Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 148 of 320
Found at i:48605248 original size:10 final size:10
Alignment explanation
Indices: 48605227--48605259 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
48605217 ACATTAGTAT
48605227 TACTCAGATGG
1 TACTC-GATGG
48605238 TACTCGATGG
1 TACTCGATGG
48605248 TACTCGATGG
1 TACTCGATGG
48605258 TA
1 TA
48605260 TAGTCATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 17 0.77
11 5 0.23
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (10 bp):
TACTCGATGG
Found at i:48608857 original size:9 final size:9
Alignment explanation
Indices: 48608843--48608875 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
48608833 AAAGTCCATA
48608843 ATAAAATCC
1 ATAAAATCC
48608852 ATAAAAAT-C
1 AT-AAAATCC
48608861 ATAAAATCC
1 ATAAAATCC
48608870 ATAAAA
1 ATAAAA
48608876 GTCCCAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 5 0.23
9 12 0.55
10 5 0.23
ACGTcount: A:0.64, C:0.15, G:0.00, T:0.21
Consensus pattern (9 bp):
ATAAAATCC
Found at i:48618279 original size:28 final size:29
Alignment explanation
Indices: 48618246--48618300 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
48618236 CTTATTCAGT
* *
48618246 AACAGTA-CAGTCTGGGCCTTAGCCCTTA
1 AACAGTAGCAGTATGGGCCTAAGCCCTTA
*
48618274 AACAGTAGTAGTATGGGCCTAAGCCCT
1 AACAGTAGCAGTATGGGCCTAAGCCCT
48618301 AATTCAGTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (29 bp):
AACAGTAGCAGTATGGGCCTAAGCCCTTA
Found at i:48618605 original size:24 final size:24
Alignment explanation
Indices: 48618572--48618629 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
48618562 CTGGAGGCCT
48618572 AGCCTCTTTTAAT-AACTGGGGAAA
1 AGCCT-TTTTAATAAACTGGGGAAA
* *
48618596 AGCCCTTTTTGATAAACTGGGGCAA
1 AG-CCTTTTTAATAAACTGGGGAAA
48618621 AGCCTTTTT
1 AGCCTTTTT
48618630 CGGTAAACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 15 0.50
25 15 0.50
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (24 bp):
AGCCTTTTTAATAAACTGGGGAAA
Found at i:48618644 original size:25 final size:24
Alignment explanation
Indices: 48618572--48618654 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 24
48618562 CTGGAGGCCT
* *
48618572 AGCCTCTTTTAAT-AACTGGGGAAA
1 AGCCT-TTTTGATAAACTGGGGCAA
48618596 AGCCCTTTTTGATAAACTGGGGCAA
1 AG-CCTTTTTGATAAACTGGGGCAA
* *
48618621 AGCCTTTTTCGGTAAACTGAGGCATA
1 AGCCTTTTT-GATAAACTGGGGCA-A
*
48618647 ACCCTTTT
1 AGCCTTTT
48618655 AGCACTTCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 15 0.30
25 27 0.54
26 8 0.16
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (24 bp):
AGCCTTTTTGATAAACTGGGGCAA
Found at i:48619610 original size:27 final size:26
Alignment explanation
Indices: 48619584--48619713 Score: 109
Period size: 27 Copynumber: 4.8 Consensus size: 26
48619574 ATCTACAAAC
*
48619584 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTT-TAAAT
*
48619611 CAAAGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTT--AAA-T
*
48619640 CAAGGGTATTTCTGTAATTTTTTAAAT
1 CAAGGGTATTTCAGTAA-TTTTTAAAT
* ** *
48619667 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTT-TAAAT
* *
48619694 TAAGGGTATTTCGGTAATTT
1 CAAGGGTATTTCAGTAATTT
48619714 CACAAACCAG
Statistics
Matches: 85, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
26 5 0.06
27 54 0.64
28 7 0.08
29 14 0.16
30 5 0.06
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (26 bp):
CAAGGGTATTTCAGTAATTTTTAAAT
Found at i:48619718 original size:27 final size:27
Alignment explanation
Indices: 48619670--48619799 Score: 115
Period size: 27 Copynumber: 4.8 Consensus size: 27
48619660 TTTAAATCAG
* * *
48619670 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTCGGTAATTTCACAAACTAA
*
48619697 GGGTATTTCGGTAATTTCACAAAC-CA
1 GGGTATTTCGGTAATTTCACAAACTAA
* * *
48619723 GTGGTATTTTGGTAATTTTACAAACTAG
1 G-GGTATTTCGGTAATTTCACAAACTAA
*
48619751 GGGTATTTTGGTAA-TTCTAC--ACTATA
1 GGGTATTTCGGTAATTTC-ACAAACTA-A
*
48619777 GAGGTATTTCAGTAATTTCACAA
1 G-GGTATTTCGGTAATTTCACAA
48619800 TCGAGGGTAA
Statistics
Matches: 83, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
25 4 0.05
26 5 0.06
27 70 0.84
28 4 0.05
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTCACAAACTAA
Found at i:48619729 original size:54 final size:54
Alignment explanation
Indices: 48619565--48619766 Score: 190
Period size: 54 Copynumber: 3.7 Consensus size: 54
48619555 TACAAGGGTG
* * * * *
48619565 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAAAGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTATAAACCAGAGGTA
* * * * * * *
48619619 TTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTTTAAATCAGGGGTA
1 TTT-TGGTAA-TTTTACAAA-CCAAGGGTATTTCGGTAATTTTATAAACCAGAGGTA
** * * *
48619675 TTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTATAAACCAGAGGTA
* * *
48619729 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATT
1 TTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATT
48619767 CTACACTATA
Statistics
Matches: 122, Mismatches: 22, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
54 70 0.57
55 16 0.13
56 36 0.30
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTATAAACCAGAGGTA
Found at i:48619817 original size:26 final size:26
Alignment explanation
Indices: 48619786--48619889 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 26
48619776 AGAGGTATTT
48619786 CAGTAATTT-CACAATCGAGGGTAAAA
1 CAGTAATTTGCA-AATCGAGGGTAAAA
* *
48619812 CGGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAA-TTTGCAAATCGAGGGTAAAA
* *
48619839 CAGTAATTCTGTAAATCAAGGGTAAAA
1 CAGTAATT-TGCAAATCGAGGGTAAAA
* **
48619866 CAGTGATTCTATAAATCGAGGGTA
1 CAGTAATT-TGCAAATCGAGGGTA
48619890 CTTTGGTAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 7 0.10
27 60 0.88
28 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (26 bp):
CAGTAATTTGCAAATCGAGGGTAAAA
Found at i:48619834 original size:27 final size:27
Alignment explanation
Indices: 48619798--48619889 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
48619788 GTAATTTCAC
* *
48619798 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
48619825 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* * *
48619852 AATCAAGGGTAAAACAGTGATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
48619879 AATCGAGGGTA
1 AATCGAGGGTA
48619890 CTTTGGTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:48624464 original size:58 final size:57
Alignment explanation
Indices: 48624416--48624523 Score: 146
Period size: 57 Copynumber: 1.9 Consensus size: 57
48624406 CTGATATATT
* * * *
48624416 CTCTCTCGAGCATATGTTACA-ATTAGGGTTTAGCTTGGACTGGTAATCCTAATTGAG
1 CTCTCTCGAGCATACGTTACATAAT-GGATTTAGCCTGGACTGGTAATCCTAATTGAG
* *
48624473 CTCTTTTGAGCATACGTTACATAATGGATTTAGCCTGGACTGGTAATCCTA
1 CTCTCTCGAGCATACGTTACATAATGGATTTAGCCTGGACTGGTAATCCTA
48624524 TAATACGATA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
57 42 0.95
58 2 0.05
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (57 bp):
CTCTCTCGAGCATACGTTACATAATGGATTTAGCCTGGACTGGTAATCCTAATTGAG
Found at i:48625725 original size:74 final size:74
Alignment explanation
Indices: 48625544--48625712 Score: 257
Period size: 74 Copynumber: 2.3 Consensus size: 74
48625534 TGTGCTAGAT
* * **
48625544 GGCCTAGAACACGGGCGTGTGTCTTGGCCGTGTGAAACCTACACCTAATTTTGAAAGAATTTAAT
1 GGCCTAGCACACGGGCGTGTGTCTTGGCAGTGTGAAACCTACACCTAATTTCAAAAGAATTTAAT
48625609 TAACCACAC
66 TAACCACAC
* * * * *
48625618 AGCCTAGCACATGGGAGTGTGTCTTGGCAGTGTGAAACCTATACCTAATTTCAAAATAATTTAAT
1 GGCCTAGCACACGGGCGTGTGTCTTGGCAGTGTGAAACCTACACCTAATTTCAAAAGAATTTAAT
48625683 TAACCACAC
66 TAACCACAC
48625692 GGCCTAGCACACGGGCGTGTG
1 GGCCTAGCACACGGGCGTGTG
48625713 ACATGGCTGT
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
74 83 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (74 bp):
GGCCTAGCACACGGGCGTGTGTCTTGGCAGTGTGAAACCTACACCTAATTTCAAAAGAATTTAAT
TAACCACAC
Found at i:48632354 original size:46 final size:46
Alignment explanation
Indices: 48632211--48632430 Score: 246
Period size: 46 Copynumber: 4.7 Consensus size: 46
48632201 ATGTGTGCGT
* **
48632211 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGAGA
* * * * ** *
48632257 GCCAGTGTAAGACCATGTATGGGACATGGCATCGACATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGAGA
* *
48632305 GCTAGTGTAAGACATGCCTGGGACATGCATCAGCCTCAAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-AGA
*
48632351 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-AGA
* * *
48632397 GCCAGCGTAAGACATGTCTAGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
48632431 ACGGATATGT
Statistics
Matches: 146, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
46 97 0.66
47 26 0.18
48 23 0.16
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGAGA
Found at i:48632358 original size:94 final size:92
Alignment explanation
Indices: 48632211--48632427 Score: 258
Period size: 94 Copynumber: 2.3 Consensus size: 92
48632201 ATGTGTGCGT
* **
48632211 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAGAGCCAGTGTAAGA-CATGTA
*
48632276 TGGGACATGGCATCGACATTGAGACG-AGA
65 TGGGACAT-GCATCGACATCGAGACGTA-A
* * * *
48632305 GCTAGTGTAAGACATGCCTGGGACATGCATCAGCCTCAAGATGTA-AGCTAGTGTAAGACATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATG-AGAGCCAGTGTAAGACATGTA
* * *
48632369 TGGGACATGCATCGGCCTCGAGATGTAA
65 TGGGACATGCATCGACATCGAGACGTAA
* * *
48632397 GCCAGCGTAAGACATGTCTAGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
48632428 GGCACGGATA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
92 41 0.39
93 14 0.13
94 50 0.47
95 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.22
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAGAGCCAGTGTAAGACATGTAT
GGGACATGCATCGACATCGAGACGTAA
Found at i:48635311 original size:10 final size:10
Alignment explanation
Indices: 48635296--48635322 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
48635286 TGCAGTAATG
48635296 CAATCCATCC
1 CAATCCATCC
48635306 CAATCCATCC
1 CAATCCATCC
48635316 CAATCCA
1 CAATCCA
48635323 GCCAACACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.48, G:0.00, T:0.19
Consensus pattern (10 bp):
CAATCCATCC
Found at i:48635418 original size:23 final size:24
Alignment explanation
Indices: 48635398--48635452 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 24
48635388 CACCAATATT
*
48635398 GCAGCATAGCTGCCAGAAATAATAAC
1 GCAGCAAAGCTGCCAGAAAT-AT-AC
48635424 GCAGCAAAGCTGCCAGAAATATAC
1 GCAGCAAAGCTGCCAGAAATATAC
*
48635448 ACAGC
1 GCAGC
48635453 TTACAGCCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 6 0.22
25 2 0.07
26 19 0.70
