Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 42 of 126
Found at i:12348961 original size:21 final size:22
Alignment explanation
Indices: 12348937--12348983 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
12348927 TAGCAACTCT
*
12348937 TTCTTCTTCAGCAACAAC-TTC
1 TTCTTCTGCAGCAACAACTTTC
*
12348958 TTCTTCTGCAGCATCAACTTTC
1 TTCTTCTGCAGCAACAACTTTC
12348980 TTCT
1 TTCT
12348984 CAAAAATAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.19, C:0.32, G:0.06, T:0.43
Consensus pattern (22 bp):
TTCTTCTGCAGCAACAACTTTC
Found at i:12356342 original size:15 final size:17
Alignment explanation
Indices: 12356313--12356345 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12356303 AGGCGTGTGT
12356313 CACAGCCATGTGTGACA
1 CACAGCCATGTGTGACA
12356330 CACAGCCA-G-GTGACA
1 CACAGCCATGTGTGACA
12356345 C
1 C
12356346 GGTCGTGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.30, C:0.33, G:0.24, T:0.12
Consensus pattern (17 bp):
CACAGCCATGTGTGACA
Found at i:12370006 original size:13 final size:14
Alignment explanation
Indices: 12369982--12370012 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
12369972 GTAATGGACA
12369982 TTGGACATTAAATT
1 TTGGACATTAAATT
12369996 TTGGA-ATTAAATT
1 TTGGACATTAAATT
12370009 TTGG
1 TTGG
12370013 TGATTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.45
Consensus pattern (14 bp):
TTGGACATTAAATT
Found at i:12372349 original size:49 final size:51
Alignment explanation
Indices: 12372294--12372391 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 51
12372284 TTTGTTTTCT
* *
12372294 CGATGCCATAGTCCAACTATGGTCTTACACA-TAATCACAT-ATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACAGAAATCACATAATCACATAC
*
12372343 CGATGCCATAGCCCAGCTATGGTCTTACACAGAAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACAGAAATCACATAATCACAT
12372392 TTTCACATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 29 0.66
50 8 0.18
51 7 0.16
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (51 bp):
CGATGCCATAGCCCAACTATGGTCTTACACAGAAATCACATAATCACATAC
Found at i:12401664 original size:80 final size:81
Alignment explanation
Indices: 12401461--12401684 Score: 254
Period size: 80 Copynumber: 2.8 Consensus size: 81
12401451 GGGCTTTCTT
* ** * * * *
12401461 GGCGTTTTTGAAGAAGCTTCGCTAATGCTCTGGGCTTTAGCGGCATTTTTGAAGAAGTGGCGCTA
1 GGCGTTTTCGAAGAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCATTTTTCAAGAAGCGCCGCTA
* **
12401526 ATGCTCTATTTTTAGC
66 ATGCTCGAGCTTTAGC
* * * *
12401542 GGCATTTTTGGAA-AAGTGCCGCTAATGCTCGGGGCTTTAGCGGCATTTTTTAAGAAGCGCCGCT
1 GGC-GTTTTCGAAGAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCATTTTTCAAGAAGCGCCGCT
*
12401606 AATGCT-GGGCTTTAGC
65 AATGCTCGAGCTTTAGC
* * * *
12401622 GGCGTTTTCCAAGAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTCCAAAAAGCGCCGC
1 GGCGTTTTCGAAGAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCATTTTTCAAGAAGCGCCGC
12401685 AAAAACATTT
Statistics
Matches: 120, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 6 0.05
80 54 0.45
81 53 0.44
82 7 0.06
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (81 bp):
GGCGTTTTCGAAGAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCATTTTTCAAGAAGCGCCGCTA
ATGCTCGAGCTTTAGC
Found at i:12401671 original size:41 final size:40
Alignment explanation
Indices: 12401461--12401684 Score: 236
Period size: 41 Copynumber: 5.5 Consensus size: 40
12401451 GGGCTTTCTT
**
12401461 GGCGTTTTTGAAGAAGCTTCGCTAATGCTCTGGGCTTTAGC
1 GGCGTTTTTGAAGAAGCGCCGCTAATGCTC-GGGCTTTAGC
* * * ****
12401502 GGCATTTTTGAAGAAGTGGCGCTAATGCTCTATTTTTAGC
1 GGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGCTTTAGC
* *
12401542 GGCATTTTTGGAA-AAGTGCCGCTAATGCTCGGGGCTTTAGC
1 GGCGTTTTT-GAAGAAGCGCCGCTAATGCTC-GGGCTTTAGC
* *
12401583 GGCATTTTTTAAGAAGCGCCGCTAATGCT-GGGCTTTAGC
1 GGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGCTTTAGC
**
12401622 GGCGTTTTCCAAGAAGCGCCGCTAATGCTCGGGGCTTTAGC
1 GGCGTTTTTGAAGAAGCGCCGCTAATGCTC-GGGCTTTAGC
** *
12401663 GGCGTTTTCCAAAAAGCGCCGC
1 GGCGTTTTTGAAGAAGCGCCGC
12401685 AAAAACATTT
Statistics
Matches: 159, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 36 0.23
40 33 0.21
41 90 0.57
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (40 bp):
GGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGCTTTAGC
Found at i:12402012 original size:24 final size:21
Alignment explanation
Indices: 12401997--12402038 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
12401987 TAATTATCAT
12401997 TATAGTTTAGGGTTTAATATA
1 TATAGTTTAGGGTTTAATATA
*
12402018 TATAGTTTAGGGTAT-ATATA
1 TATAGTTTAGGGTTTAATATA
12402038 T
1 T
12402039 GGTTAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (21 bp):
TATAGTTTAGGGTTTAATATA
Found at i:12402122 original size:14 final size:15
Alignment explanation
Indices: 12402091--12402123 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
12402081 AAGGTTTATA
*
12402091 GATTATGGAATTAGG
1 GATTATGGAATTAAG
12402106 GATTATGG-ATTAAG
1 GATTATGGAATTAAG
12402120 GATT
1 GATT
12402124 CTGATTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAAG
Found at i:12402174 original size:21 final size:20
Alignment explanation
Indices: 12402146--12402189 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
12402136 TTGTGATTTA
* * *
12402146 AGGTTTAGGGGTTAGGGGTT
1 AGGTTTAGAGGTTAAGAGTT
12402166 AGGTGTTAGAGGTTAAGAGTT
1 AGGT-TTAGAGGTTAAGAGTT
12402187 AGG
1 AGG
12402190 GATTTAGGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.23, C:0.00, G:0.45, T:0.32
Consensus pattern (20 bp):
AGGTTTAGAGGTTAAGAGTT
Found at i:12403516 original size:148 final size:148
Alignment explanation
Indices: 12403236--12403602 Score: 585
Period size: 148 Copynumber: 2.5 Consensus size: 148
12403226 AATAAAAGAT
*
12403236 TTTTAGCATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTTTTTATG
1 TTTTAGCATAGCAAAATAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCG-TTTTTATG
12403301 AAAAACGCCGCAAAAGGTAAGCAATAGCGGTGTTTTTATAAAAAATGCCACAAAAAAATAATTTT
65 AAAAACGCCGCAAAAGGTAAGCAATAGCGGTGTTTTTATAAAAAATGCCACAAAAAAATAATTTT
12403366 ACTTTAAAAAAATAGCGCCA
130 ACTTT-AAAAAATAGCGCCA
* * * *
12403386 TTTTA-TATAGCAAAATAATGTCGTTTTATTCCAAATGAAATAATTTTTTGCTGCGTTTTTCTGA
1 TTTTAGCATAGCAAAATAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTTTTATGA
* *
12403450 TAAACGCTGCAAAAGGTAAGCAATAGCGGTGTTTTTATAAAAAAATGCCAC-AAAAAATAATTTT
66 AAAACGCCGCAAAAGGTAAGCAATAGCGGTGTTTTTAT-AAAAAATGCCACAAAAAAATAATTTT
* *
12403514 ACTTTAAAAAATAGTGCCC
130 ACTTTAAAAAATAGCGCCA
* *
12403533 TTTTAGCATAGCAAAATAGTGTTGTTTTATTCCAAATGAAATAATTTTTTAGCGGCGTTTTTATA
1 TTTTAGCATAGCAAAATAGTGTCGTTTTATTCCAAATGAAATAATTTTTT-GCGGCGTTTTTATG
12403598 AAAAA
65 AAAAA
12403603 ACACCACAAA
Statistics
Matches: 198, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
147 17 0.09
148 103 0.52
149 73 0.37
150 5 0.03
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (148 bp):
TTTTAGCATAGCAAAATAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTTTTATGA
AAAACGCCGCAAAAGGTAAGCAATAGCGGTGTTTTTATAAAAAATGCCACAAAAAAATAATTTTA
CTTTAAAAAATAGCGCCA
Found at i:12403852 original size:121 final size:122
Alignment explanation
Indices: 12403627--12403861 Score: 427
Period size: 121 Copynumber: 1.9 Consensus size: 122
12403617 AATTATATAG
* * *
12403627 CAAAGCAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTTTTCAAAAGGTTATAAAA
1 CAAAACAGTATCGTTTTATTCCAAATGAAATAATTTTTTGCAGCGTTTTTCAAAAGGTTATAAAA
*
12403692 ACGCCATAAAAAATTATTTTCCTTTAAAAATAGCGTCATTTTATAAAATCCCCTCCC
66 ACGCCACAAAAAATTATTTTCCTTTAAAAATAGCGTCATTTTATAAAATCCCCTCCC
12403749 CAAAACAGTATCGTTTTATTCCAAATGAAATAATTTTTTGCAGCGTTTTTCAAAA-GTTATAAAA
1 CAAAACAGTATCGTTTTATTCCAAATGAAATAATTTTTTGCAGCGTTTTTCAAAAGGTTATAAAA
12403813 ACGCCACAAAAAATTATTTTCCTTTAAAAATAGCGTCATTTTATAAAAT
66 ACGCCACAAAAAATTATTTTCCTTTAAAAATAGCGTCATTTTATAAAAT
12403862 GGATAAAAGG
Statistics
Matches: 109, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
121 57 0.52
122 52 0.48
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (122 bp):
CAAAACAGTATCGTTTTATTCCAAATGAAATAATTTTTTGCAGCGTTTTTCAAAAGGTTATAAAA
ACGCCACAAAAAATTATTTTCCTTTAAAAATAGCGTCATTTTATAAAATCCCCTCCC
Found at i:12422313 original size:28 final size:28
Alignment explanation
Indices: 12422264--12422329 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
12422254 CTATTCAGTA
* *
12422264 ACAGT-ACAGTGTGGGCCCTAGCCTAAT
1 ACAGTAACAATGTGGGCCCTAGCCCAAT
*
12422291 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCCTAGCCCAAT
* *
12422319 ATAGTATCAAT
1 ACAGTAACAAT
12422330 ACAGTGCAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
27 5 0.15
28 28 0.85
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCCTAGCCCAAT
Found at i:12422787 original size:27 final size:25
Alignment explanation
Indices: 12422743--12422816 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 25
12422733 GGGTATTTGG
12422743 ATGGGGTAACTCGATCATTTTACCCT
1 ATGGGGTAACTCG-TCATTTTACCCT
12422769 ATGGGGTTAACTCAGTCATTTTACCCT
1 ATGGGG-TAACTC-GTCATTTTACCCT
* *
12422796 GTGGGGGTAATTCGGTCATTT
1 AT-GGGGTAACTC-GTCATTT
12422817 ATTGACCTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.14
27 31 0.74
28 5 0.12
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (25 bp):
ATGGGGTAACTCGTCATTTTACCCT
Found at i:12423044 original size:9 final size:9
Alignment explanation
Indices: 12423030--12423056 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
12423020 GTGGGGCCTA
12423030 CTAGCCCAT
1 CTAGCCCAT
12423039 CTAGCCCAT
1 CTAGCCCAT
12423048 CTAGCCCAT
1 CTAGCCCAT
12423057 ACGGCCCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.44, G:0.11, T:0.22
Consensus pattern (9 bp):
CTAGCCCAT
Found at i:12425674 original size:9 final size:9
Alignment explanation
Indices: 12425660--12425690 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
12425650 TATAGTTTGA
12425660 TATTCGAAT
1 TATTCGAAT
12425669 TATTCGAAT
1 TATTCGAAT
*
12425678 TATTCGAGT
1 TATTCGAAT
12425687 TATT
1 TATT
12425691 TTAATTCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (9 bp):
TATTCGAAT
Found at i:12427156 original size:19 final size:19
Alignment explanation
Indices: 12427132--12427168 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12427122 CTATTTCCAT
* *
12427132 TTTTTCCCTTTTTTCCTTC
1 TTTTTCCATGTTTTCCTTC
12427151 TTTTTCCATGTTTTCCTT
1 TTTTTCCATGTTTTCCTT
12427169 TTCTTCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.03, C:0.27, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTTCCATGTTTTCCTTC
Found at i:12428024 original size:30 final size:30
Alignment explanation
Indices: 12427983--12428041 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
12427973 GCTTTGCTTT
12427983 TCGAATAATTTGAAATTGGATTCAAATTTC
1 TCGAATAATTTGAAATTGGATTCAAATTTC
*
12428013 TCGAATCATTTGAAATTGGATTCAAATTT
1 TCGAATAATTTGAAATTGGATTCAAATTT
12428042 TTCGGCAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.41
Consensus pattern (30 bp):
TCGAATAATTTGAAATTGGATTCAAATTTC
Found at i:12441091 original size:16 final size:16
Alignment explanation
Indices: 12441070--12441100 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12441060 GTACCGAGAA
*
12441070 AAAAATTATATCTAAC
1 AAAAATAATATCTAAC
12441086 AAAAATAATATCTAA
1 AAAAATAATATCTAA
12441101 GAATTGATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATAATATCTAAC
Found at i:12441154 original size:24 final size:25
Alignment explanation
Indices: 12441126--12441173 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
12441116 GATTTGTAAA
*
12441126 TGTATTATCCTTT-GACTTTTTGTT
1 TGTATTATCCTTTAAACTTTTTGTT
12441150 TGTATTATCCTTTAAACTTTTTGT
1 TGTATTATCCTTTAAACTTTTTGT
12441174 ACAAAGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.60
Consensus pattern (25 bp):
TGTATTATCCTTTAAACTTTTTGTT
Found at i:12450067 original size:21 final size:20
Alignment explanation
Indices: 12450030--12450071 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
12450020 TTTAACATGG
*
12450030 AAAAACCTCTCAAAAAGGATA
1 AAAAACCTATCAAAAA-GATA
12450051 AAAAACC-ATCAACAAAGATA
1 AAAAACCTATCAA-AAAGATA
12450071 A
1 A
12450072 TTTTACTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.62, C:0.19, G:0.07, T:0.12
Consensus pattern (20 bp):
AAAAACCTATCAAAAAGATA
Found at i:12454938 original size:22 final size:25
Alignment explanation
Indices: 12454912--12454960 Score: 89
Period size: 26 Copynumber: 1.9 Consensus size: 25
12454902 TGAAGTAAAG
12454912 ATTCATACCTGAAATCAGTCTCCTTC
1 ATTCATACCTGAAATCAGTCTCC-TC
12454938 ATTCATACCTGAAATCAGTCTCC
1 ATTCATACCTGAAATCAGTCTCC
12454961 GATGAAGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.33
Consensus pattern (25 bp):
ATTCATACCTGAAATCAGTCTCCTC
Found at i:12456503 original size:6 final size:6
Alignment explanation
Indices: 12456492--12456517 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12456482 GATACTTGGT
12456492 CAAGCA CAAGCA CAAGCA CAAGCA CA
1 CAAGCA CAAGCA CAAGCA CAAGCA CA
12456518 CACATGCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.35, G:0.15, T:0.00
Consensus pattern (6 bp):
CAAGCA
Found at i:12457547 original size:16 final size:15
Alignment explanation
Indices: 12457528--12457562 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
12457518 TAAATATAAA
12457528 TTATTCTATTTATATT
1 TTATTCTATTT-TATT
*
12457544 TTATTTTATTTTATT
