Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold18
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: 4432388
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 63034 characters in sequence are not A, C, G, or T
File 1 of 27
Found at i:6435 original size:52 final size:52
Alignment explanation
Indices: 6365--6485 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
6355 GAAAATTTAT
*
6365 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
6417 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
6469 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
6486 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:6498 original size:52 final size:51
Alignment explanation
Indices: 6365--6505 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
6355 GAAAATTTAT
6365 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
6417 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
6469 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
6506 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:6512 original size:13 final size:13
Alignment explanation
Indices: 6494--6518 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6484 CAAAGATCAG
6494 TGTATCGATACAA
1 TGTATCGATACAA
6507 TGTATCGATACA
1 TGTATCGATACA
6519 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:6602 original size:13 final size:13
Alignment explanation
Indices: 6584--6608 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6574 CAAAAAAATA
6584 TGTATCGATACAT
1 TGTATCGATACAT
6597 TGTATCGATACA
1 TGTATCGATACA
6609 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6604 original size:33 final size:33
Alignment explanation
Indices: 6562--6628 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
6552 AGTAGCTTAA
6562 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
6595 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
6628 A
1 A
6629 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:7425 original size:67 final size:68
Alignment explanation
Indices: 7303--7429 Score: 168
Period size: 67 Copynumber: 1.9 Consensus size: 68
7293 ATTGGGTTTT
* * *
7303 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
7368 AGA
66 AGA
* ** *
7371 AAAG-TGATAAAGATGCCAATATGTTGATTCACA-GCCAACGCTATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCA-AGGCCAACAATATTGGACTTAAAGATGA
7430 GAAAAAGGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
67 46 0.90
68 5 0.10
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:7650 original size:49 final size:49
Alignment explanation
Indices: 7442--8057 Score: 765
Period size: 49 Copynumber: 12.7 Consensus size: 49
7432 AAAAGGATGT
*
7442 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
7494 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
7537 CAATGTGCTGATTCAAGGGCAGCTACGTTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
7585 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
7634 CAATGTGCTAAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * * *
7683 CAATATGCTGATTCCAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
7732 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAATGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
7781 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
7830 CAATGTGCTGAGTCAAGGCCAGCTACATTAGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
7882 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
7925 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
7973 CAATGTGCTAATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
8022 CAATATGCTGATTCAGGGCCAACTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
8058 GAAGGGTTGC
Statistics
Matches: 486, Mismatches: 61, Indels: 37
0.83 0.10 0.06
Matches are distributed among these distances:
43 78 0.16
48 92 0.19
49 245 0.50
50 1 0.00
52 70 0.14
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:8101 original size:33 final size:32
