Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 38 of 313
Found at i:12807916 original size:122 final size:123
Alignment explanation
Indices: 12807640--12807900 Score: 416
Period size: 122 Copynumber: 2.1 Consensus size: 123
12807630 AGTTATATGA
* *
12807640 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTATTTTAGCGGCGTTTTACCAAAAG
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATACTCTGTATCTTAGCGGCGTTTTACCAAAAG
* * ** *
12807705 CGCCGCTAATGCTCTGTCTTTTAGCGGCATTTTACCAAAAGCGTCGCTACTGCTCTGT
66 CACCGCTAATGCTCTGTCTTTTAGCGGCATTTTACCAAAAGCGCCGCTAAAGCTCTAT
* * *
12807763 CTTTTAGCGGCGTTTTACCAAAAGTGCCGCTACTACTCTGTCTCTTAGCGGCGTTTTACC-AAAG
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATACTCTGTATCTTAGCGGCGTTTTACCAAAAG
*
12807827 CACCGCTAATGCTCTGTCTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAAAGCTCTAT
66 CACCGCTAATGCTCTGTCTTTTAGCGGCATTTTACCAAAAGCGCCGCTAAAGCTCTAT
12807885 CTTTTAGCGGCGTTTT
1 CTTTTAGCGGCGTTTT
12807901 TGGTAAAACG
Statistics
Matches: 127, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
122 72 0.57
123 55 0.43
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (123 bp):
CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATACTCTGTATCTTAGCGGCGTTTTACCAAAAG
CACCGCTAATGCTCTGTCTTTTAGCGGCATTTTACCAAAAGCGCCGCTAAAGCTCTAT
Found at i:12807920 original size:41 final size:41
Alignment explanation
Indices: 12807640--12807900 Score: 416
Period size: 41 Copynumber: 6.4 Consensus size: 41
12807630 AGTTATATGA
12807640 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
*
12807681 ATTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* * *
12807722 CTTTTAGCGGCATTTTACCAAAAGCGTCGCTACTGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* * *
12807763 CTTTTAGCGGCGTTTTACCAAAAGTGCCGCTACTACTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* *
12807804 CTCTTAGCGGCGTTTTACC-AAAGCACCGCTAATGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* *
12807844 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAAAGCTCTAT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
12807885 CTTTTAGCGGCGTTTT
1 CTTTTAGCGGCGTTTT
12807901 TGGTAAAACG
Statistics
Matches: 201, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 35 0.17
41 166 0.83
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (41 bp):
CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
Found at i:12818591 original size:40 final size:40
Alignment explanation
Indices: 12818536--12818654 Score: 193
Period size: 40 Copynumber: 3.0 Consensus size: 40
12818526 GTATGTTTGC
**
12818536 TATGCGAGTTGATATATCCGGGCTGTGACCCGAAGGCAAT
1 TATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
*
12818576 TATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAAT
1 TATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* *
12818616 TATGCGAGTTGATATGTCCGGGTTAAGACCCGAAGGCAA
1 TATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAA
12818655 ATGTGTTTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (40 bp):
TATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
Found at i:12821031 original size:10 final size:10
Alignment explanation
Indices: 12820986--12821044 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
12820976 TAATTTTAAG
12820986 ATTTAT-TTT
1 ATTTATCTTT
12820995 CATTTATCTTT
1 -ATTTATCTTT
* *
12821006 AATCATCTTT
1 ATTTATCTTT
*
12821016 AATTATCTTT
1 ATTTATCTTT
12821026 ATTTAT-TTGT
1 ATTTATCTT-T
12821036 ATTTATCTT
1 ATTTATCTT
12821045 GTAGAATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
9 2 0.05
10 35 0.83
11 5 0.12
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.64
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:12827813 original size:27 final size:27
Alignment explanation
Indices: 12827790--12827848 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
12827780 GGCATTTCGA
*
12827790 TAATTTTACAAGTCGAGGGTATTTCAG
1 TAATTGTACAAGTCGAGGGTATTTCAG
* *
12827817 TAATTGTACAGGTCGAGGGTATTTTAG
1 TAATTGTACAAGTCGAGGGTATTTCAG
12827844 TAATT
1 TAATT
12827849 TCACAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (27 bp):
TAATTGTACAAGTCGAGGGTATTTCAG
Found at i:12828209 original size:28 final size:29
Alignment explanation
Indices: 12828172--12828244 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 29
12828162 AAGTCTACGT
* *
12828172 ACATGCATATTGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* * *
12828200 TCATTCATATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
*
12828229 ACATTTATATGGCCCA
1 ACATTCATATGGCCCA
12828245 TCTGACCCGA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 19 0.53
29 17 0.47
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:12840155 original size:3 final size:3
Alignment explanation
Indices: 12840147--12840187 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
12840137 AAATCATTTA
12840147 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12840188 AAGATCAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12843771 original size:38 final size:38
Alignment explanation
Indices: 12843672--12843773 Score: 186
Period size: 38 Copynumber: 2.7 Consensus size: 38
12843662 GCTTAAAGGT
*
12843672 CCGCAGGCTTCGTGCTGGTATTACATCTGGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
12843710 CCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
*
12843748 CCGCAGGCTTAGTGCTGGTATTATAT
1 CCGCAGGCTTCGTGCTGGTATTATAT
12843774 TCGAGCTTAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (38 bp):
CCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
Found at i:12851558 original size:11 final size:13
Alignment explanation
Indices: 12851526--12851551 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12851516 TTTATGGTCT
12851526 AGATTTCGTGAAA
1 AGATTTCGTGAAA
12851539 AGATTTCGTGAAA
1 AGATTTCGTGAAA
12851552 GTTTCGTTCG
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:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
AGATTTCGTGAAA
Found at i:12853203 original size:13 final size:13
Alignment explanation
Indices: 12853185--12853210 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12853175 TTATGTGATA
12853185 TTCTAATTTTTGT
1 TTCTAATTTTTGT
12853198 TTCTAATTTTTGT
1 TTCTAATTTTTGT
12853211 GAGATAGTGT
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:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
TTCTAATTTTTGT
Found at i:12858657 original size:42 final size:42
Alignment explanation
Indices: 12858610--12858694 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
12858600 TTACACGCGT
12858610 GTGTGAACAAACCGTGTGCCTCACACGGCTTTAGACACACCC
1 GTGTGAACAAACCGTGTGCCTCACACGGCTTTAGACACACCC
* * * *
12858652 GTGTGAATAGATCGTGTGCCTCACACGGCTTTAGACACGCCC
1 GTGTGAACAAACCGTGTGCCTCACACGGCTTTAGACACACCC
12858694 G
1 G
12858695 AGTGTCTAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.21
Consensus pattern (42 bp):
GTGTGAACAAACCGTGTGCCTCACACGGCTTTAGACACACCC
Found at i:12859180 original size:25 final size:22
Alignment explanation
Indices: 12859125--12859167 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
12859115 TATTCACCAT
*
12859125 TCCAAATCATGCCAAATCATGA
1 TCCAAATCATGCCAAAACATGA
*
12859147 GCCAAAATCATGCCAAAACAT
1 TCC-AAATCATGCCAAAACAT
12859168 ATGATCCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 2 0.11
23 16 0.89
ACGTcount: A:0.44, C:0.28, G:0.09, T:0.19
Consensus pattern (22 bp):
TCCAAATCATGCCAAAACATGA
Found at i:12859430 original size:18 final size:18
Alignment explanation
Indices: 12859376--12859433 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
12859366 CCTAAAGCTC
*
12859376 TCATGCATTCTTCTCCCT
1 TCATCCATTCTTCTCCCT
* *** *
12859394 TCATCCAGTAAGCTTCCT
1 TCATCCATTCTTCTCCCT
12859412 TCATCCATTCTTCTCCCT
1 TCATCCATTCTTCTCCCT
12859430 TCAT
1 TCAT
12859434 TCCTTCAAAT
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.16, C:0.38, G:0.05, T:0.41
Consensus pattern (18 bp):
TCATCCATTCTTCTCCCT
Found at i:12860156 original size:12 final size:12
Alignment explanation
Indices: 12860139--12860164 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12860129 CGTTTGTGTA
12860139 TTCGATATAATG
1 TTCGATATAATG
12860151 TTCGATATAATG
1 TTCGATATAATG
12860163 TT
1 TT
12860165 TTCTAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (12 bp):
TTCGATATAATG
Found at i:12861562 original size:13 final size:13
Alignment explanation
Indices: 12861544--12861571 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12861534 CTTGTACAAG
12861544 TAAACTTCATAAA
1 TAAACTTCATAAA
12861557 TAAACTTCATAAA
1 TAAACTTCATAAA
12861570 TA
1 TA
12861572 GAGAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTTCATAAA
Found at i:12862935 original size:44 final size:41
Alignment explanation
Indices: 12862798--12862950 Score: 180
Period size: 43 Copynumber: 3.6 Consensus size: 41
12862788 AATGACAACA
* * * * *
12862798 TCCCAGACGTGGTTTTACATGTAATCAAATGTCGATGCCACTG
1 TCCCAGACATGGTCTTACACGAAATCAAA--TCGATGCCAATG
*
12862841 TCCCAGACAGGGTCTTACACGAAATCAAATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCAAAT-CGATGCCAATG
*
12862883 TCCCAGACATGGTCTTACACATAAATCATAAATCGATGCCAATG
1 TCCCAGACATGGTCTTACAC-GAAATC--AAATCGATGCCAATG
*
12862927 TCCTAGACATGGTCTTACACGAAA
1 TCCCAGACATGGTCTTACACGAAA
12862951 ACACATATCG
Statistics
Matches: 96, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.01
42 29 0.30
43 32 0.33
44 30 0.31
45 4 0.04
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (41 bp):
TCCCAGACATGGTCTTACACGAAATCAAATCGATGCCAATG
Found at i:12869736 original size:28 final size:29
Alignment explanation
Indices: 12869626--12869740 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
12869616 GTGAGCATGA
* *
12869626 ATATGAATGTGA-CTGGGCCTAATGGGAC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
12869654 ATATAAATGTGATTTGAGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
12869683 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
12869712 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
12869740 A
1 A
12869741 GATACATGTA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 28 0.37
29 46 0.61
30 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:12874092 original size:18 final size:19
Alignment explanation
Indices: 12874059--12874094 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