1 TTATTCTATTTTATT
12457559 TTAT
1 TTAT
12457563 ATATAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTCTATTTTATT
Found at i:12457548 original size:5 final size:5
Alignment explanation
Indices: 12457528--12457562 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
12457518 TAAATATAAA
*
12457528 TTATT CTATT TATATT TTATT TTATT TTATT TTAT
1 TTATT TTATT T-TATT TTATT TTATT TTATT TTAT
12457563 ATATAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:12458823 original size:6 final size:6
Alignment explanation
Indices: 12458812--12458843 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
12458802 AATAAGGATT
*
12458812 GGAAAG GGAAAG GGAAAG GGAAAG GGTAAG GG
1 GGAAAG GGAAAG GGAAAG GGAAAG GGAAAG GG
12458844 GAATATCGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.53, T:0.03
Consensus pattern (6 bp):
GGAAAG
Found at i:12459276 original size:15 final size:15
Alignment explanation
Indices: 12459256--12459298 Score: 86
Period size: 15 Copynumber: 2.9 Consensus size: 15
12459246 TTTTTATTTA
12459256 ATATTTTCTTTTAAC
1 ATATTTTCTTTTAAC
12459271 ATATTTTCTTTTAAC
1 ATATTTTCTTTTAAC
12459286 ATATTTTCTTTTA
1 ATATTTTCTTTTA
12459299 TTTTTTTGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.63
Consensus pattern (15 bp):
ATATTTTCTTTTAAC
Found at i:12461898 original size:38 final size:38
Alignment explanation
Indices: 12461834--12461925 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
12461824 TGTCCTAAAC
* *
12461834 TATGACATAATTAAAAACCCTTATTAA-AGATGTTCAGAT
1 TATGACATAATT-AAAACCCATATTAATA-ATGTTCAAAT
*
12461873 TATGACATAATTAAAACTCATATTAATAATGTTCAAAT
1 TATGACATAATTAAAACCCATATTAATAATGTTCAAAT
* *
12461911 TATGATATAGTTAAA
1 TATGACATAATTAAA
12461926 GACTTAAACT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
38 34 0.72
39 13 0.28
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.36
Consensus pattern (38 bp):
TATGACATAATTAAAACCCATATTAATAATGTTCAAAT
Found at i:12462473 original size:6 final size:6
Alignment explanation
Indices: 12462462--12462491 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
12462452 GCGTCCCAAC
*
12462462 CCGTGT CCGTGT CCGTGT CCGTGC CCGTGT
1 CCGTGT CCGTGT CCGTGT CCGTGT CCGTGT
12462492 AACTCTCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.37, G:0.33, T:0.30
Consensus pattern (6 bp):
CCGTGT
Found at i:12464200 original size:23 final size:23
Alignment explanation
Indices: 12464149--12464194 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12464139 CTTTTTACCG
12464149 TCAATTCCTTTTCAGAGATCCAT
1 TCAATTCCTTTTCAGAGATCCAT
12464172 TCAATTCCTTTTCAGAGATCCAT
1 TCAATTCCTTTTCAGAGATCCAT
12464195 CGAATTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.39
Consensus pattern (23 bp):
TCAATTCCTTTTCAGAGATCCAT
Found at i:12473871 original size:24 final size:24
Alignment explanation
Indices: 12473839--12473888 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
12473829 CCATGTCTGG
12473839 GACATGGCGTTGGCACCGAAATGA
1 GACATGGCGTTGGCACCGAAATGA
*
12473863 GACATGGCGTTGGCACCGAGATGA
1 GACATGGCGTTGGCACCGAAATGA
12473887 GA
1 GA
12473889 GGTCCCATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.36, T:0.16
Consensus pattern (24 bp):
GACATGGCGTTGGCACCGAAATGA
Found at i:12473938 original size:50 final size:50
Alignment explanation
Indices: 12473863--12474076 Score: 182
Period size: 50 Copynumber: 4.3 Consensus size: 50
12473853 ACCGAAATGA
* *
12473863 GACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGG
1 GACATGGCATTGGCACCAAGATGAGAGGTCCCATGTAAGACCATGTCTGG
* ** *
12473913 GACATGGCGTTGGCACCAAGATGAGAGGTCCCCCGTAAGACCATGTCTAG
1 GACATGGCATTGGCACCAAGATGAGAGGTCCCATGTAAGACCATGTCTGG
* * * * ** * * *
12473963 GACATGGCATGGGCCCCTATATGAGAACTCTCATGTAAGACCATATCTGA
1 GACATGGCATTGGCACCAAGATGAGAGGTCCCATGTAAGACCATGTCTGG
* * * ** *
12474013 GATATGACATTGGCAGTACAAGA--A-ACATCCCATGTAAGACTATGTCTGG
1 GACATGGCATTGGCA--CCAAGATGAGAGGTCCCATGTAAGACCATGTCTGG
* *
12474062 GACATAGCTTTGGCA
1 GACATGGCATTGGCA
12474077 TGTTATATTC
Statistics
Matches: 128, Mismatches: 34, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
49 30 0.23
50 95 0.74
52 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (50 bp):
GACATGGCATTGGCACCAAGATGAGAGGTCCCATGTAAGACCATGTCTGG
Found at i:12482095 original size:16 final size:17
Alignment explanation
Indices: 12482065--12482097 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12482055 AATTTAGTCT
12482065 AAAATTTATGCTTTTGC
1 AAAATTTATGCTTTTGC
*
12482082 AAAA-TTATGTTTTTGC
1 AAAATTTATGCTTTTGC
12482098 CTCTAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.48
Consensus pattern (17 bp):
AAAATTTATGCTTTTGC
Found at i:12484065 original size:22 final size:22
Alignment explanation
Indices: 12484038--12484081 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
12484028 CCAAAATTTA
12484038 AGTTTGGTATCAAGATTTAAAG
1 AGTTTGGTATCAAGATTTAAAG
* * *
12484060 AGTTTGGTTTGAAGGTTTAAAG
1 AGTTTGGTATCAAGATTTAAAG
12484082 TATGAAGGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.39
Consensus pattern (22 bp):
AGTTTGGTATCAAGATTTAAAG
Found at i:12488449 original size:70 final size:70
Alignment explanation
Indices: 12488367--12488505 Score: 260
Period size: 70 Copynumber: 2.0 Consensus size: 70
12488357 AAATACAATA
12488367 ATAAATACAACAATGGCATAGAAATAAACAAAATTAATGTACATAAAAACAACAACGACATGTAA
1 ATAAATACAACAATGGCATAGAAATAAACAAAATTAATGTACATAAAAACAACAACGACATGTAA
12488432 AGTGC
66 AGTGC
* *
12488437 ATAAATACAACAATGGCATAGAAATAAACGAAATTAATGTACATAAAAACAACAACGGCATGTAA
1 ATAAATACAACAATGGCATAGAAATAAACAAAATTAATGTACATAAAAACAACAACGACATGTAA
12488502 AGTG
66 AGTG
12488506 TCAAATGCAC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.55, C:0.14, G:0.13, T:0.19
Consensus pattern (70 bp):
ATAAATACAACAATGGCATAGAAATAAACAAAATTAATGTACATAAAAACAACAACGACATGTAA
AGTGC
Found at i:12490642 original size:44 final size:44
Alignment explanation
Indices: 12490590--12490699 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
12490580 CTACTCTACA
12490590 GCAACTTCAGAGAGATAAGATCT-GTGGATTCAATCCGCTCCACT
1 GCAACTTCAGAGAGATAAGAT-TAGTGGATTCAATCCGCTCCACT
* * * * * *
12490634 GCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACT
1 GCAACTTCAGAGAGATAAGATTAGTGGATTCAATCCGCTCCACT
12490678 GCAACTTCA-AGGAGATAAGATT
1 GCAACTTCAGA-GAGATAAGATT
12490700 CGTCATCTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 1 0.02
44 55 0.98
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
GCAACTTCAGAGAGATAAGATTAGTGGATTCAATCCGCTCCACT
Found at i:12491114 original size:88 final size:88
Alignment explanation
Indices: 12491014--12491235 Score: 320
Period size: 88 Copynumber: 2.5 Consensus size: 88
12491004 ATAAGACTGA
** * **
12491014 TGTCTTCGATCTGCTTTGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGTTCCGTT
1 TGTCTTCGATCTGCTTTACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACT
* * *
12491079 GCAACCTAGGGAGGTAAGGCTAG
66 GCAACCCAGGGAGGCAAAGCTAG
* *
12491102 TGTCTTCGATCTG-TTTCACTGTCGATGCAGGAAGGCAGGATCTGCTATTTTTAACCTGCTCCAC
1 TGTCTTCGATCTGCTTT-ACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCAC
*
12491166 TGCAACCCAGGGAGGCAAAGCTGG
65 TGCAACCCAGGGAGGCAAAGCTAG
*
12491190 TGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCT
1 TGTCTTCGATCTGCTTTACTGTCGGTGCAGGAAGGCAAGATCTGCT
12491236 TCTTCGATCC
Statistics
Matches: 118, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
87 3 0.03
88 113 0.96
89 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (88 bp):
TGTCTTCGATCTGCTTTACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACT
GCAACCCAGGGAGGCAAAGCTAG
Found at i:12491240 original size:44 final size:45
Alignment explanation
Indices: 12491104--12491244 Score: 126
Period size: 44 Copynumber: 3.2 Consensus size: 45
12491094 AAGGCTAGTG
* *
12491104 TCTTCGATCTGTTTCACTGTCGATGCAGGAAGGCAGGATCTGCTA
1 TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTA
* ** * * * ** * * * *
12491149 TTTTTAACCTGCTCCACTG-CAACCCAGGGAGGCAA-AGCTGGTG
1 TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTA
*
12491192 TCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCT-
1 TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTA
12491236 TCTTCGATC
1 TCTTCGATC
12491245 CACTTCCTAC
Statistics
Matches: 68, Mismatches: 26, Indels: 5
0.69 0.26 0.05
Matches are distributed among these distances:
43 19 0.28
44 31 0.46
45 18 0.26
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.29
Consensus pattern (45 bp):
TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTA
Found at i:12491314 original size:44 final size:44
Alignment explanation
Indices: 12491218--12492424 Score: 1085
Period size: 44 Copynumber: 27.4 Consensus size: 44
12491208 CTGTCGGTGC
* * *
12491218 AGGAAGGCAAGATCTGCTTCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCATCTTCGATCTACTTCGCTACCAATAT
* * *
12491261 AGGAAGACAGGATCTGCATCTTCGATCCACTTGGCTACCAATAT
1 AGGAAGACAAGATCTGCATCTTCGATCTACTTCGCTACCAATAT
* * * * *
12491305 AGGAAGACAGGATCTGTTATCTTCGATCTACTTCAC-GCCAATAC
1 AGGAAGACAAGATCTG-CATCTTCGATCTACTTCGCTACCAATAT
* * * * *
12491349 ATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGC-ATCTTCGATCTACTTCGCTACCAATAT
* *
12491394 GGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCATCTTCGATCTACTTCGCTACCAATAT
* * * * * *
12491437 AGGAAGATAGGATCTGCTATCTTGGATCTACTTCAC-GCCAATAC
1 AGGAAGACAAGATCTGC-ATCTTCGATCTACTTCGCTACCAATAT
* ** * *
12491481 ATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTG-CATCTTCGATCTACTTCGCTACCAATAT
* *
12491526 GGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCATCTTCGATCTACTTCGCTACCAATAT
* * * * * *
12491569 AGGAAGATAGGATCTGCTATCTTGGATCTACTTCAC-GCCAATAC
1 AGGAAGACAAGATCTGC-ATCTTCGATCTACTTCGCTACCAATAT
* ** * *
12491613 ATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTG-CATCTTCGATCTACTTCGCTACCAATAT
* *
12491658 GGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCATCTTCGATCTACTTCGCTACCAATAT
* * * * * *
12491701 AGGAAGATAGGATCTGCTATCTTGGATCTACTTCAC-GCCAATAC
1 AGGAAGACAAGATCTGC-ATCTTCGATCTACTTCGCTACCAATAT
* ** * *
12491745 ATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTG-CATCTTCGATCTACTTCGCTACCAATAT
* *
12491790 GGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCATCTTCGATCTACTTCGCTACCAATAT
* * * * * *
12491833 AGGAAGATAGGATCTGCTATCTTGGATCTACTTCAC-GCCAATAC
1 AGGAAGACAAGATCTGC-ATCTTCGATCTACTTCGCTACCAATAT
* ** * *
12491877 ATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTG-CATCTTCGATCTACTTCGCTACCAATAT
* * *
12491922 GGGAAGACAAGATCTGCATCTTCGATCCACTTGGCTACCAATAT
1 AGGAAGACAAGATCTGCATCTTCGATCTACTTCGCTACCAATAT
* * * * *
12491966 AGGAAGACAGGATCTGTTATCTTCGATCTACTTCAC-GCCAATAC
1 AGGAAGACAAGATCTG-CATCTTCGATCTACTTCGCTACCAATAT
* * * * *
12492010 ATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGC-ATCTTCGATCTACTTCGCTACCAATAT
* *
12492055 GGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCATCTTCGATCTACTTCGCTACCAATAT
* * * * * *
12492098 AGGAAGATAGGATCTGCTATCTTGGATCTACTTCAC-GCCAATAC
1 AGGAAGACAAGATCTGC-ATCTTCGATCTACTTCGCTACCAATAT
* ** * *
12492142 ATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTG-CATCTTCGATCTACTTCGCTACCAATAT
* * *
12492187 GGGAAGACAAGATCTGCATCTTCGATCCACTTGGCTACCAATAT
1 AGGAAGACAAGATCTGCATCTTCGATCTACTTCGCTACCAATAT
* * * * *
12492231 AGGAAGACAGGATCTGTTATCTTCGATCTACTTCAC-GCCAATAC
1 AGGAAGACAAGATCTG-CATCTTCGATCTACTTCGCTACCAATAT
* * * * *
12492275 ATGAAGACAAGATTTGCTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGC-ATCTTCGATCTACTTCGCTACCAATAT
* * *
12492320 GGGAAGACAAGATCTGCATCTTCGATCCACTTGGCTACCAATAT
1 AGGAAGACAAGATCTGCATCTTCGATCTACTTCGCTACCAATAT
* * * * * * *
12492364 AGGAAAATAGGATCTGTTATCTTCGATCTACTTCAC-GCCAATAC
1 AGGAAGACAAGATCTG-CATCTTCGATCTACTTCGCTACCAATAT
* *
12492408 ATGAAGACAATATCTGC
1 AGGAAGACAAGATCTGC
12492425 TGTTTTTTAG
Statistics
Matches: 920, Mismatches: 213, Indels: 62
0.77 0.18 0.05
Matches are distributed among these distances:
43 139 0.15
44 564 0.61
45 217 0.24
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (44 bp):
AGGAAGACAAGATCTGCATCTTCGATCTACTTCGCTACCAATAT
Found at i:12491371 original size:132 final size:132
Alignment explanation
Indices: 12491220--12492423 Score: 2088
Period size: 132 Copynumber: 9.1 Consensus size: 132
12491210 GTCGGTGCAG
* * * * * * *
12491220 GAAGGCAAGATCTG-CTTCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCATCTT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
* * * *
12491283 CGATCCACTTGGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATA
66 CGATCCACTT-CCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATA
12491348 CAT
130 CAT
**
12491351 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
12491416 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATAC
12491481 AT
131 AT
12491483 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
12491548 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATAC
12491613 AT
131 AT
12491615 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
12491680 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATAC
12491745 AT
131 AT
12491747 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
12491812 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATAC
12491877 AT
131 AT
12491879 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
* * * *
