAATAATA
1 AAATAATA
5013851 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:5019162 original size:27 final size:27
Alignment explanation
Indices: 5019132--5019193 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
5019122 TTAGATGAGT
* *
5019132 AATATATGTAAAAA-CACATTTAAAATA
1 AATATATGCAAAAAGCA-ATTCAAAATA
*
5019159 AATAT-TACAAAAAGCAATTCAAAATA
1 AATATATGCAAAAAGCAATTCAAAATA
5019185 AATAATATG
1 AAT-ATATG
5019194 AAACAATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
26 18 0.64
27 9 0.32
28 1 0.04
ACGTcount: A:0.60, C:0.08, G:0.05, T:0.27
Consensus pattern (27 bp):
AATATATGCAAAAAGCAATTCAAAATA
Found at i:5019170 original size:25 final size:25
Alignment explanation
Indices: 5019142--5019205 Score: 60
Period size: 26 Copynumber: 2.6 Consensus size: 25
5019132 AATATATGTA
*
5019142 AAAACACATTTAAAATAAATATTAC
1 AAAACACATTTAAAATAAATAATAC
* *
5019167 AAAA-AGCAATTCAAAATAAATAATAT
1 AAAACA-C-ATTTAAAATAAATAATAC
*
5019193 GAAACA-ATTTAAA
1 AAAACACATTTAAA
5019206 GTCATCAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
24 7 0.23
25 5 0.16
26 18 0.58
27 1 0.03
ACGTcount: A:0.62, C:0.09, G:0.03, T:0.25
Consensus pattern (25 bp):
AAAACACATTTAAAATAAATAATAC
Found at i:5021441 original size:2 final size:2
Alignment explanation
Indices: 5021434--5021463 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5021424 TTGTTGTTAT
5021434 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5021464 AAGTAAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5021971 original size:20 final size:21
Alignment explanation
Indices: 5021948--5021996 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
5021938 AATTATATTG
*
5021948 AATTGAAAAAAAATAT-AGTT
1 AATTGAAAAAAAATATGAATT
**
5021968 AATT-AATTAAAATATGAATT
1 AATTGAAAAAAAATATGAATT
5021988 AATTGAAAA
1 AATTGAAAA
5021997 CTAAAAAGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
19 9 0.41
20 11 0.50
21 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (21 bp):
AATTGAAAAAAAATATGAATT
Found at i:5022385 original size:18 final size:18
Alignment explanation
Indices: 5022362--5022639 Score: 186
Period size: 18 Copynumber: 15.1 Consensus size: 18
5022352 AAAGGTATAA
*
5022362 AATAATTGATTATTACTG
1 AATAATTGATTGTTACTG
* *
5022380 AATAATTGACTGTTACCG
1 AATAATTGATTGTTACTG
* *
5022398 AATAAGTGACTGTTACTG
1 AATAATTGATTGTTACTG
* * *
5022416 AATAACTGAATATTACTG
1 AATAATTGATTGTTACTG
**
5022434 AATAATTGATCATTACTG
1 AATAATTGATTGTTACTG
* *
5022452 AATAACTGATTGTCACTG
1 AATAATTGATTGTTACTG
**
5022470 AATGAA-TGGCTGTTACTG
1 AAT-AATTGATTGTTACTG
*
5022488 AATAACTTAATTGTTACTG
1 AATAA-TTGATTGTTACTG
5022507 AAT-ATCTGATT-TTACTG
1 AATAAT-TGATTGTTACTG
*
5022524 AATAATTGACTGTTACTGG
1 AATAATTGATTGTTACT-G
* *
5022543 ATAACCGATCAATTGATCGATACTG
1 ---A---AT-AATTGATTGTTACTG
* * * *
5022568 AATAACTGGTTATTATTG
1 AATAATTGATTGTTACTG
*
5022586 AATAATTGATTGTTACCG
1 AATAATTGATTGTTACTG
* *
5022604 AATAACTGACTGTTACTG
1 AATAATTGATTGTTACTG
* *
5022622 AATAAATAATTGTT-CTG
1 AATAATTGATTGTTACTG
5022639 A
1 A
5022640 GTGTTAATGA
Statistics
Matches: 203, Mismatches: 43, Indels: 29
0.74 0.16 0.11
Matches are distributed among these distances:
17 20 0.10
18 150 0.74