12874049 ATTTGTCCAT
12874059 ATGGGCCAGAATGGGCTAA
1 ATGGGCCAGAATGGGCTAA
*
12874078 ATGGGCCCG-ATGGGCTA
1 ATGGGCCAGAATGGGCTA
12874095 TTAGGCCCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.25, C:0.19, G:0.39, T:0.17
Consensus pattern (19 bp):
ATGGGCCAGAATGGGCTAA
Found at i:12874259 original size:29 final size:28
Alignment explanation
Indices: 12874174--12874275 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 28
12874164 TGAATGTGGC
**
12874174 TGGGCCTAATGGGATATATAAATGTGATT
1 TGGGCCTAATGGGCCATAT-AATGTGATT
* *
12874203 TAGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATA-ATGTGATT
* *
12874232 TGGGTCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATAT-AATGTGATT
*
12874260 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
12874276 GATACAGGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
28 16 0.26
29 44 0.72
30 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.30
Consensus pattern (28 bp):
TGGGCCTAATGGGCCATATAATGTGATT
Found at i:12874260 original size:58 final size:57
Alignment explanation
Indices: 12874174--12874284 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 57
12874164 TGAATGTGGC
* * *
12874174 TGGGCCTAATGGGATATATAAATGTGATTTAGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGACATATAAATATGA-TTAGGCCTAATGGGCCAGATACAGGTGATT
* * * * *
12874232 TGGGTCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAATGGGACATATAAATATGATTAGGCCTAATGGGCCAGATACAGGT
12874285 ATGTGAAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 23 0.51
58 22 0.49
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.30
Consensus pattern (57 bp):
TGGGCCTAATGGGACATATAAATATGATTAGGCCTAATGGGCCAGATACAGGTGATT
Found at i:12877399 original size:43 final size:42
Alignment explanation
Indices: 12877352--12877486 Score: 116
Period size: 42 Copynumber: 3.1 Consensus size: 42
12877342 TAGACGTGGA
*
12877352 CTTACATGTAATCAAATATCGATG-CCACTGTCCCAGATAGGGT
1 CTTACATGTAATCAAATAT-GATGTCCA-TGTCCCAGACAGGGT
* * * *
12877395 CTTACATGAAATTAAATATGATGTCGATGTCCCAGACATGGT
1 CTTACATGTAATCAAATATGATGTCCATGTCCCAGACAGGGT
* *
12877437 CTTACACGTAAATCGTAAAT-TGATG-CCAATATCCCAGAC-GTGGT
1 CTTACATGT-AATC--AAATATGATGTCC-ATGTCCCAGACAG-GGT
12877481 CTTACA
1 CTTACA
12877487 CCAAAACACA
Statistics
Matches: 75, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
42 24 0.32
43 23 0.31
44 24 0.32
45 4 0.05
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (42 bp):
CTTACATGTAATCAAATATGATGTCCATGTCCCAGACAGGGT
Found at i:12877472 original size:44 final size:42
Alignment explanation
Indices: 12877330--12877487 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 42
12877320 ATCTCGTACA
* * * * * * *
12877330 ATGCCAACGTCCTAGACGTGGACTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATTAAATAT-G
* * * *
12877373 ATGCCACTGTCCCAGATAGGGTCTTACATGAAATTAAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATTAAATATG
* *
12877415 ATGTCGATGTCCCAGACATGGTCTTACACGTAAATCGTAAAT-TG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAAT--TAAATATG
* *
12877459 ATGCCAATATCCCAGACGTGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
12877488 CAAAACACAT
Statistics
Matches: 93, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
42 25 0.27
43 36 0.39
44 27 0.29
45 5 0.05
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATTAAATATG
Found at i:12887807 original size:27 final size:27
Alignment explanation
Indices: 12887777--12887954 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
12887767 ATATTGAGTC
* * * *
12887777 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
12887804 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12887831 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
12887859 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
12887886 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
12887913 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12887940 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12887955 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:12887916 original size:82 final size:81
Alignment explanation
Indices: 12887798--12887953 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
12887788 TGCTATATAA
* *
12887798 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
12887863 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
12887880 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
12887944 CACTTAGTGC
65 CACTTAGTGC
12887954 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:12895275 original size:27 final size:27
Alignment explanation
Indices: 12895245--12895422 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
12895235 ATATTGAGTC
* * * *
12895245 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
12895272 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12895299 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
12895327 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
12895354 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
12895381 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12895408 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12895423 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:12895384 original size:82 final size:81
Alignment explanation
Indices: 12895266--12895421 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
12895256 TGCTATATAA
* *
12895266 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
12895331 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
12895348 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
12895412 CACTTAGTGC
65 CACTTAGTGC
12895422 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:12907530 original size:72 final size:69
Alignment explanation
Indices: 12907442--12907638 Score: 288
Period size: 69 Copynumber: 2.8 Consensus size: 69
12907432 CAATTTATCT
* * *
12907442 CGTAGCTCTCTTGTCTACAAGGTG-TCCTTCACTGGGAATCACACATGTGACCTAGCTACATTTA
1 CGTAGCTCTCTTGTCTACAAGG-GATACATC-C--CGAATCACACATGTGACCTAGCTACATTTA
12907506 TCCTCTCC
62 TCCTCTCC
* *
12907514 CGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACATTTATCCT
1 CGTAGCTCTCTTGTCTACAAGGGATACATCCCGAATCACACATGTGACCTAGCTACATTTATCCT
12907579 CTCC
66 CTCC
* *
12907583 CGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACAAGGGATACATCCCGAATCACACATGTGACCTAGCTAC
12907639 TACATAGTGT
Statistics
Matches: 119, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
69 92 0.77
71 2 0.02
72 25 0.21
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.31
Consensus pattern (69 bp):
CGTAGCTCTCTTGTCTACAAGGGATACATCCCGAATCACACATGTGACCTAGCTACATTTATCCT
CTCC
Found at i:12907566 original size:69 final size:69
Alignment explanation
Indices: 12907479--12907638 Score: 320
Period size: 69 Copynumber: 2.3 Consensus size: 69
12907469 TTCACTGGGA
12907479 ATCACACATGTGACCTAGCTACATTTATCCTCTCCCGTAGCTCTCTTGTCTACATGGGATACATC
1 ATCACACATGTGACCTAGCTACATTTATCCTCTCCCGTAGCTCTCTTGTCTACATGGGATACATC
12907544 CCGT
66 CCGT
12907548 ATCACACATGTGACCTAGCTACATTTATCCTCTCCCGTAGCTCTCTTGTCTACATGGGATACATC
1 ATCACACATGTGACCTAGCTACATTTATCCTCTCCCGTAGCTCTCTTGTCTACATGGGATACATC
12907613 CCGT
66 CCGT
12907617 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
12907639 TACATAGTGT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 91 1.00
ACGTcount: A:0.23, C:0.32, G:0.14, T:0.31
Consensus pattern (69 bp):
ATCACACATGTGACCTAGCTACATTTATCCTCTCCCGTAGCTCTCTTGTCTACATGGGATACATC
CCGT
Found at i:12907570 original size:38 final size:38
Alignment explanation
Indices: 12907528--12907638 Score: 94
Period size: 38 Copynumber: 3.1 Consensus size: 38
12907518 GCTCTCTTGT
12907528 CTACATGGGATACATCCCGTATCACACATGTGACCTAG
1 CTACATGGGATACATCCCGTATCACACATGTGACCTAG
** * * * * *
12907566 CTACAT-TTATCCTCTCCCGTAGCTCTC-T-TG---T--
1 CTACATGGGATAC-ATCCCGTATCACACATGTGACCTAG
12907597 CTACATGGGATACATCCCGTATCACACATGTGACCTAG
1 CTACATGGGATACATCCCGTATCACACATGTGACCTAG
12907635 CTAC
1 CTAC
12907639 TACATAGTGT
Statistics
Matches: 50, Mismatches: 14, Indels: 18
0.61 0.17 0.22
Matches are distributed among these distances:
31 16 0.32
32 4 0.08
33 3 0.06
36 3 0.06
37 4 0.08
38 20 0.40
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (38 bp):
CTACATGGGATACATCCCGTATCACACATGTGACCTAG
Found at i:12914636 original size:72 final size:72
Alignment explanation
Indices: 12914552--12914714 Score: 317
Period size: 72 Copynumber: 2.3 Consensus size: 72
12914542 CAATTTATCT
12914552 CGTAGCTCTCTTGTCTACAAGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACAAGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACATTTAT
12914617 CCTCTCC
66 CCTCTCC
*
12914624 CGTAGCTCTCTTGTCTACAAGGTGTGCTTCACTTGGAATCACACATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACAAGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACATTTAT
12914689 CCTCTCC
66 CCTCTCC
12914696 CGTAGCTCTCTTGTCTACA
1 CGTAGCTCTCTTGTCTACA
12914715 TGGGATACAT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 90 1.00
ACGTcount: A:0.20, C:0.31, G:0.16, T:0.33
Consensus pattern (72 bp):
CGTAGCTCTCTTGTCTACAAGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACATTTAT
CCTCTCC
Found at i:12914756 original size:72 final size:71
Alignment explanation
Indices: 12914552--12914751 Score: 271
Period size: 72 Copynumber: 2.8 Consensus size: 71
12914542 CAATTTATCT
* * *
12914552 CGTAGCTCTCTTGTCTACAAGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACAAGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATTTAT
12914617 CCTCTCC
65 CCTCTCC
* * *
12914624 CGTAGCTCTCTTGTCTACAAGGTGTGCTTCACTTGGAATCACACATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACAAGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATTTAT
12914689 CCTCTCC
65 CCTCTCC
* * *
12914696 CGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACAAGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC
12914752 TACATAGTGT
Statistics
Matches: 120, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
69 22 0.18
71 2 0.02
72 96 0.80
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACAAGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATTTATC
CTCTCC
Found at i:12938373 original size:40 final size:40
Alignment explanation
