Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 139 of 318
Found at i:43082454 original size:45 final size:45
Alignment explanation
Indices: 43082392--43082620 Score: 243
Period size: 45 Copynumber: 5.1 Consensus size: 45
43082382 GAAAGGCGAT
* *
43082392 ATCTGCTATATTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
43082437 ATCTGGTATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
43082482 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * * * *
43082526 ATCTG-TCATCTTTGATCTGCT--TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGCT-ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGCCAA
*
43082571 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTA--TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
43082618 ATC
1 ATC
43082621 ATCTTGGATC
Statistics
Matches: 150, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
43 7 0.05
44 44 0.29
45 68 0.45
46 1 0.01
47 19 0.13
48 5 0.03
49 6 0.04
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:43082575 original size:89 final size:90
Alignment explanation
Indices: 43082406--43082620 Score: 253
Period size: 89 Copynumber: 2.4 Consensus size: 90
43082396 GCTATATTTG
*
43082406 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGGTATCTTCGATCTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGGTATCTTCGATCTGCT-CCCGTCTAATAC
*
43082471 AGAGACACCAAATCTGC-T-TCTTCA
65 ACAGACACCAAATCTGCATGTCTTCA
* * *
43082495 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCT-GTCATCTTTGATCTGCT-TCGATGTAA-A
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGGT-ATCTTCGATCTGCTCCCG-TCTAATA
* * *
43082557 CACATGA-AGGTCAGATCTGCTATGTCTTCG
64 CACA-GACA--CCAAATCTGC-ATGTCTTCA
43082587 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
43082621 ATCTTGGATC
Statistics
Matches: 110, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
87 7 0.06
88 8 0.07
89 55 0.50
91 1 0.01
92 39 0.35
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (90 bp):
ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGGTATCTTCGATCTGCTCCCGTCTAATACA
CAGACACCAAATCTGCATGTCTTCA
Found at i:43082691 original size:78 final size:78
Alignment explanation
Indices: 43082560--43083098 Score: 803
Period size: 78 Copynumber: 6.8 Consensus size: 78
43082550 ATGTAAACAC
43082560 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
43082625 TGGATCTACTTCA
66 TGGATCTGCTTCA
* * *
43082638 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
43082702 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
*
43082716 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
43082781 TGGATCTGCTTCGATGTAAACA
66 TGGATCTG---C--T-T---CA
* *
43082803 CATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATTATC
1 -ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
43082868 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * *
43082882 ATGAAGGTTAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
43082947 TGGATCTACTTCA
66 TGGATCTGCTTCA
*
43082960 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
43083025 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * * *
43083038 ATGAAAGTCAGATCTGCTATGTCTTTGATCTGCTCTCCGTCGAATA-TGTAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAG-AGATGCCAAATC
43083099 TGTTTCTTTG
Statistics
Matches: 422, Mismatches: 26, Indels: 26
0.89 0.05 0.05
Matches are distributed among these distances:
77 3 0.01
78 337 0.80
79 4 0.01
81 1 0.00
82 1 0.00
83 2 0.00
84 1 0.00
85 1 0.00
87 2 0.00
88 70 0.17
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:43082928 original size:244 final size:244
Alignment explanation
Indices: 43082489--43083036 Score: 954
Period size: 244 Copynumber: 2.2 Consensus size: 244
43082479 CAAATCTGCT
* *
43082489 TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTTGATCTGCTTCGATGT
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA----TCATCTTGGATCTGCTTCGATGT
*
43082554 AAACACATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA
62 AAACACATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA
*
43082619 TCATCTTGGATCTACTTCAATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATA
127 TCATCTTGGATCTACTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATA
*
43082684 CAAAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTG
192 CAAAGATGCCAAATCATCTTGGATCTACTTCAATGAAGGTCAGATCTGCTGTG
43082737 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCGATGTAAAC
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCGATGTAAAC
*
43082802 ACATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATTAT
66 ACATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCAT
* * * *
43082867 CTTGGATCTGCTTCAATGAAGGT-TAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAG
131 CTTGGATCTACTTCAATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAA
43082931 AGATGCCAAATCATCTTGGATCTACTTCAATGAAGGTCAGATCTGCTGTG
195 AGATGCCAAATCATCTTGGATCTACTTCAATGAAGGTCAGATCTGCTGTG
43082981 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTC
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTC
43083037 AATGAAAGTC
Statistics
Matches: 289, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
243 1 0.00
244 251 0.87
248 37 0.13
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (244 bp):
TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCGATGTAAAC
ACATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCAT
CTTGGATCTACTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAAA
GATGCCAAATCATCTTGGATCTACTTCAATGAAGGTCAGATCTGCTGTG
Found at i:43094938 original size:13 final size:13
Alignment explanation
Indices: 43094920--43094944 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43094910 GCAATAAGGT
43094920 AACAAACATATGC
1 AACAAACATATGC
43094933 AACAAACATATG
1 AACAAACATATG
43094945 TAAAAATAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.20, G:0.08, T:0.16
Consensus pattern (13 bp):
AACAAACATATGC
Found at i:43095668 original size:16 final size:17
Alignment explanation
Indices: 43095647--43095680 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
43095637 GATATGATAC
*
43095647 TAAAAT-TATTAAAAAA
1 TAAAATATATAAAAAAA
43095663 TAAAATATATAAAAAAA
1 TAAAATATATAAAAAAA
43095680 T
1 T
43095681 TCAAGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATATATAAAAAAA
Found at i:43096026 original size:35 final size:37
Alignment explanation
Indices: 43095970--43096060 Score: 150
Period size: 35 Copynumber: 2.5 Consensus size: 37
43095960 AATCGTATCT
43095970 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCATA
43096007 TCTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCATA
43096043 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
43096061 TGAAGATTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
35 19 0.37
36 16 0.31
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCATA
Found at i:43096068 original size:17 final size:19
Alignment explanation
Indices: 43095970--43096060 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
43095960 AATCGTATCT
43095970 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
43095989 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
43096007 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
43096024 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
43096043 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
43096061 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:43099684 original size:23 final size:24
Alignment explanation
Indices: 43099653--43099708 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
43099643 ACGTAACTCC
*
43099653 ATGTGATGCCTT-TGTGGCGTACT
1 ATGTAATGCCTTGTGTGGCGTACT
* *
43099676 CTGTAATG-CTTGTGTGGCGTATT
1 ATGTAATGCCTTGTGTGGCGTACT
43099699 ATGTAATGCC
1 ATGTAATGCC
43099709 CTAGAGGTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 3 0.11
23 23 0.85
24 1 0.04
ACGTcount: A:0.16, C:0.16, G:0.29, T:0.39
Consensus pattern (24 bp):
ATGTAATGCCTTGTGTGGCGTACT
Found at i:43114332 original size:92 final size:93
Alignment explanation
Indices: 43114220--43114390 Score: 299
Period size: 92 Copynumber: 1.8 Consensus size: 93
43114210 CGCCCATAAG
* * *
43114220 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
43114285 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
43114313 CGAACTC-GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
43114377 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
43114391 TCGACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 67 0.91
93 7 0.09
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:43114387 original size:46 final size:46
Alignment explanation
Indices: 43114213--43114387 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
43114203 TGTAACCCGC
* * *
43114213 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
43114259 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
43114309 -C-TCA-CGAACTC-GACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
43114351 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
43114388 TGCTCGACCA
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
43 2 0.02
44 2 0.02
45 6 0.06
46 78 0.72
47 6 0.06
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:43119887 original size:21 final size:22
Alignment explanation
Indices: 43119843--43119896 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
43119833 TCAAATTTGA
* * *
43119843 TTATTTTTAGTTTTTATATTTT
1 TTATATTTATTTTTTATATGTT
43119865 TTATATTTATTTTTTATA-GTT
1 TTATATTTATTTTTTATATGTT
*
43119886 TTAAATTTATT
1 TTATATTTATT
43119897 ATTGATAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (22 bp):