12491944 CGATCCACTTGGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATA
66 CGATCCACTT-CCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATA
12492009 CAT
130 CAT
**
12492012 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
12492077 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATAC
12492142 AT
131 AT
12492144 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
* * * *
12492209 CGATCCACTTGGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATA
66 CGATCCACTT-CCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATA
12492274 CAT
130 CAT
* *
12492277 GAAGACAAGATTTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
* * * *
12492342 CGATCCACTTGGCTACCAATATAGGAAAATAGGATCTGTTATCTTCGATCTACTTCACGCCAATA
66 CGATCCACTT-CCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATA
12492407 CAT
130 CAT
*
12492410 GAAGACAATATCTG
1 GAAGACAAGATCTG
12492424 CTGTTTTTTA
Statistics
Matches: 1033, Mismatches: 36, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
131 12 0.01
132 663 0.64
133 358 0.35
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (132 bp):
GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATAC
AT
Found at i:12492164 original size:265 final size:264
Alignment explanation
Indices: 12491220--12492423 Score: 2097
Period size: 265 Copynumber: 4.6 Consensus size: 264
12491210 GTCGGTGCAG
* * * * * *
12491220 GAAGGCAAGATCTGC-TTCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
* * * *
12491283 CGATCCACTTGGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATA
66 CGATCCACTT-CCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATA
**
12491348 CATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCAT
130 CATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCAT
* *
12491413 CTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAA
195 CTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAA
12491478 TACAT
260 TACAT
*
12491483 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
12491548 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATAC
12491613 ATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATC
131 ATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATC
* *
12491678 TTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAAT
196 TTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAAT
12491743 ACAT
261 ACAT
*
12491747 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
12491812 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATAC
12491877 ATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATC
131 ATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATC
* *
12491942 TTCGATCCACTTGGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAA
196 TTCGATCCACTT-CCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAA
12492007 TACAT
260 TACAT
*
12492012 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
12492077 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATAC
12492142 ATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATC
131 ATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATC
* *
12492207 TTCGATCCACTTGGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAA
196 TTCGATCCACTT-CCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAA
12492272 TACAT
260 TACAT
*
12492277 GAAGACAAGATTTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
* * * *
12492342 CGATCCACTTGGCTACCAATATAGGAAAATAGGATCTGTTATCTTCGATCTACTTCACGCCAATA
66 CGATCCACTT-CCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATA
*
12492407 CATGAAGACAATATCTG
130 CATGAAGACAAGATCTG
12492424 CTGTTTTTTA
Statistics
Matches: 911, Mismatches: 26, Indels: 5
0.97 0.03 0.01
Matches are distributed among these distances:
263 13 0.01
264 405 0.44
265 427 0.47
266 66 0.07
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (264 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTGGATCTACTTCACGCCAATAC
ATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATC
TTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAAT
ACAT
Found at i:12499740 original size:17 final size:17
Alignment explanation
Indices: 12499718--12499754 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
12499708 GGAAGCAATG
12499718 TATCAATAGTGGTTCGT
1 TATCAATAGTGGTTCGT
12499735 TATCAATAGTGGTTCGT
1 TATCAATAGTGGTTCGT
12499752 TAT
1 TAT
12499755 TAACATGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.43
Consensus pattern (17 bp):
TATCAATAGTGGTTCGT
Found at i:12510237 original size:28 final size:29
Alignment explanation
Indices: 12510172--12510238 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 29
12510162 TTTATTTTTT
*
12510172 TATATATTTT-TTAATTTTGATAATGTAGA
1 TATATATTTTATTAATTTT-ATAATCTAGA
* *
12510201 TAT-TA-TTTATTTATTTT-TAATCTATA
1 TATATATTTTATTAATTTTATAATCTAGA
12510227 TATATATTTTAT
1 TATATATTTTAT
12510239 ATGTACATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
26 10 0.31
27 5 0.16
28 14 0.44
29 3 0.09
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (29 bp):
TATATATTTTATTAATTTTATAATCTAGA
Found at i:12511814 original size:21 final size:21
Alignment explanation
Indices: 12511790--12511841 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
12511780 CATTGTTTCT
* *
12511790 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
12511811 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
12511832 AATCTCACCG
1 AATCTCACCG
12511842 TCACCGCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.35, G:0.10, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:12513932 original size:149 final size:149
Alignment explanation
Indices: 12513620--12513920 Score: 602
Period size: 149 Copynumber: 2.0 Consensus size: 149
12513610 ATTTTTTGCT
12513620 TCTCTCTCCAAAATTAGTTTATTTCCCTAAATATAGAAAAAAAAAGCATTTTGGGATTGTGGTAT
1 TCTCTCTCCAAAATTAGTTTATTTCCCTAAATATAGAAAAAAAAAGCATTTTGGGATTGTGGTAT
12513685 TTAAAGTTAATTTTGTCATTCTCTTCTTAAAACCCTTAAAATATTTTCAATGATTAATCAAATTA
66 TTAAAGTTAATTTTGTCATTCTCTTCTTAAAACCCTTAAAATATTTTCAATGATTAATCAAATTA
12513750 ATTGCCACTTGGTTGTTAC
131 ATTGCCACTTGGTTGTTAC
12513769 TCTCTCTCCAAAATTAGTTTATTTCCCTAAATATAGAAAAAAAAAGCATTTTGGGATTGTGGTAT
1 TCTCTCTCCAAAATTAGTTTATTTCCCTAAATATAGAAAAAAAAAGCATTTTGGGATTGTGGTAT
12513834 TTAAAGTTAATTTTGTCATTCTCTTCTTAAAACCCTTAAAATATTTTCAATGATTAATCAAATTA
66 TTAAAGTTAATTTTGTCATTCTCTTCTTAAAACCCTTAAAATATTTTCAATGATTAATCAAATTA
12513899 ATTGCCACTTGGTTGTTAC
131 ATTGCCACTTGGTTGTTAC
12513918 TCT
1 TCT
12513921 TTAGGATAAA
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (149 bp):
TCTCTCTCCAAAATTAGTTTATTTCCCTAAATATAGAAAAAAAAAGCATTTTGGGATTGTGGTAT
TTAAAGTTAATTTTGTCATTCTCTTCTTAAAACCCTTAAAATATTTTCAATGATTAATCAAATTA
ATTGCCACTTGGTTGTTAC
Found at i:12514048 original size:17 final size:18
Alignment explanation
Indices: 12514018--12514051 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12514008 TCTAAGATGA
*
12514018 GTTTTTCCATTAAAAAGT
1 GTTTTTCCACTAAAAAGT
12514036 GTTTTTCC-CTAAAAAG
1 GTTTTTCCACTAAAAAG
12514052 CAATAAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (18 bp):
GTTTTTCCACTAAAAAGT
Found at i:12514431 original size:12 final size:12
Alignment explanation
Indices: 12514414--12514441 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
12514404 ATTCTAATTA
12514414 AATTTAATAAAT
1 AATTTAATAAAT
12514426 AATTTAATAAAT
1 AATTTAATAAAT
12514438 AATT
1 AATT
12514442 AATTAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
AATTTAATAAAT
Found at i:12521816 original size:16 final size:16
Alignment explanation
Indices: 12521795--12521827 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12521785 ATTTTCTTAG
12521795 CATATAGATAA-AAAAA
1 CATATA-ATAATAAAAA
12521811 CATATAATAATAAAAA
1 CATATAATAATAAAAA
12521827 C
1 C
12521828 TGTAGATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.67, C:0.09, G:0.03, T:0.21
Consensus pattern (16 bp):
CATATAATAATAAAAA
Found at i:12522802 original size:44 final size:43
Alignment explanation
Indices: 12522549--12523467 Score: 340
Period size: 44 Copynumber: 21.2 Consensus size: 43
12522539 GAATTCAGAA
*
12522549 AGATAAGACTTGCTTACTTAGTCAGCTCCACTGCAACTTCAGGG
1 AGATAAGACTTG-TTACTTAGTCTGCTCCACTGCAACTTCAGGG
* * * * * * * *
12522593 AGATAAGACTAGAT-GTGA-TCTGCT-CTCTGCAAATTTAGAG
1 AGATAAGACTTGTTACTTAGTCTGCTCCACTGCAACTTCAGGG
** * * *
12522633 AGATAAGATCCAAGATT--TTAATCCGTTCCACTGCAACTTCAGGG
1 AGATAAGA--CTTG-TTACTTAGTCTGCTCCACTGCAACTTCAGGG
* * * * * *
12522677 AGATAGGA-TTAGCT--TTAATCTACTCCACTGTAACCTCAGGG
1 AGATAAGACTT-GTTACTTAGTCTGCTCCACTGCAACTTCAGGG
* ** *
12522718 AGATAAGATTTGCCATCTTCAATCTG-TCTCACTGCAACTTCA-GG
1 AGATAAGACTTGTTA-CTT-AGTCTGCTC-CACTGCAACTTCAGGG
12522762 AGGATAAGACTTGTTTACTTAGTCTGCTCCACTGCAACTTCAGGG
1 A-GATAAGACTTG-TTACTTAGTCTGCTCCACTGCAACTTCAGGG
* * * * * *
12522807 AGATAAGACTAGATGC-GA-TCTGCT-CTCTGCAACTTCAGAG
1 AGATAAGACTTGTTACTTAGTCTGCTCCACTGCAACTTCAGGG
** * *
12522847 AGATAAGATCCAAGGTT--TTAATCCGCTCCACTGCAACTTCAGGG
1 AGATAAGA--C-TTGTTACTTAGTCTGCTCCACTGCAACTTCAGGG
* * ** * *
12522891 AGAT-AGAATTATCGGCTTTAATCTGCTCCACTACAACTTCAGGG
1 AGATAAGACTTGT-TAC-TTAGTCTGCTCCACTGCAACTTCAGGG
* **
12522935 AGATAAGATTTGCCATCTTCAGTCTGC-CTCACTGCAACTTCA-GG
1 AGATAAGACTTGTTA-CTT-AGTCTGCTC-CACTGCAACTTCAGGG
* *
12522979 AGGATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCCGGG
1 A-GATAAGACTTG-TTACTTAGTCTGCTCCACTGCAACTTCAGGG
*** * * * *
12523024 AGATAAGACTAAATGC-GA-TCTGCT-CTCTGCAACTTCAGAG
1 AGATAAGACTTGTTACTTAGTCTGCTCCACTGCAACTTCAGGG
* ** * * * *
12523064 AGATAAAATCCAAGGTT--TTAATCCGCTCCACTGCAAATTTAGGG
1 AGATAAGA--C-TTGTTACTTAGTCTGCTCCACTGCAACTTCAGGG
* * * * * * *
12523108 AGATAGGA-TTATCGACTTTAATCTACTCTACTGCAACCTCAGGG
1 AGATAAGACTTGT-TAC-TTAGTCTGCTCCACTGCAACTTCAGGG
* ** * * ** *
12523152 AGATAAGATTTGCCATCTTTAGTCTAC-CTTACTATAACTTCA-AG
1 AGATAAGACTTGTTA-C-TTAGTCTGCTC-CACTGCAACTTCAGGG
*
12523196 AGGATAAGACTTGTTTACTTAGTCTACTCCACTGCAACTTCAGGG
1 A-GATAAGACTTG-TTACTTAGTCTGCTCCACTGCAACTTCAGGG
* * * * * * *
12523241 AGATAAGGCTAGATGC-GA-TCTGCT-CTCTGCAACTTCAGAG
1 AGATAAGACTTGTTACTTAGTCTGCTCCACTGCAACTTCAGGG
** * * * * *
12523281 AGATAAGATCCAAGGTT--TTAATCCGCTCCATTGTAACTTCAGAG
1 AGATAAGA--C-TTGTTACTTAGTCTGCTCCACTGCAACTTCAGGG
* * ** * *
12523325 AGATAGGA-TTATCGGCTTTAATCTACTCCACTGCAACTTCAGGG
1 AGATAAGACTTGT-TAC-TTAGTCTGCTCCACTGCAACTTCAGGG
* **
12523369 AGATAAGATTTGCCATCTTCAGTCTGC-CTCACTGCAACTTCA-GG
1 AGATAAGACTTGTTA-CTT-AGTCTGCTC-CACTGCAACTTCAGGG
* *
12523413 AGGATAAGACTTGCTTACTTAGTCTGCTCCACTGTAACTTCTGGG
1 A-GATAAGACTTG-TTACTTAGTCTGCTCCACTGCAACTTCAGGG
12523458 AGATAAGACT
1 AGATAAGACT
12523468 AAATGCGATC
Statistics
Matches: 651, Mismatches: 155, Indels: 138
0.69 0.16 0.15
Matches are distributed among these distances:
40 86 0.13
41 53 0.08
42 19 0.03
43 35 0.05
44 305 0.47
45 149 0.23
46 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (43 bp):
AGATAAGACTTGTTACTTAGTCTGCTCCACTGCAACTTCAGGG
Found at i:12523027 original size:217 final size:217
Alignment explanation
Indices: 12522550--12523553 Score: 1638
Period size: 217 Copynumber: 4.6 Consensus size: 217
12522540 AATTCAGAAA
*
12522550 GATAAGACTTGCTTACTTAGTC-AGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCT
1 GATAAGACTTGCTTACTTAGTCTA-CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCT
* * * *
12522614 GCTCTCTGCAAATTTAGAGAGATAAGATCCAAGATTTTAATCCGTTCCACTGCAACTTCAGGGAG
65 GCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAG
* *
12522679 ATAGGATTA---GCTTTAATCTACTCCACTGTAACCTCAGGGAGATAAGATTTGCCATCTTCAAT
130 ATAGGATTATCGGCTTTAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGT
*
12522741 CTGTCTCACTGCAACTTCAGGAG
195 CTGCCTCACTGCAACTTCAGGAG
* *
12522764 GATAAGACTTGTTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
1 GATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
12522829 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGA
66 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGA
* * * *
12522894 TAGAATTATCGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTC
131 TAGGATTATCGGCTTTAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTC
12522959 TGCCTCACTGCAACTTCAGGAG
196 TGCCTCACTGCAACTTCAGGAG
* *
12522981 GATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCCGGGAGATAAGACTAAATGCGATCTG
1 GATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
* * *
12523046 CTCTCTGCAACTTCAGAGAGATAAAATCCAAGGTTTTAATCCGCTCCACTGCAAATTTAGGGAGA
66 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGA
* * *
12523111 TAGGATTATCGACTTTAATCTACTCTACTGCAACCTCAGGGAGATAAGATTTGCCATCTTTAGTC
131 TAGGATTATCGGCTTTAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTC
* * ** *
12523176 TACCTTACTATAACTTCAAGAG
196 TGCCTCACTGCAACTTCAGGAG
* *
12523198 GATAAGACTTGTTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGGCTAGATGCGATCTG
1 GATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
* * *
12523263 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCATTGTAACTTCAGAGAGA
66 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGA
*
12523328 TAGGATTATCGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTC
131 TAGGATTATCGGCTTTAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTC
12523393 TGCCTCACTGCAACTTCAGGAG
196 TGCCTCACTGCAACTTCAGGAG
* * * *
12523415 GATAAGACTTGCTTACTTAGTCTGCTCCACTGTAACTTCTGGGAGATAAGACTAAATGCGATCTG
1 GATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