19 17 0.08
22 2 0.01
25 3 0.01
26 11 0.05
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
AATAATTGATTGTTACTG
Found at i:5022483 original size:72 final size:72
Alignment explanation
Indices: 5022362--5022536 Score: 212
Period size: 72 Copynumber: 2.4 Consensus size: 72
5022352 AAAGGTATAA
* *
5022362 AATAATTGATTATTACTGAATAATTGACTGTTACCGAATAAGTGACTGTTACTGAATAACTGAA-
1 AATAATTGA-TATTACTGAATAACTGACTGTCACCGAATAAGTGACTGTTACTGAATAACTGAAT
5022426 TATTACTG
65 TATTACTG
* * * *
5022434 AATAATTGATCATTACTGAATAACTGATTGTCACTGAATGAA-TGGCTGTTACTGAATAACTTAA
1 AATAATTGAT-ATTACTGAATAACTGACTGTCACCGAAT-AAGTGACTGTTACTGAATAACTGAA
*
5022498 TTGTTACTG
64 TTATTACTG
* *
5022507 AAT-ATCTGATTTTACTGAATAATTGACTGT
1 AATAAT-TGATATTACTGAATAACTGACTGT
5022537 TACTGGATAA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
71 1 0.01
72 72 0.81
73 16 0.18
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (72 bp):
AATAATTGATATTACTGAATAACTGACTGTCACCGAATAAGTGACTGTTACTGAATAACTGAATT
ATTACTG
Found at i:5023830 original size:13 final size:12
Alignment explanation
Indices: 5023812--5023850 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
5023802 TTTCTTCCAA
5023812 TTTTATAACTTTT
1 TTTTATAA-TTTT
5023825 TTTTATAAATTTT
1 TTTTAT-AATTTT
*
5023838 GTTTATAATTTT
1 TTTTATAATTTT
5023850 T
1 T
5023851 ATGATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 6 0.26
13 15 0.65
14 2 0.09
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (12 bp):
TTTTATAATTTT
Found at i:5023832 original size:157 final size:152
Alignment explanation
Indices: 5023655--5023941 Score: 389
Period size: 157 Copynumber: 1.9 Consensus size: 152
5023645 TTTAATAAAT
* * *
5023655 ATTTTATATCTTTTTTTATAAATTTTGTTTATAATTTTTATGTTTTTTTAAATATTTTTAAAAAT
1 ATTTTATAACTTTTTTTATAAATTTTGTTTATAATTTTTATG-ATTTTT-AATAATTTT--AAAT
* ** * * * *
5023720 T-T-AAAGGGCTTAATTGTTTTTTTTTCATTTGTTACTAAGGCTTTTTTGACCCTTTAGTCTTAT
62 TATAAAAGGGATTAATT-AATTTTTTTAATTTGCTACTAAGGCATTTTT-ACCCTTTAGCCTTAT
5023783 TAATTTCAAGATTTTTTATTTTCTTCCA
125 TAATTTCAAGATTTTTTATTTTCTTCCA
5023811 ATTTTATAACTTTTTTTTATAAATTTTGTTTATAATTTTTATGATTTTTAATAATTTTAAATTAT
1 ATTTTATAAC-TTTTTTTATAAATTTTGTTTATAATTTTTATGATTTTTAATAATTTTAAATTAT
**
5023876 AAAAGGGATTAATTAATTTTTTTAATTTGCTACTAAGGCATTTTTAGTCTTTAGCCTTATTAATT
65 AAAAGGGATTAATTAATTTTTTTAATTTGCTACTAAGGCATTTTTACCCTTTAGCCTTATTAATT
5023941 T
130 T
5023942 TTAAAGGGCT
Statistics
Matches: 116, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
153 23 0.20
154 27 0.23
155 20 0.17
156 14 0.12
157 32 0.28
ACGTcount: A:0.28, C:0.07, G:0.08, T:0.57
Consensus pattern (152 bp):
ATTTTATAACTTTTTTTATAAATTTTGTTTATAATTTTTATGATTTTTAATAATTTTAAATTATA
AAAGGGATTAATTAATTTTTTTAATTTGCTACTAAGGCATTTTTACCCTTTAGCCTTATTAATTT
CAAGATTTTTTATTTTCTTCCA
Found at i:5024547 original size:30 final size:31
Alignment explanation
Indices: 5024513--5024575 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
5024503 TAAATTTGAA
*
5024513 AATATGAAGATATT-TAAATATTAATA-TATT
1 AATATCAA-ATATTATAAATATTAATATTATT
* *
5024543 AATATCAAATATTATAATTTTTAATATTATT
1 AATATCAAATATTATAAATATTAATATTATT
5024574 AA
1 AA
5024576 ACATATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.18