TTATATTTATTTTTTATATGTT
Found at i:43120676 original size:17 final size:17
Alignment explanation
Indices: 43120665--43120697 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
43120655 AATAAATATG
43120665 AAAA-AAATATAAAAAT
1 AAAATAAATATAAAAAT
43120681 AAAATAAATA-AAAAAT
1 AAAATAAATATAAAAAT
43120697 A
1 A
43120698 CAAAGAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATAAATATAAAAAT
Found at i:43128550 original size:6 final size:6
Alignment explanation
Indices: 43128539--43128565 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
43128529 AAGGCCAAAG
43128539 TGATAT TGATAT TGATAT TGATAT TGA
1 TGATAT TGATAT TGATAT TGATAT TGA
43128566 AAGGGCTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (6 bp):
TGATAT
Found at i:43136653 original size:19 final size:20
Alignment explanation
Indices: 43136624--43136661 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
43136614 AGAGACTAAA
43136624 ATGTATAAATTTTGAAATTG
1 ATGTATAAATTTTGAAATTG
*
43136644 ATGT-TAAATTTTGTAATT
1 ATGTATAAATTTTGAAATT
43136662 ATAGATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (20 bp):
ATGTATAAATTTTGAAATTG
Found at i:43140170 original size:47 final size:47
Alignment explanation
Indices: 43140047--43140171 Score: 151
Period size: 47 Copynumber: 2.7 Consensus size: 47
43140037 CGATAAGTAT
* * **
43140047 CTATACCATGGCCCGTAGCCAAATCAAGGAAACTTATCCCGGAATAC
1 CTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAATAC
* * * *
43140094 CTATACCATGGCCCTTAGCCAAATTAAGGTAACTCCTCTCAAAATAC
1 CTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAATAC
* * *
43140141 TTATATCATGGCTCGTAGCCAAATCAAGGTA
1 CTATACCATGGCCCGTAGCCAAATCAAGGTA
43140172 TTATTCGCAC
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (47 bp):
CTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAATAC
Found at i:43144182 original size:23 final size:23
Alignment explanation
Indices: 43144137--43144184 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
43144127 GAGTAAACCA
*
43144137 TTTTATTTTTTTATTTCATTTAG
1 TTTTATTTTTTTATTTCAATTAG
*
43144160 TTTTCTTTTTTTAATTT-AATTAG
1 TTTTATTTTTTT-ATTTCAATTAG
43144183 TT
1 TT
43144185 AAAGTTGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (23 bp):
TTTTATTTTTTTATTTCAATTAG
Found at i:43148647 original size:27 final size:28
Alignment explanation
Indices: 43148617--43148688 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 28
43148607 ACACGTCAAG
*
43148617 AAAGAAAGA-CCTTTATGGCGAACTCTA
1 AAAGAAAGAGCCTTTATGGAGAACTCTA
* *
43148644 AAAGAAA-AGCCTTTTTGGAGAACTCTG
1 AAAGAAAGAGCCTTTATGGAGAACTCTA
*
43148671 GAAG-AAGAGCCTTTATGG
1 AAAGAAAGAGCCTTTATGG
43148689 TGAATTCTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
26 3 0.08
27 35 0.92
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (28 bp):
AAAGAAAGAGCCTTTATGGAGAACTCTA
Found at i:43148697 original size:27 final size:27
Alignment explanation
Indices: 43148616--43148697 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
43148606 AACACGTCAA
*
43148616 GAAAGAA-AGACCTTTATGGCGAACTCT
1 GAAAGAAGAG-CCTTTATGGAGAACTCT
* * *
43148643 AAAAGAAAAGCCTTTTTGGAGAACTCT
1 GAAAGAAGAGCCTTTATGGAGAACTCT
* * *
43148670 GGAAGAAGAGCCTTTATGGTGAATTCT
1 GAAAGAAGAGCCTTTATGGAGAACTCT
43148697 G
1 G
43148698 TATGGACTGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 43 0.96
28 2 0.04
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (27 bp):
GAAAGAAGAGCCTTTATGGAGAACTCT
Found at i:43153052 original size:25 final size:24
Alignment explanation
Indices: 43153014--43153061 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
43153004 TTTTATTAGT
*
43153014 ATTTTTTTACTTTTTGATTTTATG
1 ATTTTTTTAATTTTTGATTTTATG
*
43153038 ATTTTTTATAATTTTTTATTTTAT
1 ATTTTTT-TAATTTTTGATTTTAT
43153062 TTTCAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (24 bp):
ATTTTTTTAATTTTTGATTTTATG
Found at i:43153080 original size:9 final size:9
Alignment explanation
Indices: 43153066--43153090 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
43153056 TTTTATTTTC
43153066 AATTAATTA
1 AATTAATTA
43153075 AATTAATTA
1 AATTAATTA
43153084 AATTAAT
1 AATTAAT
43153091 AATTAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AATTAATTA
Found at i:43154748 original size:3 final size:3
Alignment explanation
Indices: 43154740--43154770 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
43154730 TTTAAGCCTC
43154740 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
43154771 ACACCATCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:43164391 original size:28 final size:28
Alignment explanation
Indices: 43164351--43164408 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
43164341 AATCTATGCA
43164351 ATTGAGCCATTGACTTCAAGTTAATTCT
1 ATTGAGCCATTGACTTCAAGTTAATTCT
43164379 ATTGAGCCATTGACTTCAAGTTAATTCT
1 ATTGAGCCATTGACTTCAAGTTAATTCT
43164407 AT
1 AT
43164409 GTAAATCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (28 bp):
ATTGAGCCATTGACTTCAAGTTAATTCT
Found at i:43164571 original size:5 final size:6
Alignment explanation
Indices: 43164559--43164583 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
43164549 ATAAATTTAA
43164559 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
43164584 CCTTCCTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:43164643 original size:14 final size:15
Alignment explanation
Indices: 43164626--43164654 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43164616 TCCTCTCCCA
43164626 TTTCTT-TTTTCTTT
1 TTTCTTCTTTTCTTT
43164640 TTTCTTCTTTTCTTT
1 TTTCTTCTTTTCTTT
43164655 CTGTTATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTCTTCTTTTCTTT
Found at i:43186984 original size:34 final size:35
Alignment explanation
Indices: 43186938--43187006 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 35
43186928 GCATAGTTAA
* **
43186938 AACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGT
1 AACAGTCTTGGGCCTAAGCCCATCACAGTATCAGT
*
43186973 AACAGT-TTGGGCCTTAGCCCATCACAGTATCAGT
1 AACAGTCTTGGGCCTAAGCCCATCACAGTATCAGT
43187007 GTCAGTCATG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 24 0.80
35 6 0.20
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (35 bp):
AACAGTCTTGGGCCTAAGCCCATCACAGTATCAGT
Found at i:43190827 original size:20 final size:20
Alignment explanation
Indices: 43190798--43190881 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
43190788 GAATTATTGC
* *
43190798 ACTTATGTGCCCCTGTTTGT
1 ACTTACGTGCCCCTATTTGT
43190818 ACTTACGTGCCCCTATTTGT
1 ACTTACGTGCCCCTATTTGT
* * * *
43190838 ACTT-CGATACCCTTAATTGC
1 ACTTACG-TGCCCCTATTTGT
* *
43190858 ACTTATGTGCCCCTGTTTGT
1 ACTTACGTGCCCCTATTTGT
43190878 ACTT
1 ACTT
43190882 CGATACCCCT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
19 2 0.04
20 47 0.94
21 1 0.02
ACGTcount: A:0.15, C:0.27, G:0.15, T:0.42
Consensus pattern (20 bp):
ACTTACGTGCCCCTATTTGT
Found at i:43190877 original size:40 final size:40
Alignment explanation
Indices: 43190818--43190914 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 40
43190808 CCCTGTTTGT
* * *
43190818 ACTTACGTGCCCCTATTTGTACTTCGATA-CCCTTAATTGC
1 ACTTATGTGCCCCTGTTTGTACTTCGATACCCCTGAA-TGC
43190858 ACTTATGTGCCCCTGTTTGTACTTCGATACCCCTGAATGC
1 ACTTATGTGCCCCTGTTTGTACTTCGATACCCCTGAATGC
*
43190898 A-TATCTGTGCCCCTGTT
1 ACT-TATGTGCCCCTGTT
43190915 GCACTTTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
39 1 0.02
40 44 0.86
41 6 0.12
ACGTcount: A:0.18, C:0.30, G:0.15, T:0.37
Consensus pattern (40 bp):
ACTTATGTGCCCCTGTTTGTACTTCGATACCCCTGAATGC
Found at i:43190890 original size:20 final size:20
Alignment explanation
Indices: 43190807--43190892 Score: 68
Period size: 20 Copynumber: 4.3 Consensus size: 20
43190797 CACTTATGTG
*
43190807 CCCCTGTTTGTACTTACGTG
1 CCCCTGTTTGTACTTACGTA
*
43190827 CCCCTATTTGTACTT-CGATA
1 CCCCTGTTTGTACTTACG-TA
* ** * * *
43190847 CCCTTAATTGCACTTATGTG
1 CCCCTGTTTGTACTTACGTA
43190867 CCCCTGTTTGTACTT-CGATA
1 CCCCTGTTTGTACTTACG-TA
43190887 CCCCTG
1 CCCCTG
43190893 AATGCATATC
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
19 3 0.06
20 46 0.92
21 1 0.02
ACGTcount: A:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (20 bp):
CCCCTGTTTGTACTTACGTA
Found at i:43194886 original size:32 final size:32
Alignment explanation
Indices: 43194850--43194958 Score: 78
Period size: 32 Copynumber: 3.2 Consensus size: 32
43194840 TTACAACATA
43194850 TAAAGTTCTTATTGAAATAGATTATTGCATTT
1 TAAAGTTCTTATTGAAATAGATTATTGCATTT
* * * * *
43194882 TAAAG-T-TTATACGAGCTTATATGGTTATTTACAACTTA
1 TAAAGTTCTTAT-TGA---AATA-GATTA-TTGC-A-TTT
*
43194920 TAAAGTTCTTATTGAAATAAATTATTGCATTT
1 TAAAGTTCTTATTGAAATAGATTATTGCATTT
43194952 TAAAGTT
1 TAAAGTT
43194959 TATACGAGCT
Statistics
Matches: 56, Mismatches: 11, Indels: 20
0.64 0.13 0.23
Matches are distributed among these distances:
30 4 0.07
31 3 0.05
32 14 0.25
33 1 0.02
34 6 0.11
35 7 0.12
36 6 0.11
37 1 0.02
38 7 0.12
39 3 0.05
40 4 0.07
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (32 bp):
TAAAGTTCTTATTGAAATAGATTATTGCATTT
Found at i:43194944 original size:70 final size:70
Alignment explanation
Indices: 43194830--43194970 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
43194820 AGGCATTGAC
*
43194830 ATATGGTTATTTACAACATATAAAGTTCTTATTGAAATAGATTATTGCATTTTAAAGTTTATACG
1 ATATGGTTATTTACAACATATAAAGTTCTTATTGAAATAAATTATTGCATTTTAAAGTTTATACG
43194895 AGCTT
66 AGCTT
*
43194900 ATATGGTTATTTACAACTTATAAAGTTCTTATTGAAATAAATTATTGCATTTTAAAGTTTATACG
1 ATATGGTTATTTACAACATATAAAGTTCTTATTGAAATAAATTATTGCATTTTAAAGTTTATACG
43194965 AGCTT
66 AGCTT
43194970 A
1 A
43194971 CTAAGCATTC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (70 bp):