Indices: 12938329--12938440 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
12938319 GCGTATCGAT
* * *
12938329 ATAGCTTCGGCTATATAAAGAACTTAGTGTGTGCA-TCGGA-
1 ATAGCTTCGGCTATA-AAGGCACTTAGTGTGTG-AGACGGAG
*
12938369 ATAGCTTCGGCTATAAATGGCACTTAGTGTGTGAGACTGAG
1 ATAGCTTCGGCTATAAA-GGCACTTAGTGTGTGAGACGGAG
12938410 ATAGCTTCGGCTATGAAAGGCACTTAGTGTG
1 ATAGCTTCGGCTAT-AAAGGCACTTAGTGTG
12938441 CGAGTTTATA
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
39 3 0.05
40 31 0.48
41 27 0.42
42 3 0.05
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (40 bp):
ATAGCTTCGGCTATAAAGGCACTTAGTGTGTGAGACGGAG
Found at i:12939981 original size:85 final size:85
Alignment explanation
Indices: 12939838--12940781 Score: 1861
Period size: 85 Copynumber: 11.1 Consensus size: 85
12939828 GGCCGGCCAT
12939838 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
12939903 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
12939923 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGAGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
12939988 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
12940008 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
12940073 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
12940093 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
12940158 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
12940178 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
12940243 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
12940263 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
12940328 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
12940348 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
12940413 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
12940433 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
12940498 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
12940518 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
12940583 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
12940603 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
12940668 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
12940688 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGAGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
12940753 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
12940773 GGGCATGGG
1 GAGCATGGG
12940782 CAATAAAATA
Statistics
Matches: 855, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 855 1.00
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:12943022 original size:47 final size:47
Alignment explanation
Indices: 12942971--12944221 Score: 2106
Period size: 47 Copynumber: 26.4 Consensus size: 47
12942961 TTAGGATTTT
*
12942971 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
12943018 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
12943065 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
12943112 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
*
12943159 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
12943206 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
12943253 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
12943300 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
12943347 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
12943394 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
12943441 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
12943488 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
12943535 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
12943582 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
12943629 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
12943676 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
*
12943723 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
*** * *
12943770 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCTA
12943823 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
* *
12943870 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
* * * * *
12943917 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
* *
12943964 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
* * * * *
12944011 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
** * * *
12944058 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
*** * *
12944105 ATGTGATGAATGTGAACCCGTATATATATGTCTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCTA
*
12944156 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
*
12944203 CTGTGATGAATGTGAACAT
1 ATGTGATGAATGTGAACAT
12944222 NTGGCTATTG
Statistics
Matches: 1150, Mismatches: 44, Indels: 20
0.95 0.04 0.02
Matches are distributed among these distances:
47 1063 0.92
48 1 0.00
49 2 0.00
51 41 0.04
52 1 0.00
53 42 0.04
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTA
Found at i:12943850 original size:23 final size:23
Alignment explanation
Indices: 12943823--12943897 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
12943813 CGAATGGCCA
12943823 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* *
12943846 ATGTG-TGATAAG-G-CCGAATG-GCT
1 ATGTGATGA-ATGTGAAC--ATGCG-T
12943869 AATGTGATGAATGTGAACATGCGT
1 -ATGTGATGAATGTGAACATGCGT
12943893 ATGTG
1 ATGTG
12943898 TGATAAGGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
21 1 0.03
22 5 0.13
23 16 0.41
24 11 0.28
25 5 0.13
26 1 0.03
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.29
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:12944934 original size:40 final size:40
Alignment explanation
Indices: 12944571--12944922 Score: 533
Period size: 40 Copynumber: 8.8 Consensus size: 40
12944561 GAGAATTGAG
*
12944571 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
12944611 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
12944651 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
12944691 AGTGATATATCCGGGCTAAGTCCCGAGGAGAATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
12944731 AGTGATATATCTGGGCTAAGTCCCGAGGAGCATTCGTGAT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
12944771 AGTGATATATCTGGGCTAAGTCCCGAGGAGCATTTGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
12944811 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* ** *
12944851 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
12944891 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCA
12944923 ATCATGCTGG
Statistics
Matches: 285, Mismatches: 27, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 285 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:12945203 original size:58 final size:57
Alignment explanation
Indices: 12945134--12945242 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 57
12945124 CGAATGATTA
* *
12945134 GAGGCACTGTGTGTGCAAATTCTTTTAAACGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAAACAAGCACTATGTGTGCGAAATCGGTAATT
* * * *
12945192 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAAACAAGCACTATGTGTGCGAAATCG
12945243 ATCAGTGGGC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 25 0.56
58 20 0.44
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAAACAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:12945464 original size:32 final size:32
Alignment explanation
Indices: 12945423--12945486 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
12945413 GACAAGTACG
12945423 ACGCTCTTTAAATTGACAAATCTTAAGAAGTA
1 ACGCTCTTTAAATTGACAAATCTTAAGAAGTA
12945455 ACGCTCTTTAAATTGACAAATCTTAAGAAGTA
1 ACGCTCTTTAAATTGACAAATCTTAAGAAGTA
12945487 GAATTGAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (32 bp):
ACGCTCTTTAAATTGACAAATCTTAAGAAGTA
Found at i:12949046 original size:47 final size:49
Alignment explanation
Indices: 12948995--12949203 Score: 228
Period size: 47 Copynumber: 4.2 Consensus size: 49
12948985 TTAGGATTTT
* * * *
12948995 ATGTGATGGATGTGAA-C-ATGCGTATGTGTGATAAGGCCGAATTGCCA
1 ATGTGATGAATGTGAACCTATACATATGTGTGATAAGGCCGAATGGCCA
*
12949042 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-CC-TATACATATGTGTGATAAGGCCGAATGGCCA
* *
12949093 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACC----TATACATATGTGTGATAAGGCCGAATGGCCA
* * * * *
12949146 ATGTGATGAGTGTGAA-C-ATGCGTTTGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACCTATACATATGTGTGATAAGGCCGAATGGCCA
12949193 ATGTGATGAAT
1 ATGTGATGAAT
12949204 NNNNNNNNNN
Statistics
Matches: 140, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
47 49 0.35
49 1 0.01
50 2 0.01
51 42 0.30
52 1 0.01
53 45 0.32
ACGTcount: A:0.29, C:0.12, G:0.30, T:0.28
Consensus pattern (49 bp):
ATGTGATGAATGTGAACCTATACATATGTGTGATAAGGCCGAATGGCCA
Found at i:12949142 original size:53 final size:51
Alignment explanation
Indices: 12949017--12949203 Score: 247
Period size: 53 Copynumber: 3.7 Consensus size: 51
12949007 TGAACATGCG
*
12949017 TATGTGTGATAAGGCCGAATTGCCAATGTGATGAATGTGAACCCGTATATA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATA
*
12949068 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCG--TATATA
* * ***
12949121 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAGTGTGAA--C--ATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATA
* *
12949168 TTTGTGTGATAAGGCCGGATGGCCAATGTGATGAAT
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
12949204 NNNNNNNNNN
Statistics
Matches: 122, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
47 34 0.28
51 43 0.35
53 45 0.37
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.28
Consensus pattern (51 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATA
Found at i:12966153 original size:19 final size:20
Alignment explanation
Indices: 12966108--12966153 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
12966098 CTGAAAACTC
12966108 ATATTTAATAATAAGTTTTA
1 ATATTTAATAATAAGTTTTA
* *
12966128 ACA-TTAATAAT-ATTTTTA
1 ATATTTAATAATAAGTTTTA
12966146 ATATTTAA
1 ATATTTAA
12966154 AAAATAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 8 0.36
19 12 0.55
20 2 0.09
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
ATATTTAATAATAAGTTTTA
Found at i:12967660 original size:29 final size:30
Alignment explanation
Indices: 12967628--12967716 Score: 85
Period size: 31 Copynumber: 3.0 Consensus size: 30
12967618 TTGATTTAAT
12967628 GTGTAATTGTATATATG-AACTTTAATTTG
1 GTGTAATTGTATATATGAAACTTTAATTTG