Alignment explanation
Indices: 8050--8285 Score: 325
Period size: 33 Copynumber: 7.3 Consensus size: 32
8040 CCAACTATAT
8050 TGGGC-TT-AGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
* *
8080 TGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
*
8113 TGGGCTTTGGGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
* *
8145 TGGGCTTTGGGAAGGGATTGCCACCAACTTGTG
1 TGGGCTTTGAGAAGGG-TTGCCACCGACTTGTG
*
8178 TGGGCTTTAGAGGAA-GGTTACCACCGACTTGTG
1 TGGGCTTT-GA-GAAGGGTTGCCACCGACTTGTG
*
8211 TGGGCTTTGGGAAGGGTTTGCCACCGACTTGTG
1 TGGGCTTTGAGAAGGG-TTGCCACCGACTTGTG
*
8244 TGGGCTTTAGAGAAGGTTTGCCACCGACTTGTG
1 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
8277 TGGGCTTTG
1 TGGGCTTTG
8286 GAAATGGTGA
Statistics
Matches: 184, Mismatches: 13, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
30 5 0.03
31 5 0.03
32 41 0.22
33 121 0.66
34 9 0.05
35 3 0.02
ACGTcount: A:0.17, C:0.18, G:0.36, T:0.29
Consensus pattern (32 bp):
TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
Found at i:8402 original size:34 final size:34
Alignment explanation
Indices: 8295--8740 Score: 442
Period size: 34 Copynumber: 13.4 Consensus size: 34
8285 GGAAATGGTG
* * *
8295 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
8328 CAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAA-GGAA
* *
8363 AAAGAGTGCCACGAAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
8397 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
8431 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
8464 AAAGAGTGCCACGTAGTTGTGGGCTTTAAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
8497 AAAGAGTGCCACGTAGTCGTGGACTTAAAA-G--
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
**
8528 ---G-GTGCCACGGAGTTGTGGGCTTTGAA--AA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
8556 GAAG-GTGCCACAGAGTTGTGGGCTTTAACTAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAA--AAGGAA
* *
8592 AAAGAGTGCCACGGAGTTGTGGGATGTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCT-TAAAAGGAA
8627 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TT-AAAA-GGAA
** *
8663 AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* * *
8698 AAAGTGTGCCACAGAGTTGTGGGCTTTAAA-GAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
8731 AAA-A-TGCCAC
1 AAAGAGTGCCAC
8741 TAAGTCGTGG
Statistics
Matches: 356, Mismatches: 37, Indels: 42
0.82 0.09 0.10
Matches are distributed among these distances:
27 20 0.06
28 1 0.00
31 25 0.07
32 3 0.01
33 83 0.23
34 100 0.28
35 49 0.14
36 35 0.10
37 40 0.11
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:8602 original size:37 final size:35
Alignment explanation
Indices: 8523--8727 Score: 231
Period size: 35 Copynumber: 5.9 Consensus size: 35
8513 TCGTGGACTT
* * *
8523 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAG-
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGA
**
8557 --AAG-GTGCCACAGAGTTGTGGGCTTTAACTAGGGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAA--AAAGA
* * *
8591 AAAAGAGTGCCACGGAGTTGTGGGATGTAAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGA
* *
8626 AAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAA-AGA
*
8662 AAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGA
*
8697 AAAAGTGTGCCACAGAGTTGTGGGCTTTAAA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
8728 GAAAAAATGC
Statistics
Matches: 145, Mismatches: 17, Indels: 17
0.81 0.09 0.09
Matches are distributed among these distances:
31 22 0.15
32 3 0.02
33 2 0.01
34 20 0.14
35 43 0.30
36 14 0.10
37 41 0.28
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.21
Consensus pattern (35 bp):
AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGA
Found at i:8662 original size:71 final size:71
Alignment explanation
Indices: 8523--8726 Score: 290
Period size: 71 Copynumber: 2.9 Consensus size: 71