ATATGGTTATTTACAACATATAAAGTTCTTATTGAAATAAATTATTGCATTTTAAAGTTTATACG
AGCTT
Found at i:43199017 original size:18 final size:18
Alignment explanation
Indices: 43198967--43199017 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
43198957 TCTTCCAGGG
43198967 TTAGGGTTTTTA-TTTTA
1 TTAGGGTTTTTATTTTTA
**
43198984 TTAGGG-TTAGAGTTTTTA
1 TTAGGGTTTTTA-TTTTTA
43199002 TTAGGGTTTTTATTTT
1 TTAGGGTTTTTATTTT
43199018 GGGTTTAGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
16 3 0.11
17 6 0.22
18 15 0.56
19 3 0.11
ACGTcount: A:0.18, C:0.00, G:0.22, T:0.61
Consensus pattern (18 bp):
TTAGGGTTTTTATTTTTA
Found at i:43207999 original size:18 final size:19
Alignment explanation
Indices: 43207976--43208012 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
43207966 GTTTCTTTTC
43207976 ACTTTCCCCA-TTTTTCCT
1 ACTTTCCCCACTTTTTCCT
*
43207994 ACTTTCTCCACTTTTTCCT
1 ACTTTCCCCACTTTTTCCT
43208013 TCACGTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.11, C:0.38, G:0.00, T:0.51
Consensus pattern (19 bp):
ACTTTCCCCACTTTTTCCT
Found at i:43211060 original size:47 final size:47
Alignment explanation
Indices: 43210935--43211275 Score: 540
Period size: 47 Copynumber: 7.3 Consensus size: 47
43210925 CCCTTCGGGA
* * * *
43210935 CTTATCACATTTATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43210982 CTTATCTCATA-ATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43211028 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43211075 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43211122 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43211169 CTTATCACATATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
43211216 CTTGTCACATATATACAATTTCACATTCATTACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43211263 CTTATCACATATA
1 CTTATCACATATA
43211276 CATATCTTGT
Statistics
Matches: 271, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 40 0.15
47 231 0.85
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43214377 original size:28 final size:28
Alignment explanation
Indices: 43214337--43214434 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 28
43214327 AAACGAAATC
*
43214337 CGCACACACAGTGCCCACTGACCGATCT
1 CGCACACATAGTGCCCACTGACCGATCT
* * * **
43214365 CGCACACATAGTGCTCAGTTAAAGAAT-T
1 CGCACACATAGTGCCCACTGACCG-ATCT
*
43214393 CGCACACATAGTGTCCACTGACCGATCT
1 CGCACACATAGTGCCCACTGACCGATCT
43214421 CGCACACATAGTGC
1 CGCACACATAGTGC
43214435 TCGGTTAAAG
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
27 2 0.04
28 51 0.93
29 2 0.04
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (28 bp):
CGCACACATAGTGCCCACTGACCGATCT
Found at i:43214451 original size:28 final size:28
Alignment explanation
Indices: 43214364--43214466 Score: 111
Period size: 28 Copynumber: 3.6 Consensus size: 28
43214354 CTGACCGATC
43214364 TCGCACACATAGTGCTCAGTTAAAGAAT
1 TCGCACACATAGTGCTCAGTTAAAGAAT
* * **
43214392 TCGCACACATAGTG-TCCACTGACCG-AT
1 TCGCACACATAGTGCT-CAGTTAAAGAAT
*
43214419 CTCGCACACATAGTGCTCGGTTAAAGAAT
1 -TCGCACACATAGTGCTCAGTTAAAGAAT
*
43214448 TCGCACACACAGTGTCTCA
1 TCGCACACATAGTG-CTCA
43214467 ATTCATTCGC
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
27 3 0.05
28 50 0.85
29 6 0.10
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (28 bp):
TCGCACACATAGTGCTCAGTTAAAGAAT
Found at i:43214462 original size:56 final size:56
Alignment explanation
Indices: 43214337--43214463 Score: 227
Period size: 56 Copynumber: 2.3 Consensus size: 56
43214327 AAACGAAATC
*
43214337 CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCAGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCAGTTAAAGAATT
* *
43214393 CGCACACATAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCAGTTAAAGAATT
43214449 CGCACACACAGTGTC
1 CGCACACACAGTGTC
43214464 TCAATTCATT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 67 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.20
Consensus pattern (56 bp):
CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCAGTTAAAGAATT
Found at i:43214729 original size:40 final size:40
Alignment explanation
Indices: 43214669--43214819 Score: 266
Period size: 40 Copynumber: 3.8 Consensus size: 40
43214659 CACATCATCG
* * *
43214669 GCACGAATGCCCTTCAGGACTTAGCTCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
43214709 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
43214749 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
*
43214789 GCACGAATGCTCTTCGGGACTTAACCCGGAT
1 GCACGAATGCTCTTCGGGACTTAGCCCGGAT
43214820 CATCGTCGAG
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.21
Consensus pattern (40 bp):
GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
Found at i:43214902 original size:38 final size:38
Alignment explanation
Indices: 43214855--43214967 Score: 88
Period size: 38 Copynumber: 3.0 Consensus size: 38
43214845 GAAATCTCCA
*
43214855 CACAAAGCCAGCGAAT-TTTAACCTGGACATAATCTCTG
1 CACAAAGCCAGCGAATCTTT-ACCCGGACATAATCTCTG
* * * *
43214893 CACATAGCCATCGGATCTTTACCCGGGCATAATCTC--
1 CACAAAGCCAGCGAATCTTTACCCGGACATAATCTCTG
* * ** *
43214929 CACATATAGTCATCGGGTCTTTACCCGGACACAATCTCT
1 CACA-A-AGCCAGCGAATCTTTACCCGGACATAATCTCT
43214968 ACTTATAGTC
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
36 4 0.07
38 54 0.89
39 3 0.05
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (38 bp):
CACAAAGCCAGCGAATCTTTACCCGGACATAATCTCTG
Found at i:43214975 original size:38 final size:38
Alignment explanation
Indices: 43214896--43214989 Score: 134
Period size: 38 Copynumber: 2.5 Consensus size: 38
43214886 ATCTCTGCAC
* * * *
43214896 ATAGCCATCGGATCTTTACCCGGGCATAATCTCCACAT
1 ATAGTCATCGGGTCTTTACCCGGACACAATCTCCACAT
* *
43214934 ATAGTCATCGGGTCTTTACCCGGACACAATCTCTACTT
1 ATAGTCATCGGGTCTTTACCCGGACACAATCTCCACAT
43214972 ATAGTCATCGGGTCTTTA
1 ATAGTCATCGGGTCTTTA
43214990 AGCCCGGATT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (38 bp):
ATAGTCATCGGGTCTTTACCCGGACACAATCTCCACAT
Found at i:43217004 original size:47 final size:47
Alignment explanation
Indices: 43216941--43217329 Score: 607
Period size: 47 Copynumber: 8.3 Consensus size: 47
43216931 CCCTTCGGGA
* * * *
43216941 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43216988 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43217035 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43217082 CTTATCACATATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43217129 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43217176 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43217223 CTTATCACATATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43217270 CTTGTCACATATATACAATTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43217317 CTTATCACATATA
1 CTTATCACATATA
43217330 CATATCTTGT
Statistics
Matches: 315, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 315 1.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43225093 original size:29 final size:29
Alignment explanation
Indices: 43225051--43225108 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
43225041 GAAATAACAA
43225051 CAAATATGTGCTATAATAGGGTTCCAAAT
1 CAAATATGTGCTATAATAGGGTTCCAAAT
43225080 CAAATATGTGCTATAATAGGGTTCCAAAT
1 CAAATATGTGCTATAATAGGGTTCCAAAT
43225109 AATTCGGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (29 bp):
CAAATATGTGCTATAATAGGGTTCCAAAT
Found at i:43226667 original size:44 final size:44
Alignment explanation
Indices: 43226618--43226708 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
43226608 TTTGAAAATG
* *
43226618 GTTTGAAGGTGATTTGGTAAGTATATGTTATGTAAGTTAACTAT
1 GTTTGAAGGTGATTTAGTAAGTATACGTTATGTAAGTTAACTAT
43226662 GTTTGAAGGTGATTTAGTAAGTATACGTTATGTAAGTTAACTAT
1 GTTTGAAGGTGATTTAGTAAGTATACGTTATGTAAGTTAACTAT
43226706 GTT
1 GTT
43226709 GGTACATTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.30, C:0.03, G:0.24, T:0.43
Consensus pattern (44 bp):
GTTTGAAGGTGATTTAGTAAGTATACGTTATGTAAGTTAACTAT
Found at i:43227112 original size:15 final size:15
Alignment explanation
Indices: 43227092--43227125 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
43227082 AAACACTAGC
*
43227092 GTGTGACTCAGCCAT
1 GTGTGACACAGCCAT
43227107 GTGTGACACAGCCAT
1 GTGTGACACAGCCAT
43227122 GTGT
1 GTGT
43227126 CCCCTGTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (15 bp):
GTGTGACACAGCCAT
Found at i:43228177 original size:47 final size:46
Alignment explanation
Indices: 43228112--43228211 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 46
43228102 GTTTAACCAT
* **
43228112 ATATCTATTTTGGCAGCTTGGTTGCAATTATAGTGGCTTAACCACAC
1 ATATCTGTTTTGGCAGCTTGACTGCAA-TATAGTGGCTTAACCACAC
* * * *
43228159 ATATCTGTTTTGGTAGCTTGACTGCAATGTAGTGGCTTGACCACAT
1 ATATCTGTTTTGGCAGCTTGACTGCAATATAGTGGCTTAACCACAC
43228205 ATATCTG
1 ATATCTG
43228212 ATAAATCATA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
46 23 0.50
47 23 0.50
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (46 bp):
ATATCTGTTTTGGCAGCTTGACTGCAATATAGTGGCTTAACCACAC
Found at i:43228209 original size:46 final size:47
Alignment explanation
Indices: 43228097--43228211 Score: 137
Period size: 47 Copynumber: 2.5 Consensus size: 47
43228087 CTGCACTATC
* * **
43228097 TAGTGGTTTAA-C-CATATATCTATTTTGGCAGCTTGGTTGCAATTA
1 TAGTGGCTTAACCACATATATCTGTTTTGGCAGCTTGACTGCAATTA
* * *
43228142 TAGTGGCTTAACCACACATATCTGTTTTGGTAGCTTGACTGCAA-TG
1 TAGTGGCTTAACCACATATATCTGTTTTGGCAGCTTGACTGCAATTA
*
43228188 TAGTGGCTTGACCACATATATCTG
1 TAGTGGCTTAACCACATATATCTG
43228212 ATAAATCATA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
45 10 0.17
46 24 0.41
47 25 0.42
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.37
Consensus pattern (47 bp):