* * * *
12967657 GTGTAATTATACACATGAAACTCTAATTGTG
1 GTGTAATTGTATATATGAAACTTTAATT-TG
*
12967688 GT-TCAAATGTATACT-TGAAACTTTAATTT
1 GTGT-AATTGTATA-TATGAAACTTTAATTT
12967717 TGATTTAATC
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
29 14 0.30
30 11 0.23
31 22 0.47
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (30 bp):
GTGTAATTGTATATATGAAACTTTAATTTG
Found at i:12967884 original size:30 final size:30
Alignment explanation
Indices: 12967850--12967914 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
12967840 AATTTACAAG
* *
12967850 AATTGGATC-AAATTAAAATTTCATGTATA-A
1 AATTGGA-CAAAATT-AAAGTTCATATATACA
*
12967880 AATTGTACAAAATTAAAGTTCATATATACA
1 AATTGGACAAAATTAAAGTTCATATATACA
12967910 AATTG
1 AATTG
12967915 CACATTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.35
Consensus pattern (30 bp):
AATTGGACAAAATTAAAGTTCATATATACA
Found at i:12968137 original size:29 final size:30
Alignment explanation
Indices: 12968095--12968168 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
12968085 CCAAAATTTG
* * *
12968095 AAATTGTGGGTTCATCTATTT-TAAAAAAT
1 AAATTATGGATTCATCTATTTCTAAAAAAC
*
12968124 AAATTATGGATTCATCTTTTTCTAAAAAAC
1 AAATTATGGATTCATCTATTTCTAAAAAAC
* *
12968154 AAATTCTAGATTCAT
1 AAATTATGGATTCAT
12968169 ACCTAAACAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
29 18 0.47
30 20 0.53
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (30 bp):
AAATTATGGATTCATCTATTTCTAAAAAAC
Found at i:12975544 original size:40 final size:40
Alignment explanation
Indices: 12975488--12975611 Score: 171
Period size: 40 Copynumber: 3.1 Consensus size: 40
12975478 NNNNNNNNNN
*
12975488 CGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCT
1 CGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCC
** *
12975528 CGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACC
1 CGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCC
* *
12975568 CGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCC
1 CGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCC
12975607 CGAAG
1 CGAAG
12975612 ATACTTGGGT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
39 13 0.18
40 59 0.80
41 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCC
Found at i:12984662 original size:49 final size:49
Alignment explanation
Indices: 12984542--12985009 Score: 731
Period size: 49 Copynumber: 9.8 Consensus size: 49
12984532 CCCTTCGGGA
* * * * * *
12984542 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
12984589 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
12984636 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
12984685 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
12984734 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
12984783 CTTATCACATATATATACACTTTCATATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
12984832 CTTATCAC--ATATATACACTTTCACATTCATCACCTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
12984879 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
12984926 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
12984975 CTTATCAC--ATATATACACTTTCACATCCATCACAT
1 CTTATCACATATATATACACTTTCACATTCATCACAT
12985010 AGAATCCTAA
Statistics
Matches: 396, Mismatches: 19, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 158 0.40
49 237 0.60
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:12984746 original size:96 final size:95
Alignment explanation
Indices: 12984542--12985009 Score: 724
Period size: 96 Copynumber: 4.9 Consensus size: 95
12984532 CCCTTCGGGA
* * * * * * * *
12984542 CTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
12984606 CTTTCACATTCATCACATCGGCTATTAGGC
66 CTTTCACATTCATCACATCGGCTATTAGGC
*
12984636 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
12984701 ACACTTTCACATTCATCACATCGGCTATTAGGC
63 ACACTTTCACATTCATCACATCGGCTATTAGGC
*
12984734 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* * *
12984799 ACACTTTCATATTCATCACGTCGGCCATTAGGC
63 ACACTTTCACATTCATCACATCGGCTATTAGGC
*
12984832 CTTATCAC-ATATATACACTTTCACATTCATCACCTCGGCCATTAGGCCTTATCACATATATACA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
12984896 CTTTCACATTCATCACATCGGCTATTAGGC
66 CTTTCACATTCATCACATCGGCTATTAGGC
12984926 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
12984991 ACTTTCACATCCATCACAT
65 ACTTTCACATTCATCACAT
12985010 AGAATCCTAA
Statistics
Matches: 349, Mismatches: 19, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
94 52 0.15
96 155 0.44
98 142 0.41
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (95 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCTATTAGGC
Found at i:12987616 original size:40 final size:40
Alignment explanation
Indices: 12987572--12988516 Score: 1622
Period size: 40 Copynumber: 23.4 Consensus size: 40
12987562 GGGTGTCACA
12987572 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
* *
12987612 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACTATATC
* * * *
12987655 CAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTACATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
12987695 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
12987735 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
12987775 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
12987815 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
12987855 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
12987895 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
12987935 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
12987975 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
12988015 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
12988055 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
12988095 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
12988135 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
12988175 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
12988215 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
12988255 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
12988295 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
* *
12988335 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACTATATC
* * *
12988378 CAGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACTATATC
* ** * *
12988421 CGGGCTAAGTCTCGAAGGCATTCATGCTAGTGACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
* * *
12988461 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
*
12988501 C-GGCTAAATCCCGAAG
1 CGGGCTAAGTCCCGAAG
12988517 ATACTTGGGT
Statistics
Matches: 867, Mismatches: 32, Indels: 13
0.95 0.04 0.01
Matches are distributed among these distances:
39 13 0.01
40 741 0.85
41 2 0.00
43 111 0.13
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
Found at i:12990593 original size:46 final size:47
Alignment explanation
Indices: 12990540--12990756 Score: 196
Period size: 46 Copynumber: 4.6 Consensus size: 47
12990530 TGTGTGAGCA
* *
12990540 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGA-TCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGAGAGGCT
* * * *
12990586 AGTGTAAGACCATTTCTGGGACATGGCATC-GACATTGAGACGAG-GGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGAGAGGCT
* * *
12990634 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA-A-GCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATG-AGAGGCT
* * * *
12990680 AGTGTAAGACATGTCTGAGACATGCATCGGCTACGAGATGATA-GTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGGCT
*
12990726 AGTGTAAGACCATGTGTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
12990757 ACTTGAGATA
Statistics
Matches: 141, Mismatches: 19, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
45 1 0.01
46 69 0.49
47 44 0.31
48 26 0.18
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGGCT
Found at i:12990765 original size:47 final size:48
Alignment explanation
Indices: 12990584--12990802 Score: 193
Period size: 46 Copynumber: 4.7 Consensus size: 48
12990574 ATTATGAGAT
* * **
12990584 CTAGTGTAAGACCATTTCTGGGACATGGCATCGACATTGAGACGA-GGG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TCGAGACGATAAG
*
12990632 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACG-TAAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGAGACGATAAG
* * * *
12990678 CCAGTGTAAGA-CATGTCTGAGACAT-GCATCGGCTACGAGATGAT-AG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGACGATAAG
* * * * *
12990724 TTAGTGTAAGACCATGTGTGGGACATGGCATCGACTTGAGA-TATCAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGACGATAAG
* * * *
12990771 CCAGTGTAAAACCGTGTCTAGGACATGGCATC
1 CTAGTGTAAGACCATGTCTGGGACATGGCATC
12990803 AGCACCTTAC
Statistics
Matches: 142, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
45 3 0.02
46 60 0.42
47 60 0.42
48 19 0.13
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGACGATAAG
Found at i:12990795 original size:140 final size:141
Alignment explanation
Indices: 12990540--12990802 Score: 338
Period size: 140 Copynumber: 1.9 Consensus size: 141
12990530 TGTGTGAGCA
* * *
12990540 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGATCTAGTGTAAGACCATTTCTGG
1 AGTGTAAGACATGTCTGAGACATGCATCGGCCACATGATGAGATCTAGTGTAAGACCATGTCTGG
** * * *
12990605 GACATGGCATCGACATTGAGACGAGGGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG
66 GACATGGCATCGACATTGAGACGACAGCCAGTGTAAAACATGTCTAGGACATGGCATCGGCCTCG
12990669 AGACGTAAGCC
131 AGACGTAAGCC
* * *
12990680 AGTGTAAGACATGTCTGAGACATGCATCGGCTACGA-GATGATAGT-TAGTGTAAGACCATGTGT
1 AGTGTAAGACATGTCTGAGACATGCATCGGCCAC-ATGATGAGA-TCTAGTGTAAGACCATGTCT
* *
12990743 GGGACATGGCATCGAC-TTGAGA-TATCAGCCAGTGTAAAACCGTGTCTAGGACATGGCATC
64 GGGACATGGCATCGACATTGAGACGA-CAGCCAGTGTAAAA-CATGTCTAGGACATGGCATC
12990803 AGCACCTTAC
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
138 1 0.01
139 16 0.15
140 81 0.77
141 7 0.07
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGAGACATGCATCGGCCACATGATGAGATCTAGTGTAAGACCATGTCTGG
GACATGGCATCGACATTGAGACGACAGCCAGTGTAAAACATGTCTAGGACATGGCATCGGCCTCG
AGACGTAAGCC
Found at i:12997558 original size:23 final size:23
Alignment explanation
Indices: 12997532--12997575 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
12997522 ATTGGTTTGG
*
12997532 TTTGAGATGATGATA-AGATGAGT
1 TTTGAGAT-ATGAAATAGATGAGT
*