ACGTcount: A:0.42, C:0.25, G:0.20, T:0.13
Consensus pattern (24 bp):
GCAGCAAAGCTGCCAGAAATATAC
Found at i:48635571 original size:31 final size:31
Alignment explanation
Indices: 48635457--48635619 Score: 209
Period size: 32 Copynumber: 5.2 Consensus size: 31
48635447 CACAGCTTAC
** *
48635457 AGCCATCAGTACCAATAATATGATCGGCAGAA
1 AGCCATCAGTA-CTGTAATATGATCGGCACAA
* * *
48635489 AGCCAACAGTAACTATAATATGATCGGTACAA
1 AGCCATCAGT-ACTGTAATATGATCGGCACAA
48635521 AGCCATCAGTAGCTGTAATATGATCGGCACAA
1 AGCCATCAGTA-CTGTAATATGATCGGCACAA
*
48635553 AGCCATCAGTACTGTAATATGATCGACACAA
1 AGCCATCAGTACTGTAATATGATCGGCACAA
* * *
48635584 AGCCATCAGTACTGTAATATAATCGTCACCA
1 AGCCATCAGTACTGTAATATGATCGGCACAA
48635615 AGCCA
1 AGCCA
48635620 CTGGTAAATA
Statistics
Matches: 118, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
31 53 0.45
32 64 0.54
33 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (31 bp):
AGCCATCAGTACTGTAATATGATCGGCACAA
Found at i:48636076 original size:27 final size:27
Alignment explanation
Indices: 48636046--48636134 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
48636036 CAAAACAATC
*
48636046 ATTTTACCCTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
*
48636073 ATTTTACACTACAAGGGTATTTCTGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
* ***
48636100 ATTTTACA-AATTGGGGCTATTTCGGTA
1 ATTTTACACTACAAGGG-TATTTCGGTA
48636127 ATTTTACA
1 ATTTTACA
48636135 AACTGGGGGT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.07
27 50 0.93
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:48636135 original size:27 final size:26
Alignment explanation
Indices: 48636060--48636170 Score: 123
Period size: 27 Copynumber: 4.2 Consensus size: 26
48636050 TACCCTACAA
* **
48636060 GGGTATTTCGGTAATTTTACACTACAA
1 GGGTATTTCGGTAATTTTACA-AACTG
* *
48636087 GGGTATTTCTGTAATTTTACAAATTG
1 GGGTATTTCGGTAATTTTACAAACTG
48636113 GGGCTATTTCGGTAATTTTACAAACTGG
1 GGG-TATTTCGGTAATTTTACAAACT-G
* * *
48636141 GGGTATTTTGATAATCTTACAAACTG
1 GGGTATTTCGGTAATTTTACAAACTG
48636167 GGGT
1 GGGT
48636171 CTTAACGACG
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 9 0.12
27 59 0.82
28 4 0.06
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.39
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTTACAAACTG
Found at i:48636145 original size:54 final size:54
Alignment explanation
Indices: 48636063--48636169 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
48636053 CCTACAAGGG
* * *
48636063 TATTTCGGTAATTTTACACTACAAGGGTATTTCTG-TAATTTTACAAATTGGGGC
1 TATTTCGGTAATTTTACACAACAAGGGTATTT-TGATAATCTTACAAACTGGGGC
**
48636117 TATTTCGGTAATTTTACA-AACTGGGGGTATTTTGATAATCTTACAAACTGGGG
1 TATTTCGGTAATTTTACACAAC-AAGGGTATTTTGATAATCTTACAAACTGGGG
48636170 TCTTAACGAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 4 0.09
54 42 0.91
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (54 bp):
TATTTCGGTAATTTTACACAACAAGGGTATTTTGATAATCTTACAAACTGGGGC
Found at i:48638290 original size:14 final size:14
Alignment explanation
Indices: 48638269--48638327 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
48638259 TAAACCCTTG
48638269 ACCCTAACCCATAA
1 ACCCTAACCCATAA
* *
48638283 ATCCTAACCCATTA
1 ACCCTAACCCATAA
***
48638297 ACCCTAACTTTTAA
1 ACCCTAACCCATAA
*
48638311 CCCCTAAACCCATAA
1 ACCCT-AACCCATAA
48638326 AC
1 AC
48638328 TATAGACCCT
Statistics
Matches: 32, Mismatches: 12, Indels: 1
0.71 0.27 0.02
Matches are distributed among these distances:
14 25 0.78
15 7 0.22
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (14 bp):
ACCCTAACCCATAA
Found at i:48638354 original size:14 final size:13
Alignment explanation
Indices: 48638337--48638397 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 13
48638327 CTATAGACCC
48638337 TAAATCCTAAACCT
1 TAAA-CCTAAACCT
* *
48638351 TAAACTTTAAACCC
1 TAAAC-CTAAACCT
48638365 TAAATCCTAAACTCT
1 TAAA-CCTAAAC-CT
48638380 TAAACCATAAACCT
1 TAAACC-TAAACCT
48638394 TAAA
1 TAAA
48638398 ATCTTAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 1 0.03
14 27 0.69
15 11 0.28
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAACCTAAACCT
Found at i:48638361 original size:21 final size:21
Alignment explanation
Indices: 48638337--48638405 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 21
48638327 CTATAGACCC
48638337 TAAATCCTAAACCTTAAACT-T
1 TAAA-CCTAAACCTTAAACTCT
48638358 TAAACCCTAAATCC-TAAACTCT
1 TAAA-CCTAAA-CCTTAAACTCT
*
48638380 TAAACCATAAACCTTAAAATCT
1 TAAACC-TAAACCTTAAACTCT
48638402 TAAA
1 TAAA
48638406 AATAAATTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
21 20 0.48
22 22 0.52
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAACCTAAACCTTAAACTCT
Found at i:48638364 original size:28 final size:28
Alignment explanation
Indices: 48638313--48638397 Score: 107
Period size: 28 Copynumber: 3.0 Consensus size: 28
48638303 ACTTTTAACC
* *
48638313 CCTAAACCCATAAACTATAGACCCTAAAT
1 CCTAAA-CCTTAAACTATAAACCCTAAAT
*
48638342 CCTAAACCTTAAACTTTAAACCCTAAAT
1 CCTAAACCTTAAACTATAAACCCTAAAT
* *
48638370 CCTAAACTCTTAAACCATAAACCTTAAA
1 CCTAAAC-CTTAAACTATAAACCCTAAA
48638398 ATCTTAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
28 26 0.53
29 23 0.47
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (28 bp):
CCTAAACCTTAAACTATAAACCCTAAAT
Found at i:48638397 original size:7 final size:7
Alignment explanation
Indices: 48638344--48638397 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
48638334 CCCTAAATCC
48638344 TAAACCT
1 TAAACCT
*
48638351 TAAACTT
1 TAAACCT
*
48638358 TAAACCC
1 TAAACCT
48638365 TAAATCC-
1 TAAA-CCT
48638372 TAAACTCT
1 TAAAC-CT
*
48638380 TAAACCA
1 TAAACCT
48638387 TAAACCT
1 TAAACCT
48638394 TAAA
1 TAAA
48638398 ATCTTAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 1 0.03
7 31 0.79
8 7 0.18
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAACCT
Found at i:48639044 original size:115 final size:115
Alignment explanation
Indices: 48638726--48639086 Score: 374
Period size: 116 Copynumber: 3.1 Consensus size: 115
48638716 AAGCTTTGTT
* * * *
48638726 TTTAGTGGCATTTTC-ACAAAAACGCCGCAAATATGTTTTAAAAGTGTGCAAAACGCTGTCATTT
1 TTTAGTGGCGTTTTCTAAAAAAAAGCCGCAAATATGTTTTAAGAGTGTGCAAAACGCTGT-ATTT
* *
48638790 TT-TCTAACTATTAGTGGCGTTTTTAACAAAAACGCCGCAAACAGATAG-C
65 TTGTCTGACTATTAGTGGCGTTTTTAACAAAAACGCCGCAAAAAGATAGCC
* * * * * * * * *
48638839 TTTTGTGGCGTTTTCACAAAAAAAAAGTCGCAAATATGTTTTAAGTGTATGGAAATCGGTGTCGT
1 TTTAGTGGCGTTTT--CTAAAAAAAAGCCGCAAATATGTTTTAAGAGTGTGCAAAACGCTGT-AT
*
48638904 TTTTGTCTGACTATTAGTGGCGTTTTTAAC-CAAACGCCGCAAAAAGA-AGCC
63 TTTTGTCTGACTATTAGTGGCGTTTTTAACAAAAACGCCGCAAAAAGATAGCC
* * * * * *
48638955 TTTAGCGGCGTTTTCTTATAAAATGCCGCGAAAAATATTTTAAGAGTGTGCAAAACGCTGTATTT
1 TTTAGTGGCGTTTTCTAAAAAAAAGCCGC-AAATATGTTTTAAGAGTGTGCAAAACGCTGTA-TT
* * * * *
48639020 TTTGTCTGCCTATTAGTGGTGTTTTT-ACTAAAACGCCGCAAAAGGATATCC
64 TTTGTCTGACTATTAGTGGCGTTTTTAACAAAAACGCCGCAAAAAGATAGCC
*
48639071 TTTAGTAGCGTTTTCT
1 TTTAGTGGCGTTTTCT
48639087 CTTAAAACCC
Statistics
Matches: 202, Mismatches: 37, Indels: 15
0.80 0.15 0.06
Matches are distributed among these distances:
113 12 0.06
114 12 0.06
115 68 0.34
116 86 0.43
117 24 0.12
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (115 bp):
TTTAGTGGCGTTTTCTAAAAAAAAGCCGCAAATATGTTTTAAGAGTGTGCAAAACGCTGTATTTT
TGTCTGACTATTAGTGGCGTTTTTAACAAAAACGCCGCAAAAAGATAGCC
Found at i:48639104 original size:115 final size:115
Alignment explanation
Indices: 48638761--48639173 Score: 277
Period size: 115 Copynumber: 3.6 Consensus size: 115
48638751 CGCAAATATG
* * *
48638761 TTTTAAAAGTGTGCAAAACGCTGTCA-TTTTT-TCTAACTATTAGTGGCGTTTTTAACAAAAACG
1 TTTTAAGACTGTGCAAAACGCTGT-ATTTTTTGTCTGACTATTAGTGGCGTTTTTAAC-AAAACG
* * ** ** * ***** * *
48638824 CCGCAAACAGATAG-CTTTTGTGGCGTTTTCACAAAAAAAAAGTCGCAAATATG
64 CCGCAAAAAGA-AGCCTTTAGCAGCGTTTTCTTATAAAACCCCACG-AAAAATA
** * * * * ** *
48638877 TTTTAAGTGTATGGAAATCGGTGTCGTTTTTGTCTGACTATTAGTGGCGTTTTTAACCAAACGCC
1 TTTTAAGACTGTGCAAAACGCTGTATTTTTTGTCTGACTATTAGTGGCGTTTTTAACAAAACGCC
* ** *
48638942 GCAAAAAGAAGCCTTTAGCGGCGTTTTCTTATAAAATGCCGCGAAAAATA
66 GCAAAAAGAAGCCTTTAGCAGCGTTTTCTTATAAAACCCCACGAAAAATA
* * *
48638992 TTTTAAGAGTGTGCAAAACGCTGTATTTTTTGTCTGCCTATTAGTGGTGTTTTT-ACTAAAACGC
1 TTTTAAGACTGTGCAAAACGCTGTATTTTTTGTCTGACTATTAGTGGCGTTTTTAAC-AAAACGC
* * * *
48639056 CGCAAAAGGATATCCTTTAGTAGCGTTTTCTCT-TAAAACCCCAC-AAAAATG
65 CGCAAAAAGA-AGCCTTTAGCAGCGTTTTCT-TATAAAACCCCACGAAAAATA
* * ** ** * * **
48639107 TTTTACGACTGTTCAAAACATTGTCGTTTTTATCT-ACTTTTAGTGGC-TTTTT-TTAAAACGCC
1 TTTTAAGACTGTGCAAAACGCTGTATTTTTTGTCTGACTATTAGTGGCGTTTTTAACAAAACGCC
48639169 GCAAA
66 GCAAA
48639174 TATCGATTGT
Statistics
Matches: 238, Mismatches: 53, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
112 13 0.05
113 5 0.02
114 11 0.05
115 100 0.42
116 84 0.35
117 25 0.11
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (115 bp):
TTTTAAGACTGTGCAAAACGCTGTATTTTTTGTCTGACTATTAGTGGCGTTTTTAACAAAACGCC
GCAAAAAGAAGCCTTTAGCAGCGTTTTCTTATAAAACCCCACGAAAAATA
Found at i:48639396 original size:70 final size:71
Alignment explanation
Indices: 48639316--48639451 Score: 211
Period size: 70 Copynumber: 1.9 Consensus size: 71
48639306 ATCAGATTAC
* *
48639316 CCCGATTTCATTCCACCAATTTCCCAATTTC-TTCTCTAATTTTCCTTAACTGCGTCTTCCCCAA
1 CCCGATTTCATTCCACCAATTTCCCAATTTCTTTCTCTAATTTTCCCTAACTGCATCTTCCCCAA
48639380 GTTAAA
66 GTTAAA
* * *
48639386 CCCGATTTCATTCCCCCAATTTCCCAATTTCTTTTCTCTCATTTTCCCTAACTGCATCTTTCCCA
1 CCCGATTTCATTCCACCAATTTCCCAATTTC-TTTCTCTAATTTTCCCTAACTGCATCTTCCCCA
48639451 A
65 A
48639452 ATTATTTTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 30 0.51
72 29 0.49
ACGTcount: A:0.21, C:0.35, G:0.04, T:0.40
Consensus pattern (71 bp):
CCCGATTTCATTCCACCAATTTCCCAATTTCTTTCTCTAATTTTCCCTAACTGCATCTTCCCCAA
GTTAAA
Found at i:48639542 original size:18 final size:19
Alignment explanation
Indices: 48639521--48639564 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
48639511 GAAATCCCTT
* *
48639521 TTCTCTCTGT-GCATCCTC
1 TTCTCTCTGTCACAGCCTC
48639539 TTCTCTCTGTCACAGCCTC
1 TTCTCTCTGTCACAGCCTC
48639558 TTCTCTC
1 TTCTCTC
48639565 CGTTGCTGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.07, C:0.41, G:0.09, T:0.43
Consensus pattern (19 bp):
TTCTCTCTGTCACAGCCTC
Found at i:48640615 original size:42 final size:42
Alignment explanation
Indices: 48640568--48640650 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
48640558 TTCTCAAAAC
*
48640568 ATACTATTTAGTTACTAAGTTTAGTTTCAGTCTCCAATTAAT
1 ATACTATTTAGTTACTAAGTTTAGTTTCAATCTCCAATTAAT
48640610 ATACTATTTAGTTACTAAGTTTAGTTTCAATCTCCAATTAA
1 ATACTATTTAGTTACTAAGTTTAGTTTCAATCTCCAATTAA