12523480 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGA
66 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGA
12523545 TAGGATTAT
131 TAGGATTAT
12523554 TGGCCACCGA
Statistics
Matches: 725, Mismatches: 61, Indels: 5
0.92 0.08 0.01
Matches are distributed among these distances:
214 129 0.18
217 596 0.82
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
GATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
CTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGA
TAGGATTATCGGCTTTAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTC
TGCCTCACTGCAACTTCAGGAG
Found at i:12536867 original size:16 final size:16
Alignment explanation
Indices: 12536846--12536878 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12536836 ATTTTCTTAG
12536846 CATATAGATAA-AAAAA
1 CATATA-ATAATAAAAA
12536862 CATATAATAATAAAAA
1 CATATAATAATAAAAA
12536878 C
1 C
12536879 TGTAGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.67, C:0.09, G:0.03, T:0.21
Consensus pattern (16 bp):
CATATAATAATAAAAA
Found at i:12538807 original size:5 final size:5
Alignment explanation
Indices: 12538797--12538826 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
12538787 AGAAAAAAAA
12538797 TTAAT TTAAT TTAAT TTAATT TTAAT TTAA
1 TTAAT TTAAT TTAAT TTAA-T TTAAT TTAA
12538827 AAATGCAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTAAT
Found at i:12538810 original size:10 final size:11
Alignment explanation
Indices: 12538797--12538826 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
12538787 AGAAAAAAAA
12538797 TTAATTTAA-T
1 TTAATTTAATT
12538807 TTAATTTAATT
1 TTAATTTAATT
12538818 TTAATTTAA
1 TTAATTTAA
12538827 AAATGCAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTAATTTAATT
Found at i:12560087 original size:41 final size:41
Alignment explanation
Indices: 12560038--12560134 Score: 142
Period size: 41 Copynumber: 2.4 Consensus size: 41
12560028 TATGAAATTC
* *
12560038 GAGATAGCTTCGGCTATTTATGGCACTTAGTGTGCGAGATT
1 GAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATT
*
12560079 GAGATAGCTTCGACTATGTAAGGCACTTAGTGTGCGAGATT
1 GAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATT
*
12560120 -ATAATAGCTTCGGCT
1 GA-GATAGCTTCGGCT
12560135 GTACGATGGC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
40 1 0.02
41 49 0.98
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (41 bp):
GAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATT
Found at i:12560898 original size:46 final size:46
Alignment explanation
Indices: 12560824--12561068 Score: 373
Period size: 46 Copynumber: 5.3 Consensus size: 46
12560814 TTTTATATGT
* *
12560824 TATAATGCTGTCCATTTTGAGCAGATTGATGCTGTCCAATTTGTTG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* * *
12560870 CATAATGTTGTCCATTTTGAGTATATTGATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* * *
12560916 TATAATACTGTCCATTTTGAGAATATTGATGCTGACCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* * *
12560962 TATAATGCTGTCCAATTTGAGCATATTAAAGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
*
12561008 TATAATGCTGTCCATTTTGAGCATATTAATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
12561054 TATAAATGCTGTCCA
1 TAT-AATGCTGTCCA
12561069 AAACAGGGTA
Statistics
Matches: 180, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
46 169 0.94
47 11 0.06
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (46 bp):
TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
Found at i:12564624 original size:30 final size:30
Alignment explanation
Indices: 12564589--12564685 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
12564579 TTTTTTAAGG
* **
12564589 AAATTTATTAATAATTAAGTAATTATTTTA
1 AAATTTATTAATAATTAAGTGATTATTAAA
* * * * *
12564619 TAATTT-TTTATAATTGAGTGATCAATAAA
1 AAATTTATTAATAATTAAGTGATTATTAAA
12564648 AAATTTATTAATAATTAAGTGATTATTAATA
1 AAATTTATTAATAATTAAGTGATTATTAA-A
*
12564679 CAATTTA
1 AAATTTA
12564686 CTTTTAATTT
Statistics
Matches: 51, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
29 21 0.41
30 23 0.45
31 7 0.14
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.46
Consensus pattern (30 bp):
AAATTTATTAATAATTAAGTGATTATTAAA
Found at i:12567402 original size:15 final size:15
Alignment explanation
Indices: 12567378--12567407 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12567368 TTGCTCTTCA
12567378 AGTTTCATTTTCTTT
1 AGTTTCATTTTCTTT
*
12567393 AGTTTGATTTTCTTT
1 AGTTTCATTTTCTTT
12567408 TCTCCGATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.10, T:0.67
Consensus pattern (15 bp):
AGTTTCATTTTCTTT
Found at i:12567684 original size:332 final size:332
Alignment explanation
Indices: 12567078--12567711 Score: 1232
Period size: 332 Copynumber: 1.9 Consensus size: 332
12567068 TGGATGAACT
12567078 TCCGATCATCAGATTTCTTTAGTTTGATTTTCTTTTCTCAAGTTTCAGAATAGAAATGGCTCACT
1 TCCGATCATCAGATTTCTTTAGTTTGATTTTCTTTTCTCAAGTTTCAGAATAGAAATGGCTCACT
12567143 CAAATGAGAATTTCCCCTTCAACCTTTCGTCAAGATAGGCTGGAGCATCAAGTTCCAGCAGTCAG
66 CAAATGAGAATTTCCCCTTCAACCTTTCGTCAAGATAGGCTGGAGCATCAAGTTCCAGCAGTCAG
* * *
12567208 CACAATGAAACGGATTTGTTTGTTGGATGGTTTGCCAATAGACTGGAGAACTTCGACAGTGCAGT
131 CACAATGAAACGGATTTGTTTGTTGGATGGTTTGCCAATAAACTGGAGAAATTCGACAATGCAGT
*
12567273 TTATTAAGGAGTTTCTGGTCTTCTAGACTTGAATGTTTCTGCCAATCAAGGGTTATCGCTTCCTC
196 TTATTAAGGAGTTTCTGGTCTTCTAGACTTGAATGTTTCTGCCAATCAAGGGTTATCACTTCCTC
12567338 CTAGCCAAGAGGAACCCCCACAACAGTTCTTTGCTCTTCAAGTTTCATTTTCTTTAGTTTGATTT
261 CTAGCCAAGAGGAACCCCCACAACAGTTCTTTGCTCTTCAAGTTTCATTTTCTTTAGTTTGATTT
12567403 TCTTTTC
326 TCTTTTC
12567410 TCCGATCATCAGATTTCTTTAGTTTGATTTTCTTTTCTCAAGTTTCAGAATAGAAATGGCTCACT
1 TCCGATCATCAGATTTCTTTAGTTTGATTTTCTTTTCTCAAGTTTCAGAATAGAAATGGCTCACT
12567475 CAAATGAGAATTTCCCCTTCAACCTTTCGTCAAGATAGGCTGGAGCATCAAGTTCCAGCAGTCAG
66 CAAATGAGAATTTCCCCTTCAACCTTTCGTCAAGATAGGCTGGAGCATCAAGTTCCAGCAGTCAG
12567540 CACAATGAAACGGATTTGTTTGTTGGATGGTTTGCCAATAAACTGGAGAAATTCGACAATGCAGT
131 CACAATGAAACGGATTTGTTTGTTGGATGGTTTGCCAATAAACTGGAGAAATTCGACAATGCAGT
12567605 TTATTAAGGAGTTTCTGGTCTTCTAGACTTGAATGTTTCTGCCAATCAAGGGTTATCACTTCCTC
196 TTATTAAGGAGTTTCTGGTCTTCTAGACTTGAATGTTTCTGCCAATCAAGGGTTATCACTTCCTC
12567670 CTAGCCAAGAGGAACCCCCACAACAGTTCTTTGCTCTTCAAG
261 CTAGCCAAGAGGAACCCCCACAACAGTTCTTTGCTCTTCAAG
12567712 AGCAAATAAG
Statistics
Matches: 298, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
332 298 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (332 bp):
TCCGATCATCAGATTTCTTTAGTTTGATTTTCTTTTCTCAAGTTTCAGAATAGAAATGGCTCACT
CAAATGAGAATTTCCCCTTCAACCTTTCGTCAAGATAGGCTGGAGCATCAAGTTCCAGCAGTCAG
CACAATGAAACGGATTTGTTTGTTGGATGGTTTGCCAATAAACTGGAGAAATTCGACAATGCAGT
TTATTAAGGAGTTTCTGGTCTTCTAGACTTGAATGTTTCTGCCAATCAAGGGTTATCACTTCCTC
CTAGCCAAGAGGAACCCCCACAACAGTTCTTTGCTCTTCAAGTTTCATTTTCTTTAGTTTGATTT
TCTTTTC
Found at i:12572921 original size:70 final size:70
Alignment explanation
Indices: 12572769--12573211 Score: 367
Period size: 70 Copynumber: 6.3 Consensus size: 70
12572759 GAAACTCCAG
* * * * * * * *
12572769 ACAGTTAGCGAGAGTTAAAAGCTCCCAGCTGTCA-TTTAAGGCTTGTAGGTTTAATATCACAGCC
1 ACAGTTAGCGAGAGTTAAAAGCTCTCAACTGTTATTTTAAAGCTCGCAGGTTTAATACCACAACC
12572833 CCCAA
66 CCCAA
* * * *
12572838 ATAGTTAGCGAGAGTTAAAAGCTCTTAACTGTTATTTTAAAGCTCGCAGGTTTAGTACCACAATC
1 ACAGTTAGCGAGAGTTAAAAGCTCTCAACTGTTATTTTAAAGCTCGCAGGTTTAATACCACAACC
* *
12572903 TCTAA
66 CCCAA
* * * * *
12572908 ACAGTTAGTGAGAGTTAAAAGCTCTCAACTATCT-TTTT-AAGACTCGCAGGTTTAATAACGCAG
1 ACAGTTAGCGAGAGTTAAAAGCTCTCAACTGT-TATTTTAAAG-CTCGCAGGTTTAATACCACAA
12572971 CCCCCAA
64 CCCCCAA
* * * * * * * * * *
12572978 ACAGTTAACAAAATTTAAAAGCT-TCCAATTGTCATTTTAAGGCTCGCAAGTTTAATACCGC-AG
1 ACAGTTAGCGAGAGTTAAAAGCTCT-CAACTGTTATTTTAAAGCTCGCAGGTTTAATACCACAAC
12573041 CCCCAA
65 CCCCAA
* * * * * * *
12573047 ATAGTCAGCGAGAGTTAAAAGCTCTC-AGTTTTCATTTTAAGGGTCGCAGATTTAATACCACAAC
1 ACAGTTAGCGAGAGTTAAAAGCTCTCAACTGTT-ATTTTAAAGCTCGCAGGTTTAATACCACAAC
*
12573111 CTCCAA
65 CCCCAA
* * * * * * ** * *
12573117 ATAGTTAACGAGAGTTAAAAAGCTCTCAGCTATCATTTTAAGGCTCATAGGTTTAATACCGCAGC
1 ACAGTTAGCGAGAGTT-AAAAGCTCTCAACTGTTATTTTAAAGCTCGCAGGTTTAATACCACAAC
*
12573182 CCCCAC
65 CCCCAA
12573188 ACAGTTAGCGAGAGTTAAAAGCTC
1 ACAGTTAGCGAGAGTTAAAAGCTC
12573212 CCGACTATAA
Statistics
Matches: 294, Mismatches: 69, Indels: 21
0.77 0.18 0.05
Matches are distributed among these distances:
68 3 0.01
69 81 0.28
70 152 0.52
71 56 0.19
72 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (70 bp):
ACAGTTAGCGAGAGTTAAAAGCTCTCAACTGTTATTTTAAAGCTCGCAGGTTTAATACCACAACC
CCCAA
Found at i:12573123 original size:139 final size:139
Alignment explanation
Indices: 12572769--12573211 Score: 458
Period size: 140 Copynumber: 3.2 Consensus size: 139
12572759 GAAACTCCAG
* * * * *
12572769 ACAGTTAGCGAGAGTTAAAAGCTCCCAGCTGTCA-TTTAAGGCTTGTAGGTTTAATATCACAGCC
1 ACAGTTAGCGAGAGTTAAAAGCTCTCAGCTATCATTTTAAGGCTCGCAGGTTTAATAACACAGCC
* * * * * * * * *
12572833 CCCAAATAGTTAGCGAGAGTTAAAAGCTCTTAACTGTTATTTTAAAGCTCGCAGGTTTAGTACCA
66 CCCAAATAGTTAACAAAATTTAAAAGCTCTCAACTGTCATTTTAAGGCTCGCAGGTTTAATACCG
* * *
12572898 CAATCTCTAA
131 C-AGCCCCAA
* * * * *
12572908 ACAGTTAGTGAGAGTTAAAAGCTCTCAACTATCTTTTTAAGACTCGCAGGTTTAATAACGCAGCC
1 ACAGTTAGCGAGAGTTAAAAGCTCTCAGCTATCATTTTAAGGCTCGCAGGTTTAATAACACAGCC
* * *
12572973 CCCAAACAGTTAACAAAATTTAAAAGCT-TCCAATTGTCATTTTAAGGCTCGCAAGTTTAATACC
66 CCCAAATAGTTAACAAAATTTAAAAGCTCT-CAACTGTCATTTTAAGGCTCGCAGGTTTAATACC
12573037 GCAGCCCCAA
130 GCAGCCCCAA
* * * * * * * *
12573047 ATAGTCAGCGAGAGTTAAAAGCTCTCAGTTTTCATTTTAAGGGTCGCAGATTTAATACCACAACC
1 ACAGTTAGCGAGAGTTAAAAGCTCTCAGCTATCATTTTAAGGCTCGCAGGTTTAATAACACAGCC
* * * * * * **
12573112 TCCAAATAGTTAACGAGAGTTAAAAAGCTCTCAGCTATCATTTTAAGGCTCATAGGTTTAATACC
66 CCCAAATAGTTAAC-AAAATTTAAAAGCTCTCAACTGTCATTTTAAGGCTCGCAGGTTTAATACC
*
12573177 GCAGCCCCCAC
130 GCAG-CCCCAA
12573188 ACAGTTAGCGAGAGTTAAAAGCTC
1 ACAGTTAGCGAGAGTTAAAAGCTC
12573212 CCGACTATAA
Statistics
Matches: 247, Mismatches: 52, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
139 99 0.40
140 120 0.49
141 28 0.11
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (139 bp):
ACAGTTAGCGAGAGTTAAAAGCTCTCAGCTATCATTTTAAGGCTCGCAGGTTTAATAACACAGCC
CCCAAATAGTTAACAAAATTTAAAAGCTCTCAACTGTCATTTTAAGGCTCGCAGGTTTAATACCG
CAGCCCCAA
Found at i:12573132 original size:209 final size:210
Alignment explanation
Indices: 12572783--12573232 Score: 537
Period size: 210 Copynumber: 2.1 Consensus size: 210
12572773 TTAGCGAGAG
* * * * * *
12572783 TTAAAAGCTCCCAGCTGTCATTTAAGGCTTGTAGGTTTAATATCACAGCCCCCAAATAGTTAGCG
1 TTAAAAGCTCCCAACTGTCATTTAAGGCTCGCAAGTTTAATACCACAGCCCCCAAATAGTCAGCG
* * * *
12572848 AGAGTTAAAAGCTCTTAACTGTTATTTTAAAGCTCGCAGGTTTAGTACCACAATCTCTAAACAGT
66 AGAGTTAAAAGCTCTTAACTGTTATTTTAAAGCTCGCAGATTTAATACCACAACCTCCAAACAGT
** * *
12572913 TAGTGAGAGTT-AAAAGCTCTCAACTATCTTTTTAAGACTCGCAGGTTTAATAACGCAGCCCCCA
131 TAACGAGAGTTAAAAAGCTCTCAACTATCATTTTAAGACTCACAGGTTTAATAACGCAGCCCCCA
12572977 AACAGTTAACAAAAT
196 AACAGTTAACAAAAT
* * *
12572992 TTAAAAGCTTCCAATTGTCATTTTAAGGCTCGCAAGTTTAATACCGCAG-CCCCAAATAGTCAGC
1 TTAAAAGCTCCCAACTGTCA-TTTAAGGCTCGCAAGTTTAATACCACAGCCCCCAAATAGTCAGC
* * * * * *
12573056 GAGAGTTAAAAGCTC-TCAGTTTTCATTTTAAGGGTCGCAGATTTAATACCACAACCTCCAAATA
65 GAGAGTTAAAAGCTCTTAACTGTT-ATTTTAAAGCTCGCAGATTTAATACCACAACCTCCAAACA
* * * *
12573120 GTTAACGAGAGTTAAAAAGCTCTCAGCTATCATTTTAAGGCTCATAGGTTTAATACCGCAGCCCC
129 GTTAACGAGAGTTAAAAAGCTCTCAACTATCATTTTAAGACTCACAGGTTTAATAACGCAGCCCC
* * * * *
12573185 CACACAGTTAGCGAGAG
194 CAAACAGTTAACAAAAT
* * *
12573202 TTAAAAGCTCCCGACTATAATCTTAAGGCTC
1 TTAAAAGCTCCCAACTGTCAT-TTAAGGCTC
12573233 TTTAAGTCCA
Statistics
Matches: 200, Mismatches: 37, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
208 5 0.03
209 91 0.46
210 104 0.52
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (210 bp):
TTAAAAGCTCCCAACTGTCATTTAAGGCTCGCAAGTTTAATACCACAGCCCCCAAATAGTCAGCG
AGAGTTAAAAGCTCTTAACTGTTATTTTAAAGCTCGCAGATTTAATACCACAACCTCCAAACAGT
TAACGAGAGTTAAAAAGCTCTCAACTATCATTTTAAGACTCACAGGTTTAATAACGCAGCCCCCA
AACAGTTAACAAAAT
Found at i:12574377 original size:14 final size:14
Alignment explanation
Indices: 12574358--12574386 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12574348 AAGTGGTTCA
12574358 ATTGAACTGAACCG
1 ATTGAACTGAACCG
12574372 ATTGAACTGAACCG
1 ATTGAACTGAACCG
12574386 A
1 A
12574387 CCAAGAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (14 bp):
ATTGAACTGAACCG
Found at i:12577132 original size:30 final size:30
Alignment explanation
Indices: 12577096--12577156 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
12577086 TTAACCGAAG
* *
12577096 ATTAGAGTAGCGGCTCGTGATTATTGTCTT
1 ATTAGAGTAGCAGCTAGTGATTATTGTCTT
*
12577126 ATTAGAGTAGCAGTTAGTGATTATTGTCTT
1 ATTAGAGTAGCAGCTAGTGATTATTGTCTT
12577156 A
1 A
12577157 CATTTTAGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.41
Consensus pattern (30 bp):
ATTAGAGTAGCAGCTAGTGATTATTGTCTT
Found at i:12579612 original size:25 final size:25
Alignment explanation
Indices: 12579595--12579653 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
12579585 CAGCTCTTAT
12579595 GAGCTTACCATTATTCAGCTCAAAG
1 GAGCTTACCATTATTCAGCTCAAAG
12579620 GAGCTTACCATTATTCAGCTCAAAG
1 GAGCTTACCATTATTCAGCTCAAAG
12579645 GAGCTTACC
1 GAGCTTACC
12579654 GTTTACAGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (25 bp):
GAGCTTACCATTATTCAGCTCAAAG