TAGTGGCTTAACCACATATATCTGTTTTGGCAGCTTGACTGCAATTA
Found at i:43238556 original size:86 final size:86
Alignment explanation
Indices: 43238454--43238623 Score: 340
Period size: 86 Copynumber: 2.0 Consensus size: 86
43238444 CGTTATAAGG
43238454 GCCTACGAGGCCTTAAACATGCTTTAGAAGTGGTTCGGGACTAAACCAATAAATATGAAAATTTT
1 GCCTACGAGGCCTTAAACATGCTTTAGAAGTGGTTCGGGACTAAACCAATAAATATGAAAATTTT
43238519 GGAAACTTAGAAAAAATCTGA
66 GGAAACTTAGAAAAAATCTGA
43238540 GCCTACGAGGCCTTAAACATGCTTTAGAAGTGGTTCGGGACTAAACCAATAAATATGAAAATTTT
1 GCCTACGAGGCCTTAAACATGCTTTAGAAGTGGTTCGGGACTAAACCAATAAATATGAAAATTTT
43238605 GGAAACTTAGAAAAAATCT
66 GGAAACTTAGAAAAAATCT
43238624 CAACCATACA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.26
Consensus pattern (86 bp):
GCCTACGAGGCCTTAAACATGCTTTAGAAGTGGTTCGGGACTAAACCAATAAATATGAAAATTTT
GGAAACTTAGAAAAAATCTGA
Found at i:43247526 original size:55 final size:53
Alignment explanation
Indices: 43247406--43247546 Score: 140
Period size: 55 Copynumber: 2.5 Consensus size: 53
43247396 CGAAATGACA
* * * * *
43247406 GTGGACGAACCTGCCAAAACAACACGGGCGTTCGACACGCCCGTGTCTGGAACCC
1 GTGG-CGAACCTGTC-AAACAACACGGGCGTACGACACGCCCGTGCCAGCAACCC
*
43247461 ATGGCTGAACCTGTCAAATCAACACGGGCGTACGACACGCCCGTGCCAAGCAA-CC
1 GTGGC-GAACCTGTCAAA-CAACACGGGCGTACGACACGCCCGTGCC-AGCAACCC
* *
43247516 GTGGTCGAACCTATTAAACTAACACGGGCGT
1 GTGG-CGAACCTGTCAAAC-AACACGGGCGT
43247547 GGGCATACAT
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
54 5 0.07
55 63 0.88
56 4 0.06
ACGTcount: A:0.28, C:0.32, G:0.26, T:0.15
Consensus pattern (53 bp):
GTGGCGAACCTGTCAAACAACACGGGCGTACGACACGCCCGTGCCAGCAACCC
Found at i:43247962 original size:16 final size:16
Alignment explanation
Indices: 43247943--43247987 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
43247933 TTATTAACAC
43247943 TATTTTTTATTATTTT
1 TATTTTTTATTATTTT
* *
43247959 TATTTTTTA-GACTTT
1 TATTTTTTATTATTTT
43247974 TATTTTATTATTAT
1 TATTTT-TTATTAT
43247988 CAATATCGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 10 0.43
16 12 0.52
17 1 0.04
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (16 bp):
TATTTTTTATTATTTT
Found at i:43251071 original size:37 final size:37
Alignment explanation
Indices: 43251026--43251098 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
43251016 TGAAAATCGT
43251026 GATCACTCTACTGACACTTTTCTAACCCACTCAAATC
1 GATCACTCTACTGACACTTTTCTAACCCACTCAAATC
* *
43251063 GATCACTCTGCTGACACTTTTCTGACCCACTCAAAT
1 GATCACTCTACTGACACTTTTCTAACCCACTCAAAT
43251099 TTAACATCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.27, C:0.34, G:0.08, T:0.30
Consensus pattern (37 bp):
GATCACTCTACTGACACTTTTCTAACCCACTCAAATC
Found at i:43254397 original size:39 final size:43
Alignment explanation
Indices: 43254347--43254460 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 43
43254337 CTGTACACAA
* **
43254347 CACTTAGTGTGTGA-ATTGAAATAGCTTTGGTTC-A-TG-TGG
1 CACTAAGTGTGTGATACCGAAATAGCTTTGGTTCAAGTGATGG
*
43254386 CACTAAGTGTGTGATACCGAGATAGCTTTGGTTCAATGTGATGG
1 CACTAAGTGTGTGATACCGAAATAGCTTTGGTTCAA-GTGATGG
* * **
43254430 CACTAAGTGTGCGATATCGCTATAGCTTTGG
1 CACTAAGTGTGTGATACCGAAATAGCTTTGG
43254461 CTAAACATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
39 13 0.21
40 16 0.26
41 1 0.02
43 2 0.03
44 30 0.48
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (43 bp):
CACTAAGTGTGTGATACCGAAATAGCTTTGGTTCAAGTGATGG
Found at i:43254411 original size:40 final size:43
Alignment explanation
Indices: 43254367--43254460 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 43
43254357 GTGAATTGAA
*
43254367 ATAGCTTTGGTTC-A-TG-TGGCACTAAGTGTGTGATACCGAG
1 ATAGCTTTGGTTCAAGTGATGGCACTAAGTGTGCGATACCGAG
* **
43254407 ATAGCTTTGGTTCAATGTGATGGCACTAAGTGTGCGATATCGCT
1 ATAGCTTTGGTTCAA-GTGATGGCACTAAGTGTGCGATACCGAG
43254451 ATAGCTTTGG
1 ATAGCTTTGG
43254461 CTAAACATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 13 0.28
41 1 0.02
43 2 0.04
44 30 0.65
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (43 bp):
ATAGCTTTGGTTCAAGTGATGGCACTAAGTGTGCGATACCGAG
Found at i:43254644 original size:40 final size:40
Alignment explanation
Indices: 43254609--43254687 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
43254599 TTGATACTAT
*
43254609 GTGTATGAAACTTGATGAAATGGTATATACATGATAAATC
1 GTGTATAAAACTTGATGAAATGGTATATACATGATAAATC
*
43254649 GTGTATAAAACTTGATGAAATGGTTTATACATGATAAAT
1 GTGTATAAAACTTGATGAAATGGTATATACATGATAAAT
43254688 GGTTATGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.34
Consensus pattern (40 bp):
GTGTATAAAACTTGATGAAATGGTATATACATGATAAATC
Found at i:43254689 original size:18 final size:19
Alignment explanation
Indices: 43254621--43254691 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
43254611 GTATGAAACT
*
43254621 TGATGAAATGGTATATACA
1 TGATGAAATGGTTTATACA
* * *
43254640 TGAT-AAATCGTGTATAAAACT
1 TGATGAAAT-G-GT-TTATACA
43254661 TGATGAAATGGTTTATACA
1 TGATGAAATGGTTTATACA
43254680 TGAT-AAATGGTT
1 TGATGAAATGGTT
43254692 ATGAATTAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
18 12 0.29
19 13 0.32
20 4 0.10
21 8 0.20
22 4 0.10
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (19 bp):
TGATGAAATGGTTTATACA
Found at i:43258511 original size:32 final size:32
Alignment explanation
Indices: 43258470--43258535 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
43258460 TATTTGATCG
43258470 AAGCTCCAGTGTTAGTTCAGCTAGAACCAGGA
1 AAGCTCCAGTGTTAGTTCAGCTAGAACCAGGA
43258502 AAGCTCCAGTGTTAGTTCAGCTAGAACCAGGA
1 AAGCTCCAGTGTTAGTTCAGCTAGAACCAGGA
43258534 AA
1 AA
43258536 AGAATTTGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (32 bp):
AAGCTCCAGTGTTAGTTCAGCTAGAACCAGGA
Found at i:43262287 original size:17 final size:17
Alignment explanation
Indices: 43262265--43262299 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
43262255 TAGAAATGGT
43262265 AAGTTTTATGTCATATA
1 AAGTTTTATGTCATATA
43262282 AAGTTTTATGTCATATA
1 AAGTTTTATGTCATATA
43262299 A
1 A
43262300 TAGGTGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (17 bp):
AAGTTTTATGTCATATA
Found at i:43273494 original size:19 final size:20
Alignment explanation
Indices: 43273470--43273507 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
43273460 GGTACCACCA
43273470 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
43273489 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
43273508 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:43273803 original size:46 final size:46
Alignment explanation
Indices: 43273736--43273901 Score: 194
Period size: 46 Copynumber: 3.6 Consensus size: 46
43273726 CGCCCCTAAG
* *
43273736 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCATAAA
* * *
43273782 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCATCCATAAA
* * * *
43273829 CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCATAAA
43273875 TGAACTCGGACTCAACTCAACGAGTTC
1 TGAACTCGGACTCAACTCAACGAGTTC
43273902 TGATGCTCAA
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 54 0.54
47 28 0.28
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCATAAA
Found at i:43273846 original size:93 final size:93
Alignment explanation
Indices: 43273737--43273907 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
43273727 GCCCCTAAGT
* * *
43273737 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
43273802 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
43273830 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
*
43273895 CGAGTTCTGATGC
66 CGAGTTCGGATGC
43273908 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43273923 original size:46 final size:45
Alignment explanation
Indices: 43273782--43273923 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 45
43273772 CATCCATAAA
*
43273782 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCAGATGCTC-A---ACCATCT-AG
* * * *
43273829 CGAACTCGGACTCAACTCAACGAGTTCAGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCAG--ATGCT-CAACCATCTAG
*
43273875 TGAACTCGGACTCAACTCAACGAGTTCTGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCAT-CTAG
43273921 TGA
1 TGA
43273924 CATGTCACTT
Statistics
Matches: 76, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 32 0.42
47 30 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCTAG
Found at i:43277576 original size:46 final size:48
Alignment explanation
Indices: 43277391--43277576 Score: 134
Period size: 46 Copynumber: 3.9 Consensus size: 48
43277381 GCGGGAAAGT
* * * *
43277391 GCCGATGCCATGTCCCAGACGTGGTCTTACACTAGCTCTCGCCT-ATCCGT-
1 GCCGATGCCATGTCCCAGACATAGTCTTACACTAG--CTCACATAAT--GTG
* * * * * * *
43277441 GTCGATGCCATGTCCCAGACATGGTATTACACTA--ACACA-ACTCTTA
1 GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCACATAAT-GTG
* * * **
43277487 GCCGATGCCATGTCCCAGGCATAGTCTTACGCTGGCTTTCATAATGTG
1 GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCACATAATGTG
43277535 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCACATAA
1 GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCACATAA
43277577 GTGACCCAAA
Statistics
Matches: 106, Mismatches: 25, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
45 2 0.02
46 48 0.45
47 13 0.12
48 10 0.09
49 2 0.02
50 31 0.29
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCACATAATGTG
Found at i:43283292 original size:22 final size:23
Alignment explanation
Indices: 43283250--43283292 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
43283240 TGGGTAGGAA
43283250 GTTTTCTAGAAAATTTGCATTTT
1 GTTTTCTAGAAAATTTGCATTTT
43283273 GTTTTCT--AAAATATTGCATT
1 GTTTTCTAGAAAAT-TTGCATT
43283293 AGCATAACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 7 0.37
23 7 0.37
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (23 bp):