48640651 GCAAGCTGAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (42 bp):
ATACTATTTAGTTACTAAGTTTAGTTTCAATCTCCAATTAAT
Found at i:48642277 original size:9 final size:9
Alignment explanation
Indices: 48642265--48642437 Score: 64
Period size: 9 Copynumber: 19.9 Consensus size: 9
48642255 TATATGATAT
48642265 CATAAATTA
1 CATAAATTA
*
48642274 CATAACTTA
1 CATAAATTA
48642283 CA-AAACTTA
1 CATAAA-TTA
48642292 CAT-AA-TA
1 CATAAATTA
48642299 CATAAA-TA
1 CATAAATTA
* **
48642307 TATATTTTA
1 CATAAATTA
*
48642316 TCATAACTTA
1 -CATAAATTA
48642326 CAT-AA-TA
1 CATAAATTA
48642333 CATAAA-TA
1 CATAAATTA
* *
48642341 TATATCATATA
1 CATA-AAT-TA
*
48642352 -ATAACTTA
1 CATAAATTA
*
48642360 CATAACTTA
1 CATAAATTA
48642369 CAT-AA-TA
1 CATAAATTA
48642376 CATAAA-TA
1 CATAAATTA
* *
48642384 TATATCA-TA
1 CATA-AATTA
*
48642393 TCATAACTTA
1 -CATAAATTA
*
48642403 CATAACTTA
1 CATAAATTA
*
48642412 CATAACTTA
1 CATAAATTA
**
48642421 CATACCTTA
1 CATAAATTA
48642430 CATAAATT
1 CATAAATT
48642438 TATATCATAT
Statistics
Matches: 128, Mismatches: 22, Indels: 28
0.72 0.12 0.16
Matches are distributed among these distances:
7 15 0.12
8 27 0.21
9 70 0.55
10 14 0.11
11 2 0.02
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (9 bp):
CATAAATTA
Found at i:48642281 original size:43 final size:43
Alignment explanation
Indices: 48642225--48642416 Score: 255
Period size: 43 Copynumber: 4.5 Consensus size: 43
48642215 TAACTTACAC
* *
48642225 AACTTACAAAACTTACATAATACATAAATATATATGATATCAT
1 AACTTACATAACTTACATAATACATAAATATATATCATATCAT
* * * *
48642268 AAATTACATAACTTACAAAACTTACAT-AATACATA-AATAT-AT
1 AACTTACATAACTTACATAA--TACATAAATATATATCATATCAT
** *
48642310 ATTTTATCATAACTTACATAATACATAAATATATATCATATAAT
1 AACTTA-CATAACTTACATAATACATAAATATATATCATATCAT
48642354 AACTTACATAACTTACATAATACATAAATATATATCATATCAT
1 AACTTACATAACTTACATAATACATAAATATATATCATATCAT
48642397 AACTTACATAACTTACATAA
1 AACTTACATAACTTACATAA
48642417 CTTACATACC
Statistics
Matches: 130, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
41 5 0.04
42 13 0.10
43 94 0.72
44 13 0.10
45 5 0.04
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.34
Consensus pattern (43 bp):
AACTTACATAACTTACATAATACATAAATATATATCATATCAT
Found at i:48642324 original size:34 final size:34
Alignment explanation
Indices: 48642286--48642416 Score: 145
Period size: 34 Copynumber: 3.5 Consensus size: 34
48642276 TAACTTACAA
48642286 AACTTACATAATACATAAATATATATTTTATCAT
1 AACTTACATAATACATAAATATATATTTTATCAT
48642320 AACTTACATAATACATAAATATATATCATATAATAACTTACAT
1 AACTTACATAATACATAAATATATAT--T-T--T-A--T-CAT
**
48642363 AACTTACATAATACATAAATATATATCATATCAT
1 AACTTACATAATACATAAATATATATTTTATCAT
48642397 AACTTACATAACTTACATAA
1 AACTTACATAA--TACATAA
48642417 CTTACATACC
Statistics
Matches: 84, Mismatches: 2, Indels: 20
0.79 0.02 0.19
Matches are distributed among these distances:
34 40 0.48
35 1 0.01
36 8 0.10
37 2 0.02
38 1 0.01
39 1 0.01
40 1 0.01
42 1 0.01
43 29 0.35
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.36
Consensus pattern (34 bp):
AACTTACATAATACATAAATATATATTTTATCAT
Found at i:48642328 original size:52 final size:52
Alignment explanation
Indices: 48642206--48642330 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
48642196 AATTAAATAC
*
48642206 ATGATATCATAACTTACACAACTTACAAAACTTACATAATACATAAATATAT
1 ATGATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATAT
*
48642258 ATGATATCATAAATTACATAACTTACAAAACTTACATAATACATAAATATAT
1 ATGATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATAT
**
48642310 ATTTTATCATAACTTACATAA
1 ATGATATCATAACTTACATAA
48642331 TACATAAATA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.34
Consensus pattern (52 bp):
ATGATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATAT
Found at i:48642449 original size:54 final size:52
Alignment explanation
Indices: 48642317--48642491 Score: 233
Period size: 54 Copynumber: 3.5 Consensus size: 52
48642307 TATATTTTAT
48642317 CATAACTTACATAATACAT--A-A-ATAT-ATATCAT-A--TA-ATAACTTA
1 CATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTTA
48642360 CATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTTA
1 CATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTTA
* * *
48642412 CATAACTTACATACCTTACATAAATTTATATCATATCATAACTTACAAAACTTA
1 CATAACTTACATA--ATACATAAATATATATCATATCATAACTTACATAACTTA
*
48642466 CTTAACTTACATAATACATAAATATA
1 CATAACTTACATAATACATAAATATA
48642492 CACTTGAAAA
Statistics
Matches: 115, Mismatches: 6, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
43 19 0.17
45 1 0.01
46 1 0.01
47 4 0.03
48 7 0.06
49 1 0.01
51 2 0.02
52 32 0.28
54 48 0.42
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (52 bp):
CATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTTA
Found at i:48647678 original size:96 final size:96
Alignment explanation
Indices: 48647558--48647751 Score: 316
Period size: 96 Copynumber: 2.0 Consensus size: 96
48647548 TCGCTTCTTT
*
48647558 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCTT
1 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
* * * *
48647623 GTCTGCTCCATCGTTCCCTTCGATGACAGAC
66 ATCTGCTCCATCATTCCCATCGATAACAGAC
* *
48647654 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
1 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
*
48647719 ATCTGCTCGATCATTCCCATCGATAACAGAC
66 ATCTGCTCCATCATTCCCATCGATAACAGAC
48647750 TT
1 TT
48647752 CCTCGGACAC
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 90 1.00
ACGTcount: A:0.12, C:0.35, G:0.18, T:0.35
Consensus pattern (96 bp):
TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
ATCTGCTCCATCATTCCCATCGATAACAGAC
Found at i:48649076 original size:15 final size:15
Alignment explanation
Indices: 48649056--48649086 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48649046 ACAAACATTC
48649056 ATATTCCTCCCTTAA
1 ATATTCCTCCCTTAA
*
48649071 ATATTCCTCTCTTAA
1 ATATTCCTCCCTTAA
48649086 A
1 A
48649087 CATCAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATTCCTCCCTTAA
Found at i:48650762 original size:57 final size:56
Alignment explanation
Indices: 48650699--48650891 Score: 226
Period size: 57 Copynumber: 3.4 Consensus size: 56
48650689 ACAATTAGTG
* *
48650699 TTTAGCCTAGACTGGTAACCCTAATTGAGCTTTTTTGAGCGTACGTC-CAATTATGGA
1 TTTAGCCT-GACTGGTAATCCTAATTGAGCTTTTTTGAGCGTACGTCAC-ATAATGGA
* * * * *
48650756 TTTAGCCTGGATTGGTAATCCTAATTGAGCTTTTATGCGCGTACATCACATAATAGA
1 TTTAGCCT-GACTGGTAATCCTAATTGAGCTTTTTTGAGCGTACGTCACATAATGGA
* * * *
48650813 TTTAGCCTGAACTAGTAATCCTAATTGAGCTCTTTTGAGCATACGTTACATAATGGA
1 TTTAGCCTG-ACTGGTAATCCTAATTGAGCTTTTTTGAGCGTACGTCACATAATGGA
*
48650870 TTTAGCTTGAACTGGTAATCCT
1 TTTAGCCTG-ACTGGTAATCCT
48650892 GTAATACGAT
Statistics
Matches: 115, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
56 1 0.01
57 113 0.98
58 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (56 bp):
TTTAGCCTGACTGGTAATCCTAATTGAGCTTTTTTGAGCGTACGTCACATAATGGA
Found at i:48653581 original size:40 final size:40
Alignment explanation
Indices: 48653478--48653698 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
48653468 TATTCGAATG
* * * *
48653478 ATATCCGGGCTAAGTCCTGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACT
* * * *
48653519 ATATCCGGACTAAGATCTGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
48653559 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
48653599 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* **
48653639 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
48653678 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
48653699 ATACTTGGGT
Statistics
Matches: 152, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 15 0.10
40 95 0.62
41 28 0.18
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:48659799 original size:28 final size:28
Alignment explanation
Indices: 48659759--48659823 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
48659749 ATGTACTAGA
* *
48659759 ATACCCATATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
48659787 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
48659815 ATACCCCTA
1 ATACCCCTA
48659824 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:48659991 original size:27 final size:27
Alignment explanation
Indices: 48659929--48660018 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
48659919 AGGAAGCGTC
*
48659929 CTGGTGGCTA-TGCCACAAATTATTTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
48659957 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
48659984 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
48660013 CTGGTG
1 CTGGTG
48660019 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 22 0.41
28 25 0.46
29 7 0.13
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:48660029 original size:29 final size:28
Alignment explanation
Indices: 48659939--48660029 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
48659929 CTGGTGGCTA
* * * *
48659939 TGCCACAAATTATTTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* *
48659967 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
48659994 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
48660023 TGTCACA
1 TGCCACA
48660030 TTTTCTGTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 23 0.43
28 15 0.28
29 15 0.28
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:48660037 original size:55 final size:56
Alignment explanation
Indices: 48659929--48660043 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
48659919 AGGAAGCGTC
* * *
48659929 CTGGTGGCTATGCCACAAATTATTTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
48659984 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
48660040 CTGG
1 CTGG
48660044 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:48687673 original size:29 final size:29
Alignment explanation
Indices: 48687631--48687712 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
48687621 TATATATGTG
*
48687631 AATTATCGAGCACTAAGTGTGCGGAGTAA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
48687660 AATTATCGAGCACTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
*
48687689 AACTATCGAGCACTAAGTGTGCGA
1 AATTATCGAGCACTAAGTGTGCGA
48687713 TCTCATTGCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (29 bp):
AATTATCGAGCACTAAGTGTGCGAAGTAA
Found at i:48687784 original size:71 final size:71
Alignment explanation
Indices: 48687668--48687826 Score: 309
Period size: 71 Copynumber: 2.2 Consensus size: 71
48687658 AAAATTATCG
48687668 AGCACTAAGTGTGCGAAGTAAAACTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