Found at i:12582177 original size:20 final size:20
Alignment explanation
Indices: 12582148--12582193 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
12582138 TGATCGTGAC
12582148 TATC-TCTGTGATCTTCTTT
1 TATCATCTGTGATCTTCTTT
12582167 TATCATCTGTGATCTTCTTT
1 TATCATCTGTGATCTTCTTT
12582187 TATCATC
1 TATCATC
12582194 ATCCTTGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.15, C:0.22, G:0.09, T:0.54
Consensus pattern (20 bp):
TATCATCTGTGATCTTCTTT
Found at i:12587156 original size:49 final size:49
Alignment explanation
Indices: 12587057--12587156 Score: 139
Period size: 49 Copynumber: 2.0 Consensus size: 49
12587047 TTATTTTATT
* * * *
12587057 TTAGAATAAGGTTTTTCAACCTTATTACGCTTCATCTATTTGATATTGA
1 TTAGAATAAGGTGTTTCAACCTTACTACACTTCATCTATTAGATATTGA
*
12587106 TTAGAATAAGGTGTTTCAACCTTACTACACTTCTTCTATTAGA-ATATGA
1 TTAGAATAAGGTGTTTCAACCTTACTACACTTCATCTATTAGATAT-TGA
12587155 TT
1 TT
12587157 TTACAAGCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
48 2 0.04
49 43 0.96
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (49 bp):
TTAGAATAAGGTGTTTCAACCTTACTACACTTCATCTATTAGATATTGA
Found at i:12588079 original size:42 final size:42
Alignment explanation
Indices: 12588011--12588093 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
12588001 AAGATCGAAA
*
12588011 TGCTGATGATAATCATAGAAGGACACAAGAACAAAATTCTCG
1 TGCTGATGATAATCATAGAAGAACACAAGAACAAAATTCTCG
* * * * *
12588053 TGCTGATGATGATCGTGGAAGAACACATGAACGAAATTCTC
1 TGCTGATGATAATCATAGAAGAACACAAGAACAAAATTCTC
12588094 ACGGTAAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.23
Consensus pattern (42 bp):
TGCTGATGATAATCATAGAAGAACACAAGAACAAAATTCTCG
Found at i:12593406 original size:12 final size:12
Alignment explanation
Indices: 12593374--12593449 Score: 58
Period size: 11 Copynumber: 6.8 Consensus size: 12
12593364 AACAAATCCT
*
12593374 CTCTCATATTTC
1 CTCTCAAATTTC
12593386 CTCTC-AATTTC
1 CTCTCAAATTTC
12593397 CTCTCAAA-TTC
1 CTCTCAAATTTC
*
12593408 CATC-CAAAATT-
1 C-TCTCAAATTTC
12593419 CTCTC-AATTTC
1 CTCTCAAATTTC
*
12593430 CT-TCCAAAATT-
1 CTCT-CAAATTTC
12593441 CTCTCAAAT
1 CTCTCAAAT
12593450 CCATATTTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 17
0.71 0.05 0.23
Matches are distributed among these distances:
10 7 0.13
11 29 0.56
12 16 0.31
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.39
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:12593422 original size:22 final size:22
Alignment explanation
Indices: 12593397--12593453 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
12593387 TCTCAATTTC
12593397 CTCTCAAATTCCATCCAAAATT
1 CTCTCAAATTCCATCCAAAATT
* *
12593419 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAAATTCCATCCAAAATT
12593441 CTCTCAAA-TCCAT
1 CTCTCAAATTCCAT
12593454 ATTTAATTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.32, C:0.33, G:0.00, T:0.35
Consensus pattern (22 bp):
CTCTCAAATTCCATCCAAAATT
Found at i:12593477 original size:51 final size:51
Alignment explanation
Indices: 12593419--12593534 Score: 196
Period size: 51 Copynumber: 2.3 Consensus size: 51
12593409 ATCCAAAATT
*
12593419 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAGTTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
* * *
12593470 CTCTCAATTTCCTTCCAAAATTCTTTGAAATCCATATTTAATTTCAATTTG
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
12593521 CTCTCAATTTCCTT
1 CTCTCAATTTCCTT
12593535 TTTTAAAATA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.27, C:0.26, G:0.03, T:0.45
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
Found at i:12594686 original size:7 final size:7
Alignment explanation
Indices: 12594674--12594698 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
12594664 AGTCGATTGA
12594674 TATTTAG
1 TATTTAG
12594681 TATTTAG
1 TATTTAG
12594688 TATTTAG
1 TATTTAG
12594695 TATT
1 TATT
12594699 ATGTATATAA
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:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:12595894 original size:25 final size:25
Alignment explanation
Indices: 12595860--12595997 Score: 155
Period size: 25 Copynumber: 5.7 Consensus size: 25
12595850 TATTTTGATA
12595860 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
12595885 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
12595910 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAGT
* ***
12595935 TT-TTTCGA-GT--T--ATTTTCA-T
1 TTATTT-GATGTAATAAAATAGAAGT
*
12595954 ATTATTTGATGTAATAAAATATAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
12595980 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
12595998 ACCCTAACCT
Statistics
Matches: 96, Mismatches: 8, Indels: 18
0.79 0.07 0.15
Matches are distributed among these distances:
19 1 0.01
20 7 0.07
21 5 0.05
22 1 0.01
23 1 0.01
24 5 0.05
25 75 0.78
26 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.13, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:12595956 original size:95 final size:93
Alignment explanation
Indices: 12595817--12595997 Score: 317
Period size: 95 Copynumber: 1.9 Consensus size: 93
12595807 TATTTTGATA
* *
12595817 TTATTTTATGTAAAAAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGA
1 TTATTTGATGTAAAAAATAGAAATTTTTTGAGTTATTTTCATATTATTTGATGTAATAAAATAGA
12595882 AGTTTATTTGATGTAATAAAATAGAAGT
66 AGTTTATTTGATGTAATAAAATAGAAGT
12595910 TTATTTGATGTAATAAAATAGAAATTTTTTCGAGTTATTTTCATATTATTTGATGTAATAAAATA
1 TTATTTGATGTAA-AAAATAGAAATTTTTT-GAGTTATTTTCATATTATTTGATGTAATAAAATA
*
12595975 TAAGTTTATTTGATGTAATAAAA
64 GAAGTTTATTTGATGTAATAAAA
12595998 ACCCTAACCT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
93 12 0.14
94 16 0.19
95 55 0.66
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.46
Consensus pattern (93 bp):
TTATTTGATGTAAAAAATAGAAATTTTTTGAGTTATTTTCATATTATTTGATGTAATAAAATAGA
AGTTTATTTGATGTAATAAAATAGAAGT
Found at i:12595974 original size:45 final size:44
Alignment explanation
Indices: 12595807--12595974 Score: 196
Period size: 50 Copynumber: 3.7 Consensus size: 44
12595797 ATATTTTGAA
*
12595807 TATTTTGATATTATTTTATGTAA-AAAATAGAAATTTTTTGAGT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTTTTGAGT
*
12595850 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTT-TTTGA-GT
** *
12595896 AATAAAATAGA-AGTTTATTTGATGTAATAAAATAGAAATTTTTTCGAGT
1 --T-ATTTTGATA--TTATTTGATGTAATAAAATAGAAATTTTTT-GAGT
*
12595945 TATTTTCATATTATTTGATGTAATAAAATA
1 TATTTTGATATTATTTGATGTAATAAAATA
12595975 TAAGTTTATT
Statistics
Matches: 105, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
43 22 0.21
44 12 0.11
45 25 0.24
46 5 0.05
47 2 0.02
48 2 0.02
49 9 0.09
50 28 0.27
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.47
Consensus pattern (44 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAATTTTTTGAGT
Found at i:12596045 original size:23 final size:23
Alignment explanation
Indices: 12595993--12596755 Score: 364
Period size: 23 Copynumber: 32.5 Consensus size: 23
12595983 TTTGATGTAA
*
12595993 TAAAAACCCTAACCTAATTTAAC
1 TAAAAACCCTAACCTAATTTAAT
***
12596016 CCTAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
12596039 TAAAAACCCTAACCCTAACCTGATTTAATT
1 TAAAAACCCTAA-CCT-A----ATTTAA-T
* * *
12596069 TAATTAA---AAACCCTAAACCTTAACT
1 TAA-AAACCCTAA-CCT-AA-TTTAA-T
*
12596094 TAAAAACTCTAAACCTTAACTTT-A-
1 TAAAAACCCT-AACC-TAA-TTTAAT
12596118 -AAAA-CCCTAACCTAATTTAA-
1 TAAAAACCCTAACCTAATTTAAT
12596138 TACAAAACCCTAACCTAATTTAAT
1 TA-AAAACCCTAACCTAATTTAAT
*
12596162 ACAAAACCCTAACCCTAACCTAATTTAA-
1 --TAAA----AACCCTAACCTAATTTAAT
12596190 TACAAAACCCTAACCTAATTTAAT
1 TA-AAAACCCTAACCTAATTTAAT
*
12596214 TAAAAATCCTAACCCTAACTTGATTTAAT
1 TAAAAACCCTAA-CCT-A----ATTTAAT
12596243 TAAAAACCCTAACCCTAACATAATTTAAT
1 TAAAAACCCTAA--C---C-TAATTTAAT
*
12596272 TAAAAACCCTAA---ACTTTAACT
1 TAAAAACCCTAACCTAATTTAA-T
*
12596293 TAAAAACCCTAAACCTTAA-CT--T
1 TAAAAACCCT-AACC-TAATTTAAT
*
12596315 TAAAAACCATAACCTAATTTAA-
1 TAAAAACCCTAACCTAATTTAAT
12596337 TACAAAACCCTAACCTAATTTAAT
1 TA-AAAACCCTAACCTAATTTAAT
12596361 TAAAAACCCTAACCCTAACCTAATTTAAT
1 T--AAA----AACCCTAACCTAATTTAAT
* *
12596390 TAAAAACCTTAAACCTTAA-CT--T
1 TAAAAACCCT-AACC-TAATTTAAT
12596412 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
12596435 TAAAAACCCTAAACC----TTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
* *
12596456 TAAAAACCTTAAACCTTAA-CT--T
1 TAAAAACCCT-AACC-TAATTTAAT
12596478 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
12596501 TAAAAACCCTAAACC----TTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
* *
12596522 TAAAAACCTTAAACCTTAA-CT--T
1 TAAAAACCCT-AACC-TAATTTAAT
12596544 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
12596567 TAAAAACCCTAAACC----TTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
* *
12596588 TAAAAACCTTAAACCTTAA-CT--T
1 TAAAAACCCT-AACC-TAATTTAAT
12596610 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
12596633 TAAAAACCCTAAACC----TTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
* *
12596654 TAAAAACCTTAAACCTTAA-CT--T
1 TAAAAACCCT-AACC-TAATTTAAT
12596676 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
**
12596699 TAAAAACCCTAACC--CCTTAACT
1 TAAAAACCCTAACCTAATTTAA-T
* *
12596721 TTAAAACCCTAGCCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
12596744 TAAAAACCCTAA
1 TAAAAACCCTAA
12596756 ACAAAGTTAA
Statistics
Matches: 588, Mismatches: 53, Indels: 198
0.70 0.06 0.24
Matches are distributed among these distances:
19 3 0.01
20 44 0.07
21 110 0.19
22 83 0.14
23 169 0.29
24 37 0.06
25 22 0.04
26 5 0.01
27 12 0.02
28 11 0.02
29 81 0.14
30 6 0.01
31 2 0.00
33 2 0.00
34 1 0.00
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (23 bp):
TAAAAACCCTAACCTAATTTAAT
Found at i:12596053 original size:29 final size:29
Alignment explanation
Indices: 12596013--12596283 Score: 185
Period size: 29 Copynumber: 9.3 Consensus size: 29
12596003 AACCTAATTT
12596013 AACCCTAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
12596043 AACCCTAACCCTAACCTGATTTAATTTAATTAAA
1 AACCCTAACCCTAACC-----TAATTTAATTAAA
* * *
12596077 AACCCTAAACCTTAACTTAA--AAACTCTAAA
1 AACCCT-AACCCTAACCTAATTTAA-T-TAAA
** *
12596107 CCTTAACTTTAAAAACCCTAACCTAATTTAA-T-AC
1 ----AACCCT---AACCCTAACCTAATTTAATTAAA
12596141 AA----AACCCTAACCTAATTTAA-TACAA
1 AACCCTAACCCTAACCTAATTTAATTA-AA
*
12596166 AACCCTAACCCTAACCTAATTTAA-T-AC
1 AACCCTAACCCTAACCTAATTTAATTAAA
12596193 AA----AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* * *
12596218 AATCCTAACCCTAACTTGATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
12596247 AACCCTAACCCTAACATAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
12596276 AACCCTAA
1 AACCCTAA
12596284 ACTTTAACTT
Statistics
Matches: 196, Mismatches: 17, Indels: 57
0.73 0.06 0.21
Matches are distributed among these distances:
23 37 0.19
24 1 0.01
25 6 0.03
27 3 0.02
28 2 0.01
29 85 0.43
30 15 0.08
34 24 0.12
35 9 0.05
36 12 0.06
38 2 0.01
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAATTTAATTAAA
Found at i:12596099 original size:22 final size:21
Alignment explanation
Indices: 12596068--12596127 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
12596058 CTGATTTAAT
12596068 TTAA-TTAAAAACCCTAAACC
1 TTAACTTAAAAACCCTAAACC
*
12596088 TTAACTTAAAAACTCTAAACC
1 TTAACTTAAAAACCCTAAACC
12596109 TTAACTTTAAAAACCCTAA
1 TTAAC-TTAAAAACCCTAA
12596128 CCTAATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.11
21 20 0.56
22 12 0.33
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.28
Consensus pattern (21 bp):
TTAACTTAAAAACCCTAAACC
Found at i:12596179 original size:52 final size:51
Alignment explanation
Indices: 12596120--12596446 Score: 248
Period size: 52 Copynumber: 6.6 Consensus size: 51
12596110 TAACTTTAAA
12596120 AACCCTAACCTAATTTAA-TACAAAACCCTAACCTAATTTAATACAAAACCCT
1 AACCCTAACCTAATTTAATTA-AAAACCCTAACCTAATTTAATA-AAAACCCT
*
12596172 AACCCTAACCTAATTTAA-TACAAAACCCTAACCTAATTTAATTAAAAATCCT
1 AACCCTAACCTAATTTAATTA-AAAACCCTAACCTAATTTAA-TAAAAACCCT
* * ** ** *****
12596224 AACCCTAACTTGATTTAATTAAAAACCCTAACCCTAACATAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAATTTAATAAAAACCCT
* *
12596276 AACCCTAA---ACTTTAACTTAAAAACCCTAAACCTTAACTT--TAAAAA-CC-
1 AACCCTAACCTAATTTAA-TTAAAAACCCT-AACC-TAATTTAATAAAAACCCT
12596323 -A---TAACCTAATTTAA-TACAAAACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTA-AAAACCCTAACCTAATTTAA-TAAAAACCCT
* *
12596371 AACCCTAACCTAATTTAATTAAAAACCTTAAACCTTAACTT--T--AAA----
1 AACCCTAACCTAATTTAATTAAAAACCCT-AACC-TAATTTAATAAAAACCCT
12596416 AACCCTAACCTAATTTAATTAAAAACCCTAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAA
12596447 ACCTTAACTT
Statistics
Matches: 229, Mismatches: 24, Indels: 52
0.75 0.08 0.17
Matches are distributed among these distances:
43 8 0.03
44 8 0.03
45 36 0.16
46 13 0.06
47 2 0.01
49 12 0.05
50 13 0.06
51 8 0.03
52 106 0.46
53 18 0.08
54 5 0.02
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (51 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATAAAAACCCT
Found at i:12596296 original size:21 final size:21
Alignment explanation
Indices: 12596266--12596322 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
12596256 CCTAACATAA
12596266 TTTAA-TTAAAAACCCTAAAC
1 TTTAACTTAAAAACCCTAAAC
12596286 TTTAACTTAAAAACCCTAAAC
1 TTTAACTTAAAAACCCTAAAC
*
12596307 CTTAACTTTAAAAACC
1 TTTAAC-TTAAAAACC