GTTTTCTAGAAAATTTGCATTTT
Found at i:43283965 original size:30 final size:29
Alignment explanation
Indices: 43283929--43283986 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
43283919 GTAATTTCTG
*
43283929 AAAATTGAATC-AAATCAAATTTTCATGTAT
1 AAAATTGAA-CAAAATCAAA-GTTCATGTAT
*
43283959 AAAATTGCACAAAATCAAAGTTCATGTA
1 AAAATTGAACAAAATCAAAGTTCATGTA
43283987 CGACATTGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (29 bp):
AAAATTGAACAAAATCAAAGTTCATGTAT
Found at i:43283983 original size:29 final size:30
Alignment explanation
Indices: 43283940--43284017 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 30
43283930 AAATTGAATC
* *
43283940 AAATCAAATTTTCATGTATAAAATTGCACA-
1 AAATCAAA-GTTCATGTACAAAATTGCACAT
* * *
43283970 AAATCAAAGTTCATGTACGACATTGCATATT
1 AAATCAAAGTTCATGTACAAAATTGCACA-T
43284001 AAATCAAAGTTCATGTA
1 AAATCAAAGTTCATGTA
43284018 GATATTCATC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 16 0.39
30 8 0.20
31 17 0.41
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (30 bp):
AAATCAAAGTTCATGTACAAAATTGCACAT
Found at i:43286210 original size:12 final size:12
Alignment explanation
Indices: 43286193--43286225 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
43286183 CTCGTATGTC
43286193 AGGCCGTGTGCT
1 AGGCCGTGTGCT
43286205 AGGCCGTGTGCT
1 AGGCCGTGTGCT
43286217 AGGCCGTGT
1 AGGCCGTGT
43286226 AACTGCCTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.24, G:0.42, T:0.24
Consensus pattern (12 bp):
AGGCCGTGTGCT
Found at i:43287268 original size:19 final size:19
Alignment explanation
Indices: 43287246--43287305 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
43287236 TAAGTGCTTA
43287246 AGGGGTACCGAAGTACAAC
1 AGGGGTACCGAAGTACAAC
* *
43287265 AGGGGCA-CGTAAGTACATTC
1 AGGGGTACCG-AAGTACA-AC
*
43287285 AGGGGTACCAAAGTACAAC
1 AGGGGTACCGAAGTACAAC
43287304 AG
1 AG
43287306 AGGCACGTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 2 0.06
19 16 0.48
20 14 0.42
21 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.30, T:0.13
Consensus pattern (19 bp):
AGGGGTACCGAAGTACAAC
Found at i:43287289 original size:20 final size:20
Alignment explanation
Indices: 43287229--43287328 Score: 64
Period size: 19 Copynumber: 5.2 Consensus size: 20
43287219 AGTACAACAA
* *
43287229 GGGCACGTAAGTGC-TTAAG
1 GGGCACGTAAGTACATTCAG
* *
43287248 GGGTACCG-AAGTACA-ACAG
1 GGGCA-CGTAAGTACATTCAG
43287267 GGGCACGTAAGTACATTCAG
1 GGGCACGTAAGTACATTCAG
* ** *
43287287 GGGTACCAAAGTACA-ACAG
1 GGGCACGTAAGTACATTCAG
* * *
43287306 AGGCACGTACGTGCATTCAG
1 GGGCACGTAAGTACATTCAG
43287326 GGG
1 GGG
43287329 TACCGAAGTA
Statistics
Matches: 58, Mismatches: 18, Indels: 9
0.68 0.21 0.11
Matches are distributed among these distances:
18 2 0.03
19 34 0.59
20 22 0.38
ACGTcount: A:0.31, C:0.20, G:0.33, T:0.16
Consensus pattern (20 bp):
GGGCACGTAAGTACATTCAG
Found at i:43287300 original size:39 final size:39
Alignment explanation
Indices: 43287212--43287338 Score: 184
Period size: 39 Copynumber: 3.3 Consensus size: 39
43287202 ACTATTAGGA
* * *
43287212 GTACTGAAGTACAACAAGGGCACGTAAGTGC-TTAAGGG
1 GTACCGAAGTACAACAGGGGCACGTAAGTGCATTCAGGG
*
43287250 GTACCGAAGTACAACAGGGGCACGTAAGTACATTCAGGG
1 GTACCGAAGTACAACAGGGGCACGTAAGTGCATTCAGGG
* * *
43287289 GTACCAAAGTACAACAGAGGCACGTACGTGCATTCAGGG
1 GTACCGAAGTACAACAGGGGCACGTAAGTGCATTCAGGG
43287328 GTACCGAAGTA
1 GTACCGAAGTA
43287339 AAAAAATTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 28 0.35
39 51 0.65
ACGTcount: A:0.34, C:0.20, G:0.30, T:0.17
Consensus pattern (39 bp):
GTACCGAAGTACAACAGGGGCACGTAAGTGCATTCAGGG
Found at i:43295434 original size:20 final size:20
Alignment explanation
Indices: 43295409--43295449 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
43295399 AATGAATGTC
43295409 TATATGAATTCTCAATTAAT
1 TATATGAATTCTCAATTAAT
43295429 TATATGAATTCTCAATTAAT
1 TATATGAATTCTCAATTAAT
43295449 T
1 T
43295450 TTCGTATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (20 bp):
TATATGAATTCTCAATTAAT
Found at i:43303402 original size:18 final size:18
Alignment explanation
Indices: 43303381--43303419 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
43303371 AATAAAAATT
43303381 TAAAAATCAAATTTAAAC
1 TAAAAATCAAATTTAAAC
*
43303399 TAAAGATCAAATTTAAAC
1 TAAAAATCAAATTTAAAC
43303417 TAA
1 TAA
43303420 TTACAGGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (18 bp):
TAAAAATCAAATTTAAAC
Found at i:43303496 original size:29 final size:29
Alignment explanation
Indices: 43303453--43303516 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
43303443 AAATAATATG
*
43303453 ATCTTTATCCGGCCAA-TTTCAAATCTTTA
1 ATCTTTATCCAGCCAACTTT-AAATCTTTA
43303482 ATCTTTATCCAGCCAACTTTAAATCTTTA
1 ATCTTTATCCAGCCAACTTTAAATCTTTA
43303511 ATCTTT
1 ATCTTT
43303517 CAATCTACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
29 30 0.91
30 3 0.09
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (29 bp):
ATCTTTATCCAGCCAACTTTAAATCTTTA
Found at i:43306768 original size:8 final size:9
Alignment explanation
Indices: 43306752--43306776 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
43306742 TCTTTATTTG
43306752 TGTTTTTTT
1 TGTTTTTTT
43306761 TGTTTTTTT
1 TGTTTTTTT
43306770 TGTTTTT
1 TGTTTTT
43306777 CATCATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (9 bp):
TGTTTTTTT
Found at i:43309671 original size:21 final size:21
Alignment explanation
Indices: 43309636--43309707 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
43309626 GGGTCTACGT
*
43309636 GCCCATTTG-AGGCCACACAC
1 GCCCATGTGAAGGCCACACAC
*
43309656 GCCCATGTGAAGGCCACACAT
1 GCCCATGTGAAGGCCACACAC
* * * *
43309677 GCTCGTGTGGAGGGCACACAC
1 GCCCATGTGAAGGCCACACAC
*
43309698 GCCCGTGTGA
1 GCCCATGTGA
43309708 GCACTCATGT
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 8 0.19
21 34 0.81
ACGTcount: A:0.22, C:0.33, G:0.29, T:0.15
Consensus pattern (21 bp):
GCCCATGTGAAGGCCACACAC
Found at i:43310975 original size:43 final size:43
Alignment explanation
Indices: 43310927--43311096 Score: 184
Period size: 43 Copynumber: 4.0 Consensus size: 43
43310917 GTTACTGAGA
43310927 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
43310970 TGTGATTACATGTAAGACCATGTCTGCGACATTGGCATTGTTAA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TAT
* * * * * * * *
43311014 T-CGATTTCGTGTAAGACCCTGTCTAGGAAAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * *
43311055 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
43311097 CGAGCTATAT
Statistics
Matches: 102, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 90 0.88
44 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:43311943 original size:47 final size:47
Alignment explanation
Indices: 43311885--43311977 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
43311875 ACCGTGTGCG
* * *
43311885 ACACACTGTCATGT-TACACGGCCGTGTGTCCCCTGGGGTAGCCCTTT
1 ACACACGGTCAT-TCTACACAGCCATGTGTCCCCTGGGGTAGCCCTTT
43311932 ACACACGGTCATTCTACACAGCCATGTGTCCCCTGGGGTAGCCCTT
1 ACACACGGTCATTCTACACAGCCATGTGTCCCCTGGGGTAGCCCTT
43311978 CGAATTTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
46 1 0.02
47 41 0.98
ACGTcount: A:0.17, C:0.33, G:0.24, T:0.26
Consensus pattern (47 bp):
ACACACGGTCATTCTACACAGCCATGTGTCCCCTGGGGTAGCCCTTT
Found at i:43313211 original size:19 final size:18
Alignment explanation
Indices: 43313178--43313243 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 18
43313168 TAAAAATACC
43313178 ATAAAATAAATAACATAA
1 ATAAAATAAATAACATAA
*
43313196 ATAAATATATATAACATAAA
1 ATAAA-ATAAATAACAT-AA
43313216 ATAATAATAAA-AACA-AA
1 ATAA-AATAAATAACATAA
*
43313233 ACTCAAATAAA
1 A-TAAAATAAA
43313244 ATTAATTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
17 9 0.22
18 7 0.17
19 14 0.34
20 10 0.24
21 1 0.02
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.23
Consensus pattern (18 bp):
ATAAAATAAATAACATAA
Found at i:43316336 original size:20 final size:20
Alignment explanation
Indices: 43316313--43316367 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
43316303 GTCATGTTCT
43316313 AAGCCACACGGGCGTGTGCC
1 AAGCCACACGGGCGTGTGCC
43316333 AAGCCACACGGGCGTGTGCC
1 AAGCCACACGGGCGTGTGCC
*
43316353 AAGCCACATGGGCGT
1 AAGCCACACGGGCGT
43316368 ACGACCACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.22, C:0.33, G:0.35, T:0.11
Consensus pattern (20 bp):
AAGCCACACGGGCGTGTGCC
Found at i:43326923 original size:35 final size:35
Alignment explanation
Indices: 43326877--43326947 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
43326867 ACTTATCTAA
* *
43326877 TGATCTATTTCTTGGAAATGTGTTTCAGCCTTTTG
1 TGATCTATTTCTTGGAAATGCGTTTCAGCCCTTTG
43326912 TGATCTATTTCTTGGAAATGCGTTTCAGCCCTTTG
1 TGATCTATTTCTTGGAAATGCGTTTCAGCCCTTTG
43326947 T
1 T
43326948 TGGAACTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (35 bp):
TGATCTATTTCTTGGAAATGCGTTTCAGCCCTTTG
Found at i:43327486 original size:15 final size:15
Alignment explanation
Indices: 43327466--43327494 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
43327456 TGGAAGTAAC
43327466 CCCTCATAGAAATAA
1 CCCTCATAGAAATAA
43327481 CCCTCATAGAAATA
1 CCCTCATAGAAATA
43327495 CTGTAAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.28, G:0.07, T:0.21
Consensus pattern (15 bp):
CCCTCATAGAAATAA
Found at i:43330385 original size:19 final size:21
Alignment explanation
Indices: 43330330--43330386 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
43330320 AGATTTATTT
43330330 TATTCATGTTAATTCAATAAGA
1 TATT-ATGTTAATTCAATAAGA
43330352 TGATTATGTTAATTCAATAAGA
1 T-ATTATGTTAATTCAATAAGA
*
43330374 T-TTAT-TTTATTCA
1 TATTATGTTAATTCA
43330387 TGTTTAACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 7 0.21