8513 TCGTGGACTT
* *
8523 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAG---AAGGTGCCACAGAGTTGTGGGCTTTAAC
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTAAC
*
8585 TAGGGA
66 AAGGGA
* * *
8591 AAAAGAGTGCCACGGAGTTGTGGGATGTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTT-AA
8656 -AAGGGA
65 CAAGGGA
**
8662 AAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACAGAGTTGTGGGCTTTAA
8727 AGAAAAAATG
Statistics
Matches: 120, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
68 30 0.25
71 67 0.56
72 23 0.19
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (71 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTAAC
AAGGGA
Found at i:8766 original size:30 final size:30
Alignment explanation
Indices: 8731--8787 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
8721 CTTTAAAGAA
8731 AAAATGCCACTAAGTCGTGGACTTTGAGAC
1 AAAATGCCACTAAGTCGTGGACTTTGAGAC
*
8761 AAAATGCCACTGAGTCGTGGACTTTGA
1 AAAATGCCACTAAGTCGTGGACTTTGA
8788 AAAGGTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (30 bp):
AAAATGCCACTAAGTCGTGGACTTTGAGAC
Found at i:19416 original size:79 final size:79
Alignment explanation
Indices: 19219--19425 Score: 186
Period size: 79 Copynumber: 2.6 Consensus size: 79
19209 TCATTGATTT
* * * * *
19219 TTTTTATTTCCAAAAATAT-GATTTTTTTACCATTGAGGACACTCTAACCCCGTTATTTGCGAGG
1 TTTTTATTT-CTAAAATATCGA-TTTTTCACCATTGGGGATACTCTAACCCCATTATTTGCGAGG
*
19283 GGATACTCCAACCTCA
64 AGATACTCCAACCTCA
** * * * * * *
19299 ACTTTATTT-TCAAAATATCAAATTTTCATCGTTAGGGATACTCTAACCCTATTATTT-CTGAGG
1 TTTTTATTTCT-AAAATATCGATTTTTCACCATTGGGGATACTCTAACCCCATTATTTGC-GAGG
* *
19362 AGATACTCCCACCTTA
64 AGATACTCCAACCTCA
* * *
19378 TTTTTATTTCTAAAATATCGATTTTTGACCATCGGGGATACTCCAACC
1 TTTTTATTTCTAAAATATCGATTTTTCACCATTGGGGATACTCTAACC
19426 TCGTTTTTAT
Statistics
Matches: 97, Mismatches: 26, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
78 1 0.01
79 87 0.90
80 9 0.09
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.38
Consensus pattern (79 bp):
TTTTTATTTCTAAAATATCGATTTTTCACCATTGGGGATACTCTAACCCCATTATTTGCGAGGAG
ATACTCCAACCTCA
Found at i:19433 original size:51 final size:51
Alignment explanation
Indices: 19363--19481 Score: 141
Period size: 51 Copynumber: 2.3 Consensus size: 51
19353 TTTCTGAGGA
* ** * * **
19363 GATACTCCCACCTTATTTTTATTTCT-AAAATATCGATTTTTGACCATCGGG
1 GATACTCCAACCTCGTTTTTATTT-TGAAAATATCAATTTTTCACCATCACG
*
19414 GATACTCCAACCTCGTTTTTATTTTGAAAATTTCAATTTTTCACCATCACG
1 GATACTCCAACCTCGTTTTTATTTTGAAAATATCAATTTTTCACCATCACG
*
19465 GATACTCCAACCCCGTT
1 GATACTCCAACCTCGTT
19482 ATTTTTGAGA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 1 0.02
51 57 0.98
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.39
Consensus pattern (51 bp):
GATACTCCAACCTCGTTTTTATTTTGAAAATATCAATTTTTCACCATCACG
Found at i:19496 original size:79 final size:79
Alignment explanation
Indices: 19413--19586 Score: 215
Period size: 79 Copynumber: 2.2 Consensus size: 79
19403 TGACCATCGG
* ** * *
19413 GGATACTCCAACCTCGTTTTTATTTTGAAAATTTCAATTTTTCACCATCACG-GATACTCCAACC
1 GGATACTCCAACCCCAATTTTATTTTCAAAATATCAATTTTTCACCATC-CGAGATACTCCAACC
* *
19477 CCGTTATTTTTGAGA
65 CCGCTATTTTCGAGA
* * * * *
19492 GGATACTCTAACCCCAATTTTATTTTCAAAATATCAATTTTTTACCATCGGAGATACTGCAGCCC
1 GGATACTCCAACCCCAATTTTATTTTCAAAATATCAATTTTTCACCATCCGAGATACTCCAACCC
*
19557 CGCTATTTTCGAGG
66 CGCTATTTTCGAGA
19571 GGATACTCCAACCCCA
1 GGATACTCCAACCCCA
19587 TTGTTTTTGA
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 1 0.01
79 79 0.99
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.34
Consensus pattern (79 bp):
GGATACTCCAACCCCAATTTTATTTTCAAAATATCAATTTTTCACCATCCGAGATACTCCAACCC
CGCTATTTTCGAGA
Found at i:19514 original size:130 final size:130
Alignment explanation
Indices: 19281--19549 Score: 308
Period size: 130 Copynumber: 2.1 Consensus size: 130
19271 TTATTTGCGA
* * * * *