12596323 ATAACCTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 5 0.15
21 20 0.59
22 9 0.26
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (21 bp):
TTTAACTTAAAAACCCTAAAC
Found at i:12596334 original size:199 final size:202
Alignment explanation
Indices: 12596020--12596397 Score: 640
Period size: 199 Copynumber: 1.9 Consensus size: 202
12596010 TTTAACCCTA
12596020 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTGATTTAATTTAATTAAAAACCCTAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACC-GA-TTAATTTAATTAAAAACCCTAA
* *
12596085 ACCTTAACTTAAAAACTCTAAACCTTAACTTTAAAAACCCTAACCTAATTTAATACAAAACCCTA
64 ACCTTAACTTAAAAACCCTAAACCTTAACTTTAAAAACCATAACCTAATTTAATACAAAACCCTA
12596150 ACCTAATTTAA-TACAAAACCCTAACCCTAACCTAATTTAA-TACAAAACCCTAACCTAATTTAA
129 ACCTAATTTAATTA-AAAACCCTAACCCTAACCTAATTTAATTA-AAAACCCTAACCTAATTTAA
12596213 TTAAAAATCCT
192 TTAAAAATCCT
* *
12596224 AACCCTAACTTGATTTAATTAAAAACCCTAACCCTAA-C-A-TAATTTAATTAAAAACCCTAAAC
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCGATTAATTTAATTAAAAACCCTAAAC
*
12596286 TTTAACTTAAAAACCCTAAACCTTAACTTTAAAAACCATAACCTAATTTAATACAAAACCCTAAC
66 CTTAACTTAAAAACCCTAAACCTTAACTTTAAAAACCATAACCTAATTTAATACAAAACCCTAAC
12596351 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACC
131 CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACC
12596398 TTAAACCTTA
Statistics
Matches: 167, Mismatches: 5, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
199 126 0.75
200 4 0.02
201 1 0.01
203 1 0.01
204 35 0.21
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (202 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCGATTAATTTAATTAAAAACCCTAAAC
CTTAACTTAAAAACCCTAAACCTTAACTTTAAAAACCATAACCTAATTTAATACAAAACCCTAAC
CTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAA
AAATCCT
Found at i:12596348 original size:45 final size:45
Alignment explanation
Indices: 12596271--12596757 Score: 425
Period size: 45 Copynumber: 10.8 Consensus size: 45
12596261 CATAATTTAA
*
12596271 TTAAAAACCCTAA---ACTTTAACTTAAAAACCCTAAACCTTAACT
1 TTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAAACCTTAACT
*
12596314 TTAAAAACCATAACCTAATTTAA-TACAAAACCCT-AACCTAATTTAA-T
1 TTAAAAACCCTAACCTAATTTAATTA-AAAACCCTAAACC----TTAACT
* *
12596361 TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCTTAAACCTTAACT
1 T-TAAA----AACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACT
12596411 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAAC-
1 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACT
* * *
12596455 TTAAAAACCTTAAACCTTAA-CT--TTAAAAACCCT-AACC-TAATTT
1 TTAAAAACCCT-AACC-TAATTTAATTAAAAACCCTAAACCTTAA-CT
*
12596498 AATTAAAAACCCTAAACC----TTAACTTAAAAACCTTAAACCTTAACT
1 --TTAAAAACCCT-AACCTAATTTAA-TTAAAAACCCTAAACCTTAACT
12596543 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAAC-
1 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACT
* * *
12596587 TTAAAAACCTTAAACCTTAA-CT--TTAAAAACCCT-AACC-TAATTT
1 TTAAAAACCCT-AACC-TAATTTAATTAAAAACCCTAAACCTTAA-CT
*
12596630 AATTAAAAACCCTAAACC----TTAACTTAAAAACCTTAAACCTTAACT
1 --TTAAAAACCCT-AACCTAATTTAA-TTAAAAACCCTAAACCTTAACT
*
12596675 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCCTTAACT
1 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA-ACCTTAACT
*
12596721 TT-AAAACCCTAGCCTAATTTAATTAAAAACCCTAAAC
1 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAAC
12596758 AAAGTTAATA
Statistics
Matches: 371, Mismatches: 26, Indels: 93
0.76 0.05 0.19
Matches are distributed among these distances:
41 8 0.02
42 16 0.04
43 56 0.15
44 47 0.13
45 160 0.43
46 36 0.10
47 2 0.01
48 7 0.02
49 7 0.02
50 2 0.01
52 24 0.06
53 6 0.02
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.29
Consensus pattern (45 bp):
TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACT
Found at i:12596374 original size:29 final size:29
Alignment explanation
Indices: 12596342--12596397 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
12596332 TTTAATACAA
12596342 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
12596371 AACCCTAACCTAATTTAATTAAAAACC
1 AACCCTAACCTAATTTAATTAAAAACC
12596398 TTAAACCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (29 bp):
AACCCTAACCTAATTTAATTAAAAACCCT
Found at i:12596469 original size:66 final size:66
Alignment explanation
Indices: 12596271--12596728 Score: 694
Period size: 66 Copynumber: 6.8 Consensus size: 66
12596261 CATAATTTAA
* *
12596271 TTAAAAACCCTAA---ACTTTAACTTAAAAACCCTAAACCTTAACTTTAAAAACCAT-AACC-TA
1 TTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAAACCTTAAC-TTAAAAACCTTAAACCTTA
*
12596331 ATT
64 ACT
12596334 TAATACAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAA-TTAAAAACC
1 T--TA-AAAACCCTAACCTAATTTAATTAAAAACCCT-A----AACC----TTAACTTAAAAACC
12596398 TTAAACCTTAACT
54 TTAAACCTTAACT
12596411 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTAAAAACCTTAAACCTTAAC
1 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTAAAAACCTTAAACCTTAAC
12596476 T
66 T
12596477 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTAAAAACCTTAAACCTTAAC
1 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTAAAAACCTTAAACCTTAAC
12596542 T
66 T
12596543 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTAAAAACCTTAAACCTTAAC
1 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTAAAAACCTTAAACCTTAAC
12596608 T
66 T
12596609 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTAAAAACCTTAAACCTTAAC
1 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTAAAAACCTTAAACCTTAAC
12596674 T
66 T
* *
12596675 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCCTTAACTTTAAAACC
1 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA-ACCTTAACTTAAAAACC
12596729 CTAGCCTAAT
Statistics
Matches: 371, Mismatches: 5, Indels: 34
0.90 0.01 0.08
Matches are distributed among these distances:
63 1 0.00
65 6 0.02
66 266 0.72
67 15 0.04
68 11 0.03
69 11 0.03
73 5 0.01
74 31 0.08
75 12 0.03
76 4 0.01
77 9 0.02
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.29
Consensus pattern (66 bp):
TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTAAAAACCTTAAACCTTAAC
T
Found at i:12596660 original size:132 final size:133
Alignment explanation
Indices: 12596064--12596757 Score: 559
Period size: 132 Copynumber: 5.0 Consensus size: 133
12596054 TAACCTGATT
*
12596064 TAATTTAATTAAAAACCCTAAACCTTAACTTAAAAACTCTAAACCTTAACT-TTAAAAACCCTAA
1 TAATTTAATTAAAAACCCTAAACCTTAACTTAAAAACCCT-AACC-TAACTATTAAAAACCCTAA
* * *
12596128 CCTAATTTAA-TACAAAACCCT-AACC-TAATTTAATACAAAACCCTAACCCTAACCTAATTTAA
64 CCTAATTTAATTA-AAAACCTTAAACCTTAACTT--TA-AAAACCCTAA-CCTAATCT-A--T--
12596190 TACAAAACCCT-AACC
119 TA-AAAACCCTAAACC
* * *
12596205 TAATTTAATTAAAAATCCTAACCCTAACTTGATTTAATTAAAAACCCTAACCCTAACATAATTTA
1 TAATTTAATTAAAAACCCTAA----ACCTT-A---ACTTAAAAACCCTAA-CCTAAC------T-
* * *
12596270 ATTAAAAACCCTAA---ACTTTAACTTAAAAACCCTAAACCTTAACTTTAAAAACCATAACCTAA
50 ATTAAAAACCCTAACCTAATTTAA-TTAAAAACCTTAAACCTTAACTTTAAAAACCCTAACCTAA
* *
12596332 TTTAATACAAAACCCT-AACC
114 TCTATTA-AAAACCCTAAACC
*
12596352 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAA-TTAAAAACCTTAAACCTTAACT-TTAA
1 TAATTTAATTAAAAACCCT-A----AACC----TTAACTTAAAAACCCT-AACC-TAACTATTAA
* *
12596415 AAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAAC-TTAAAAACCTTAAACCTTAA-CT-
55 AAACCCTAACCTAATTTAATTAAAAACCTTAAACCTTAACTTTAAAAACCCT-AACC-TAATCTA
12596477 TTAAAAACCCT-AACC
118 TTAAAAACCCTAAACC
*
12596492 TAATTTAATTAAAAACCCTAAACCTTAACTTAAAAACCTTAAACCTTAACT-TTAAAAACCCTAA
1 TAATTTAATTAAAAACCCTAAACCTTAACTTAAAAACCCT-AACC-TAACTATTAAAAACCCTAA
* *
12596556 CCTAATTTAATTAAAAACCCTAAACCTTAAC-TTAAAAACCTTAAACCTTAA-CT-TTAAAAACC
64 CCTAATTTAATTAAAAACCTTAAACCTTAACTTTAAAAACCCT-AACC-TAATCTATTAAAAACC
12596618 CT-AACC
127 CTAAACC
*
12596624 TAATTTAATTAAAAACCCTAAACCTTAACTTAAAAACCTTAAACCTTAACT-TTAAAAACCCTAA
1 TAATTTAATTAAAAACCCTAAACCTTAACTTAAAAACCCT-AACC-TAACTATTAAAAACCCTAA
* * * *
12596688 CCTAATTTAATTAAAAACCCTAACCCCTTAACTTT-AAAACCCTAGCCTAATTTAATTAAAAACC
64 CCTAATTTAATTAAAAACCTTAA-ACCTTAACTTTAAAAACCCTAACCTAATCT-ATTAAAAACC
12596752 CTAAAC
127 CTAAAC
12596758 AAAGTTAATA
Statistics
Matches: 488, Mismatches: 21, Indels: 94
0.81 0.03 0.16
Matches are distributed among these distances:
131 7 0.01
132 194 0.40
133 14 0.03
134 13 0.03
135 7 0.01
139 1 0.00
140 44 0.09
141 32 0.07
142 27 0.06
143 9 0.02
145 4 0.01
146 1 0.00
147 45 0.09
148 16 0.03
149 13 0.03
151 2 0.00
152 9 0.02
153 15 0.03
154 11 0.02
155 6 0.01
156 18 0.04
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (133 bp):
TAATTTAATTAAAAACCCTAAACCTTAACTTAAAAACCCTAACCTAACTATTAAAAACCCTAACC
TAATTTAATTAAAAACCTTAAACCTTAACTTTAAAAACCCTAACCTAATCTATTAAAAACCCTAA
ACC
Found at i:12596746 original size:22 final size:23
Alignment explanation
Indices: 12596115--12596755 Score: 376
Period size: 23 Copynumber: 27.6 Consensus size: 23
12596105 AACCTTAACT
12596115 TTAAAAACCCTAACCTAATTTAA
1 TTAAAAACCCTAACCTAATTTAA
12596138 -TACAAAACCCTAACCTAATTTAA
1 TTA-AAAACCCTAACCTAATTTAA
*
12596161 TACAAAACCCTAACCCTAACCTAATTTAA
1 T--TAAA----AACCCTAACCTAATTTAA
12596190 -TACAAAACCCTAACCTAATTTAA
1 TTA-AAAACCCTAACCTAATTTAA
*
12596213 TTAAAAATCCTAACCCTAACTTGATTTAA
1 TTAAAAACCCTAA-CCT-A----ATTTAA
12596242 TTAAAAACCCTAACCCTAACATAATTTAA
1 TTAAAAACCCTAA--C---C-TAATTTAA
*
12596271 TTAAAAACCCTAA---ACTTTAA
1 TTAAAAACCCTAACCTAATTTAA
*
12596291 CTTAAAAACCCTAAACCTTAA-CT--
1 -TTAAAAACCCT-AACC-TAATTTAA
*
12596314 TTAAAAACCATAACCTAATTTAA
1 TTAAAAACCCTAACCTAATTTAA
12596337 -TACAAAACCCTAACCTAATTTAA
1 TTA-AAAACCCTAACCTAATTTAA
12596360 TTAAAAACCCTAACCCTAACCTAATTTAA
1 TT--AAA----AACCCTAACCTAATTTAA
* *
12596389 TTAAAAACCTTAAACCTTAA-CT--
1 TTAAAAACCCT-AACC-TAATTTAA
12596411 TTAAAAACCCTAACCTAATTTAA
1 TTAAAAACCCTAACCTAATTTAA
12596434 TTAAAAACCCTAAACC----TTAA
1 TTAAAAACCCT-AACCTAATTTAA
* *
12596454 CTTAAAAACCTTAAACCTTAA-CT--
1 -TTAAAAACCCT-AACC-TAATTTAA
12596477 TTAAAAACCCTAACCTAATTTAA
1 TTAAAAACCCTAACCTAATTTAA
12596500 TTAAAAACCCTAAACC----TTAA
1 TTAAAAACCCT-AACCTAATTTAA
* *
12596520 CTTAAAAACCTTAAACCTTAA-CT--
1 -TTAAAAACCCT-AACC-TAATTTAA
12596543 TTAAAAACCCTAACCTAATTTAA
1 TTAAAAACCCTAACCTAATTTAA
12596566 TTAAAAACCCTAAACC----TTAA
1 TTAAAAACCCT-AACCTAATTTAA
* *
12596586 CTTAAAAACCTTAAACCTTAA-CT--
1 -TTAAAAACCCT-AACC-TAATTTAA
12596609 TTAAAAACCCTAACCTAATTTAA
1 TTAAAAACCCTAACCTAATTTAA
12596632 TTAAAAACCCTAAACC----TTAA
1 TTAAAAACCCT-AACCTAATTTAA
* *
12596652 CTTAAAAACCTTAAACCTTAA-CT--
1 -TTAAAAACCCT-AACC-TAATTTAA
12596675 TTAAAAACCCTAACCTAATTTAA
1 TTAAAAACCCTAACCTAATTTAA
**
12596698 TTAAAAACCCTAACC--CCTTAA
1 TTAAAAACCCTAACCTAATTTAA
* *
12596719 CTTTAAAACCCTAGCCTAATTTAA
1 -TTAAAAACCCTAACCTAATTTAA
12596743 TTAAAAACCCTAA
1 TTAAAAACCCTAA
12596756 ACAAAGTTAA
Statistics
Matches: 498, Mismatches: 38, Indels: 164
0.71 0.05 0.23
Matches are distributed among these distances:
20 40 0.08
21 105 0.21
22 79 0.16
23 141 0.28
24 31 0.06
25 13 0.03
26 4 0.01
27 5 0.01
29 75 0.15
30 2 0.00
33 2 0.00
34 1 0.00
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (23 bp):
TTAAAAACCCTAACCTAATTTAA
Found at i:12596964 original size:116 final size:115
Alignment explanation
Indices: 12596760--12596998 Score: 424
Period size: 116 Copynumber: 2.1 Consensus size: 115
12596750 CCCTAAACAA
* *
12596760 AGTTAATAATTTTACATTCACGTAATGTTAGATTTGGAAAAATGTTTTGACTGTTACTAACAATT
1 AGTTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
* *
12596825 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTTTAG
66 AATAATTTTATATAATTTGATAATTTTACTAACCATT-ATAAAATTTTTAG
12596876 AGTTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AGTTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
*
12596941 AATAATTTTATATAATTTGATAATTTTACTAACCATTATAAAATTTTTTG
66 AATAATTTTATATAATTTGATAATTTTACTAACCATTATAAAATTTTTAG
12596991 AGTTAATA
1 AGTTAATA
12596999 CAATTTATCA
Statistics
Matches: 118, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
115 19 0.16
116 99 0.84
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (115 bp):
AGTTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
AATAATTTTATATAATTTGATAATTTTACTAACCATTATAAAATTTTTAG
Found at i:12600405 original size:126 final size:126
Alignment explanation
Indices: 12600012--12600391 Score: 604
Period size: 126 Copynumber: 3.0 Consensus size: 126
12600002 CCCAAACATG
* *
12600012 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGTGATTTCATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
12600077 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAAAGTCAAAAAAATAATTATTTCTTCCGTGAC
*
12600138 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
12600203 TAGAAGTGATTTTATACTATTTTCTCA-AAAATGTCAAAAAAATAATTGTTTCTTCCGTGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAAA-GTCAAAAAAATAATTATTTCTTCCGTGAC
* *
12600264 CTACTGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAAATTCTTCCCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* ***
12600329 TAGAAGCGATTTTATACTATTTGATCAGAAAAGTCAACTCAA-AATTATTTCTTCCAG-GAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAAAGTCAAAAAAATAATTATTTCTTCC-GTGAC
12600389 CTA
1 CTA
12600392 AAAACCCTAA
Statistics
Matches: 234, Mismatches: 17, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
125 21 0.09
126 209 0.89
127 4 0.02
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAAAGTCAAAAAAATAATTATTTCTTCCGTGAC