30 17 0.61
31 6 0.21
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (31 bp):
AATATCAAATATTATAAATATTAATATTATT
Found at i:5025674 original size:2 final size:2
Alignment explanation
Indices: 5025659--5025701 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
5025649 CAAAAAAACT
*
5025659 TA TA TC TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5025700 TA
1 TA
5025702 GAAACACGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:5031304 original size:14 final size:14
Alignment explanation
Indices: 5031285--5031316 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
5031275 ATTATCATGG
5031285 AAGGATTTTCACAT
1 AAGGATTTTCACAT
5031299 AAGGATTTTCACAT
1 AAGGATTTTCACAT
5031313 AAGG
1 AAGG
5031317 CAAGGAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (14 bp):
AAGGATTTTCACAT
Found at i:5039226 original size:15 final size:15
Alignment explanation
Indices: 5039206--5039239 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
5039196 ACTAGCATGT
5039206 TAGTACATTGTTCGG
1 TAGTACATTGTTCGG
5039221 TAGTACATTGTTCGG
1 TAGTACATTGTTCGG
5039236 TAGT
1 TAGT
5039240 GGGTGATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.41
Consensus pattern (15 bp):
TAGTACATTGTTCGG
Found at i:5040170 original size:24 final size:24
Alignment explanation
Indices: 5040143--5040191 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
5040133 CGGAAGAGGA
5040143 GAGTTTTCGAT-GATATTGGCTGAG
1 GAGTTTTC-ATAGATATTGGCTGAG
* *
5040167 GAGTTTTCATAGTTTTTGGCTGAG
1 GAGTTTTCATAGATATTGGCTGAG
5040191 G
1 G
5040192 GATTTTGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.18, C:0.08, G:0.33, T:0.41
Consensus pattern (24 bp):
GAGTTTTCATAGATATTGGCTGAG
Found at i:5046450 original size:69 final size:70
Alignment explanation
Indices: 5046339--5046480 Score: 277
Period size: 69 Copynumber: 2.0 Consensus size: 70
5046329 ATTAATTACT
5046339 TTTCTTATTAATAAAATTTTAACATAAATATGCAATGCTTAGGATTACATTTTC-AAAAATAAAG
1 TTTCTTATTAATAAAATTTTAACATAAATATGCAATGCTTAGGATTACATTTTCAAAAAATAAAG
5046403 TCTTA
66 TCTTA
5046408 TTTCTTATTAATAAAATTTTAACATAAATATGCAATGCTTAGGATTACATTTTCAAAAAATAAAG
1 TTTCTTATTAATAAAATTTTAACATAAATATGCAATGCTTAGGATTACATTTTCAAAAAATAAAG
5046473 TCTTA
66 TCTTA
5046478 TTT
1 TTT
5046481 ATTTATATTT
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
69 54 0.75
70 18 0.25
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.42
Consensus pattern (70 bp):
TTTCTTATTAATAAAATTTTAACATAAATATGCAATGCTTAGGATTACATTTTCAAAAAATAAAG
TCTTA
Found at i:5047998 original size:33 final size:35
Alignment explanation
Indices: 5047918--5048001 Score: 100
Period size: 33 Copynumber: 2.4 Consensus size: 35
5047908 AGCAGAGCTC
5047918 CTACTTATGCTTCTCCTAGAAGATCTTACAGGACTT
1 CTACTTATGCTTCTCC-AGAAGATCTTACAGGACTT
** * *
5047954 CCGCTAATGCTTCTCC-G-AGATCTTGCAGGACTT
1 CTACTTATGCTTCTCCAGAAGATCTTACAGGACTT
*
5047987 CTACTTGTGCTTCTC
1 CTACTTATGCTTCTC
5048002 TTTGAAAGTC
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
33 26 0.65
34 1 0.03
36 13 0.32
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.36
Consensus pattern (35 bp):
CTACTTATGCTTCTCCAGAAGATCTTACAGGACTT
Found at i:5051990 original size:84 final size:84