12997555 TTTGTGATATGAAATAGATGA
1 TTTGAGATATGAAATAGATGA
12997576 AATTATGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (23 bp):
TTTGAGATATGAAATAGATGAGT
Found at i:13001954 original size:15 final size:16
Alignment explanation
Indices: 13001915--13001954 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
13001905 ATTATTTTCT
13001915 TTTTCATTTAATTAAA
1 TTTTCATTTAATTAAA
* *
13001931 TTGTCATTTAA-TAAC
1 TTTTCATTTAATTAAA
13001946 TTTTCATTT
1 TTTTCATTT
13001955 TTCCAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTTCATTTAATTAAA
Found at i:13017157 original size:132 final size:133
Alignment explanation
Indices: 13016831--13017226 Score: 632
Period size: 132 Copynumber: 3.0 Consensus size: 133
13016821 CGAGATCTGC
* * *
13016831 AATTGTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGGTGGTGGCTTAAATCTGCTTAACTGT
1 AATT-TCAACCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGT
* * * * * *
13016896 AACTTCAGGAAGCCAAGATTTGTCGCCTTCGATCTACTCTACTGCAACTTCATGGAAACAAGATC
65 AACTTCAGGAAGCCAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATC
13016961 TAAA
130 TAAA
13016965 AATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGTA
1 AATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGTA
13017030 ACTTCAGGAAGCCAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCT
66 ACTTCAGGAAGCCAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCT
13017095 -AA
131 AAA
***
13017097 AATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACAACA
1 AATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGTA
* * * *
13017162 ACTTCAGGAAGCCAAGAATCGCCGTCTTCGGTCTGCTTCACTGCAACTTCAGGGAAACAGGATCT
66 ACTTCAGGAAGCCAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCT
13017227 GTAGGATTCA
Statistics
Matches: 246, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
132 125 0.51
133 117 0.48
134 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (133 bp):
AATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGTA
ACTTCAGGAAGCCAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCT
AAA
Found at i:13021178 original size:20 final size:20
Alignment explanation
Indices: 13021155--13021208 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
13021145 AGTTTTTCCC
*
13021155 AGCTCGATTTAGCTCAC-ATG
1 AGCTCAATTTAGCTC-CTATG
* *
13021175 AGCTTAATTTAGCTCCTTTG
1 AGCTCAATTTAGCTCCTATG
13021195 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
13021209 TACTTTAGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCCTATG
Found at i:13021199 original size:30 final size:30
Alignment explanation
Indices: 13021165--13021228 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
13021155 AGCTCGATTT
13021165 AGCTCACA-TGAGCTTAATTTAGCTCCTTTG
1 AGCTCA-ATTGAGCTTAATTTAGCTCCTTTG
* * *
13021195 AGCTCAATTTAGCTTACTTTAGCTCGTTTG
1 AGCTCAATTGAGCTTAATTTAGCTCCTTTG
13021225 AGCT
1 AGCT
13021229 TGGCTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (30 bp):
AGCTCAATTGAGCTTAATTTAGCTCCTTTG
Found at i:13021218 original size:20 final size:20
Alignment explanation
Indices: 13021155--13021219 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
13021145 AGTTTTTCCC
* * * *
13021155 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
* *
13021175 AGCTTAATTTAGC-TCCTTT
1 AGCTCAATTTAGCTTACTTT
13021194 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
13021215 AGCTC
1 AGCTC
13021220 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
19 2 0.06
20 28 0.80
21 5 0.14
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:13027391 original size:43 final size:43
Alignment explanation
Indices: 13027330--13027415 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
13027320 TCCGCGCTCC
13027330 GACTCCAACTCATATTTCACGCTTAGTGTGCCTGCCTGAACCG
1 GACTCCAACTCATATTTCACGCTTAGTGTGCCTGCCTGAACCG
*
13027373 GACTCCAACTCATATTTCACGCTTAGTGTGCCTGTCTGAACCG
1 GACTCCAACTCATATTTCACGCTTAGTGTGCCTGCCTGAACCG
13027416 CTAGAGTTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (43 bp):
GACTCCAACTCATATTTCACGCTTAGTGTGCCTGCCTGAACCG
Found at i:13030879 original size:131 final size:131
Alignment explanation
Indices: 13030602--13031010 Score: 396
Period size: 132 Copynumber: 3.1 Consensus size: 131
13030592 TCGCCTTCGC
* * *
13030602 TTTGAAAGATTTTTAATAA-ACATGAGTGAAAACCTAAAAGGAATATTCAATTGTTTTGAGCAAA
1 TTTGAAGGA-TTTTAAAAAGACATGAGTGAAAACCTAAAAGGAATATTCGATTGTTTTGAGCAAA
* ** * * * * * * * *
13030666 CGAGAAGTCACAACCCAACACGATAGGGCATGA-TTCTCGAATTATCAAACACCGAGTATTGCCT
65 CG-GAAATTGCAACCCAACACGTTAGGGCACGATTTCGCGAATTGT-AAACATCGAGTCTCGTCT
**
13030730 TTGT
128 TCAT
* * * * *
13030734 TTTAAAAGATTTTTAGAAGACATGAGTGAAAACCT-AAAGGAATATTCGATTGTTTTGAGCAGAC
1 TTTGAAGGATTTTAAAAAGACATGAGTGAAAACCTAAAAGGAATATTCGATTGTTTTGAGCAAAC
* * *
13030798 GCGAAATTGCAACCCAACACGTTAGGGCACGATTTCGCGAATTGTTAACTATAGGGTCTCGTCTT
66 G-GAAATTGCAACCCAACACGTTAGGGCACGATTTCGCGAATTGTAAAC-ATCGAGTCTCGTCTT
13030863 CAT
129 CAT
* ** ** *
13030866 TTTGAAGGATTTTAAAAAGACGTGAGTG-AAATTTCGAAGTG-ATATTCGATTATTTTGAGCAAA
1 TTTGAAGGATTTTAAAAAGACATGAGTGAAAACCTAAAAG-GAATATTCGATTGTTTTGAGCAAA
* * * * *
13030929 CGTAGAATTGCAACCCAACATGTTAGGGCACGATTTCGCAAATTGCCAAACATCGAATCTCGTCT
65 CGGA-AATTGCAACCCAACACGTTAGGGCACGATTTCGCGAATTG-TAAACATCGAGTCTCGTCT
13030994 TCAT
128 TCAT
13030998 TTTGAAGGATTTT
1 TTTGAAGGATTTT
13031011 TGAATGAATG
Statistics
Matches: 230, Mismatches: 40, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
131 68 0.30
132 158 0.69
133 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (131 bp):
TTTGAAGGATTTTAAAAAGACATGAGTGAAAACCTAAAAGGAATATTCGATTGTTTTGAGCAAAC
GGAAATTGCAACCCAACACGTTAGGGCACGATTTCGCGAATTGTAAACATCGAGTCTCGTCTTCA
T
Found at i:13035057 original size:20 final size:20
Alignment explanation
Indices: 13035034--13035081 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
13035024 AGCTTCGTCC
13035034 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** *
13035054 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
13035074 AGCTCAAC
1 AGCTCAAC
13035082 CAAGCTTACT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:13035205 original size:33 final size:33
Alignment explanation
Indices: 13035158--13035223 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
13035148 AGTTTGCTAC
*
13035158 AGCTCATGCCGAAACCCCCAGCTTAATTTTAGG
1 AGCTCATGCAGAAACCCCCAGCTTAATTTTAGG
13035191 AGCTCATGCAGAAACCCCCAGCTTAATTTTAGG
1 AGCTCATGCAGAAACCCCCAGCTTAATTTTAGG
13035224 TCATTAAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (33 bp):
AGCTCATGCAGAAACCCCCAGCTTAATTTTAGG
Found at i:13037600 original size:21 final size:21
Alignment explanation
Indices: 13037576--13037643 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
13037566 GATTTTGAAT
13037576 GAAATCGAGAGAAGAAACAAA
1 GAAATCGAGAGAAGAAACAAA
***** *
13037597 GAAAAT-GAGAGAATCTTGAAT
1 G-AAATCGAGAGAAGAAACAAA
*
13037618 GAAATCGAGAAAAGAAACAAA
1 GAAATCGAGAGAAGAAACAAA
13037639 GAAAT
1 GAAAT
13037644 GAAAGAAAAA
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 4 0.12
21 24 0.75
22 4 0.12
ACGTcount: A:0.59, C:0.07, G:0.22, T:0.12
Consensus pattern (21 bp):
GAAATCGAGAGAAGAAACAAA
Found at i:13037616 original size:42 final size:42
Alignment explanation
Indices: 13037554--13037650 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
13037544 AGATGATGAG
* * *
13037554 AGAAAATGAGAGGATTTTGAATGAAATCGAGAGAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
13037596 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
*
13037638 AG-AAATGAAAGAA
1 AGAAAATGAGAGAA
13037651 AAAGAAAAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 10 0.20
42 41 0.80
ACGTcount: A:0.57, C:0.05, G:0.24, T:0.14
Consensus pattern (42 bp):
AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
Found at i:13037677 original size:18 final size:18
Alignment explanation
Indices: 13037654--13037703 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
13037644 GAAAGAAAAA
*
13037654 GAAAAAGAGATTGAGAGT
1 GAAAAAGAGAATGAGAGT
* *
13037672 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGAGT
13037690 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
13037704 AAAAGAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (18 bp):
GAAAAAGAGAATGAGAGT
Found at i:13037680 original size:24 final size:24
Alignment explanation
Indices: 13037647--13037728 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
13037637 AAGAAATGAA
13037647 AGAAAAAGAAAAAGAGATTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
* * * *
13037671 TGAAAAAGAAAATGAGATTGAAAA
1 AGAAAAAGAAAAAGAGATTGAGAG
* * *
13037695 AGAGAATGAAAAAGAGTTTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
13037719 AGAAAAAGAA
1 AGAAAAAGAA
13037729 TGTGAACAAG
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.61, C:0.00, G:0.27, T:0.12
Consensus pattern (24 bp):
AGAAAAAGAAAAAGAGATTGAGAG
Found at i:13039371 original size:20 final size:20
Alignment explanation
Indices: 13039348--13039401 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
13039338 AGCTCCGTCC
13039348 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** **
13039368 AGCTCGTTTCAGCTTGTTTG
1 AGCTCAACTCAGCTCATTTG
*
13039388 AGCTCAACTGAGCT
1 AGCTCAACTCAGCT
13039402 TACTTTCAGC
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.33
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:13042548 original size:20 final size:21
Alignment explanation
Indices: 13042523--13042573 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
13042513 GGCCTGCTCG
13042523 CACGGGCA-TGTCCCAAGCCA
1 CACGGGCAGTGTCCCAAGCCA
*
13042543 CACGGG-AGTGTCCCATGCCA
1 CACGGGCAGTGTCCCAAGCCA
*
13042563 CATGGGC-GTGT
1 CACGGGCAGTGT
13042574 GGCCCTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.20, C:0.33, G:0.31, T:0.16
Consensus pattern (21 bp):
CACGGGCAGTGTCCCAAGCCA
Found at i:13049322 original size:27 final size:26
Alignment explanation
Indices: 13049290--13049342 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
13049280 CACTTTGGAA
13049290 GTGGGAAAGAGGGACTATGGACTTTG
1 GTGGGAAAGAGGGACTATGGACTTTG
*
13049316 NGTGGGAAAGAGTGACTATGGACTTTG
1 -GTGGGAAAGAGGGACTATGGACTTTG
13049343 TTAGTGGGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.08, G:0.40, T:0.25
Consensus pattern (26 bp):
GTGGGAAAGAGGGACTATGGACTTTG