19281 GGGGATACTCCAACCTCAACTTTATTTTCAAAATATCAAATTTTCATCGTTAGGGATACTCTAAC
1 GGGGATACTCCAACCTCAACTTTATTTTCAAAATATCAAATTTTCACCATCACGGATACTCCAAC
* * ** * *
19346 CCTATTATTTCTGAGGAGATACTCCCACCTTATTTTTA-TTTCTAAAATATCGATTTTTGACCAT
66 CCCATTATTTCTGAGGAGATACTCCAACCCCAATTTTATTTTC-AAAATATCAATTTTTGACCAT
19410 C
130 C
*** * * *
19411 GGGGATACTCCAACCTCGTTTTTATTTTGAAAATTTCAATTTTTCACCATCACGGATACTCCAAC
1 GGGGATACTCCAACCTCAACTTTATTTTCAAAATATCAAATTTTCACCATCACGGATACTCCAAC
* * * *
19476 CCCGTTATTTTTGA-GAGGATACTCTAACCCCAATTTTATTTTCAAAATATCAATTTTTTACCAT
66 CCCATTATTTCTGAGGA-GATACTCCAACCCCAATTTTATTTTCAAAATATCAATTTTTGACCAT
19540 C
130 C
*
19541 GGAGATACT
1 GGGGATACT
19550 GCAGCCCCGC
Statistics
Matches: 115, Mismatches: 22, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
129 2 0.02
130 109 0.95
131 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (130 bp):
GGGGATACTCCAACCTCAACTTTATTTTCAAAATATCAAATTTTCACCATCACGGATACTCCAAC
CCCATTATTTCTGAGGAGATACTCCAACCCCAATTTTATTTTCAAAATATCAATTTTTGACCATC
Found at i:19585 original size:28 final size:28
Alignment explanation
Indices: 19544--19606 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
19534 TACCATCGGA
* * *
19544 GATACTGCAGCCCCGCTATTTTCGAGGG
1 GATACTCCAACCCCACTATTTTCGAGGG
* * *
19572 GATACTCCAACCCCATTGTTTTTGAGGG
1 GATACTCCAACCCCACTATTTTCGAGGG
19600 GATACTC
1 GATACTC
19607 TAATCCCGGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.29
Consensus pattern (28 bp):
GATACTCCAACCCCACTATTTTCGAGGG
Found at i:19653 original size:79 final size:77
Alignment explanation
Indices: 19570--19745 Score: 228
Period size: 79 Copynumber: 2.2 Consensus size: 77
19560 TATTTTCGAG
* * * *
19570 GGGATACTCCAACCCCATTGTTTTTGAGGGGATACTCTAATCCC-GGTTTTATTTCCAAAATATC
1 GGGATACTCCAACCCCATTATTTTTGAGGGAATACTCCAA-CCCAAGTTTTATTTCC-AAATATC
19634 GATTTTTCACCATTA
64 GATTTTTCACCA-TA
* * * *
19649 GGGATACTCTAATCCCATTATTTTTGAGGGAATACTCCAACCCAATTTTTATTTCCAAATATTGA
1 GGGATACTCCAACCCCATTATTTTTGAGGGAATACTCCAACCCAAGTTTTATTTCCAAATATCGA
*
19714 TTTTTCACCATC
66 TTTTTCACCATA
19726 GAGGATACTCCAACCCCATT
1 G-GGATACTCCAACCCCATT
19746 TTTATCTCCA
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
77 2 0.02
78 37 0.44
79 45 0.54
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (77 bp):
GGGATACTCCAACCCCATTATTTTTGAGGGAATACTCCAACCCAAGTTTTATTTCCAAATATCGA
TTTTTCACCATA
Found at i:19655 original size:107 final size:107
Alignment explanation
Indices: 19464--19691 Score: 280
Period size: 107 Copynumber: 2.1 Consensus size: 107
19454 TCACCATCAC
* *
19464 GGATACTCCAACCCCGTTATTTTTGAGAGGATACTCTAACCCCAATTTTATTTTCAAAATATCAA
1 GGATACTCCAACCCCATTATTTTTGAGAGGATACTCTAACCCCAATTTTATTTCCAAAATATCAA
* * * *
19529 TTTTTTACCATCGGAGATACTGC-AGCCCCGCTATTTTCGAGG
66 TTTTTCACCATAGGAGATACT-CTAACCCCACTATTTTCGAGG
* * * ** *
19571 GGATACTCCAACCCCATTGTTTTTGAGGGGATACTCTAATCCCGGTTTTATTTCCAAAATATCGA
1 GGATACTCCAACCCCATTATTTTTGAGAGGATACTCTAACCCCAATTTTATTTCCAAAATATCAA
* * *
19636 TTTTTCACCATTAGG-GATACTCTAATCCCATTATTTTTGAGG
66 TTTTTCACCA-TAGGAGATACTCTAACCCCACTATTTTCGAGG
*
19678 GAATACTCCAACCC
1 GGATACTCCAACCC
19692 AATTTTTATT
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
106 1 0.01
107 99 0.96
108 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (107 bp):
GGATACTCCAACCCCATTATTTTTGAGAGGATACTCTAACCCCAATTTTATTTCCAAAATATCAA
TTTTTCACCATAGGAGATACTCTAACCCCACTATTTTCGAGG
Found at i:19791 original size:52 final size:48
Alignment explanation
Indices: 19678--19794 Score: 128
Period size: 50 Copynumber: 2.3 Consensus size: 48
19668 ATTTTTGAGG
* * *
19678 GAATACTCCAACCCAATTTTTATTTCCAAATATTGATTTTTCACCATCGA
1 GAATACTCCAACCCCATTTTTATCTCCAAATATTAATTTTT--CCATCGA
*
19728 GGATACTCCAACCCCATTTTTATCTCCAAAATATTAAATTTTT-CATCGAA
1 GAATACTCCAACCCCATTTTTATCTCC-AAATATT-AATTTTTCCATCG-A
19778 GAATGTACTCCAACCCC
1 GAA--TACTCCAACCCC
19795 CTACTCCGAG
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
49 5 0.09