1 AGCACTAAGTGTGCGAAGTAAAACTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
48687733 AATAAT
66 AATAAT
*
48687739 AGCACTAAGTGTGCGAAGTAAAAGTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
1 AGCACTAAGTGTGCGAAGTAAAACTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
48687804 AATAAT
66 AATAAT
48687810 AGCACTAAGTGTGCGAA
1 AGCACTAAGTGTGCGAA
48687827 TATAACAAGT
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 87 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (71 bp):
AGCACTAAGTGTGCGAAGTAAAACTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
AATAAT
Found at i:48701519 original size:26 final size:24
Alignment explanation
Indices: 48701489--48701538 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
48701479 AAATAAAAAA
*
48701489 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
48701515 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
48701539 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:48701558 original size:21 final size:20
Alignment explanation
Indices: 48701517--48701564 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
48701507 TCAAATATAT
* *
48701517 TTAAAAACATAAAAACAAATA
1 TTAAAAAAATAAAAA-TAATA
48701538 TTAAAACAAATAAAAATAATA
1 TTAAAA-AAATAAAAATAATA
*
48701559 CTAAAA
1 TTAAAA
48701565 TAATTCTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAAAAATAAAAATAATA
Found at i:48701602 original size:35 final size:33
Alignment explanation
Indices: 48701538--48701602 Score: 78
Period size: 35 Copynumber: 1.9 Consensus size: 33
48701528 AAAACAAATA
*
48701538 TTAAAACAAATAAAAATAATACTAAAATAATTC
1 TTAAAACAAATAAAAATAATAATAAAATAATTC
*
48701571 TTAAAAC-AATACACAAATTAATAATATAATAA
1 TTAAAACAAATA-A-AAA-TAATAATAAAATAA
48701603 AAAATGGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 4 0.15
33 8 0.30
34 3 0.11
35 12 0.44
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (33 bp):
TTAAAACAAATAAAAATAATAATAAAATAATTC
Found at i:48701644 original size:15 final size:16
Alignment explanation
Indices: 48701614--48701646 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
48701604 AAATGGTTAT
48701614 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
48701631 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
48701646 A
1 A
48701647 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:48703577 original size:6 final size:6
Alignment explanation
Indices: 48703566--48703591 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48703556 GGAATACCGA
48703566 CCACGC CCACGC CCACGC CCACGC CC
1 CCACGC CCACGC CCACGC CCACGC CC
48703592 CCTTCTTCCC
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:0.15, C:0.69, G:0.15, T:0.00
Consensus pattern (6 bp):
CCACGC
Found at i:48705381 original size:18 final size:20
Alignment explanation
Indices: 48705326--48705372 Score: 71
Period size: 19 Copynumber: 2.4 Consensus size: 20
48705316 ACTTTTTTCT
48705326 TTTTACTTTTCCCT-CAAAAC
1 TTTTAC-TTTCCCTCCAAAAC
48705346 TTTTACTTTCCCTCCAAAA-
1 TTTTACTTTCCCTCCAAAAC
48705365 TTTTACTT
1 TTTTACTT
48705373 CCTCCCAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTACTTTCCCTCCAAAAC
Found at i:48705418 original size:74 final size:72
Alignment explanation
Indices: 48705273--48705435 Score: 226
Period size: 74 Copynumber: 2.3 Consensus size: 72
48705263 CACTCATACC
* *
48705273 CTTTTACTTTTCCC-CAAAAATTTAACTTCTCCCAAACCCCAAAACTTTTTTCTTTTTACTTTTC
1 CTTTTAC-TTTCCCTCCAAAATTTAACTTCTCCCAAACCCCAAAACTTTTTTCTTTTTACTTCTC
48705337 CCTCAAAA
65 CCTCAAAA
* *
48705345 CTTTTACTTTCCCTCCAAAATTTTACTTCCTCCCAAACTCCCAGAACTTTTTTCTTTTTACCTTC
1 CTTTTACTTTCCCTCCAAAATTTAACTT-CTCCCAAAC-CCCAAAACTTTTTTCTTTTTA-CTTC
48705410 TCCC-CAAAA
63 TCCCTCAAAA
48705419 CTTTTAC-TT-CCTCCAAA
1 CTTTTACTTTCCCTCCAAA
48705436 CCCCAAAAAT
Statistics
Matches: 83, Mismatches: 4, Indels: 8
0.87 0.04 0.08
Matches are distributed among these distances:
71 6 0.07
72 27 0.33
73 11 0.13
74 32 0.39
75 7 0.08
ACGTcount: A:0.25, C:0.33, G:0.01, T:0.41
Consensus pattern (72 bp):
CTTTTACTTTCCCTCCAAAATTTAACTTCTCCCAAACCCCAAAACTTTTTTCTTTTTACTTCTCC
CTCAAAA
Found at i:48712807 original size:35 final size:35
Alignment explanation
Indices: 48712733--48712956 Score: 243
Period size: 35 Copynumber: 6.4 Consensus size: 35
48712723 TTCCTCATTG
* * *
48712733 AAATACCATACCTACATTTCAT-ACTTAGTATGGA
1 AAATGCCATACCTACGTTTCATAACTCAGTATGGA
* *
48712767 AAATACCATACCTACGTTTCATAACTCAATATGGA
1 AAATGCCATACCTACGTTTCATAACTCAGTATGGA
* *
48712802 AAATACCATAACTACGTTTCATAACTCAGTATGGA
1 AAATGCCATACCTACGTTTCATAACTCAGTATGGA
** * * *
48712837 CGATGCCATACCTACATGTCATAACTCAATATGGA
1 AAATGCCATACCTACGTTTCATAACTCAGTATGGA
** * *
48712872 CGATGCCATACCTACGTATCATAGCTCAGTATGGA
1 AAATGCCATACCTACGTTTCATAACTCAGTATGGA
** * * *
48712907 CGATGCCATACCTACGTATCATAGCTCAGTATGGT
1 AAATGCCATACCTACGTTTCATAACTCAGTATGGA
*
48712942 TAATGCCATACCTAC
1 AAATGCCATACCTAC
48712957 TTATCAAGCT
Statistics
Matches: 170, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
34 21 0.12
35 149 0.88
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.28
Consensus pattern (35 bp):
AAATGCCATACCTACGTTTCATAACTCAGTATGGA
Found at i:48712850 original size:70 final size:70
Alignment explanation
Indices: 48712733--48713001 Score: 283
Period size: 70 Copynumber: 3.9 Consensus size: 70
48712723 TTCCTCATTG
* * ** *
48712733 AAATACCATACCTACATTTCAT-ACTTAGTATGGAAAATACCATACCTACGTTTCATAACTCAAT
1 AAATACCATACCTACGTTTCATAACTCAGTATGGACGATACCATACCTACGTATCATAACTCAAT
48712797 ATGGA
66 ATGGA
* * * *
48712802 AAATACCATAACTACGTTTCATAACTCAGTATGGACGATGCCATACCTACATGTCATAACTCAAT
1 AAATACCATACCTACGTTTCATAACTCAGTATGGACGATACCATACCTACGTATCATAACTCAAT
48712867 ATGGA
66 ATGGA
** * * * * * *
48712872 CGATGCCATACCTACGTATCATAGCTCAGTATGGACGATGCCATACCTACGTATCATAGCTCAGT
1 AAATACCATACCTACGTTTCATAACTCAGTATGGACGATACCATACCTACGTATCATAACTCAAT
*
48712937 ATGGT
66 ATGGA
* * * * ** *
48712942 TAATGCCATACCTAC-TTATCA-AGCTCGGTATGGTTGATACCATACCTACGTATAATAACT
1 AAATACCATACCTACGTT-TCATAACTCAGTATGGACGATACCATACCTACGTATCATAACT
48713002 TTGCCACGGG
Statistics
Matches: 170, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
69 54 0.32
70 116 0.68
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (70 bp):
AAATACCATACCTACGTTTCATAACTCAGTATGGACGATACCATACCTACGTATCATAACTCAAT
ATGGA
Found at i:48712922 original size:105 final size:104
Alignment explanation
Indices: 48712738--48713001 Score: 269
Period size: 105 Copynumber: 2.5 Consensus size: 104
48712728 CATTGAAATA
* * * *
48712738 CCATACCTACATTTCATACTTAGTATGGAAAATACCATACCTACGTTTCATAACTCAATATGGAA
1 CCATACCTACATGTCATACTCAATATGGAAAATACCATACCTACGTATCATAACTCAATATGGAA
* *
48712803 AATACCATAACTACGTTTCATAACTCAGTATGGACGATG
66 AATACCATAACTACGTATCATAACTCAGTATGGACAATG
** * * *
48712842 CCATACCTACATGTCATAACTCAATATGGACGATGCCATACCTACGTATCATAGCTCAGTATGGA
1 CCATACCTACATGTCAT-ACTCAATATGGAAAATACCATACCTACGTATCATAACTCAATATGGA
** * * * **
48712907 CGATGCCATACCTACGTATCATAGCTCAGTATGGTTAATG
65 AAATACCATAACTACGTATCATAACTCAGTATGGACAATG
* * ** *** *
48712947 CCATACCTACTTATCA-AGCTCGGTATGGTTGATACCATACCTACGTATAATAACT
1 CCATACCTACATGTCATA-CTCAATATGGAAAATACCATACCTACGTATCATAACT
48713002 TTGCCACGGG
Statistics
Matches: 131, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
103 1 0.01
104 46 0.35
105 84 0.64
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (104 bp):
CCATACCTACATGTCATACTCAATATGGAAAATACCATACCTACGTATCATAACTCAATATGGAA
AATACCATAACTACGTATCATAACTCAGTATGGACAATG
Found at i:48712962 original size:35 final size:34
Alignment explanation
Indices: 48712738--48712990 Score: 222
Period size: 35 Copynumber: 7.3 Consensus size: 34
48712728 CATTGAAATA
* ** *
48712738 CCATACCTACATTTCAT-ACTTAGTATGGAAAATA
1 CCATACCTAC-TTTCATAACTCAGTATGGACGATG
* ** *
48712772 CCATACCTACGTTTCATAACTCAATATGGAAAATA
1 CCATACCTAC-TTTCATAACTCAGTATGGACGATG
*
48712807 CCATAACTACGTTTCATAACTCAGTATGGACGATG
1 CCATACCTAC-TTTCATAACTCAGTATGGACGATG
* *
48712842 CCATACCTACATGTCATAACTCAATATGGACGATG
1 CCATACCTAC-TTTCATAACTCAGTATGGACGATG
* *
48712877 CCATACCTACGTATCATAGCTCAGTATGGACGATG
1 CCATACCTAC-TTTCATAACTCAGTATGGACGATG
* * ***
48712912 CCATACCTACGTATCATAGCTCAGTATGGTTAATG
1 CCATACCTAC-TTTCATAACTCAGTATGGACGATG
* * ** *
48712947 CCATACCTACTTATCA-AGCTCGGTATGGTTGATA
1 CCATACCTACTT-TCATAACTCAGTATGGACGATG
48712981 CCATACCTAC
1 CCATACCTAC
48712991 GTATAATAAC
Statistics
Matches: 194, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
34 42 0.22
35 152 0.78
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (34 bp):
CCATACCTACTTTCATAACTCAGTATGGACGATG
Found at i:48712973 original size:34 final size:35
Alignment explanation
Indices: 48712772--48712994 Score: 223
Period size: 35 Copynumber: 6.4 Consensus size: 35
48712762 ATGGAAAATA
* * * *** *
48712772 CCATACCTACGTTTCATAACTCAATATGGAAAATA
1 CCATACCTACGTATCATAGCTCAGTATGGTTGATG
* * * **
48712807 CCATAACTACGTTTCATAACTCAGTATGGACGATG
1 CCATACCTACGTATCATAGCTCAGTATGGTTGATG
* * * * **
48712842 CCATACCTACATGTCATAACTCAATATGGACGATG
1 CCATACCTACGTATCATAGCTCAGTATGGTTGATG
**
48712877 CCATACCTACGTATCATAGCTCAGTATGGACGATG
1 CCATACCTACGTATCATAGCTCAGTATGGTTGATG
*
48712912 CCATACCTACGTATCATAGCTCAGTATGGTTAATG
1 CCATACCTACGTATCATAGCTCAGTATGGTTGATG
* * *
48712947 CCATACCTACTTATCA-AGCTCGGTATGGTTGATA
1 CCATACCTACGTATCATAGCTCAGTATGGTTGATG
48712981 CCATACCTACGTAT
1 CCATACCTACGTAT
48712995 AATAACTTTG
Statistics
Matches: 167, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
34 28 0.17
35 139 0.83
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (35 bp):
CCATACCTACGTATCATAGCTCAGTATGGTTGATG
Found at i:48716362 original size:47 final size:48
Alignment explanation
Indices: 48716261--48716367 Score: 128
Period size: 47 Copynumber: 2.2 Consensus size: 48
48716251 CATAGTGTAA
* * *
48716261 CTATGGTCTTACACATAACCACATATCACATACCGAAGCCATAGCCTAG
1 CTATGGTCTTAAACAGAACCACATATCACA-ACCGAAGCCATAGCCCAG
* * *
48716310 ATATGGTCTTAAACGGAAGCACATATCAC-ACCGATA-CCATAGCCCAG
1 CTATGGTCTTAAACAGAACCACATATCACAACCGA-AGCCATAGCCCAG
48716357 CTATGGTCTTA
1 CTATGGTCTTA
48716368 TACAAAAATC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 25 0.50
48 1 0.02
49 24 0.48
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (48 bp):
CTATGGTCTTAAACAGAACCACATATCACAACCGAAGCCATAGCCCAG
Found at i:48718291 original size:35 final size:35
Alignment explanation
Indices: 48718222--48718486 Score: 307
Period size: 35 Copynumber: 7.6 Consensus size: 35
48718212 CATTGAAATA
* * ** * *
48718222 CCATACCTACATTTCAT-ACTTGGTATGGAAAATA
1 CCATACCTACGTATCATAACTCAGTATGGACAATG