Found at i:13053234 original size:46 final size:47
Alignment explanation
Indices: 13053172--13053275 Score: 174
Period size: 46 Copynumber: 2.2 Consensus size: 47
13053162 CCCTTCGGGA
* *
13053172 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
*
13053219 CTTA-CACATATATACACTTTCTCATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
13053265 CTTATCACATA
1 CTTATCACATA
13053276 ATTAATACTA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
46 43 0.81
47 10 0.19
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:13058810 original size:55 final size:55
Alignment explanation
Indices: 13058732--13058988 Score: 209
Period size: 55 Copynumber: 4.8 Consensus size: 55
13058722 ATTAGGGTTT
13058732 AAGGATACCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
* ** * * *
13058787 AAGGATACCGTGTAAGACCATGTCAAAACATGGC-ATTGATAAGTTATTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAGGT-TTCTAAGGC
* * * * * *
13058842 AAAGG-T-CCTGTGTAAGGCCATGCCAAGGCATGAC-ATTGGTGA-G-CTCATAAGGC
1 -AAGGATACC-ATGTAAGACCATGTCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
* * *
13058895 AAGGATACCATGTAAGACGATGTCGAGACATGGCAA-TGGTAA-GTTTC-AA---
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
* * *
13058944 AAGGATACCATGTGAGACCATGAC-AGGTCATGG-AAATGGTAAGGT
1 AAGGATACCATGTAAGACCATGTCAAGG-CATGGCAATTGGTAAGGT
13058989 ACCCGTGTAT
Statistics
Matches: 162, Mismatches: 29, Indels: 27
0.74 0.13 0.12
Matches are distributed among these distances:
48 4 0.02
49 32 0.20
50 2 0.01
52 7 0.04
53 31 0.19
54 16 0.10
55 66 0.41
56 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
Found at i:13064256 original size:40 final size:40
Alignment explanation
Indices: 13064173--13064358 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
13064163 TTGAATGATG
* * * *
13064173 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
13064213 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
13064253 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
13064293 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
13064334 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
13064359 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:13064365 original size:80 final size:79
Alignment explanation
Indices: 13064226--13064391 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
13064216 GGACTAAGAT
* **
13064226 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
13064290 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
13064306 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
13064370 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
13064385 CCGAAGG
1 CCGAAGG
13064392 TACGTGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:13072277 original size:79 final size:81
Alignment explanation
Indices: 13072141--13072325 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
13072131 TTGAATGATG
*
13072141 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
13072205 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
13072220 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-CAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
13072282 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
13072300 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
13072326 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:13072339 original size:40 final size:40
Alignment explanation
Indices: 13072142--13072325 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
13072132 TGAATGATGT
* * * *
13072142 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
13072182 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
13072222 CCGGGCTAAG-CCCGAAGGCATTTGTGCCAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
13072260 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
13072301 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
13072326 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:13072405 original size:85 final size:85
Alignment explanation
Indices: 13072301--13072470 Score: 315
Period size: 85 Copynumber: 2.0 Consensus size: 85
13072291 GTTACTATAA
*
13072301 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT-TCGAAGGTACGTG
1 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCT-GAAGGTACGTC
13072365 ATTTGGGAATGAATGATCTTG
65 ATTTGGGAATGAATGATCTTG
13072386 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCTGAAGGTACGTCA
1 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCTGAAGGTACGTCA
13072451 TTTGGGAATGAATGATCTTG
66 TTTGGGAATGAATGATCTTG
13072471 TTGTAAAAAT
Statistics
Matches: 83, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
85 82 0.99
86 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (85 bp):
CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCTGAAGGTACGTCA
TTTGGGAATGAATGATCTTG
Found at i:13090566 original size:47 final size:47
Alignment explanation
Indices: 13090507--13090806 Score: 492
Period size: 47 Copynumber: 6.4 Consensus size: 47
13090497 GATGTATAAG
* *
13090507 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
13090554 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
13090601 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
13090648 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAT
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
13090695 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGACGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * *
13090742 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGGATGTAAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
13090789 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
13090807 TCCCGAAGGG
Statistics
Matches: 236, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 236 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:13095537 original size:62 final size:62
Alignment explanation
Indices: 13095440--13095563 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
13095430 AGAAAACATC
*
13095440 TCGTAAGAATAAAGATAACAAAACATAAAGAAAACCCAAACCCCCTGAATAGAAATTGAAGG
1 TCGTAAGAATAAAGATAACAAAACATAAAGAAAACCCAAAACCCCTGAATAGAAATTGAAGG
13095502 TCGTAAGAATAAAGATAACAAAACATAAAGAAAACCCAAAACCCCTGAATAGAAATTGAAGG
1 TCGTAAGAATAAAGATAACAAAACATAAAGAAAACCCAAAACCCCTGAATAGAAATTGAAGG
13095564 GAGATCTTTA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.54, C:0.17, G:0.15, T:0.15
Consensus pattern (62 bp):
TCGTAAGAATAAAGATAACAAAACATAAAGAAAACCCAAAACCCCTGAATAGAAATTGAAGG
Found at i:13100145 original size:25 final size:26
Alignment explanation
Indices: 13100092--13100150 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
13100082 TATAGAACCG
13100092 AAAATTAAAATAGTATTAAAGGAAAAT
1 AAAA-TAAAATAGTATTAAAGGAAAAT
*
13100119 AAAATAAAA-AGTACTTAAA-GAAGAT
1 AAAATAAAATAGTA-TTAAAGGAAAAT
13100144 -AAATAAA
1 AAAATAAA
13100151 GATATAAGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 7 0.23
25 9 0.30
26 10 0.33
27 4 0.13
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (26 bp):
AAAATAAAATAGTATTAAAGGAAAAT
Found at i:13102810 original size:17 final size:17
Alignment explanation
Indices: 13102777--13102810 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
13102767 TCATGGCATG
13102777 GTTTTGGTTTATCGTGT
1 GTTTTGGTTTATCGTGT
13102794 GTTTTCGGTTTAT-GTGT
1 GTTTT-GGTTTATCGTGT
13102811 CTGCCACTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.06, C:0.06, G:0.29, T:0.59
Consensus pattern (17 bp):
GTTTTGGTTTATCGTGT
Found at i:13105675 original size:65 final size:65
Alignment explanation
Indices: 13105571--13105701 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
13105561 CTTAAGACAA
13105571 TACCCAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGACTCTGAATTAGACAATTTATTCAT
1 TACCCAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGACTCTGAATTAGACAATTTATTCAT
13105636 TACCCAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGACTCTGAATTAGACAATTTATTCAT
1 TACCCAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGACTCTGAATTAGACAATTTATTCAT
13105701 T
1 T
13105702 TGACTTGATC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (65 bp):
TACCCAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGACTCTGAATTAGACAATTTATTCAT
Found at i:13110446 original size:68 final size:68
Alignment explanation
Indices: 13110278--13110453 Score: 177
Period size: 68 Copynumber: 2.6 Consensus size: 68
13110268 TAGTACCACC
* * * *
13110278 CATGTGACCTAGCCA-AT-T-TATCTCGTAGCTCTCTTGTCTACATGGTGTGCTTCACTTGGGAT
1 CATGTGACCTAGCTACATCTATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGGAT
13110340 CACA
65 CACA
* *
13110344 CATGTGACCTAGCTACATCTATCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGT
1 CATGTGACCTAGCTACATCTATATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGG
13110406 ATCACA
63 ATCACA
*
13110412 CATGTTACCTAGCTAC-TACATAGTATCTCGTAGCTCTCTTGT
1 CATGTGACCTAGCTACAT-C-TA-TATCTCGTAGCTCTCTTGT
13110454 ACACATGATG
Statistics
Matches: 93, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
66 14 0.15
67 3 0.03
68 38 0.41
69 6 0.06
70 6 0.06
71 26 0.28
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.34
Consensus pattern (68 bp):
CATGTGACCTAGCTACATCTATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGGATC
ACA
Found at i:13114831 original size:42 final size:42
Alignment explanation
Indices: 13114721--13114888 Score: 160
Period size: 42 Copynumber: 4.0 Consensus size: 42
13114711 AATCATACCA
* * * * ** * *
13114721 ATGCCATATCACAGATATGGTCTTATATGGGATCTCATATCG
1 ATGCCATATCCCAGACATGGTCTTACACGAAAACTCATAACG
* *
13114763 ATGCCAATAGCCCAG-CTTTGGTCTTACACGAAAACTCATAACG
1 ATGCC-ATATCCCAGAC-ATGGTCTTACACGAAAACTCATAACG
* *
13114806 ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATAACG
1 ATGCCATATCCCAGACATGGTCTTACACGAAAACTCATAACG
* * *
13114848 ATGCCATATCCTAGATATGGTCTTACAC-ATAAACTTATAAC
1 ATGCCATATCCCAGACATGGTCTTACACGA-AAACTCATAAC
13114889 CCTAATGTCA
Statistics
Matches: 103, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 70 0.68
43 32 0.31
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGACATGGTCTTACACGAAAACTCATAACG
Found at i:13115603 original size:39 final size:39
Alignment explanation
Indices: 13115557--13115634 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
13115547 GATCAGGTGA