20 4 0.12
22 19 0.58
23 3 0.09
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (21 bp):
TATTATGTTAATTCAATAAGA
Found at i:43331203 original size:18 final size:18
Alignment explanation
Indices: 43331182--43331220 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
43331172 AATCAAAATT
*
43331182 TAAAAATCAAATTTGAAC
1 TAAAAATCAAATTTAAAC
* *
43331200 TAAAGATTAAATTTAAAC
1 TAAAAATCAAATTTAAAC
43331218 TAA
1 TAA
43331221 TTACAAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (18 bp):
TAAAAATCAAATTTAAAC
Found at i:43331287 original size:29 final size:29
Alignment explanation
Indices: 43331254--43331317 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
43331244 AAATAATTTG
* **
43331254 ATCTTTATCCAGCCAA-TTTCAAATCTTTA
1 ATCTTTATCCACCCAACTTT-AAATCTCCA
*
43331283 ATCTTTTTCCACCCAACTTTAAATCTCCA
1 ATCTTTATCCACCCAACTTTAAATCTCCA
43331312 ATCTTT
1 ATCTTT
43331318 CAATCTACCC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 27 0.90
30 3 0.10
ACGTcount: A:0.28, C:0.28, G:0.02, T:0.42
Consensus pattern (29 bp):
ATCTTTATCCACCCAACTTTAAATCTCCA
Found at i:43332115 original size:26 final size:26
Alignment explanation
Indices: 43332086--43332161 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
43332076 TAGGTGTAGC
*
43332086 AGGCTTTGTGCCATTGTATATTTAGT
1 AGGCTTTGAGCCATTGTATATTTAGT
* * *
43332112 AGGCTTCGAGCTATTATATATTTAGT
1 AGGCTTTGAGCCATTGTATATTTAGT
* **
43332138 AAGCTTTGAGCCGGTGTATATTTA
1 AGGCTTTGAGCCATTGTATATTTA
43332162 CCAAGCTTTG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42
Consensus pattern (26 bp):
AGGCTTTGAGCCATTGTATATTTAGT
Found at i:43339593 original size:35 final size:35
Alignment explanation
Indices: 43339547--43339616 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
43339537 CTTTCTGAGC
43339547 CTGTGAATATCCGTAAGTCTGTTACACTGTTGAAT
1 CTGTGAATATCCGTAAGTCTGTTACACTGTTGAAT
*
43339582 CTGTGAATATCCGTAAGTCTGTTGCACTGTTGAAT
1 CTGTGAATATCCGTAAGTCTGTTACACTGTTGAAT
43339617 TAAATTATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.37
Consensus pattern (35 bp):
CTGTGAATATCCGTAAGTCTGTTACACTGTTGAAT
Found at i:43349393 original size:40 final size:40
Alignment explanation
Indices: 43349330--43349421 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 40
43349320 AACTCCGTCT
* * * *
43349330 AACCCAACACACC--ATGTGGGGATAAAATCGACCGA-CC
1 AACCCTACACACCAAATATGGGGATAAAATCAACCCATCC
* *
43349367 TATCCCTACACACCAAATATGGGGATAATATCAACCCATCC
1 -AACCCTACACACCAAATATGGGGATAAAATCAACCCATCC
43349408 AACCCTACACACCA
1 AACCCTACACACCA
43349422 TAAGGTACCG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
38 11 0.25
40 31 0.70
41 2 0.05
ACGTcount: A:0.38, C:0.35, G:0.12, T:0.15
Consensus pattern (40 bp):
AACCCTACACACCAAATATGGGGATAAAATCAACCCATCC
Found at i:43354720 original size:31 final size:31
Alignment explanation
Indices: 43354682--43354791 Score: 139
Period size: 31 Copynumber: 3.5 Consensus size: 31
43354672 TTTAATGGTT
* * *
43354682 ACTGGGCCGAATCCTTTTCATAAACCATATG
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
43354713 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
43354744 ACTAGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* * *
43354775 ATTAGACCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
43354792 ACTGTAAACG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:43355040 original size:25 final size:25
Alignment explanation
Indices: 43355012--43355081 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
43355002 CTCTTTTAAT
*
43355012 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
43355037 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
43355062 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
43355082 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:43355909 original size:27 final size:27
Alignment explanation
Indices: 43355872--43355950 Score: 124
Period size: 27 Copynumber: 2.9 Consensus size: 27
43355862 TATTCGCTAT
*
43355872 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCAC
43355899 TTTACCCTACAGGGGCTTTACGGTCAC
1 TTTACCCTACAGGGGCTTTACGGTCAC
*
43355926 TTCACCCTACAGGGGCTTTACGGTC
1 TTTACCCTACAGGGGCTTTACGGTC
43355951 TTTTTACCTA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.29
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCAC
Found at i:43356042 original size:27 final size:27
Alignment explanation
Indices: 43355989--43356297 Score: 223
Period size: 27 Copynumber: 11.4 Consensus size: 27
43355979 TTTCATCCTA
* * * *
43355989 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** *
43356016 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
43356043 CAATGGTATTTCT-ATAATTTTTAGAAAGG
1 CAAGGGTATTT-TGGTAA-TTTTATAAA-C
* * * *
43356072 CAAGGGTATTTTTGTAACTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
43356099 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * *
43356126 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
43356153 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * *
43356180 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * * *
43356207 CAGGGGTA-TTTAGCAATTTTACAGAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
43356233 C-AGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* *
43356259 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
43356286 CAAGGGTATTTT
1 CAAGGGTATTTT
43356298 AATAGTTTTG
Statistics
Matches: 226, Mismatches: 46, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
25 5 0.02
26 33 0.15
27 160 0.71
28 15 0.07
29 13 0.06
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:43356318 original size:27 final size:27
Alignment explanation
Indices: 43356257--43356320 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
43356247 AATTTTACTG
**
43356257 ATCGAGGGTATTTTGGTAATTTTGTAA
1 ATCGAGGGTATTTTAATAATTTTGTAA
* * *
43356284 ACCAAGGGTATTTTAATAGTTTTGTAA
1 ATCGAGGGTATTTTAATAATTTTGTAA
*
43356311 GTCGAGGGTA
1 ATCGAGGGTA
43356321 AAATGGTAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.06, G:0.27, T:0.39
Consensus pattern (27 bp):
ATCGAGGGTATTTTAATAATTTTGTAA
Found at i:43356342 original size:27 final size:27
Alignment explanation
Indices: 43356306--43356508 Score: 318
Period size: 27 Copynumber: 7.6 Consensus size: 27
43356296 TTAATAGTTT
* *
43356306 TGTAAGTCGAGGGTAAAATGGTAATTC
1 TGTAAATCGAGGGTAAAACGGTAATTC
*
43356333 TATAAATCGAGGGTAAAACGGTAATTC
1 TGTAAATCGAGGGTAAAACGGTAATTC
43356360 TGTAAATCGAGGGTAAAACGGTAATTC
1 TGTAAATCGAGGGTAAAACGGTAATTC
* *
43356387 TGTAAATTGAGGGTAAAACAGTAATTC
1 TGTAAATCGAGGGTAAAACGGTAATTC
* *
43356414 TGTAAGTCGAGGGTAAAATGGTAATTC
1 TGTAAATCGAGGGTAAAACGGTAATTC
*
43356441 TATAAATCGAGGGTAAAACGGTAATTC
1 TGTAAATCGAGGGTAAAACGGTAATTC
43356468 TGTAAATCGAGGGT-AAACGGTAATTC
1 TGTAAATCGAGGGTAAAACGGTAATTC
*
43356494 TATAAATCGAGGGTA
1 TGTAAATCGAGGGTA
43356509 CTTTGGTAAT
Statistics
Matches: 160, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
26 25 0.16
27 135 0.84
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (27 bp):
TGTAAATCGAGGGTAAAACGGTAATTC
Found at i:43356546 original size:80 final size:81
Alignment explanation
Indices: 43356306--43356535 Score: 264
Period size: 81 Copynumber: 2.9 Consensus size: 81
43356296 TTAATAGTTT
* ** * **
43356306 TGTAAGTCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAG
1 TGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAG
* *
43356371 GGTAAAACGGTAATTC
66 GGCAAAACAGTAATTC
* * * *
43356387 TGTAAATTGAGGGTAAAACAGTAATTCTGTAAGTCGAGGGTAAAATGGTAATTCTATAAATCGAG
1 TGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAG
* *
43356452 GGTAAAACGGTAATTC
66 GGCAAAACAGTAATTC
* *** * * *
43356468 TGTAAATCGAGGGT-AAACGGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAATTTGAG
1 TGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAG
43356532 GGCA
66 GGCA
43356536 TTTCAGTAAT
Statistics
Matches: 129, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 43 0.33
81 86 0.67
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (81 bp):
TGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAG
GGCAAAACAGTAATTC
Found at i:43358853 original size:31 final size:31
Alignment explanation
Indices: 43358815--43358924 Score: 177
Period size: 31 Copynumber: 3.6 Consensus size: 31
43358805 TTTAATGGTT
43358815 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
43358846 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
43358877 ACTGGGCCAAAGCCTTTTCATAAATGATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
43358908 ATTGGGCCGAAG-CTTTT
1 ACTGGGCCGAAGCCTTTT
43358925 ATTGTAAACG
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 5 0.07
31 68 0.93
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:43359183 original size:25 final size:25
Alignment explanation
Indices: 43359149--43359239 Score: 139
Period size: 25 Copynumber: 3.6 Consensus size: 25
43359139 TTTAATAACC
43359149 GGGGCAAAGCCCTTTTTGATAAACT
1 GGGGCAAAGCCCTTTTTGATAAACT
*
43359174 GGGGCAAAGCCCTTTTTGGTAAACT
1 GGGGCAAAGCCCTTTTTGATAAACT
*
43359199 GGGGCAAAGCCC-TTTTCAGTAAACT
1 GGGGCAAAGCCCTTTTTGA-TAAACT
*
43359224 GGGGCATAGCCCTTTT
1 GGGGCAAAGCCCTTTT
43359240 AGCACTTCCT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
24 4 0.07
25 53 0.88
26 3 0.05
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (25 bp):
GGGGCAAAGCCCTTTTTGATAAACT
Found at i:43360380 original size:27 final size:26
Alignment explanation
Indices: 43360345--43360423 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 26
43360335 GGGCATATTC
* *
43360345 GTCAATTTACCATACAGGGGTATTACG
1 GTCACTTTACCATACAGGGCT-TTACG
43360372 GTCACTTTACCCTATA-AGGGCTTTACG