* * * *
48718256 CCATACCTACGTTTCATAACTCAATATGGAAAATA
1 CCATACCTACGTATCATAACTCAGTATGGACAATG
* * *
48718291 CCATAACTACGTTTCATAACTCAGTATGGACGATG
1 CCATACCTACGTATCATAACTCAGTATGGACAATG
* * *
48718326 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACGTATCATAACTCAGTATGGACAATG
* * *
48718361 CCATGCCTACGTATCATAGCTCAGTATGGACGATG
1 CCATACCTACGTATCATAACTCAGTATGGACAATG
* **
48718396 CCATACCTACGTATCATAGCTCAGTATGGATGATG
1 CCATACCTACGTATCATAACTCAGTATGGACAATG
* *
48718431 CCATACCTACGTATCATAGCTCAGTATGGTCAATG
1 CCATACCTACGTATCATAACTCAGTATGGACAATG
48718466 CCATACCTACGTATCATAACT
1 CCATACCTACGTATCATAACT
48718487 TTGTCACGGG
Statistics
Matches: 208, Mismatches: 22, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
34 16 0.08
35 192 0.92
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (35 bp):
CCATACCTACGTATCATAACTCAGTATGGACAATG
Found at i:48718528 original size:12 final size:12
Alignment explanation
Indices: 48718511--48718537 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48718501 CCATGGTCTT
48718511 ATCCGTCAATTC
1 ATCCGTCAATTC
48718523 ATCCGTCAATTC
1 ATCCGTCAATTC
48718535 ATC
1 ATC
48718538 ACTGGCCACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.33, G:0.07, T:0.33
Consensus pattern (12 bp):
ATCCGTCAATTC
Found at i:48723167 original size:15 final size:15
Alignment explanation
Indices: 48723147--48723178 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
48723137 TCATTCTTAC
*
48723147 CATAGCACCTTATCA
1 CATAGCACCTTACCA
48723162 CATAGCACCTTACCA
1 CATAGCACCTTACCA
48723177 CA
1 CA
48723179 ATCAATCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.38, G:0.06, T:0.22
Consensus pattern (15 bp):
CATAGCACCTTACCA
Found at i:48735768 original size:15 final size:15
Alignment explanation
Indices: 48735748--48735777 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
48735738 GAAGAGAAAA
48735748 ATGATAACTTTTTCT
1 ATGATAACTTTTTCT
48735763 ATGATAACTTTTTCT
1 ATGATAACTTTTTCT
48735778 TTTTGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (15 bp):
ATGATAACTTTTTCT
Found at i:48746106 original size:45 final size:45
Alignment explanation
Indices: 48746041--48746167 Score: 191
Period size: 45 Copynumber: 2.8 Consensus size: 45
48746031 TATCAATTCG
* *
48746041 CCAGCATTATAGCCTACTAGGCTCGAAGGCCCGAATAGTATCTCA
1 CCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCA
* *
48746086 CCAGTATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCT
1 CCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCA
* **
48746131 CCGGCATCGTAGCCTGCTAGGCTCAAAGGCCCGAATA
1 CCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
48746168 ATACCGTACG
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (45 bp):
CCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCA
Found at i:48748816 original size:39 final size:39
Alignment explanation
Indices: 48748772--48749033 Score: 391
Period size: 39 Copynumber: 6.7 Consensus size: 39
48748762 GACTTTATAA
* *
48748772 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCATGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
48748811 TGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
48748850 TGGTGTTATATCCGGGCCAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
48748889 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTAC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
48748928 TAGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
48748967 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
48749006 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
48749034 CATGCTTTGT
Statistics
Matches: 206, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 185 0.90
40 21 0.10
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:48773065 original size:84 final size:83
Alignment explanation
Indices: 48772920--48773085 Score: 305
Period size: 84 Copynumber: 2.0 Consensus size: 83
48772910 ATGGGCGTGT
*
48772920 TGTCCAGCCGTTTGTCCCCTGCACCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACGA
1 TGTCCAGCCGTGTGTCCCCTGCACCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACGA
48772985 GCAAGAGACAAGGCCATG
66 GCAAGAGACAAGGCCATG
*
48773003 TGTCTCAGCCGTGTGTCCCCTGCATCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACG
1 TGTC-CAGCCGTGTGTCCCCTGCACCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACG
48773068 AGCAAGAGACAAGGCCAT
65 AGCAAGAGACAAGGCCAT
48773086 AAGACACGGG
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
83 4 0.05
84 76 0.95
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.25
Consensus pattern (83 bp):
TGTCCAGCCGTGTGTCCCCTGCACCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACGA
GCAAGAGACAAGGCCATG
Found at i:48784496 original size:80 final size:80
Alignment explanation
Indices: 48784363--48784550 Score: 256
Period size: 80 Copynumber: 2.4 Consensus size: 80
48784353 CTAACGGGGT
* * *
48784363 TAAGTCCTGAAGACATTTGTGCTAGTGATTATTTCTGGGCTAAATCCCGAAGGCATTTGTGTGAG
1 TAAGTCCCGAAGACATTTGTGCTAGTGATAATTTCTGGGCTAAATCCCGAAGGCATTTGTGCGAG
*
48784428 TTATTA-ATTCCGGGC
66 TTACTATA-TCCGGGC
* * *
48784443 TAAGTCCCGAAGGCATTTGTG-TGAGTTACTAATTTC-GGGCTAAGTCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGACATTTGTGCT-AGTGA-TAATTTCTGGGCTAAATCCCGAAGGCATTTGTGCG
*
48784506 AGTTACTATATCCGGGT
64 AGTTACTATATCCGGGC
48784523 TAAGTCCCGAAGACATTTGTGCTAGTGA
1 TAAGTCCCGAAGACATTTGTGCTAGTGA
48784551 CCATATCCGG
Statistics
Matches: 94, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
79 1 0.01
80 85 0.90
81 8 0.09
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (80 bp):
TAAGTCCCGAAGACATTTGTGCTAGTGATAATTTCTGGGCTAAATCCCGAAGGCATTTGTGCGAG
TTACTATATCCGGGC
Found at i:48784544 original size:40 final size:40
Alignment explanation
Indices: 48784363--48784587 Score: 222
Period size: 40 Copynumber: 5.7 Consensus size: 40
48784353 CTAACGGGGT
* * * * * * *
48784363 TAAGTCCTGAAGACATTTGTGCTAGTGATTATTTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
* * *
48784403 TAAATCCCGAAGGCATTTGTGTGAGTTATTA-ATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGC
* *
48784443 TAAGTCCCGAAGGCATTTGTGTGAGTTACTA-ATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGC
*
48784483 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
* * * * *
48784523 TAAGTCCCGAAGACATTTGTGCTAGTGACCATATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
* * *
48784563 TAAGACCCGACGGC-CTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGT
48784588 GGTTATATCC
Statistics
Matches: 160, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 9 0.06
40 150 0.94
41 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
Found at i:48784572 original size:80 final size:80
Alignment explanation
Indices: 48784359--48784587 Score: 252
Period size: 80 Copynumber: 2.9 Consensus size: 80
48784349 AATGCTAACG
* * * *
48784359 GGGTTAAGTCCTGAAGACATTTGTGCTAGTGATTATTTCTGGGCTAA-ATCCCGAAGGCATTTGT
1 GGGTTAAGTCCCGAAGACATTTGTGCTAGTGACTATATCCGGGCTAAGA-CCCGAAGGCATTTGT
* *
48784423 GTGAGTTATTAATTCC
65 GCGAGTTACTAATTCC
* * * * *
48784439 GGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTA-ATTTCGGGCTAAGTCCCGAAGGCATTTG
1 GGGTTAAGTCCCGAAGACATTTGTGCT-AGTGACTATA-TCCGGGCTAAGACCCGAAGGCATTTG
48784502 TGCGAGTTACT-ATATCC
64 TGCGAGTTACTAAT-TCC
* * * *
48784519 GGGTTAAGTCCCGAAGACATTTGTGCTAGTGACCATATCCGGGTTAAGACCCGACGGC-CTTGTG
1 GGGTTAAGTCCCGAAGACATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTG
48784583 CGAGT
66 CGAGT
48784588 GGTTATATCC
Statistics
Matches: 123, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
79 13 0.11
80 108 0.88
81 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (80 bp):
GGGTTAAGTCCCGAAGACATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTG
CGAGTTACTAATTCC
Found at i:48790182 original size:30 final size:31
Alignment explanation
Indices: 48790133--48790191 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
48790123 ATTTCCCAGC
48790133 CTAGGGGCAAAATCATAATTCTG-CAAAGGT
1 CTAGGGGCAAAATCATAATTCTGTCAAAGGT
** *
48790163 CTAGGGGCAAAATTGTAATTTTGTCAAAG
1 CTAGGGGCAAAATCATAATTCTGTCAAAG
48790192 TTTGAGTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.27
Consensus pattern (31 bp):
CTAGGGGCAAAATCATAATTCTGTCAAAGGT
Found at i:48792632 original size:15 final size:15
Alignment explanation
Indices: 48792583--48792640 Score: 75
Period size: 15 Copynumber: 3.9 Consensus size: 15
48792573 AACAAGAAAA
48792583 CAGAATAAAGAAATC
1 CAGAATAAAGAAATC
*
48792598 CA-AGATAGAA-AAACC
1 CAGA-ATA-AAGAAATC
48792613 CAGAATAAAGAAATC
1 CAGAATAAAGAAATC
48792628 CAGAATAAAGAAA
1 CAGAATAAAGAAA
48792641 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 3 0.08
15 31 0.84
16 3 0.08
ACGTcount: A:0.62, C:0.14, G:0.14, T:0.10
Consensus pattern (15 bp):
CAGAATAAAGAAATC
Found at i:48806146 original size:46 final size:45
Alignment explanation
Indices: 48806093--48806268 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
48806083 TATTTGGGCA
48806093 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
48806139 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
48806186 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
48806232 CCCGAGCTCGTTGAGTTGAGTCCGATTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48806269 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.61
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:48806399 original size:21 final size:21
Alignment explanation
Indices: 48806374--48806417 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
48806364 CTACTCAAAT
48806374 GGAGGAATACTCGAGATGAAA
1 GGAGGAATACTCGAGATGAAA
48806395 GGAGGAATACTCGAGATGAAA
1 GGAGGAATACTCGAGATGAAA
48806416 GG
1 GG
48806418 GACGTATTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.09, G:0.36, T:0.14
Consensus pattern (21 bp):
GGAGGAATACTCGAGATGAAA
Found at i:48809722 original size:42 final size:42
Alignment explanation
Indices: 48809641--48809722 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
48809631 TTTTTTTTTC
* * ** *
48809641 GATGCTATAGTTCAACTATGGTCTTACACATCTTTACATAAT
1 GATGCCATAGTCCAACTATGGTCTTACACATAATCACATAAT
* *
48809683 GATGCCATAGTCCAGCTATGGTCTTACACGTAATCACATA
1 GATGCCATAGTCCAACTATGGTCTTACACATAATCACATA
48809723 TCTCACTGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (42 bp):
GATGCCATAGTCCAACTATGGTCTTACACATAATCACATAAT
Found at i:48809750 original size:47 final size:47
Alignment explanation
Indices: 48809694--48809802 Score: 121
Period size: 47 Copynumber: 2.3 Consensus size: 47
48809684 ATGCCATAGT
* * * * * **
48809694 CCAGCTATGGTCTTACA-CGTAATCACATATCTCACTGATGTCATATC