13115557 ATACGACTTCAAATATGTAAAGAGCATTAAAAACGAGGC
1 ATACGACTTCAAATATGTAAAGAGCATTAAAAACGAGGC
*
13115596 ATACGACTTCAAATATGTAATGAGCATTAAAAACGAGGC
1 ATACGACTTCAAATATGTAAAGAGCATTAAAAACGAGGC
13115635 TAGGATGCAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.22
Consensus pattern (39 bp):
ATACGACTTCAAATATGTAAAGAGCATTAAAAACGAGGC
Found at i:13117124 original size:23 final size:23
Alignment explanation
Indices: 13117094--13117153 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
13117084 GGTTGAGCCT
13117094 CACACGCCCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
*
13117117 CACACGCCCGCGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
*
13117140 CACACTCCCGTGTG
1 CACACGCCCGTGTG
13117154 CTTTGGGACG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.35, G:0.32, T:0.13
Consensus pattern (23 bp):
CACACGCCCGTGTGGAGGCAATG
Found at i:13117274 original size:29 final size:29
Alignment explanation
Indices: 13117230--13117296 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
13117220 ACAGGGGTTT
13117230 TCACACGGCCAAGCACATGCCCGTGTCCC
1 TCACACGGCCAAGCACATGCCCGTGTCCC
*
13117259 TTACACGGCCAAGCACATGCCCGTGTCCC
1 TCACACGGCCAAGCACATGCCCGTGTCCC
13117288 TCACACGGC
1 TCACACGGC
13117297 TTAGACACGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.21, C:0.43, G:0.21, T:0.15
Consensus pattern (29 bp):
TCACACGGCCAAGCACATGCCCGTGTCCC
Found at i:13117321 original size:40 final size:40
Alignment explanation
Indices: 13117277--13117366 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
13117267 CCAAGCACAT
* * *
13117277 GCCCGTGTCCCTCACACGGCTTAGACACGCCTATGTTCTC
1 GCCCGTGTCCCTCACACGGCCTAGACACGCCCATGTCCTC
* *
13117317 GCCCGTGTCCCTCACATGGCCTAGACACGCCCGTGTCCTC
1 GCCCGTGTCCCTCACACGGCCTAGACACGCCCATGTCCTC
*
13117357 GCCTGTGTCC
1 GCCCGTGTCC
13117367 AAAAACCTGG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.12, C:0.42, G:0.22, T:0.23
Consensus pattern (40 bp):
GCCCGTGTCCCTCACACGGCCTAGACACGCCCATGTCCTC
Found at i:13119947 original size:7 final size:7
Alignment explanation
Indices: 13119935--13119959 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13119925 AAATAAATAG
13119935 AAATATT
1 AAATATT
13119942 AAATATT
1 AAATATT
13119949 AAATATT
1 AAATATT
13119956 AAAT
1 AAAT
13119960 TAAGAGATGG
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATATT
Found at i:13122639 original size:20 final size:21
Alignment explanation
Indices: 13122597--13122642 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
13122587 GCTAGATCAT
*
13122597 GCTGAATTCTAGCTCAAACGA
1 GCTGAATTCGAGCTCAAACGA
**
13122618 GCTGAA-TCGAGCTCAAGTGA
1 GCTGAATTCGAGCTCAAACGA
13122638 GCTGA
1 GCTGA
13122643 TGGGAGCTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (21 bp):
GCTGAATTCGAGCTCAAACGA
Found at i:13124948 original size:30 final size:29
Alignment explanation
Indices: 13124893--13124956 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
13124883 TTTTTCAATT
* *
13124893 TCTTTTTCACTCTCAAATTTCTTTTCGTTC
1 TCTTTTTCAATCTCAAATCTCTTTTC-TTC
*
13124923 TCTTTTTCAATCTC-AATCTCATTTTCTTT
1 TCTTTTTCAATCTCAAATCTC-TTTTCTTC
13124952 TCTTT
1 TCTTT
13124957 GTTTCTTCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 12 0.40
30 18 0.60
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (29 bp):
TCTTTTTCAATCTCAAATCTCTTTTCTTC
Found at i:13127461 original size:67 final size:63
Alignment explanation
Indices: 13127315--13127461 Score: 154
Period size: 67 Copynumber: 2.3 Consensus size: 63
13127305 ATATAGTTCG
* * * *
13127315 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTA
1 GCTCTCTTGTACACATGGTGAACACTTAGAACCACCCATGCGACCTAGCCAGTATATCCCGTA
** * *
13127378 GCTCTCTTGT-CTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACA-TATATCC
1 GCTCTCTTGTAC-ACATGGTG---AACACTTAGAACCACCCATGCGACCTAGC--CAGTATATCC
13127441 CGTA
60 CGTA
13127445 GCTCTCTTGTACACATG
1 GCTCTCTTGTACACATG
13127462 ATGTGCACCC
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
62 1 0.01
63 18 0.26
66 23 0.33
67 24 0.35
68 3 0.04
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.31
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGAACACTTAGAACCACCCATGCGACCTAGCCAGTATATCCCGTA
Found at i:13128176 original size:30 final size:30
Alignment explanation
Indices: 13128142--13128202 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
13128132 TCCTTAACTC
13128142 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
13128172 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
13128202 A
1 A
13128203 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:13129407 original size:19 final size:19
Alignment explanation
Indices: 13129383--13129427 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
13129373 ATCACACACT
*
13129383 TTTTTTTTAATTTTGTATA
1 TTTTTTTTAATTTCGTATA
13129402 TTTTTTTTAATTTCGTATA
1 TTTTTTTTAATTTCGTATA
13129421 TTTTTTT
1 TTTTTTT
13129428 CTTTTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (19 bp):
TTTTTTTTAATTTCGTATA
Found at i:13132052 original size:27 final size:28
Alignment explanation
Indices: 13131968--13132065 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
13131958 CATGAGATTG
* * * *
13131968 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
13131997 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
13132025 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
13132052 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
13132066 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 24 0.39
28 21 0.34
29 17 0.27
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:13132076 original size:27 final size:27
Alignment explanation
Indices: 13131996--13132078 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
13131986 TAAATTGTAC
* * *
13131996 AGCACTAAGTGTGCAAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
13132024 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
13132051 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
13132078 A
1 A
13132079 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 30 0.61
28 19 0.39
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:13132079 original size:29 final size:27
Alignment explanation
Indices: 13131968--13132079 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
13131958 CATGAGATTG
** * *
13131968 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* * *
13131997 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
13132025 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
13132052 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
13132080 TTTTGAATCA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 23 0.33
28 26 0.37
29 21 0.30
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:13134314 original size:20 final size:21
Alignment explanation
Indices: 13134276--13134324 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
13134266 TGAGCTAGAT
*
13134276 CGAGCTGAATTCTAGCTCAAA
1 CGAGCTGAATTCGAGCTCAAA
*
13134297 CGAGCTGAA-TCGAGCTCAAG
1 CGAGCTGAATTCGAGCTCAAA
*
13134317 TGAGCTGA
1 CGAGCTGA
13134325 TGGGAGTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
CGAGCTGAATTCGAGCTCAAA
Found at i:13139181 original size:43 final size:43
Alignment explanation
Indices: 13139120--13139268 Score: 139
Period size: 42 Copynumber: 3.5 Consensus size: 43
13139110 ATCCTAGATT
* ** * *
13139120 TGGTCTTACATGGGATCTCATATCGATGCCAATAG-GCTAG-CTA
1 TGGTCTTACACGAAATCTCATATCGATGCCAAT-GTCCCAGAC-A
13139163 TGGTCTTACACGAAATCTCATAAT-GATGCC-ATGTCCCAGACA
1 TGGTCTTACACGAAATCTCAT-ATCGATGCCAATGTCCCAGACA
* * *
13139205 TGGTCTTACACGAAATCTCATAACGATGCC-ATATCCCAGATA
1 TGGTCTTACACGAAATCTCATATCGATGCCAATGTCCCAGACA
*
13139247 TGGTTTTACACGTAAA-CTCATA
1 TGGTCTTACACG-AAATCTCATA
13139269 ATCATAATGT
Statistics
Matches: 92, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
41 2 0.02
42 60 0.65
43 28 0.30
44 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (43 bp):
TGGTCTTACACGAAATCTCATATCGATGCCAATGTCCCAGACA
Found at i:13139218 original size:42 final size:42
Alignment explanation
Indices: 13139162--13139270 Score: 166
Period size: 42 Copynumber: 2.6 Consensus size: 42
13139152 TAGGCTAGCT
*
13139162 ATGGTCTTACACGAAATCTCATAATGATGCCATGTCCCAGAC
1 ATGGTCTTACACGAAATCTCATAATGATGCCATATCCCAGAC
* *
13139204 ATGGTCTTACACGAAATCTCATAACGATGCCATATCCCAGAT
1 ATGGTCTTACACGAAATCTCATAATGATGCCATATCCCAGAC
*
13139246 ATGGTTTTACACGTAAA-CTCATAAT
1 ATGGTCTTACACG-AAATCTCATAAT
13139271 CATAATGTCA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 58 0.95
43 3 0.05
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCTCATAATGATGCCATATCCCAGAC
Found at i:13146269 original size:16 final size:16
Alignment explanation
Indices: 13146248--13146284 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
13146238 AATTGACCTT
13146248 CACATGAAGTTTTGTG
1 CACATGAAGTTTTGTG
13146264 CACATGAAGTTTTGTG
1 CACATGAAGTTTTGTG
13146280 CACAT
1 CACAT
13146285 TTATCACGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (16 bp):
CACATGAAGTTTTGTG
Found at i:13146868 original size:24 final size:23
Alignment explanation
Indices: 13146837--13146883 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
13146827 AGGTATAGTA
* *
13146837 AAATCTAATTTCTTTTTTTTTTTT
1 AAATCTAAATT-TTTATTTTTTTT
13146861 AAATCTAAATTTTTATTTTTTTT
1 AAATCTAAATTTTTATTTTTTTT
13146884 GCTTTCCGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (23 bp):
AAATCTAAATTTTTATTTTTTTT
Found at i:13146871 original size:25 final size:23
Alignment explanation
Indices: 13146837--13146883 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
13146827 AGGTATAGTA
*
13146837 AAATCTAATTTCTTTTTTTTTTTT
1 AAATCTAATTT-TTATTTTTTTTT
13146861 AAATCTAAATTTTTATTTTTTTT
1 AAATCT-AATTTTTATTTTTTTT
13146884 GCTTTCCGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (23 bp):
AAATCTAATTTTTATTTTTTTTT
Found at i:13153415 original size:8 final size:8
Alignment explanation
Indices: 13153390--13153442 Score: 63
Period size: 8 Copynumber: 6.6 Consensus size: 8
13153380 CTACACACAC
13153390 AAAAAAA-
1 AAAAAAAG
13153397 AAAAAAAG
1 AAAAAAAG
*
13153405 AAAAAAGG
1 AAAAAAAG
13153413 AAAAAAAG
1 AAAAAAAG
*
13153421 AAGAAGAAG
1 AA-AAAAAG
*
13153430 AAAGAAAG
1 AAAAAAAG
13153438 AAAAA
1 AAAAA