Alignment explanation
Indices: 5051846--5052015 Score: 243
Period size: 84 Copynumber: 2.0 Consensus size: 84
5051836 AAAGCATGTG
* * * *
5051846 CATAACACAAATACTACAACGTTTAAAACATTTCCATGAAATGATTGAATTTTAATATATTAAAA
1 CATAACACAAATACGACAACGTTCAAAACATTTCCATGAAATAATTGAATTTTAAAATATTAAAA
*
5051911 GAAAGGAGAATCCTGTACC
66 GAAAGGAGAATCCTGCACC
* * *
5051930 CATAACACAAATAGGAC-ACTGTTCAAATCATTTCCATGAAATAATTGGATTTTAAAATATTAAA
1 CATAACACAAATACGACAAC-GTTCAAAACATTTCCATGAAATAATTGAATTTTAAAATATTAAA
*
5051994 AGAAAGGAGAATCTTGCACC
65 AGAAAGGAGAATCCTGCACC
5052014 CA
1 CA
5052016 CTCTTCATTA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
83 2 0.03
84 74 0.97
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.28
Consensus pattern (84 bp):
CATAACACAAATACGACAACGTTCAAAACATTTCCATGAAATAATTGAATTTTAAAATATTAAAA
GAAAGGAGAATCCTGCACC
Found at i:5074750 original size:29 final size:29
Alignment explanation
Indices: 5074718--5074778 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
5074708 TTTGTTATAA
5074718 ATTCAATGTTAAATTTAAAAAATTTAGAG
1 ATTCAATGTTAAATTTAAAAAATTTAGAG
5074747 ATTCAATGTTAAATTTAAAAAATTTAGAG
1 ATTCAATGTTAAATTTAAAAAATTTAGAG
5074776 ATT
1 ATT
5074779 TGATAAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCAATGTTAAATTTAAAAAATTTAGAG
Found at i:5083945 original size:23 final size:23
Alignment explanation
Indices: 5083898--5083942 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
5083888 TTCTTTTATC
5083898 TTTTCACTATTCAATTTCCTTTG
1 TTTTCACTATTCAATTTCCTTTG
*
5083921 TTTTCA-TATTCGATTT-CTTTG
1 TTTTCACTATTCAATTTCCTTTG
5083942 T
1 T
5083943 GTTAGATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 9 0.43
23 6 0.29
ACGTcount: A:0.16, C:0.18, G:0.07, T:0.60
Consensus pattern (23 bp):
TTTTCACTATTCAATTTCCTTTG
Found at i:5084497 original size:25 final size:25
Alignment explanation
Indices: 5084465--5084513 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
5084455 TTTATTCTAG
*
5084465 TTAATTATTTTTATATT-ATTTAAGA
1 TTAATTATTTATAT-TTGATTTAAGA
5084490 TTAATTATTTATATTTGATTTAAG
1 TTAATTATTTATATTTGATTTAAG
5084514 TAGAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (25 bp):
TTAATTATTTATATTTGATTTAAGA
Found at i:5085495 original size:8 final size:9
Alignment explanation
Indices: 5085459--5085492 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
5085449 GAGTATAAAT
*
5085459 ATATATTTA
1 ATATTTTTA
*
5085468 ATTTTTTTA
1 ATATTTTTA
5085477 ATATTTTTA
1 ATATTTTTA
5085486 ATATTTT
1 ATATTTT
5085493 AATTAATTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
ATATTTTTA
Found at i:5099312 original size:28 final size:28
Alignment explanation
Indices: 5099272--5099327 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
5099262 AAAATATAGG
5099272 GACTAGAAAAGAAGAAATTTTCTTCATT
1 GACTAGAAAAGAAGAAATTTTCTTCATT
5099300 GACTAGAAAAGAAGAAATTTTCTTCATT
1 GACTAGAAAAGAAGAAATTTTCTTCATT
5099328 CTGGCAGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (28 bp):
GACTAGAAAAGAAGAAATTTTCTTCATT
Found at i:5105897 original size:5 final size:5
Alignment explanation
Indices: 5105887--5105918 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
5105877 AGGTTATCAA