1 GTCACTTTA-CC-ATACAGGGCTTTACG
* * *
43360399 ATCACTTCACCCTACAGGGTCTTTA
1 GTCACTTTACCATACAGGG-CTTTA
43360424 TGGTTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
25 2 0.05
26 6 0.14
27 25 0.58
28 7 0.16
29 3 0.07
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (26 bp):
GTCACTTTACCATACAGGGCTTTACG
Found at i:43360520 original size:27 final size:27
Alignment explanation
Indices: 43360467--43360790 Score: 172
Period size: 27 Copynumber: 12.0 Consensus size: 27
43360457 TTTCATCCTA
* * * * *
43360467 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
43360494 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
43360521 CAATGGTATTTTTA-TAATTTTTAGAAAGT
1 CAAGGGTA-TTTTAGTAA-TTTTATAAA-C
* * *
43360550 CAAGGGTATTTCTA-TAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAC
* * * * *
43360577 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
** ** * *
43360604 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
43360631 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTATAAAC
* * * * *
43360658 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * * *
43360685 CAGGGGTATTTTAGCAATTTTACAGAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
43360712 C-AGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTAGTAATTTTA-TAAAC
* * *
43360738 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
43360765 CAAGGGTATTTTAGTAGTTTTGTAAA
1 CAAGGGTATTTTAGTAATTTTATAAA
43360791 TCGAAGGTAA
Statistics
Matches: 238, Mismatches: 49, Indels: 20
0.78 0.16 0.07
Matches are distributed among these distances:
26 24 0.10
27 181 0.76
28 21 0.09
29 12 0.05
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAC
Found at i:43360671 original size:81 final size:79
Alignment explanation
Indices: 43360577--43360758 Score: 240
Period size: 81 Copynumber: 2.3 Consensus size: 79
43360567 CTTTGTAAAT
* * *
43360577 TAGGGGTATTTTGGTAATTTTACAAAT-TGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATT
1 TAGGGGTATTTTGGTAATTTTACAAATCAG-GGGTATTTCAGCAATTTCACAAACCAG-GGTATT
43360641 TTGGTAATTTTACAAA
64 TTGGTAATTTTACAAA
* * *
43360657 CTAGGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGCAATTTTACAGACCAGGGTATTT
1 -TAGGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTCAGCAATTTCACAAACCAGGGTATTT
**
43360722 TGGTAATTTTACTGA
65 TGGTAATTTTACAAA
*
43360737 TCGAGGGTATTTTGGTAATTTT
1 TAG-GGGTATTTTGGTAATTTT
43360759 GTAAACCAAG
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
79 2 0.02
80 38 0.42
81 49 0.54
82 1 0.01
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (79 bp):
TAGGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTCAGCAATTTCACAAACCAGGGTATTTT
GGTAATTTTACAAA
Found at i:43360745 original size:53 final size:53
Alignment explanation
Indices: 43360573--43360785 Score: 230
Period size: 54 Copynumber: 4.0 Consensus size: 53
43360563 ATAACTTTGT
* ** * *
43360573 AAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCAC
1 AAATCAGGGGTATTTTGGTAATTTTACAAA-CCAGGGTATTTTGGTAATTTTAC
* * *
43360627 AAACCAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCA-GGGTATTTTGGTAATTTTAC
* * *
43360681 AAATCAGGGGTATTTTAGCAATTTTACAGACCAGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGTATTTTGGTAATTTTAC
** ** * *
43360734 TGATC-GAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAGTTTT
1 AAATCAG-GGGTATTTTGGTAATTTTACAAACC-AGGGTATTTTGGTAATTTT
43360786 GTAAATCGAA
Statistics
Matches: 134, Mismatches: 22, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
52 1 0.01
53 44 0.33
54 89 0.66
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (53 bp):
AAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGTATTTTGGTAATTTTAC
Found at i:43360772 original size:80 final size:81
Alignment explanation
Indices: 43360578--43360778 Score: 253
Period size: 80 Copynumber: 2.5 Consensus size: 81
43360568 TTTGTAAATT
** ** *
43360578 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGCAATTTCACAAACCAGTGGTATTTT
*
43360643 GGTAATTTTACAAACT
66 GGTAATTTTACAAACG
* * *
43360659 AGGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGCAATTTTACAGACCAG-GGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGCAATTTCACAAACCAGTGGTATTTT
* *
43360723 GGTAATTTTACTGATCG
66 GGTAATTTTAC-AAACG
** *
43360740 A-GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
1 AGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAG
43360779 TAGTTTTGTA
Statistics
Matches: 104, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
80 53 0.51
81 51 0.49
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGCAATTTCACAAACCAGTGGTATTTT
GGTAATTTTACAAACG
Found at i:43360794 original size:54 final size:54
Alignment explanation
Indices: 43360469--43360799 Score: 224
Period size: 54 Copynumber: 6.1 Consensus size: 54
43360459 TCATCCTACA
* * * * * *
43360469 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
* ** * * * *
43360523 ATGGTATTTTTATAATTTTTAGAAAGTCAAGGGTATTTCTA-TAACTTTGTAAAT-T
1 AGGGTATTTTGGTAA-TTTTACAAA-CCAAGGGTATTT-TAGTAATTTTGTAAATCG
*** ** *** *
43360578 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CC
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
* * * **
43360632 AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATC-
1 AG-GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
* * * * * *
43360686 AGGGGTATTTTAGCAATTTTACAGACC-AGGGTATTTTGGTAATTTTACT-GATCG
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTT-GTAAATCG
** *
43360740 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAGTTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
*
43360794 AAGGTA
1 AGGGTA
43360800 AAACAGTAAT
Statistics
Matches: 216, Mismatches: 48, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
53 43 0.20
54 122 0.56
55 17 0.08
56 33 0.15
57 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
Found at i:43360799 original size:27 final size:27
Alignment explanation
Indices: 43360736--43360799 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
43360726 AATTTTACTG
* *
43360736 ATCGAGGGTATTTTGGTAATTTTGTAA
1 ATCGAAGGTATTTTAGTAATTTTGTAA
* *
43360763 A-CCAAGGGTATTTTAGTAGTTTTGTAA
1 ATCGAA-GGTATTTTAGTAATTTTGTAA
43360790 ATCGAAGGTA
1 ATCGAAGGTA
43360800 AAACAGTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 2 0.07
27 25 0.83
28 3 0.10
ACGTcount: A:0.30, C:0.06, G:0.25, T:0.39
Consensus pattern (27 bp):
ATCGAAGGTATTTTAGTAATTTTGTAA
Found at i:43360807 original size:27 final size:27
Alignment explanation
Indices: 43360785--43360988 Score: 248
Period size: 27 Copynumber: 7.6 Consensus size: 27
43360775 TTAGTAGTTT
*
43360785 TGTAAATCGAAGGTAAAACAGTAATTC
1 TGTAAATCGAGGGTAAAACAGTAATTC
*
43360812 TGTAAATCAAGGGTAAAACAGTAATTC
1 TGTAAATCGAGGGTAAAACAGTAATTC
* * *
43360839 TATAAATTGAGGGTAAAATAGTAATTC
1 TGTAAATCGAGGGTAAAACAGTAATTC
* *
43360866 TATAAATTGAGGGTAAAAC-GATAATTC
1 TGTAAATCGAGGGTAAAACAG-TAATTC
* **
43360893 TGTAAGTCGAGGGTAAAATGGTAATTC
1 TGTAAATCGAGGGTAAAACAGTAATTC
* *
43360920 TATAAATCGAGGGTAAAACGGTAATTC
1 TGTAAATCGAGGGTAAAACAGTAATTC
* *
43360947 TGTAAATCAAGGGTAAAATAGTAATTC
1 TGTAAATCGAGGGTAAAACAGTAATTC
* *
43360974 TATAAATCAAGGGTA
1 TGTAAATCGAGGGTA
43360989 CTTTGGTAAT
Statistics
Matches: 156, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 154 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (27 bp):
TGTAAATCGAGGGTAAAACAGTAATTC
Found at i:43360999 original size:54 final size:54
Alignment explanation
Indices: 43360785--43360988 Score: 275
Period size: 54 Copynumber: 3.8 Consensus size: 54
43360775 TTAGTAGTTT
* * *
43360785 TGTAAATCGAA-GGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTC
1 TGTAAATC-AAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACGGTAATTC
* ** ** *
43360839 TATAAATTGAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAACGATAATTC
1 TGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACGGTAATTC
* * * *
43360893 TGTAAGTCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTC
1 TGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACGGTAATTC
43360947 TGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTA
1 TGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTA
43360989 CTTTGGTAAT
Statistics
Matches: 130, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
53 1 0.01
54 129 0.99
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (54 bp):
TGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACGGTAATTC
Found at i:43362365 original size:30 final size:29
Alignment explanation
Indices: 43362322--43362382 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
43362312 TAAGTAGCCG
* *
43362322 AAGCTAGTTAAATCGCATACTTAGTGCCA
1 AAGCTAGTTAAATCACACACTTAGTGCCA
43362351 AAGCTAGTTTAAATCACACACTTAGTGCCA
1 AAGCTAG-TTAAATCACACACTTAGTGCCA
43362381 AA
1 AA
43362383 ACTTCCGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (29 bp):
AAGCTAGTTAAATCACACACTTAGTGCCA
Found at i:43371971 original size:6 final size:6
Alignment explanation
Indices: 43371962--43372003 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
43371952 GAAGTCTAAG
**
43371962 AAAATA AAAATA ATCATA AAAATA AAAAT- AAAAT- AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
43372004 TGGTCTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:43373577 original size:6 final size:6
Alignment explanation
Indices: 43373561--43373603 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
43373551 TAATAAAGAG
* *
43373561 AAAAT- AAAATA AAAATA AAAATA AAAGTA AATAATA ATAATA A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA-AATA AAAATA A
43373604 TGAGAAAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
5 5 0.15
6 24 0.73
7 4 0.12