1 CCAGATATGGTCTTACATAGT-AGCACATATCACACCGATACCATATC
* *
48809741 CCAGATATGGTCTTATATAGTAGCATATATCACACCGATACCATATC
1 CCAGATATGGTCTTACATAGTAGCACATATCACACCGATACCATATC
48809788 CCAGATATGGTCTTA
1 CCAGATATGGTCTTA
48809803 TACAGAAATC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 50 0.96
48 2 0.04
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (47 bp):
CCAGATATGGTCTTACATAGTAGCACATATCACACCGATACCATATC
Found at i:48809826 original size:7 final size:7
Alignment explanation
Indices: 48809814--48809846 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
48809804 ACAGAAATCG
48809814 CTTGTCA
1 CTTGTCA
48809821 CTTGTCA
1 CTTGTCA
48809828 CTTGTCA
1 CTTGTCA
48809835 CTTGTCA
1 CTTGTCA
48809842 CTTGT
1 CTTGT
48809847 AGCCAAAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.12, C:0.27, G:0.15, T:0.45
Consensus pattern (7 bp):
CTTGTCA
Found at i:48809880 original size:31 final size:31
Alignment explanation
Indices: 48809845--48810084 Score: 363
Period size: 31 Copynumber: 7.7 Consensus size: 31
48809835 CTTGTCACTT
* *
48809845 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* ** *
48809876 GTAGCTGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
48809907 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
48809938 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
48809969 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
48810000 GTAGCTGAAACTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
48810031 GTAGCTGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
48810062 GTAGCTGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
48810085 GTTGTCATTT
Statistics
Matches: 193, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 193 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:48810168 original size:50 final size:50
Alignment explanation
Indices: 48810062--48810238 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
48810052 CACTGATCAG
* * * *
48810062 GTAGCTGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
* *
48810113 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
48810163 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
48810213 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
48810239 GTTTCCATGG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:48821768 original size:27 final size:27
Alignment explanation
Indices: 48821737--48821788 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
48821727 AAGACCCCAG
48821737 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTGTAAAATTACCAAAATACCCCTGA
*
48821764 TTTGTAAAATTACCAAATTACCCCT
1 TTTGTAAAATTACCAAAATACCCCT
48821789 ATAAGGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (27 bp):
TTTGTAAAATTACCAAAATACCCCTGA
Found at i:48821797 original size:27 final size:27
Alignment explanation
Indices: 48821740--48821800 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
48821730 ACCCCAGTTT
**
48821740 GTAAAATTACCAAAATACCCCTGATTT
1 GTAAAATTACCAAAATACCCCTGATAG
*
48821767 GTAAAATTACCAAATTACCCCT-ATAAG
1 GTAAAATTACCAAAATACCCCTGAT-AG
48821794 GTAAAAT
1 GTAAAAT
48821801 GATTGTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTGATAG
Found at i:48822396 original size:23 final size:23
Alignment explanation
Indices: 48822369--48822422 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
48822359 ATATATATAC
*
48822369 TAGCAGCTTTGTTGCGTTACTAT
1 TAGCAGCTTTGTTACGTTACTAT
48822392 TAGCAGCTTTGTTACGTTACTAT
1 TAGCAGCTTTGTTACGTTACTAT
*
48822415 TAGTAGCT
1 TAGCAGCT
48822423 ACGCTGCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (23 bp):
TAGCAGCTTTGTTACGTTACTAT
Found at i:48835281 original size:23 final size:23
Alignment explanation
Indices: 48835254--48835301 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
48835244 ATACTAGTAA
*
48835254 CTTTGCTACGTTACTATTAGCAG
1 CTTTGCTACATTACTATTAGCAG
*
48835277 CTTTGCTGCATTACTATTAGCAG
1 CTTTGCTACATTACTATTAGCAG
48835300 CT
1 CT
48835302 ACGCTACGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.40
Consensus pattern (23 bp):
CTTTGCTACATTACTATTAGCAG
Found at i:48836380 original size:16 final size:16
Alignment explanation
Indices: 48836359--48836397 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
48836349 TAAGTGACAT
48836359 TATGATTATGATTGAC
1 TATGATTATGATTGAC
48836375 TATGATTATGATTGAC
1 TATGATTATGATTGAC
48836391 TATGATT
1 TATGATT
48836398 GTGGATAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.05, G:0.18, T:0.46
Consensus pattern (16 bp):
TATGATTATGATTGAC
Found at i:48844832 original size:245 final size:245
Alignment explanation
Indices: 48844402--48844881 Score: 960
Period size: 245 Copynumber: 2.0 Consensus size: 245
48844392 TTGATTGATG
48844402 TATCAGCTCAATTTATAGTGGTGGAGATTTGATTTTCAAGCAAGCCTATGGCAATAGCTTTTCAT
1 TATCAGCTCAATTTATAGTGGTGGAGATTTGATTTTCAAGCAAGCCTATGGCAATAGCTTTTCAT
48844467 ATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTTAGTGATTTGAGTGAATCTTTAGT
66 ATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTTAGTGATTTGAGTGAATCTTTAGT
48844532 GAGGATGTTAAACTCTGTGATATTTTGATCAAAGGTAATCACTTAGATAAGGGGAGACACCTATG
131 GAGGATGTTAAACTCTGTGATATTTTGATCAAAGGTAATCACTTAGATAAGGGGAGACACCTATG
48844597 TTTTCGTGATAAAATACTCAACTTGGAATGTTTGAAACTTGGAATGTTTT
196 TTTTCGTGATAAAATACTCAACTTGGAATGTTTGAAACTTGGAATGTTTT
48844647 TATCAGCTCAATTTATAGTGGTGGAGATTTGATTTTCAAGCAAGCCTATGGCAATAGCTTTTCAT
1 TATCAGCTCAATTTATAGTGGTGGAGATTTGATTTTCAAGCAAGCCTATGGCAATAGCTTTTCAT
48844712 ATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTTAGTGATTTGAGTGAATCTTTAGT
66 ATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTTAGTGATTTGAGTGAATCTTTAGT
48844777 GAGGATGTTAAACTCTGTGATATTTTGATCAAAGGTAATCACTTAGATAAGGGGAGACACCTATG
131 GAGGATGTTAAACTCTGTGATATTTTGATCAAAGGTAATCACTTAGATAAGGGGAGACACCTATG
48844842 TTTTCGTGATAAAATACTCAACTTGGAATGTTTGAAACTT
196 TTTTCGTGATAAAATACTCAACTTGGAATGTTTGAAACTT
48844882 TGATTTACTT
Statistics
Matches: 235, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
245 235 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (245 bp):
TATCAGCTCAATTTATAGTGGTGGAGATTTGATTTTCAAGCAAGCCTATGGCAATAGCTTTTCAT
ATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTTAGTGATTTGAGTGAATCTTTAGT
GAGGATGTTAAACTCTGTGATATTTTGATCAAAGGTAATCACTTAGATAAGGGGAGACACCTATG
TTTTCGTGATAAAATACTCAACTTGGAATGTTTGAAACTTGGAATGTTTT
Found at i:48853660 original size:23 final size:22
Alignment explanation
Indices: 48853620--48853692 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 22
48853610 AAGTTTTATT
48853620 GAGCTGAACAGTAAGCTCTTTC
1 GAGCTGAACAGTAAGCTCTTTC
* **
48853642 GAGCTGAATCGGTAAGCTCCGAT-
1 GAGCTGAA-CAGTAAGCT-CTTTC
*
48853665 GAGCTGAAACAGTAAGCTCTTAC
1 GAGCTG-AACAGTAAGCTCTTTC
48853688 GAGCT
1 GAGCT
48853693 ATGGTGAGTC
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
22 9 0.22
23 27 0.68
24 4 0.10
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (22 bp):
GAGCTGAACAGTAAGCTCTTTC
Found at i:48855301 original size:29 final size:29
Alignment explanation
Indices: 48855240--48855329 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 29
48855230 CACATACCTG
*
48855240 TATATGGCCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
48855268 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
** *
48855297 TATATGTTCCATTAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
48855326 TATA
1 TATA
48855330 GTCATGCTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 18 0.32
29 39 0.68
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:48860702 original size:40 final size:39
Alignment explanation
Indices: 48860618--48860881 Score: 275
Period size: 40 Copynumber: 6.6 Consensus size: 39
48860608 TTGAATGATG
* * *
48860618 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* * * *
48860658 TCCGGACTAAGATCTGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAA
* *
48860698 TCCGGGTTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAA
*
48860737 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAA
* *
48860776 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAA
* * *
48860816 TCCGGGTTAAGTCCCGAAGGCATTTTTGTGA-ATTACTATAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
48860857 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
48860882 AACGAGGAGC
Statistics
Matches: 197, Mismatches: 22, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
39 72 0.37
40 113 0.57
41 11 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:48860718 original size:39 final size:40
Alignment explanation
Indices: 48860673--48860881 Score: 291
Period size: 40 Copynumber: 5.3 Consensus size: 40
48860663 ACTAAGATCT
*
48860673 GAAGGCATTTGTGCGAGATACTAATTCCGGGTTAAG-CCC
1 GAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTCCC
* *
48860712 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCC
1 GAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTCCC
*
48860751 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTCCC
*
48860791 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTCCC
* * * *
48860831 GAAGGCATTTTTGTGA-ATTACTATAA-CCGGGCTATGTCCC
1 GAAGGCATTTGTGCGAGA-TACTA-AATCCGGGTTAAGTCCC
48860871 GAAGGCATTTG
1 GAAGGCATTTG
48860882 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 71 0.45
40 84 0.54
41 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTCCC
Found at i:48868826 original size:40 final size:40
Alignment explanation
Indices: 48868588--48868812 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
48868578 TTGAATGATG
* * * *
48868588 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
48868628 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
48868668 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48868707 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48868747 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
48868788 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48868813 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48868834 original size:119 final size:119
Alignment explanation
Indices: 48868588--48868845 Score: 285
Period size: 119 Copynumber: 2.2 Consensus size: 119
48868578 TTGAATGATG
* *
48868588 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
48868653 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
* * * **
48868707 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
48868770 TTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAA
* *
48868827 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
48868846 TACGTGATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