5105887 GCTAG GCTAG GCTAG GCTAG GCTAG GCTAG GC
1 GCTAG GCTAG GCTAG GCTAG GCTAG GCTAG GC
5105919 ATAAAAGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.22, G:0.41, T:0.19
Consensus pattern (5 bp):
GCTAG
Found at i:5108620 original size:42 final size:42
Alignment explanation
Indices: 5108564--5108648 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
5108554 CATGAGCACC
*
5108564 TAAATTGCAAGCTTTTTATGTTAAGAGCCTGAAATAAAAACA
1 TAAACTGCAAGCTTTTTATGTTAAGAGCCTGAAATAAAAACA
*
5108606 TAAACTGCTAGCTTTTTATGTTAAGAGCCTGAAATAAAAACA
1 TAAACTGCAAGCTTTTTATGTTAAGAGCCTGAAATAAAAACA
5108648 T
1 T
5108649 TTAATAGTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (42 bp):
TAAACTGCAAGCTTTTTATGTTAAGAGCCTGAAATAAAAACA
Found at i:5113034 original size:35 final size:35
Alignment explanation
Indices: 5112988--5113057 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
5112978 GACCAAAAGA
5112988 AAAAAAATCTTGACATACCAAATTAGTTTTCATTC
1 AAAAAAATCTTGACATACCAAATTAGTTTTCATTC
5113023 AAAAAAATCTTGACATACCAAATTAGTTTTCATTC
1 AAAAAAATCTTGACATACCAAATTAGTTTTCATTC
5113058 CAATTTAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (35 bp):
AAAAAAATCTTGACATACCAAATTAGTTTTCATTC
Found at i:5115413 original size:188 final size:188
Alignment explanation
Indices: 5115091--5115440 Score: 477
Period size: 188 Copynumber: 1.9 Consensus size: 188
5115081 AAATGAAGAA
* * * ** *
5115091 GGTTTAAGGAACGCCCACAAACTACATTTAAGTTAGAAATTTAGTAACTCGGGCTTAAGCACCAA
1 GGTTCAAGGAACGCCCACAAACTACATTTAAGTTAGAAATTTAGCAACCCAAGCGTAAGCACCAA
** * * * *
5115156 TGCATGCAGGAAGCATCTCAAAGTAAAGAAAAAAGCTAGAAGTCTGAACAGCATACAGAGGCAAT
66 TGCAAACAAGAAGCATCTCAAAGTAAAGAAAAAAGCTACAAGTCAGAACAGCATAAAGAGGCAAT
*
5115221 TAACCTAATTTATGCAAAAGTACCACATGAAGATAGAAATACCAGTGTTGCTATCTTG
131 TAACCTAATTTATGCAAAAATACCACATGAAGATAGAAATACCAGTGTTGCTATCTTG
* * * * **
5115279 GGTTCAAGGAACTCCCACAAACTACATTTCAGTTATAAATTTAGCAACCCAAGCGTAAGTACCGG
1 GGTTCAAGGAACGCCCACAAACTACATTTAAGTTAGAAATTTAGCAACCCAAGCGTAAGCACCAA
* * *
5115344 TGCAAACAAGCAGCATCTCAAAGTAAGGAAAAAAGCTACAAGTCCAG-GCAGCATAAAGAGGCAA
66 TGCAAACAAGAAGCATCTCAAAGTAAAGAAAAAAGCTACAAGT-CAGAACAGCATAAAGAGGCAA
*
5115408 TTAACCTAATTTATGCAAAAATCCCACATGAAG
130 TTAACCTAATTTATGCAAAAATACCACATGAAG
5115441 GCAGGAAATG
Statistics
Matches: 138, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
188 136 0.99
189 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (188 bp):
GGTTCAAGGAACGCCCACAAACTACATTTAAGTTAGAAATTTAGCAACCCAAGCGTAAGCACCAA
TGCAAACAAGAAGCATCTCAAAGTAAAGAAAAAAGCTACAAGTCAGAACAGCATAAAGAGGCAAT
TAACCTAATTTATGCAAAAATACCACATGAAGATAGAAATACCAGTGTTGCTATCTTG
Found at i:5124558 original size:6 final size:7
Alignment explanation
Indices: 5124538--5124562 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5124528 ATTTGATACT
5124538 AATAAAA
1 AATAAAA
5124545 AATAAAA
1 AATAAAA
5124552 AATAAAA
1 AATAAAA
5124559 AATA
1 AATA
5124563 CCATAGTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AATAAAA
Found at i:5131737 original size:14 final size:14
Alignment explanation
Indices: 5131711--5131747 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
5131701 CTAAAAAATA
5131711 CTATAAA-CATTTT
1 CTATAAATCATTTT
*
5131724 TTATAAATCATTTT