Found at i:12603449 original size:223 final size:223
Alignment explanation
Indices: 12603061--12603516 Score: 885
Period size: 223 Copynumber: 2.0 Consensus size: 223
12603051 TTGACACAAA
12603061 TAAAATCAATTCAGTGAACGCACTATTGCACATAAAAACCCTACCTTCTTCTATCTATACTTATT
1 TAAAATCAATTCAGTGAACGCACTATTGCACATAAAAACCCTACCTTCTTCTATCTATACTTATT
*
12603126 TTCCAACATGTTTCAGAACCTAACCAGTACATAACCCTCCTGGTTTCCCTTAAAAGGCTAAGCAA
66 TTCCAACATGTTTCAGAACCTAACCAGTACATAACCCTCCTGGTTTCCCATAAAAGGCTAAGCAA
12603191 GTTTGGCAGTCAGTTCAATTATAAACACTTCAAAATTGAAATTAGAAGATTTAAATCAATCCCAA
131 GTTTGGCAGTCAGTTCAATTATAAACACTTCAAAATTGAAATTAGAAGATTTAAATCAATCCCAA
12603256 AGCAAAAAGTCAGTAATTACTGTATAAT
196 AGCAAAAAGTCAGTAATTACTGTATAAT
12603284 TAAAATCAATTCAGTGAACGCACTATTGCACATAAAAACCCTACCTTCTTCTATCTATACTTATT
1 TAAAATCAATTCAGTGAACGCACTATTGCACATAAAAACCCTACCTTCTTCTATCTATACTTATT
12603349 TTCCAACATGTTTCAGAACCTAACCAGTACATAACCCTCCTGGTTTCCCATAAAAGGCTAAGCAA
66 TTCCAACATGTTTCAGAACCTAACCAGTACATAACCCTCCTGGTTTCCCATAAAAGGCTAAGCAA
*
12603414 GTTTGGCAGTTAGTTCAATTATAAACACTTCAAAATTGAAATTAGAAGATTTAAATCAATCCCAA
131 GTTTGGCAGTCAGTTCAATTATAAACACTTCAAAATTGAAATTAGAAGATTTAAATCAATCCCAA
12603479 AGCAAAAAGTCAGTAATTACTGTATAAT
196 AGCAAAAAGTCAGTAATTACTGTATAAT
12603507 TAAAAGTCAA
1 TAAAA-TCAA
12603517 GGAGTTCACA
Statistics
Matches: 230, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
223 226 0.98
224 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (223 bp):
TAAAATCAATTCAGTGAACGCACTATTGCACATAAAAACCCTACCTTCTTCTATCTATACTTATT
TTCCAACATGTTTCAGAACCTAACCAGTACATAACCCTCCTGGTTTCCCATAAAAGGCTAAGCAA
GTTTGGCAGTCAGTTCAATTATAAACACTTCAAAATTGAAATTAGAAGATTTAAATCAATCCCAA
AGCAAAAAGTCAGTAATTACTGTATAAT
Found at i:12608686 original size:92 final size:91
Alignment explanation
Indices: 12608529--12608737 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
12608519 TTGATTTTAG
* * *
12608529 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
12608594 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
12608621 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
12608685 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
12608713 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
12608738 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:12608700 original size:24 final size:25
Alignment explanation
Indices: 12608665--12608712 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
12608655 TTATGAAATT
12608665 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
12608689 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
12608713 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:12608908 original size:16 final size:16
Alignment explanation
Indices: 12608887--12608928 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
12608877 TTATTAAATT
*
12608887 ATATATTTTAATTATA
1 ATATATTTTAATAATA
12608903 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
12608918 AT-TATGTTTAA
1 ATATAT-TTTAA
12608929 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:12608913 original size:15 final size:15
Alignment explanation
Indices: 12608878--12608919 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
12608868 TTAAGAATTT
*
12608878 TATTAAATTAT-ATA
1 TATTTAATTATAATA
12608892 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
12608906 TATTTAATAATAAT
1 TATTTAATTATAAT
12608920 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:12609099 original size:39 final size:40
Alignment explanation
Indices: 12609056--12609160 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
12609046 TTCCATTATG
12609056 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
12609095 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
12609140 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
12609161 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:12609154 original size:45 final size:44
Alignment explanation
Indices: 12609054--12609163 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
12609044 TTTTCCATTA
12609054 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
12609093 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
12609138 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
12609164 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:12609163 original size:16 final size:16
Alignment explanation
Indices: 12609144--12609195 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
12609134 GATTTGCTAT
* *
12609144 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
12609160 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
12609176 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
12609192 TACA
1 TACA
12609196 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:12624291 original size:19 final size:20
Alignment explanation
Indices: 12624267--12624305 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
12624257 ATAACTACTC
12624267 ACATTAAG-TTACATATTTA
1 ACATTAAGTTTACATATTTA
*
12624286 ACATTATGTTTTACATATTT
1 ACATTAAG-TTTACATATTT
12624306 TTTTCTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
21 10 0.59
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (20 bp):
ACATTAAGTTTACATATTTA
Found at i:12627493 original size:28 final size:28
Alignment explanation
Indices: 12627453--12627541 Score: 99
Period size: 28 Copynumber: 3.1 Consensus size: 28
12627443 TGTGCCCTAT
* *
12627453 TTTTTTAGATTTTACAGTTTTA-CACATG
1 TTTTTCAGATTTTACAGTTTTATC-CATA
*
12627481 TTTTTCAGATTTTACAGTTTTATCCTTA
1 TTTTTCAGATTTTACAGTTTTATCCATA
* * *
12627509 TTTTTCAAATTTTATAGTTTTGACCCATA
1 TTTTTCAGATTTTACAGTTTT-ATCCATA
12627538 TTTT
1 TTTT
12627542 ATGTTTTGAC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 42 0.81
29 10 0.19
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (28 bp):
TTTTTCAGATTTTACAGTTTTATCCATA
Found at i:12635526 original size:28 final size:28
Alignment explanation
Indices: 12635395--12635563 Score: 141
Period size: 28 Copynumber: 6.0 Consensus size: 28
12635385 CACGATCGTG
* * *
12635395 TCCCCTATTTTTTTAAAGTTTATAGTTTT
1 TCCCCTA-TTTTTTAGATTTTACAGTTTT
* * * *
12635424 TCCCATATTTCTCAGA-TTTATAGTTTT
1 TCCCCTATTTTTTAGATTTTACAGTTTT
* * * *
12635451 T-CCCTATTTCTCATATTTTATAGTTTT
1 TCCCCTATTTTTTAGATTTTACAGTTTT
* *
12635478 GCCCCTATTTTTTCTA-ATTTTACAATTTT
1 TCCCCTA-TTTTT-TAGATTTTACAGTTTT
12635507 T-CCC-ATGTTTTTATGATTTTACAGTTTT
1 TCCCCTAT-TTTTTA-GATTTTACAGTTTT
12635535 TCCCCTATTTTTTAGATTTTACAGTTTT
1 TCCCCTATTTTTTAGATTTTACAGTTTT
12635563 T
1 T
12635564 TCTCCTGCTT
Statistics
Matches: 118, Mismatches: 13, Indels: 19
0.79 0.09 0.13
Matches are distributed among these distances:
26 15 0.13
27 28 0.24
28 42 0.36
29 30 0.25
30 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.57
Consensus pattern (28 bp):
TCCCCTATTTTTTAGATTTTACAGTTTT
Found at i:12635565 original size:57 final size:55
Alignment explanation
Indices: 12635413--12635563 Score: 164
Period size: 56 Copynumber: 2.7 Consensus size: 55
12635403 TTTTTTAAAG
* * * *
12635413 TTTATAGTTTTTCCCATATTTCTCAGA-TTTATAGTTTTTCCCTATTTCTCATAT
1 TTTATAGTTTTTCCCCTATTTTTTAGATTTTACAGTTTTTCCCTATTTCTCATAT
* * * *
12635467 TTTATAGTTTTGCCCCTATTTTTTCTA-ATTTTACAATTTTTCCC-ATGTTTTTATGAT
1 TTTATAGTTTTTCCCCTA-TTTTT-TAGATTTTACAGTTTTTCCCTAT-TTCTCAT-AT
*
12635524 TTTACAGTTTTTCCCCTATTTTTTAGATTTTACAGTTTTT
1 TTTATAGTTTTTCCCCTATTTTTTAGATTTTACAGTTTTT
12635564 TCTCCTGCTT
Statistics
Matches: 80, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
54 16 0.20
55 9 0.11
56 37 0.46
57 18 0.22
ACGTcount: A:0.19, C:0.17, G:0.07, T:0.58
Consensus pattern (55 bp):
TTTATAGTTTTTCCCCTATTTTTTAGATTTTACAGTTTTTCCCTATTTCTCATAT
Found at i:12636285 original size:84 final size:86
Alignment explanation
Indices: 12636118--12636285 Score: 207
Period size: 84 Copynumber: 2.0 Consensus size: 86
12636108 AAAATAAGTG
* * * *
12636118 GTGGCTCATCCATGAAACCTAGTGATAGTTTGTGTTATCCGCAAATATGTTGTGTACTCACAACA
1 GTGGCTCATCCATGAAACCCAGTGACAGTTTGTGTTATCCGCAAACATGTTGTGCACTCACAACA
* *
12636183 AATGACAATAATTGCAAATAT
66 AATGACAATAACTACAAATAT
* *
12636204 GTGGCTCATCCAT-AAACCCAGTG-CAGTTTGT-TTAATCTGCAACCATGTTGTGCACTCACAAC
1 GTGGCTCATCCATGAAACCCAGTGACAGTTTGTGTT-ATCCGCAAACATGTTGTGCACTCACAAC
* **
12636266 AAGTGGTAATAACTACAAAT
65 AAATGACAATAACTACAAAT
12636286 GCTGTTATTT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
83 2 0.03
84 46 0.66
85 9 0.13
86 13 0.19
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (86 bp):
GTGGCTCATCCATGAAACCCAGTGACAGTTTGTGTTATCCGCAAACATGTTGTGCACTCACAACA
AATGACAATAACTACAAATAT
Found at i:12638075 original size:17 final size:17
Alignment explanation
Indices: 12638055--12638101 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
12638045 ATCAACATTT
12638055 TTCAT-TTGAGATTTAAG
1 TTCATATTGA-ATTTAAG
12638072 TTCATATTGAATTTAA-
1 TTCATATTGAATTTAAG
*
12638088 TT-ATATTAAATTTA
1 TTCATATTGAATTTA
12638102 GATGCTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 11 0.39
16 2 0.07
17 11 0.39
18 4 0.14
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (17 bp):
TTCATATTGAATTTAAG
Found at i:12639607 original size:21 final size:21
Alignment explanation
Indices: 12639581--12639620 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12639571 TTTTACATAA
* *
12639581 TTATAATTTTACAAAATAATT
1 TTATAATTTCAAAAAATAATT
12639602 TTATAATTTCAAAAAATAA
1 TTATAATTTCAAAAAATAA
12639621 ATACCGAGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
TTATAATTTCAAAAAATAATT
Found at i:12640500 original size:172 final size:173
Alignment explanation
Indices: 12640213--12640553 Score: 630
Period size: 172 Copynumber: 2.0 Consensus size: 173
12640203 CTACAATCTT
*
12640213 ACGGGAGAGATGTCAGTATTGTTAGAAATTAATTATGAAAAGTGCGCTTTCGGGGGATCGAACCA
1 ACGGGAGAGATGTCAGTATTGTTAGAAATTAATTATGAAAAGTGCGCTTGCGGGGGATCGAACCA
12640278 TCAACCAATGCCTTATATGCTTACCTTAGCGTACCTGGTGAGAGCCAACTGGTAGTATTTTTACC
66 TCAACCAATGCCTTATATGCTTACCTTAGCGTACCTGGTGAGAGCCAACTGGTAGTATTTTTACC
* *
12640343 CTTTAAGACTTTTAAGGTCTTGGGTTTAAACCCCACCGATCCC
131 CTTTAAGACCTTTAAGGTCCTGGGTTTAAACCCCACCGATCCC
12640386 ACGGGAGAGATGTCAGTATTGTTAGAAATTAATTATGAAAAGTGCGCTTGC-GGGGATCGAACCA
1 ACGGGAGAGATGTCAGTATTGTTAGAAATTAATTATGAAAAGTGCGCTTGCGGGGGATCGAACCA
*
12640450 TCAACCAATGCCTTATATGCTTACCTTGGCGTACCTGGTGAGAGCCAACTGGTAGTATTTTTACC
66 TCAACCAATGCCTTATATGCTTACCTTAGCGTACCTGGTGAGAGCCAACTGGTAGTATTTTTACC
*
12640515 CTTTAAGACCTTTAAGGTCCTGGGTTTGAACCCCACCGA
131 CTTTAAGACCTTTAAGGTCCTGGGTTTAAACCCCACCGA
12640554 GGCCAAAATG
Statistics
Matches: 163, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
172 113 0.69
173 50 0.31
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (173 bp):
ACGGGAGAGATGTCAGTATTGTTAGAAATTAATTATGAAAAGTGCGCTTGCGGGGGATCGAACCA
TCAACCAATGCCTTATATGCTTACCTTAGCGTACCTGGTGAGAGCCAACTGGTAGTATTTTTACC
CTTTAAGACCTTTAAGGTCCTGGGTTTAAACCCCACCGATCCC
Found at i:12646732 original size:42 final size:42
Alignment explanation
Indices: 12646673--12646771 Score: 153
Period size: 42 Copynumber: 2.4 Consensus size: 42
12646663 TACACGCTCG
* *
12646673 TGTGCCAGGCCGCGTACCCTTTGAAGTAATCCCACACACCCA
1 TGTGCCAGGCCGTGTACCCTTTAAAGTAATCCCACACACCCA
* * *
12646715 TGTGCCAGGCCGTGTACCCTTTAAAGTAATTCCACACGCCCG
1 TGTGCCAGGCCGTGTACCCTTTAAAGTAATCCCACACACCCA
12646757 TGTGCCAGGCCGTGT
1 TGTGCCAGGCCGTGT
12646772 GCTAGGTCGT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.20, C:0.34, G:0.23, T:0.22
Consensus pattern (42 bp):
TGTGCCAGGCCGTGTACCCTTTAAAGTAATCCCACACACCCA
Found at i:12657869 original size:45 final size:45
Alignment explanation
Indices: 12657769--12657956 Score: 179
Period size: 45 Copynumber: 4.2 Consensus size: 45
12657759 AATAATAACA
* * * *
12657769 GATACACGGTGG-ATCAGCACATAAC-ACCACCCTT-ATAGTCAAT
1 GATACCCGGTGGAATCAGCACACAACAACCA-CCTTCAGAATCAAT
* * *
12657812 GATACTCGGTGGAATCAGCACATAGA-AACTACCTTCAGAATCAAT
1 GATACCCGGTGGAATCAGCACACA-ACAACCACCTTCAGAATCAAT
* * *
12657857 -AGTACCTGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
1 GA-TACCCGGTGGAATCAGCACACAACAACCACCTTCAGAATCAAT
* * *
12657902 GATACCCGGTGGAATTAGCACACAACAACCACCTTTATAATCAAT
1 GATACCCGGTGGAATCAGCACACAACAACCACCTTCAGAATCAAT
* *
12657947 GGTACTCGGT
1 GATACCCGGT
12657957 ACACGTAGTA
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
43 11 0.09
44 17 0.14
45 95 0.77
46 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (45 bp):
GATACCCGGTGGAATCAGCACACAACAACCACCTTCAGAATCAAT
Found at i:12659602 original size:24 final size:24
Alignment explanation
Indices: 12659575--12659622 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
12659565 GATGCGCACC
* *
12659575 AGTATATGAAATCCCTTTAGGGGT
1 AGTATATGAAAGCCCTTTAAGGGT
12659599 AGTATATGAAAGCCCTTTAAGGGT
1 AGTATATGAAAGCCCTTTAAGGGT
12659623 GGTAAAAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (24 bp):
AGTATATGAAAGCCCTTTAAGGGT
Found at i:12665604 original size:22 final size:21
Alignment explanation
Indices: 12665579--12665622 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
12665569 TGATAAACTT
12665579 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
12665601 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
12665622 T
1 T
12665623 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:12667784 original size:50 final size:50
Alignment explanation
Indices: 12667725--12667909 Score: 191
Period size: 50 Copynumber: 3.7 Consensus size: 50