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:43373580 original size:16 final size:19
Alignment explanation
Indices: 43373561--43373603 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
43373551 TAATAAAGAG
43373561 AAAATAAAA-TAAA-AATA
1 AAAATAAAAGTAAATAATA
43373578 AAAATAAAAGTAAATAATA
1 AAAATAAAAGTAAATAATA
*
43373597 ATAATAA
1 AAAATAA
43373604 TGAGAAAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.39
18 4 0.17
19 10 0.43
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAATAAAAGTAAATAATA
Found at i:43373586 original size:22 final size:22
Alignment explanation
Indices: 43373552--43373623 Score: 56
Period size: 22 Copynumber: 3.1 Consensus size: 22
43373542 TAGTAAAACT
*
43373552 AATAAAGAGAAAA-TAAAATAAA
1 AATAAAAAGAAAAGT-AAATAAA
* *
43373574 AATAAAAATAAAAGTAAATAAT
1 AATAAAAAGAAAAGTAAATAAA
* *
43373596 AATAATAATGAGAAAAGGAAAGAAA
1 AATAA-AA--AGAAAAGTAAATAAA
43373621 AAT
1 AAT
43373624 GCAACCGACG
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
22 22 0.56
23 3 0.08
25 14 0.36
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (22 bp):
AATAAAAAGAAAAGTAAATAAA
Found at i:43377415 original size:28 final size:28
Alignment explanation
Indices: 43377333--43377510 Score: 225
Period size: 28 Copynumber: 6.4 Consensus size: 28
43377323 GAGATTGGCG
* * * *
43377333 CTAAGTGTGCGGGTTTAAATTGTGCAGCA
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
* *
43377362 CTAAGTGTGCGA-ATTGAATATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
43377389 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
43377417 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
43377445 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
* * * *
43377473 CTAGGTGTGCGAG-CTAATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
43377500 CTGAGTGTGCG
1 CTAAGTGTGCG
43377511 GACTTAATAT
Statistics
Matches: 132, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
27 40 0.30
28 81 0.61
29 11 0.08
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:43377507 original size:83 final size:83
Alignment explanation
Indices: 43377358--43377510 Score: 227
Period size: 83 Copynumber: 1.8 Consensus size: 83
43377348 TAAATTGTGC
* * *
43377358 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTCTAATTATATAGCACTAAGT
43377423 GTGCGAGTTTGACTATGT
66 GTGCGAGTTTGACTATGT
* * * *
43377441 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAGGTGTGCGAG-CTAATTATATAGCACTGAG
1 AGCACTAAGTGTGCGA-ATTGAATATGTAGCACTAAGTGTGCGAGTCTAATTATATAGCACTAAG
43377505 TGTGCG
65 TGTGCG
43377511 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
83 37 0.60
84 25 0.40
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (83 bp):
AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTCTAATTATATAGCACTAAGT
GTGCGAGTTTGACTATGT
Found at i:43394362 original size:15 final size:15
Alignment explanation
Indices: 43394342--43394373 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
43394332 GTGTAATGCC
43394342 TAGTTGTATTCATAG
1 TAGTTGTATTCATAG
43394357 TAGTTGTATTCATAG
1 TAGTTGTATTCATAG
43394372 TA
1 TA
43394374 ATTTGTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.19, T:0.47
Consensus pattern (15 bp):
TAGTTGTATTCATAG
Found at i:43398278 original size:14 final size:14
Alignment explanation
Indices: 43398259--43398285 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43398249 TTCCCAACTC
43398259 ACCATAGCTATACT
1 ACCATAGCTATACT
43398273 ACCATAGCTATAC
1 ACCATAGCTATAC
43398286 CACGAGGTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.30, G:0.07, T:0.26
Consensus pattern (14 bp):
ACCATAGCTATACT
Found at i:43401125 original size:28 final size:28
Alignment explanation
Indices: 43401059--43401211 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
43401049 ATATTAAGTC
* * *
43401059 CGCACACTCAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
43401086 CGCACACCTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
43401114 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
43401142 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
43401170 CGCACACTTAGTGCTACATATTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
43401197 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43401212 GCACAATTTA
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 38 0.33
28 78 0.67
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:43401163 original size:83 final size:83
Alignment explanation
Indices: 43401059--43401211 Score: 236
Period size: 83 Copynumber: 1.8 Consensus size: 83
43401049 ATATTAAGTC
* *
43401059 CGCACACTCAGTGCTATATAATC-AGCTCGCACACCTAGTGCTACATAATCAAACTCGCACACTT
1 CGCACACTCAGTGCTACATAATCAAACTCGCACACCTAGTGCTACATAATC-AACTCGCACACTT
43401123 AGTGCTACATAGTCAAACT
65 AGTGCTACATAGTCAAACT
* * * *
43401142 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATATTCAATTCGCACACTTA
1 CGCACACTCAGTGCTACATAATCAAACTCGCACACCTAGTGCTACATAATCAACTCGCACACTTA
43401207 GTGCT
66 GTGCT
43401212 GCACAATTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
83 39 0.62
84 24 0.38
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.26
Consensus pattern (83 bp):
CGCACACTCAGTGCTACATAATCAAACTCGCACACCTAGTGCTACATAATCAACTCGCACACTTA
GTGCTACATAGTCAAACT
Found at i:43401230 original size:56 final size:55
Alignment explanation
Indices: 43401058--43401236 Score: 223
Period size: 56 Copynumber: 3.2 Consensus size: 55
43401048 CATATTAAGT
* * * *
43401058 CCGCACACTCAGTGCTATATAATCAGCTCGCACACCTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAAC
* *
43401113 TCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAAC
* * * * * *
43401169 TCGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAAC
1 CCGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAAC
*
43401225 CCGCACGCTTAG
1 CCGCACACTTAG
43401237 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
55 42 0.39
56 67 0.61
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.25
Consensus pattern (55 bp):
CCGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAAC
Found at i:43417001 original size:29 final size:29
Alignment explanation
Indices: 43416938--43417005 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
43416928 TAATCAACCG
43416938 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
43416967 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
43416996 CGCACACTTA
1 CGCACACTTA
43417006 CCTTTCCGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:43417282 original size:29 final size:30
Alignment explanation
Indices: 43417243--43417320 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 30
43417233 CTTAATAATC
*
43417243 AACCGGCACACTTAGTGCCATGTAC-TTTA
1 AACCCGCACACTTAGTGCCATGTACATTTA
*
43417272 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
43417301 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
43417321 ATCTCATGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 35 0.83
30 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:43425290 original size:145 final size:145
Alignment explanation
Indices: 43425092--43425367 Score: 507
Period size: 145 Copynumber: 1.9 Consensus size: 145
43425082 AACTCAAGGT
* *
43425092 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * *
43425157 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAATCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCACACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
43425222 ATTTCAAGTTCGCAC
131 ATTTCAAGTTCGCAC
43425237 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
43425302 GAAAATATATATTGGGTTCACACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCACACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
43425367 A
131 A
43425368 CTTTAAACTC
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
145 126 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.30
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCACACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
ATTTCAAGTTCGCAC
Found at i:43425411 original size:29 final size:29
Alignment explanation
Indices: 43425348--43425415 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
43425338 TAATCAACCG
43425348 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
43425377 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
43425406 CGCACACTTA
1 CGCACACTTA
43425416 CCTTTTTCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:43425502 original size:174 final size:174
Alignment explanation
Indices: 43425205--43425564 Score: 666
Period size: 174 Copynumber: 2.1 Consensus size: 174
43425195 ATCAATCGCG
43425205 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
43425270 TAAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCACACACATAGTGCT
66 TAAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCACACACATAGTGCT
43425335 CAATAATCAACCGCGCACACTTAGTGCCATGCACTTTAAACTCA
131 CAATAATCAACCGCGCACACTTAGTGCCATGCACTTTAAACTCA
* *
43425379 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTTCGCTGTCCAAAATCGACTTGG
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
*
43425444 TAAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
66 TAAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCACACACATAGTGCT
* * *
43425509 TAATAATCAACCGCGCACACTTAGTGCCATGTACTTTAAACTCG
131 CAATAATCAACCGCGCACACTTAGTGCCATGCACTTTAAACTCA
43425553 CACACTTAGTGC
1 CACACTTAGTGC
43425565 TGTACAATTT
Statistics
Matches: 180, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 180 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
TAAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCACACACATAGTGCT
CAATAATCAACCGCGCACACTTAGTGCCATGCACTTTAAACTCA
Done.