1 CTATAAATCATTTT
5131738 CTATAAATCA
1 CTATAAATCA
5131748 AATACACCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.46
Consensus pattern (14 bp):
CTATAAATCATTTT
Found at i:5133977 original size:30 final size:28
Alignment explanation
Indices: 5133928--5133984 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
5133918 AACATGTGAC
5133928 AAAAATTTAAAAATACAAATAAAAATAA
1 AAAAATTTAAAAATACAAATAAAAATAA
* *
5133956 AAAATATTTAAAATTTACAAATATAAATA
1 AAAA-ATTTAAAA-ATACAAATAAAAATA
5133985 TATAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.16
29 8 0.32
30 13 0.52
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (28 bp):
AAAAATTTAAAAATACAAATAAAAATAA
Found at i:5134426 original size:23 final size:24
Alignment explanation
Indices: 5134391--5134435 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
5134381 AGTTTATTTT
5134391 TCATAAATAAATTCTA-TTTTTCG
1 TCATAAATAAATTCTAGTTTTTCG
* * *
5134414 TCATAACTCAATTTTAGTTTTT
1 TCATAAATAAATTCTAGTTTTT
5134436 TACCCATAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.31, C:0.13, G:0.04, T:0.51
Consensus pattern (24 bp):
TCATAAATAAATTCTAGTTTTTCG
Found at i:5136735 original size:3 final size:3
Alignment explanation
Indices: 5136727--5136756 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
5136717 TCTTATTGCC
5136727 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5136757 ATATAGTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:5139306 original size:3 final size:3
Alignment explanation
Indices: 5139298--5139357 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
5139288 ACTTGTAATA
5139298 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5139346 TAT TAT TAT TAT
1 TAT TAT TAT TAT
5139358 GCACGTGTGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:5143472 original size:24 final size:22
Alignment explanation
Indices: 5143445--5143502 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
5143435 AATTTTAATA
*
5143445 TTTATTTATATGGTTTTAATCCTT
1 TTTATTTATAT--TTTTAATCATT
*
5143469 TTTAATTATTATTTTTAATCATT
1 TTTATTTA-TATTTTTAATCATT
5143492 TTTATATTATA
1 TTTAT-TTATA
5143503 AATATATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 16 0.55
24 10 0.34
25 3 0.10
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (22 bp):
TTTATTTATATTTTTAATCATT
Found at i:5154825 original size:13 final size:13
Alignment explanation
Indices: 5154807--5154833 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5154797 AGAATCAAGA
5154807 ATTAAAGAAATTG
1 ATTAAAGAAATTG
5154820 ATTAAAGAAATTG
1 ATTAAAGAAATTG
5154833 A
1 A
5154834 GAAAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.30
Consensus pattern (13 bp):
ATTAAAGAAATTG
Found at i:5156414 original size:2 final size:2
Alignment explanation
Indices: 5156407--5156435 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5156397 AAATATAAAA
5156407 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
5156436 AAGAAACCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5158703 original size:63 final size:63
Alignment explanation
Indices: 5158604--5158852 Score: 444
Period size: 63 Copynumber: 4.0 Consensus size: 63
5158594 GCAAACAGCA
* * * *