118 4 0.03
119 82 0.69
120 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:48871973 original size:56 final size:56
Alignment explanation
Indices: 48871913--48872037 Score: 162
Period size: 56 Copynumber: 2.2 Consensus size: 56
48871903 TCTTACTCAT
* * *
48871913 ACACATATATCGGAGTTACATATCGATGCCAACGCATTAAACGTGGTATTATTCA-C
1 ACACATATATCGAAGTCACATATCGATGCCAACGCATTAAACGTGGTATTACT-AGC
* * * * *
48871969 ACACATATATAGAAGTCACATATCGATGCTAACGTATTAAATGTGGTCTTACTAGC
1 ACACATATATCGAAGTCACATATCGATGCCAACGCATTAAACGTGGTATTACTAGC
48872025 ACACATATATCGA
1 ACACATATATCGA
48872038 TGCCATGGTC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 1 0.02
56 58 0.98
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (56 bp):
ACACATATATCGAAGTCACATATCGATGCCAACGCATTAAACGTGGTATTACTAGC
Found at i:48876322 original size:14 final size:13
Alignment explanation
Indices: 48876299--48876330 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
48876289 AGAATATCAA
48876299 AACAATAATTAAG
1 AACAATAATTAAG
48876312 AACACATAATTAAG
1 AACA-ATAATTAAG
48876326 AACAA
1 AACAA
48876331 GTAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:48879239 original size:40 final size:40
Alignment explanation
Indices: 48879172--48879348 Score: 243
Period size: 40 Copynumber: 4.5 Consensus size: 40
48879162 AACCAAGCAT
*
48879172 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
48879211 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
48879251 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
48879291 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
48879331 CTTCGGGTCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
48879349 TTATCATCCG
Statistics
Matches: 121, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 105 0.87
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:48887427 original size:40 final size:40
Alignment explanation
Indices: 48887360--48887536 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
48887350 ACCCAAGCAT
*
48887360 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
48887399 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
48887439 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
48887479 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
48887519 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
48887537 TTATCATCCG
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 104 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:48910400 original size:40 final size:40
Alignment explanation
Indices: 48910333--48910509 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
48910323 ACCCAAGCAT
*
48910333 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
48910372 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
48910412 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
48910452 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
48910492 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
48910510 TTATCATCCG
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 104 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:48926442 original size:16 final size:15
Alignment explanation
Indices: 48926421--48926464 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
48926411 TAAAATAATC
*
48926421 TAAATAAAAAAATGAA
1 TAAATAAAAAAAAG-A
*
48926437 TTAATAAGAAAAAAGA
1 TAAATAA-AAAAAAGA
48926453 TAAATAAAAAAA
1 TAAATAAAAAAA
48926465 GAAATGGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 5 0.21
16 13 0.54
17 6 0.25
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (15 bp):
TAAATAAAAAAAAGA
Found at i:48927510 original size:24 final size:24
Alignment explanation
Indices: 48927456--48927616 Score: 135
Period size: 24 Copynumber: 6.6 Consensus size: 24
48927446 TAAATATACG
* *
48927456 TGGCACTAAGTGTGTGGATTTTGAA
1 TGGCACTATGTGTGCGGA-TTTGAA
*
48927481 TGGCACTATGTGTGCGGAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
48927505 TAGCACTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * * * *
48927529 TGTCAATACGAGTGTGTGGATTTCTAA
1 TGGCACTA--TGTGTGCGGATTT-GAA
* * * *
48927556 -GGCATTATGTGTGCGGGTTAGCA
1 TGGCACTATGTGTGCGGATTTGAA
*
48927579 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
48927603 TAGCACTATGTGTG
1 TGGCACTATGTGTG
48927617 TGAAATTGAT
Statistics
Matches: 104, Mismatches: 28, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
23 1 0.01
24 70 0.67
25 16 0.15
26 15 0.14
27 2 0.02
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.34
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:48927618 original size:74 final size:75
Alignment explanation
Indices: 48927464--48927603 Score: 187
Period size: 74 Copynumber: 1.9 Consensus size: 75
48927454 CGTGGCACTA
* *
48927464 AGTGTGTGGATTTTGAATGGCACTATGTGTGCGGAATTGAATAGCACTATGTGTGCTGATTTGAA
1 AGTGTGTGGATTTTGAATGGCACTATGTGTGCGGAATTGAATAGCACTAAGTGTGCGGATTTGAA
48927529 TGTCAATACG
66 TGTCAATACG
* * * *
48927539 AGTGTGTGGATTTCT-AA-GGCATTATGTGTGCGG-GTTAGCATGGCACTAAGTGTGCGGATTTG
1 AGTGTGTGGATTT-TGAATGGCACTATGTGTGCGGAATT-GAATAGCACTAAGTGTGCGGATTTG
48927601 AAT
64 AAT
48927604 AGCACTATGT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
73 2 0.04
74 39 0.68
75 15 0.26
76 1 0.02
ACGTcount: A:0.24, C:0.11, G:0.31, T:0.34
Consensus pattern (75 bp):
AGTGTGTGGATTTTGAATGGCACTATGTGTGCGGAATTGAATAGCACTAAGTGTGCGGATTTGAA
TGTCAATACG
Found at i:48941874 original size:28 final size:28
Alignment explanation
Indices: 48941836--48941893 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
48941826 ATGAAAACAC
*
48941836 ATTAAAAAATGTCAGGAGTTATCAAACT
1 ATTAAAAAATGTCAGGAGTAATCAAACT
* * * *
48941864 ATTAAAGAATGTTAGGCGTAATCACACT
1 ATTAAAAAATGTCAGGAGTAATCAAACT
48941892 AT
1 AT
48941894 CACAATTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (28 bp):
ATTAAAAAATGTCAGGAGTAATCAAACT
Found at i:48943534 original size:23 final size:23
Alignment explanation
Indices: 48943403--48943537 Score: 107
Period size: 23 Copynumber: 5.7 Consensus size: 23
48943393 GACATGGTCG
48943403 GTAAGCTCTTCATGAGCTGATAAACA
1 GTAAGCTCTT-ATGAGCTG--AAACA
* *
48943429 GTAAGGTC-TATTGAGCTGAAAAGA
1 GTAAGCTCTTA-TGAGCTG-AAACA
48943453 GTAAGCTC-TATTGAGCTG-AACA
1 GTAAGCTCTTA-TGAGCTGAAACA
* * *
48943475 GTAAGCT-TTTTCGAGCTGAATCG
1 GTAAGCTCTTAT-GAGCTGAAACA
** *
48943498 GTAAGCTCCAATGAGTTGAAACA
1 GTAAGCTCTTATGAGCTGAAACA
48943521 GTAAGCTCTTATGAGCT
1 GTAAGCTCTTATGAGCT
48943538 ATGGTGAGTC
Statistics
Matches: 87, Mismatches: 17, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
21 1 0.01
22 17 0.20
23 31 0.36
24 23 0.26
25 8 0.09
26 7 0.08
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (23 bp):
GTAAGCTCTTATGAGCTGAAACA
Found at i:48943537 original size:46 final size:47
Alignment explanation
Indices: 48943414--48943537 Score: 121
Period size: 46 Copynumber: 2.6 Consensus size: 47
48943404 TAAGCTCTTC
* *
48943414 ATGAGCTGATAAACAGTAAGGTC-TATTGAGCTGAAAAGAGTAAGCTCTA
1 ATGAGCTG--AAACAGTAAGCTCTTA-TGAGCTGAAAAGAGTAAGCTCCA
* * **
48943463 TTGAGCTG-AACAGTAAGCT-TTTTCGAGCTGAATCG-GTAAGCTCCA
1 ATGAGCTGAAACAGTAAGCTCTTAT-GAGCTGAAAAGAGTAAGCTCCA
*
48943508 ATGAGTTGAAACAGTAAGCTCTTATGAGCT
1 ATGAGCTGAAACAGTAAGCTCTTATGAGCT
48943538 ATGGTGAGTC
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
45 16 0.26
46 36 0.58
47 3 0.05
49 7 0.11
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (47 bp):
ATGAGCTGAAACAGTAAGCTCTTATGAGCTGAAAAGAGTAAGCTCCA
Found at i:48954622 original size:27 final size:26
Alignment explanation
Indices: 48954583--48954687 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 26
48954573 GGAAGCGTAC
*
48954583 TGGTGGCTATGCCACAATTATCTGATT
1 TGGTGGCTCTGCCAC-ATTATCTGATT
48954610 TGGTGGCTCTGCCACATATATCT-ATT
1 TGGTGGCTCTGCCACAT-TATCTGATT
* *
48954636 CTGGTGGCTCTACCACGATTATCTGTATC
1 -TGGTGGCTCTGCCAC-ATTATCTG-ATT
* *
48954665 TGGTGACTCTGTCACATTATCTG
1 TGGTGGCTCTGCCACATTATCTG
48954688 TTCTGGCAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
26 5 0.07
27 46 0.69
28 14 0.21
29 2 0.03
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGATT
Found at i:48954686 original size:54 final size:54
Alignment explanation
Indices: 48954582--48954693 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
48954572 AGGAAGCGTA
* * *
48954582 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATACCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * * *
48954636 CTGGTGGCTCTACCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATACCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
48954690 CTGG
1 CTGG
48954694 CAGCCATACT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATACCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:48961044 original size:39 final size:40
Alignment explanation
Indices: 48960840--48961062 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
48960830 TTGAATGCTG
* * * * * *
48960840 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
48960880 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
48960920 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
48960960 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
48961000 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
48961039 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
48961063 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:48961082 original size:79 final size:80
Alignment explanation
Indices: 48960915--48961097 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
48960905 GTGCGAGATA
* * *
48960915 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
48960980 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
48960995 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
48961059 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
48961074 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
48961098 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:48963370 original size:47 final size:47
Alignment explanation
Indices: 48963307--48963888 Score: 939
Period size: 47 Copynumber: 12.4 Consensus size: 47
48963297 CCCTTCGGGA
* *
48963307 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
48963354 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
48963401 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
48963448 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
48963495 CTTATCACATGTACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
48963542 CTTACCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
48963589 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCAGTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