13153443 GAAATACAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:13153419 original size:22 final size:21
Alignment explanation
Indices: 13153391--13153442 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
13153381 TACACACACA
13153391 AAAAAAAAAAAAAGAAAAAAGG
1 AAAAAAAAAAAAAGAAAAAA-G
* * *
13153413 AAAAAAAGAAGAAGAAGAAAG
1 AAAAAAAAAAAAAGAAAAAAG
*
13153434 AAAGAAAAA
1 AAAAAAAAA
13153443 GAAATACAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAAAAGAAAAAAG
Found at i:13153444 original size:14 final size:14
Alignment explanation
Indices: 13153399--13153446 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
13153389 CAAAAAAAAA
13153399 AAAAAGAAA-AAAG
1 AAAAAGAAAGAAAG
*
13153412 GAAAA-AAAG-AAG
1 AAAAAGAAAGAAAG
*
13153424 AAGAAGAAAGAAAG
1 AAAAAGAAAGAAAG
13153438 AAAAAGAAA
1 AAAAAGAAA
13153447 TACAGAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
12 9 0.32
13 8 0.29
14 11 0.39
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAGAAAG
Found at i:13153444 original size:17 final size:17
Alignment explanation
Indices: 13153397--13153445 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
13153387 CACAAAAAAA
*
13153397 AAAAAAAGAAAAA-AGG
1 AAAAAAAGAAAAAGAAG
*
13153413 AAAAAAAGAAGAAGAAG
1 AAAAAAAGAAAAAGAAG
*
13153430 AAAGAAAGAAAAAGAA
1 AAAAAAAGAAAAAGAA
13153446 ATACAGAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 12 0.43
17 16 0.57
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAGAAG
Found at i:13163992 original size:31 final size:31
Alignment explanation
Indices: 13163936--13164029 Score: 107
Period size: 31 Copynumber: 3.0 Consensus size: 31
13163926 GTGTGCGCTA
* * **
13163936 ATACAGGCATGCCACACAAGCATGTGGGCCC
1 ATACGGGCAAGCCACACGGGCATGTGGGCCC
* *
13163967 ATACGGGCAAGCCACACGGGTATGTGGGCTC
1 ATACGGGCAAGCCACACGGGCATGTGGGCCC
* * *
13163998 ATACGGGCAAGCTACATGGGCATATGGGCCC
1 ATACGGGCAAGCCACACGGGCATGTGGGCCC
13164029 A
1 A
13164030 AAATTTTGAA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.27, C:0.28, G:0.31, T:0.15
Consensus pattern (31 bp):
ATACGGGCAAGCCACACGGGCATGTGGGCCC
Found at i:13164207 original size:31 final size:31
Alignment explanation
Indices: 13164170--13164234 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
13164160 TACTGATATG
13164170 TATGTCTGACTGTACTGTTTAAGTATGTATT
1 TATGTCTGACTGTACTGTTTAAGTATGTATT
13164201 TATGTCTGACTGTACTGTTTAAGTATGTATT
1 TATGTCTGACTGTACTGTTTAAGTATGTATT
13164232 TAT
1 TAT
13164235 CTGTATGCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.23, C:0.09, G:0.18, T:0.49
Consensus pattern (31 bp):
TATGTCTGACTGTACTGTTTAAGTATGTATT
Found at i:13171710 original size:75 final size:75
Alignment explanation
Indices: 13171631--13171769 Score: 172
Period size: 75 Copynumber: 1.9 Consensus size: 75
13171621 TTAAAAACAG
* * * * *
13171631 AAATCGAATAAATTCTGTTGAACGTCAAGAA-AAGAATATTGAAACAGAATTATTCAATTGATTT
1 AAATCAAACAAATCCTGTTAAACGACAAGAATAA-AATATTGAAACAGAATTATTCAATTGATTT
13171695 TTATTTAAAAA
65 TTATTTAAAAA
* * * * *
13171706 AAATCAAACAAATCCTGTTAAATGACAGGAATAAAATCTTGAAACAGATTTGTTCAATTGATTT
1 AAATCAAACAAATCCTGTTAAACGACAAGAATAAAATATTGAAACAGAATTATTCAATTGATTT
13171770 CTGTTTACAA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
75 51 0.96
76 2 0.04
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.32
Consensus pattern (75 bp):
AAATCAAACAAATCCTGTTAAACGACAAGAATAAAATATTGAAACAGAATTATTCAATTGATTTT
TATTTAAAAA
Found at i:13175541 original size:20 final size:19
Alignment explanation
Indices: 13175518--13175556 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
13175508 GGGATGTGTG
13175518 ATGAATGGAA-CATGTGCTAA
1 ATGAAT-GAATCATG-GCTAA
13175538 ATGAATGAATCATGGCTAA
1 ATGAATGAATCATGGCTAA
13175557 TAAGTACGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (19 bp):
ATGAATGAATCATGGCTAA
Found at i:13176235 original size:18 final size:19
Alignment explanation
Indices: 13176165--13176246 Score: 118
Period size: 18 Copynumber: 4.5 Consensus size: 19
13176155 ACGTGTCCCA
*
13176165 AGCCACACGGGCGTGT-AT
1 AGCCACACGGGCGTGTGTT
*
13176183 AGCCACACGGGCTTGTG-T
1 AGCCACACGGGCGTGTGTT
13176201 AGCCACACGGGCGTGTGTT
1 AGCCACACGGGCGTGTGTT
13176220 A-CCACACGGGCGTGTGTT
1 AGCCACACGGGCGTGTGTT
13176238 A-CCACACGG
1 AGCCACACGG
13176247 CCTACCCACA
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
18 58 0.97
19 2 0.03
ACGTcount: A:0.20, C:0.29, G:0.33, T:0.18
Consensus pattern (19 bp):
AGCCACACGGGCGTGTGTT
Found at i:13188140 original size:29 final size:28
Alignment explanation
Indices: 13188104--13188181 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
13188094 TCATGAGATT
13188104 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
13188134 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
13188161 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
13188182 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:13188399 original size:174 final size:174
Alignment explanation
Indices: 13188134--13188635 Score: 959
Period size: 174 Copynumber: 2.9 Consensus size: 174
13188124 AAATTGTACA
* * *
13188134 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
*
13188199 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCAA
13188264 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
13188308 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
13188373 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCAA
13188438 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
13188482 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
*
13188547 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCAA
13188612 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
13188636 ACCTTGAGTT
Statistics
Matches: 323, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 323 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:13192686 original size:22 final size:25
Alignment explanation
Indices: 13192655--13192707 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
13192645 AAAATTACGG
13192655 TTATTA-TTTT-T-TACCTTGTTGA
1 TTATTATTTTTATGTACCTTGTTGA
* *
13192677 TTATTCTTTTTATGTACGTTGTTGA
1 TTATTATTTTTATGTACCTTGTTGA
13192702 TTATTA
1 TTATTA
13192708 GATTTAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 5 0.20
23 4 0.16
24 1 0.04
25 15 0.60
ACGTcount: A:0.19, C:0.08, G:0.11, T:0.62
Consensus pattern (25 bp):
TTATTATTTTTATGTACCTTGTTGA
Found at i:13194509 original size:42 final size:42
Alignment explanation
Indices: 13194452--13194604 Score: 191
Period size: 42 Copynumber: 3.6 Consensus size: 42
13194442 TAAGATTACG
* * *
13194452 TGTAAGACCATATCTGGGATATGCCATCAATATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
* *
13194494 TGTAAGACCATATCTGGGATATGGCATTGATATGAGGCTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
* * * * *
13194536 TGTAAGACCATAGCTAGGCTATTGGCATCGATACGAGA-TAACA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACT-TCA
13194579 TGTAAGACCATATCTGGGATATGGCA
1 TGTAAGACCATATCTGGGATATGGCA
13194605 ATGGTATGGT
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 61 0.65
43 33 0.35
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
Found at i:13199603 original size:30 final size:30
Alignment explanation
Indices: 13199567--13199671 Score: 123
Period size: 30 Copynumber: 3.6 Consensus size: 30
13199557 TAAAGGTGAT
13199567 TTGGGCCTAATGGGCCATATGAATATGAAA
1 TTGGGCCTAATGGGCCATATGAATATGAAA
13199597 TTGGGCCTAATGGGCCATATGAATATG-AA
1 TTGGGCCTAATGGGCCATATGAATATGAAA
* * *
13199626 TCGGGCCGATAT--GCCATAT-AA-ATGAGA
1 TTGGGCCTA-ATGGGCCATATGAATATGAAA
13199653 TTGGGCC-AAGTGGGCCATA
1 TTGGGCCTAA-TGGGCCATA
13199672 CGTATGTATG
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
25 1 0.02
26 5 0.08
27 9 0.14
28 13 0.20
29 9 0.14
30 29 0.44
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (30 bp):
TTGGGCCTAATGGGCCATATGAATATGAAA
Found at i:13203812 original size:16 final size:16
Alignment explanation
Indices: 13203791--13203833 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
13203781 GTAGATCGGC
13203791 AAAAGCTGAAATGTCG
1 AAAAGCTGAAATGTCG
13203807 AAAAGCTGAAATGTCG
1 AAAAGCTGAAATGTCG
*
13203823 AAAAGCCGAAA
1 AAAAGCTGAAA
13203834 GTTTGGCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.49, C:0.14, G:0.23, T:0.14
Consensus pattern (16 bp):
AAAAGCTGAAATGTCG
Found at i:13204090 original size:29 final size:29
Alignment explanation
Indices: 13204048--13204104 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
13204038 GCATGAATGT
13204048 AAGGTGATTTGGGCCTAACGGGCCATATA
1 AAGGTGATTTGGGCCTAACGGGCCATATA
*
13204077 AAGGTGATTTGGGCCTAATGGGCCATAT
1 AAGGTGATTTGGGCCTAACGGGCCATAT
13204105 GAATATGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
AAGGTGATTTGGGCCTAACGGGCCATATA
Found at i:13204121 original size:30 final size:30
Alignment explanation
Indices: 13204056--13204143 Score: 115
Period size: 30 Copynumber: 3.0 Consensus size: 30
13204046 GTAAGGTGAT
* * * *
13204056 TTGGGCCTAACGGGCCATATAAAGGTG-AT
1 TTGGGCCTAATGGGCCATATGAATGTGAAA
*
13204085 TTGGGCCTAATGGGCCATATGAATATGAAA
1 TTGGGCCTAATGGGCCATATGAATGTGAAA
*
13204115 TTGGGCCTGATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
13204144 TCAGGCCGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 23 0.45
30 28 0.55
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (30 bp):
TTGGGCCTAATGGGCCATATGAATGTGAAA
Found at i:13205263 original size:17 final size:18
Alignment explanation
Indices: 13205230--13205264 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13205220 TTTTAAGAAG
13205230 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
13205248 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
13205265 TTTAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:13209382 original size:42 final size:42
Alignment explanation
Indices: 13209332--13209427 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 42
13209322 CTAAGATTAT
* *
13209332 GTGTAAGACCATATCTGGGTTATGGCATCAATATAAGACTTC
1 GTGTAAGACCATATCTGGGATATGGAATCAATATAAGACTTC
* * *
13209374 GTGTAAGACCATATCTGGGATATGGAATCGATATGAGGCTTC
1 GTGTAAGACCATATCTGGGATATGGAATCAATATAAGACTTC
13209416 GT-TAAGACCATA
1 GTGTAAGACCATA
13209428 GCTAGGCTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 10 0.20
42 39 0.80
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGAATCAATATAAGACTTC
Done.