5158604 AATACAGAACCTTCTCGTTTATTTGATGACCTCTTACTGTGCAGATGGTTCCTTTCTCTCTTT
1 AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATATGGTTCCTTTCTCTCATT
5158667 AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATATGGTTCCTTTCTCTCATT
1 AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATATGGTTCCTTTCTCTCATT
5158730 AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATATGGTTCCTTTCTCTCATT
1 AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATATGGTTCCTTTCTCTCATT
* *
5158793 AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATAAGGTTCCTTTGTCTC
1 AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATATGGTTCCTTTCTCTC
5158853 TTTCTATTAT
Statistics
Matches: 180, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 180 1.00
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.42
Consensus pattern (63 bp):
AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATATGGTTCCTTTCTCTCATT
Found at i:5170032 original size:16 final size:16
Alignment explanation
Indices: 5170007--5170037 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5169997 AAAAATATAT
5170007 ATTTTCAATTTTTAAA
1 ATTTTCAATTTTTAAA
*
5170023 ATTTTTAATTTTTAA
1 ATTTTCAATTTTTAA
5170038 GAACCAAGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTTCAATTTTTAAA
Found at i:5181257 original size:17 final size:17
Alignment explanation
Indices: 5181235--5181270 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
5181225 GAAACAGTGA
5181235 AAGGCGAAAACTAGAAG
1 AAGGCGAAAACTAGAAG
5181252 AAGGCGAAAACTAGAAG
1 AAGGCGAAAACTAGAAG
5181269 AA
1 AA
5181271 AATACTCTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.11, G:0.28, T:0.06
Consensus pattern (17 bp):
AAGGCGAAAACTAGAAG
Found at i:5187489 original size:18 final size:17
Alignment explanation
Indices: 5187442--5187489 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
5187432 TATTTTGTTA
*
5187442 AAAATTAAATATATAATT
1 AAAATTAAA-AAATAATT
*
5187460 AAAATTACAAAAATATTT
1 AAAATTA-AAAAATAATT
5187478 AAAAGTTAAAAA
1 AAAA-TTAAAAA
5187490 GCGAAAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 21 0.81
19 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAATTAAAAAATAATT
Found at i:5188561 original size:14 final size:13
Alignment explanation
Indices: 5188504--5188573 Score: 70
Period size: 13 Copynumber: 5.4 Consensus size: 13
5188494 AATACACATC
5188504 AAAATATAAAAAT
1 AAAATATAAAAAT
* * *
5188517 CAAACATACAAAT
1 AAAATATAAAAAT
5188530 AAAATATAAAAA-
1 AAAATATAAAAAT
**
5188542 ATTATATAAAAAT
1 AAAATATAAAAAT
*
5188555 AAATATAGAAAAAT
1 AAA-ATATAAAAAT
5188569 AAAAT
1 AAAAT
5188574 CAATTAACAC
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
12 10 0.23
13 22 0.50
14 12 0.27
ACGTcount: A:0.71, C:0.04, G:0.01, T:0.23
Consensus pattern (13 bp):
AAAATATAAAAAT
Found at i:5188818 original size:25 final size:25
Alignment explanation
Indices: 5188790--5188839 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
5188780 GCTGAACTTT
*
5188790 TTACAACTCAATGATGATTCAATAC
1 TTACAACTCAATGATGATCCAATAC
* *
5188815 TTACAACTCAGTGGTGATCCAATAC
1 TTACAACTCAATGATGATCCAATAC
5188840 ATTTTAAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (25 bp):
TTACAACTCAATGATGATCCAATAC
Done.