48963636 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
48963683 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
48963730 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
48963777 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
** *
48963824 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
48963871 CTTATCACATATACACAC
1 CTTATCACATATATACAC
48963889 CTTGTACATC
Statistics
Matches: 498, Mismatches: 37, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 498 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:48963739 original size:22 final size:22
Alignment explanation
Indices: 48963711--48963833 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
48963701 TTTCACATTC
48963711 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
48963733 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
*
48963757 CATCACATTGGCCACTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
** * * *
48963780 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
48963804 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
48963827 ATCACAT
1 ATCACAT
48963834 ATATACACTT
Statistics
Matches: 69, Mismatches: 22, Indels: 20
0.62 0.20 0.18
Matches are distributed among these distances:
22 28 0.41
23 10 0.14
24 10 0.14
25 21 0.30
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:48970082 original size:27 final size:26
Alignment explanation
Indices: 48970042--48970153 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
48970032 AGGAAGCGTC
*
48970042 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTTTGCCAC-ATTATCTGAT
*
48970069 CTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTTTGCCACAT-TATCTGAT
*
48970096 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTTTGCCAC-ATTATCTG-AT
* * *
48970124 CTGGTGACTTTGTCACATTATCTGTT
1 CTGGTGGCTTTGCCACATTATCTGAT
48970150 CTGG
1 CTGG
48970154 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTTTGCCACATTATCTGAT
Found at i:48970146 original size:54 final size:54
Alignment explanation
Indices: 48970042--48970153 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
48970032 AGGAAGCGTC
*
48970042 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTTTGCCACATATATCTGTT
* * *
48970096 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTTTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTTTGCCACATATATCTGTT
48970150 CTGG
1 CTGG
48970154 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTTTGCCACATATATCTGTT
Found at i:48971320 original size:43 final size:43
Alignment explanation
Indices: 48971267--48971437 Score: 193
Period size: 43 Copynumber: 4.0 Consensus size: 43
48971257 ACATAGGATT
* * *
48971267 TCGATATGTGATTTCATGTAAGATCACATATGGGACATTGGCA
1 TCGATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCA
* * *
48971310 TCGATTTGTGATTTACATGTAAGACCATGTCTAGGACATTGGCA
1 TCGATATGTGATTT-CATGTAAGACCACGTCTGGGACATTGGCA
* * * * *
48971354 TTG-TATATGAGTTCGTGTAAGACC-CTGTCTGGGACAGTGGCA
1 TCGATATGTGATTTCATGTAAGACCAC-GTCTGGGACATTGGCA
* *
48971396 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGC
1 TCGATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGC
48971438 CTTGTACGAG
Statistics
Matches: 103, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
42 26 0.25
43 50 0.49
44 27 0.26
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
TCGATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCA
Found at i:48981543 original size:43 final size:42
Alignment explanation
Indices: 48981488--48981656 Score: 135
Period size: 43 Copynumber: 4.0 Consensus size: 42
48981478 ACATAGGATT
*
48981488 TCGATATTTGATTTCATGTAAGATCACATCTGGGACATTGGCA
1 TCGATATGTGATTTCATGTAAGA-CACATCTGGGACATTGGCA
* * * *
48981531 TCGATTTGTGATTTACGTGTAAGAC-CATGTGGGACATTGCCA
1 TCGATATGTGATTT-CATGTAAGACACATCTGGGACATTGGCA
* * * * * * *
48981573 TTG-TATATGAGTTCATGTAAGACCCTGTCTGGGTCAGTGGCA
1 TCGATATGTGATTTCATGTAAGACAC-ATCTGGGACATTGGCA
* * * * *
48981615 CCGATATGTGATTACATGTAAGACCACGTTTGGGACGTTGGC
1 TCGATATGTGATTTCATGTAAGA-CACATCTGGGACATTGGC
48981657 GTTGTACGAG
Statistics
Matches: 96, Mismatches: 25, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
40 9 0.09
41 8 0.08
42 29 0.30
43 40 0.42
44 10 0.10
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (42 bp):
TCGATATGTGATTTCATGTAAGACACATCTGGGACATTGGCA
Found at i:48981553 original size:44 final size:41
Alignment explanation
Indices: 48981488--48981640 Score: 130
Period size: 42 Copynumber: 3.6 Consensus size: 41
48981478 ACATAGGATT
48981488 TCGATATTTGATTTCATGTAAGATCACATCTGGGACATTGGCA
1 TCGATATTTGATTTCATGTAAGA-C-CATCTGGGACATTGGCA
* * *
48981531 TCGAT-TTGTGATTTACGTGTAAGACCATGTGGGACATTGCCA
1 TCGATATT-TGATTT-CATGTAAGACCATCTGGGACATTGGCA
* * * * * *
48981573 TTG-TATATGAGTTCATGTAAGACCCTGTCTGGGTCAGTGGCA
1 TCGATATTTGATTTCATGTAAGA-CC-ATCTGGGACATTGGCA
* * *
48981615 CCGATATGTGATTACATGTAAGACCA
1 TCGATATTTGATTTCATGTAAGACCA
48981641 CGTTTGGGAC
Statistics
Matches: 86, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
40 8 0.09
41 8 0.09
42 34 0.40
43 28 0.33
44 8 0.09
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (41 bp):
TCGATATTTGATTTCATGTAAGACCATCTGGGACATTGGCA
Found at i:49016747 original size:40 final size:41
Alignment explanation
Indices: 49016681--49016781 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 41
49016671 GTGTAAACAA
* * ** *
49016681 GGGCACGTATGT-CAATT-AGGGGTACCGAAGTACTGATAG
1 GGGCACGTATGTGCAATTCAGAGGTACCGAAGGACAAATAC
49016720 GGGCACGTATGTGCAATTCA-AGGTACCGAAGGACAAATAC
1 GGGCACGTATGTGCAATTCAGAGGTACCGAAGGACAAATAC
* *
49016760 GAGCACATATGTGCAATTCAGA
1 GGGCACGTATGTGCAATTCAGA
49016782 AGTATAATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 12 0.23
40 38 0.73
41 2 0.04
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
GGGCACGTATGTGCAATTCAGAGGTACCGAAGGACAAATAC
Found at i:49024081 original size:49 final size:51
Alignment explanation
Indices: 49023935--49024082 Score: 183
Period size: 51 Copynumber: 2.9 Consensus size: 51
49023925 TCTATTGTGA
* *
49023935 GGTCACATGTGTAGTACTAAGTGCATGCTACTATGTGTACCCGATAACTTC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTTC
* * * * **
49023986 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACTGGATAA-TT-
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTTC
* * *
49024035 GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACCAGATAAC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAAC
49024083 CTTGTCTACA
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
49 38 0.47
50 2 0.03
51 40 0.50
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTTC
Found at i:49030963 original size:27 final size:27
Alignment explanation
Indices: 49030933--49030988 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
49030923 ATATTTCGAG
49030933 ATAGGGTTCATGTATGAAATTTGACCC
1 ATAGGGTTCATGTATGAAATTTGACCC
49030960 ATAGGGTTCATGTATGAAATTTGACCC
1 ATAGGGTTCATGTATGAAATTTGACCC
49030987 AT
1 AT
49030989 GTGGGACATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (27 bp):
ATAGGGTTCATGTATGAAATTTGACCC
Found at i:49030998 original size:27 final size:27
Alignment explanation
Indices: 49030941--49030999 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
49030931 AGATAGGGTT
**
49030941 CATGTATGAAATTTGACCCATAGGGTT
1 CATGTATGAAATTTGACCCATAGGGGA
49030968 CATGTATGAAATTTGACCCAT-GTGGGA
1 CATGTATGAAATTTGACCCATAG-GGGA
49030995 CATGT
1 CATGT
49031000 TTGTATTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (27 bp):
CATGTATGAAATTTGACCCATAGGGGA
Found at i:49035913 original size:27 final size:27
Alignment explanation
Indices: 49035878--49036049 Score: 236
Period size: 27 Copynumber: 6.4 Consensus size: 27
49035868 AGGGGCTTTT
*
49035878 CAATCATTTTACCACATAAAGGAAAAA
1 CAATCATTTTACCACATAAGGGAAAAA
* *
49035905 CAGTTATTTTACCACATAAGGGAAAAA
1 CAATCATTTTACCACATAAGGGAAAAA
**
49035932 CAATCATTTTACCACATAAAAGAAAAA
1 CAATCATTTTACCACATAAGGGAAAAA
* *
49035959 CAATCATTTTACAACATAAGGGCAAAA
1 CAATCATTTTACCACATAAGGGAAAAA
* * *
49035986 CAGTCATGTTACCACATAAGGGCAAAA
1 CAATCATTTTACCACATAAGGGAAAAA
49036013 CAATCATTTTACCACATAAGGGAAAAA
1 CAATCATTTTACCACATAAGGGAAAAA
* *
49036040 TAGTCATTTT
1 CAATCATTTT
49036050 GATCAATCAA
Statistics
Matches: 126, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.47, C:0.18, G:0.11, T:0.24
Consensus pattern (27 bp):
CAATCATTTTACCACATAAGGGAAAAA
Found at i:49039632 original size:5 final size:5
Alignment explanation
Indices: 49039622--49039646 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
49039612 CAAGCTATAC
49039622 GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA
49039647 ACTAATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:49041803 original size:30 final size:29
Alignment explanation
Indices: 49041760--49041823 Score: 119
Period size: 30 Copynumber: 2.2 Consensus size: 29
49041750 CAAGTAGCCG
49041760 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
49041789 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
49041819 AAGCT
1 AAGCT
49041824 TCCGATTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:49048899 original size:30 final size:29
Alignment explanation
Indices: 49048856--49048919 Score: 119
Period size: 30 Copynumber: 2.2 Consensus size: 29
49048846 CAAGTAGCCG
49048856 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
49048885 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
49048915 AAGCT
1 AAGCT
49048920 TCCGATTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:49052944 original size:112 final size:112
Alignment explanation
Indices: 49052741--49052946 Score: 297
Period size: 112 Copynumber: 1.8 Consensus size: 112
49052731 AGAATATGTG
*
49052741 GCATCGATATGTGACTTTGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATA
1 GCATCGATATGTGACTTCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATA
* * *
49052806 TTTGATTCCGATATATGTGTGCGAGTAAGTCCACATTTAATACGTTT
66 TGTGATTCCAATATATGTGTACGAGTAAGTCCACATTTAATACGTTT
* * *
49052853 GCATCGATATGTGA-TTCCGATATATGTGTGCGAGTAAGTCCACGTTTCATACGTTGGTATCGAT
1 GCATCGATATGTGACTT-CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGAT
* * * *
49052917 ATGTGATTCTAATATGTGTTTATGAGTAAG
65 ATGTGATTCCAATATATGTGTACGAGTAAG
49052947 ACCCTATCTG
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
111 2 0.02
112 80 0.98
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (112 bp):
GCATCGATATGTGACTTCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATA
TGTGATTCCAATATATGTGTACGAGTAAGTCCACATTTAATACGTTT
Done.