12667715 CATTCAATAT
*
12667725 ACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTTCGGTTC
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTTCGGTAC
* * * *
12667775 ACGTAGTAGCCTGT-ACATAGTACTCCACACGTGATCGAAGCTATCCGGTAC
1 ACGTAGTAGCCT-TCACATAGTACTACACACGTGATC-AAACTTTTCGGTAC
* * * *
12667826 CCATAGTAGCCTGCACATAGTACTACACA--TG--CAACCTTTCATTCCGGTAC
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAAC-TT--TT-CGGTAC
*
12667876 ACGTAGTAGCCTACACATAGTACTACACACGTGA
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGA
12667910 CCATCACTTT
Statistics
Matches: 110, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
46 3 0.03
47 2 0.02
49 3 0.03
50 65 0.59
51 35 0.32
52 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
ACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTTCGGTAC
Found at i:12676013 original size:43 final size:43
Alignment explanation
Indices: 12675946--12676168 Score: 206
Period size: 43 Copynumber: 5.2 Consensus size: 43
12675936 TTTTCATGAC
* * **
12675946 CTTTAGCGGCATTTTTGGGAAAAGTGTTGCTAAAAGTCATGTT
1 CTTTAGCGGCGTTTTAGGGAAAAGTGCCGCTAAAAGTCATGTT
* * * * *
12675989 TTTTAACGGCGTTTTAGGGGAAAGTGCCGCTAAAGGTTATGTT
1 CTTTAGCGGCGTTTTAGGGAAAAGTGCCGCTAAAAGTCATGTT
* * *
12676032 CTTTAGCGGCGTCTTTAGGG--AAGCGCCACTAAAGGTCATGTT
1 CTTTAGCGGCGT-TTTAGGGAAAAGTGCCGCTAAAAGTCATGTT
* *
12676074 CTTTAGCGGC-ATTTATGGGAAAAGTGCCGCT-AAAGATCATGCT
1 CTTTAGCGGCGTTTTA-GGGAAAAGTGCCGCTAAAAG-TCATGTT
* * *
12676117 CTTTAACGGCGTTTT-CGGAAAAGCGCCGCT-AAAGATCATGTT
1 CTTTAGCGGCGTTTTAGGGAAAAGTGCCGCTAAAAG-TCATGTT
*
12676159 CTATAGCGGC
1 CTTTAGCGGC
12676169 ATTTGTCCAC
Statistics
Matches: 148, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
40 4 0.03
41 3 0.02
42 64 0.43
43 67 0.45
44 10 0.07
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTAGGGAAAAGTGCCGCTAAAAGTCATGTT
Found at i:12676070 original size:85 final size:85
Alignment explanation
Indices: 12675975--12676172 Score: 229
Period size: 85 Copynumber: 2.3 Consensus size: 85
12675965 AAAAGTGTTG
* * * * * * * *
12675975 CTAAAAGTCATGTTTTTTAACGGCGTTT-TAGGGGAAAGTGCCGCTAAAGGTTATGTTCTTTAGC
1 CTAAAGGTCATGTTCTTTAACGGCATTTAT-GGGAAAAGTGCCGCTAAAGATCATGCTCTTTAAC
*
12676039 GGCGTCTTTAGG-GAAGCGCCA
65 GGCGT-TTTAGGAAAAGCGCCA
*
12676060 CTAAAGGTCATGTTCTTTAGCGGCATTTATGGGAAAAGTGCCGCTAAAGATCATGCTCTTTAACG
1 CTAAAGGTCATGTTCTTTAACGGCATTTATGGGAAAAGTGCCGCTAAAGATCATGCTCTTTAACG
* *
12676125 GCGTTTTCGGAAAAGCGCCG
66 GCGTTTTAGGAAAAGCGCCA
* * *
12676145 CTAAAGATCATGTTCTATAGCGGCATTT
1 CTAAAGGTCATGTTCTTTAACGGCATTT
12676173 GTCCACATAA
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
84 5 0.05
85 91 0.94
86 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (85 bp):
CTAAAGGTCATGTTCTTTAACGGCATTTATGGGAAAAGTGCCGCTAAAGATCATGCTCTTTAACG
GCGTTTTAGGAAAAGCGCCA
Found at i:12677199 original size:44 final size:43
Alignment explanation
Indices: 12677149--12677574 Score: 430
Period size: 44 Copynumber: 9.7 Consensus size: 43
12677139 CTGATCATCT
* * *
12677149 GATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTC
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGA-TCACCGTCTTC
* *
12677193 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTT
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGATC-ACCGTCTTC
* * *
12677237 GACCTACTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTC
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGATC-ACCGTCTTC
* * * ** *
12677281 AACCTGCTCCACTACTGCTTAGGGAGATAAGA-C-TGGTGGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCACCGT--CTTC
* * * * *
12677324 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGA-TCACCGTCTTC
*
12677368 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTC
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGATC-ACCGTCTTC
* * *
12677412 GACCTGCTCCACTACTGCTTAAGGAGATAGGATCTACCATCTTC
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGATC-ACCGTCTTC
** *
12677456 GA-CTTGCTCCACTACTGCTTAGGGAGATAGGA-C-TGGTGGCTTA
1 GATC-TGCTCCACTACTGCTTAGGGAGATAGGATCACCGT--CTTC
* * * * *
12677499 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGA-TCACCGTCTTC
12677543 GATCTGCTCCACTACTGCTTAGGGAGATAGGA
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGA
12677575 CTTGATATGG
Statistics
Matches: 323, Mismatches: 45, Indels: 28
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.01
43 68 0.21
44 247 0.76
45 2 0.01
46 4 0.01
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (43 bp):
GATCTGCTCCACTACTGCTTAGGGAGATAGGATCACCGTCTTC
Found at i:12677441 original size:175 final size:175
Alignment explanation
Indices: 12677150--12677574 Score: 787
Period size: 175 Copynumber: 2.4 Consensus size: 175
12677140 TGATCATCTG
*
12677150 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
* *
12677215 GGAGATAGGATCTACCATCTTTGACCTACTCCACTACTGCTTAGGGAGATAGGATCTACCATCTT
66 GGAGATAGGATCTACCATCTTCGACCTACTCCACTACTGCTTAAGGAGATAGGATCTACCATCTT
12677280 CAACCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTGGCTTAA
131 CAACCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTGGCTTAA
12677325 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
*
12677390 GGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAAGGAGATAGGATCTACCATCTT
66 GGAGATAGGATCTACCATCTTCGACCTACTCCACTACTGCTTAAGGAGATAGGATCTACCATCTT
* * *
12677455 CGACTTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
131 CAACCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTGGCTTAA
12677500 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
12677565 GGAGATAGGA
66 GGAGATAGGA
12677575 CTTGATATGG
Statistics
Matches: 243, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
175 243 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (175 bp):
ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
GGAGATAGGATCTACCATCTTCGACCTACTCCACTACTGCTTAAGGAGATAGGATCTACCATCTT
CAACCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTGGCTTAA
Found at i:12677574 original size:131 final size:131
Alignment explanation
Indices: 12677152--12677571 Score: 479
Period size: 131 Copynumber: 3.2 Consensus size: 131
12677142 ATCATCTGAT
* *
12677152 CTGCTTCACTACTGCTTAGGAAGATAAGAT-TCACCGTCTTCGATCTGCTCCACTACTGCTTAGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCGTCTTCGATCTGCTCCACTACTGCTTAGG
* * * * *
12677216 GAGATAGGATCTACCATCTTTGACCTACTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTC
65 GAGATAGGA-CTGCCGTCTTAGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTC
*
12677281 AAC
129 GAC
*** * ** * *
12677284 CTGCTCCACTACTGCTTAGGGAGATAAGA-CTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTCGATCTGCTCCACTACTGCTTAGGG
* * *
12677348 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCG
66 AGATAGGACT-GCCGTCTTAGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCG
12677413 AC
130 AC
* * *
12677415 CTGCTCCACTACTGCTTAAGGAGATAGGATCTACCATCTTCGA-CTTGCTCCACTACTGCTTAGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTCGATC-TGCTCCACTACTGCTTAGG
** * * * * * * *
12677479 GAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTC
65 GAGATAGGACTGCCGTCTTAGATCTGCTCCACTACTGCTTAGGGAGATAGGATCT-ACCATCTTC
*
12677543 GAT
129 GAC
12677546 CTGCTCCACTACTGCTTAGGGAGATA
1 CTGCTCCACTACTGCTTAGGGAGATA
12677572 GGACTTGATA
Statistics
Matches: 240, Mismatches: 43, Indels: 11
0.82 0.15 0.04
Matches are distributed among these distances:
130 2 0.01
131 178 0.74
132 60 0.25
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (131 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTCGATCTGCTCCACTACTGCTTAGGG
AGATAGGACTGCCGTCTTAGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGA
C
Found at i:12677916 original size:24 final size:24
Alignment explanation
Indices: 12677889--12677942 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
12677879 TCGGATTGCC
*
12677889 TCCACTACAATCTTCAAAGTTTAA-
1 TCCACTACAATCTTC-AAGGTTAAG
**
12677913 TCCACTGTAATCTTCAAGGTTAAG
1 TCCACTACAATCTTCAAGGTTAAG
12677937 TCCACT
1 TCCACT
12677943 TGTAATTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.33
Consensus pattern (24 bp):
TCCACTACAATCTTCAAGGTTAAG
Found at i:12678574 original size:108 final size:110
Alignment explanation
Indices: 12678365--12678576 Score: 304
Period size: 108 Copynumber: 1.9 Consensus size: 110
12678355 TCGTTATTTC
* * *
12678365 AATGAAAAATGCTTGAAAAAGATTATCAAAATGGACAAGATAGAATTTAATTGAGAATAAGGCTC
1 AATGAAAAATGATTGAAAAAGATTAGCAAAATGGACAAGATAGAATTTAATTGAGAATAAAGCTC
*
12678430 AAAATGAATAAATTAATCAAGATAGCAAATTTTGCTAAGGTTCAG
66 AAAATGAATAAATTAATCAAAATAGCAAATTTTGCTAAGGTTCAG
* * * *
12678475 AATGAAAAA-GATT-AAAAGGATTAGCACAATGGATAAGAT-GAAATTTTATTGAGAATAAAGCT
1 AATGAAAAATGATTGAAAAAGATTAGCAAAATGGACAAGATAG-AATTTAATTGAGAATAAAGCT
* *
12678537 CGAAATGAATAAATTAATCAAAATAGTAAATTTTGCTAAG
65 CAAAATGAATAAATTAATCAAAATAGCAAATTTTGCTAAG
12678577 ATACAAAATG
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 78 0.86
109 3 0.03
110 9 0.10
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.27
Consensus pattern (110 bp):
AATGAAAAATGATTGAAAAAGATTAGCAAAATGGACAAGATAGAATTTAATTGAGAATAAAGCTC
AAAATGAATAAATTAATCAAAATAGCAAATTTTGCTAAGGTTCAG
Found at i:12690568 original size:13 final size:13
Alignment explanation
Indices: 12690550--12690579 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12690540 AAAAATCAAA
*
12690550 CTCTCCCCCTTTT
1 CTCTCCCCCTTCT
12690563 CTCTCCCCCTTCT
1 CTCTCCCCCTTCT
12690576 CTCT
1 CTCT
12690580 AGGCTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (13 bp):
CTCTCCCCCTTCT
Found at i:12695629 original size:16 final size:16
Alignment explanation
Indices: 12695610--12695651 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
12695600 GTTATTTTTA
12695610 TGTTTTGTTTTAAAGT
1 TGTTTTGTTTTAAAGT
12695626 TGTTTTGTTTTAAAGT
1 TGTTTTGTTTTAAAGT
*
12695642 TATTTTGTTT
1 TGTTTTGTTT
12695652 ATTGTGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (16 bp):
TGTTTTGTTTTAAAGT
Found at i:12698131 original size:33 final size:33
Alignment explanation
Indices: 12698067--12698335 Score: 201
Period size: 33 Copynumber: 7.8 Consensus size: 33
12698057 ATATAAAGGG
*
12698067 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
12698094 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
12698127 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
* *
12698169 GGTTGCTAAGTGTTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
12698202 GGTTGCTAAGTGCTGATTTCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
12698235 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAAG-
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG----GT
* *
12698277 GGTTGCTAAGTGCTAATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
12698310 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
12698336 AACGGATAAC
Statistics
Matches: 194, Mismatches: 21, Indels: 47
0.74 0.08 0.18
Matches are distributed among these distances:
27 22 0.11
31 2 0.01
32 3 0.02
33 87 0.45
34 10 0.05
35 2 0.01
36 4 0.02
37 7 0.04
38 6 0.03
39 4 0.02
40 2 0.01
41 6 0.03
42 38 0.20
43 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:12698248 original size:108 final size:108
Alignment explanation
Indices: 12698094--12698334 Score: 410
Period size: 108 Copynumber: 2.2 Consensus size: 108
12698084 TCCCCCAAGG
* *
12698094 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAA
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAA
* * *
12698159 ATGTGAAAGGGGTTGCTAAGTGTTGATTCCCCGACTCATTGGT
66 ATGTGAAAAGGGTTGCTAAGTGCTAATTCCCCGACTCATTGGT
*
12698202 GGTTGCTAAGTGCTGATTTCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAA
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAA
12698267 ATGTGAAAAGGGTTGCTAAGTGCTAATTCCCCGACTCATTGGT
66 ATGTGAAAAGGGTTGCTAAGTGCTAATTCCCCGACTCATTGGT
*
12698310 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCC-CCGA
12698335 TAACGGATAA
Statistics
Matches: 124, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
108 120 0.97
109 4 0.03
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.32
Consensus pattern (108 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAA
ATGTGAAAAGGGTTGCTAAGTGCTAATTCCCCGACTCATTGGT
Found at i:12701871 original size:48 final size:47
Alignment explanation
Indices: 12701811--12701911 Score: 148
Period size: 48 Copynumber: 2.1 Consensus size: 47
12701801 CCAATGTACC
* * *
12701811 TAATTTATATTACAAAGTTTGTTTCAATTTTTAATGTTGTAATGTATT
1 TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGT-TG
* *
12701859 TAATTTATATTACAAAGTTTGTTCCAAGTTTTAGTGTTTTAATGTTG
1 TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTTG
12701906 TAATTT
1 TAATTT
12701912 TGCAATTAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 7 0.15
48 41 0.85
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (47 bp):
TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTTG
Found at i:12702479 original size:6 final size:6
Alignment explanation
Indices: 12702464--12702509 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
12702454 CTTCGGTTGT
* * *
12702464 GGCTCA GGCTCG GGCTCG GTCTTG GGCTCG GGCTCG GGCTCG GGCT
1 GGCTCG GGCTCG GGCTCG GGCTCG GGCTCG GGCTCG GGCTCG GGCT
12702510 TTGCCTCTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.02, C:0.30, G:0.46, T:0.22
Consensus pattern (6 bp):
GGCTCG
Done.