50 27 0.47
51 7 0.12
52 18 0.32
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.34
Consensus pattern (48 bp):
GAATACTCCAACCCCATTTTTATCTCCAAATATTAATTTTTCCATCGA
Found at i:22161 original size:9 final size:9
Alignment explanation
Indices: 22147--22177 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
22137 GCATAGATAG
22147 GGATTTTGA
1 GGATTTTGA
22156 GGATTTTGA
1 GGATTTTGA
22165 GGATTTTGA
1 GGATTTTGA
22174 GGAT
1 GGAT
22178 ACTTTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (9 bp):
GGATTTTGA
Found at i:22535 original size:20 final size:20
Alignment explanation
Indices: 22510--22551 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
22500 CATATTTATA
* *
22510 CTCTAACCTTGTATAAATTC
1 CTCTAACCTCGTATAAACTC
22530 CTCTAACCTCGTATAAACTC
1 CTCTAACCTCGTATAAACTC
22550 CT
1 CT
22552 TAGATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.31, G:0.05, T:0.36
Consensus pattern (20 bp):
CTCTAACCTCGTATAAACTC
Found at i:33939 original size:49 final size:51
Alignment explanation
Indices: 33812--34035 Score: 294
Period size: 52 Copynumber: 4.4 Consensus size: 51
33802 GACGAATTGG
* *
33812 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-TTGT
* *
33864 CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACC-T-T
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTGT
* * * *** *
33913 CACCTTTAGGACCAATATCGCTGGCCTTGAATCAGCATGCTGGCGCCTTTGT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-TTGT
*
33965 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-T
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTGT
34015 -ATCTTTAAGTCCAATATCGCT
1 CATCTTTAAGTCCAATATCGCT
34036 AGCCACATAT
Statistics
Matches: 147, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
49 59 0.40
50 2 0.01
51 3 0.02
52 83 0.56
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.33
Consensus pattern (51 bp):
CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTGT
Found at i:33990 original size:101 final size:101
Alignment explanation
Indices: 33815--34035 Score: 370
Period size: 101 Copynumber: 2.2 Consensus size: 101
33805 GAATTGGCAT
* *
33815 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATACTGGCGCCTTTGTCATCTTTAAGTCCAAT
*
33880 GTCGTTGGCCTTGAATCAGCACATTGGCACCTTCAC
66 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAC
* *
33916 CTTTAGGACCAATATCGCTGGCCTTGAATCAGCATGCTGGCGCCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATACTGGCGCCTTTGTCATCTTTAAGTCCAAT
* *
33981 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
66 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAC
*
34017 CTTTAAGTCCAATATCGCT
1 CTTTAAGACCAATATCGCT
34036 AGCCACATAT
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
101 111 1.00
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.33
Consensus pattern (101 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATACTGGCGCCTTTGTCATCTTTAAGTCCAAT
GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAC
Found at i:34605 original size:52 final size:50
Alignment explanation
Indices: 34543--34766 Score: 272
Period size: 52 Copynumber: 4.4 Consensus size: 50
34533 GACGAATTGG
* *
34543 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T
* * *
34595 CATCTTTAAGTCCAATGTCGTTGGCCTTAAATCAGCACATTGGCACC-TT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT
* * * *** *
34644 CACCTTTAGGACCAATATCGCTGGCCTTGAATCAGCATGCTGGCGCCTTTGT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T
*
34696 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT
*
34746 -ATCATTAAGTCCAATATCGCT
1 CATCTTTAAGTCCAATATCGCT
34767 AGCCGTATAT
Statistics
Matches: 144, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
49 57 0.40
50 2 0.01
51 3 0.02
52 82 0.57
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (50 bp):
CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT
Found at i:34760 original size:101 final size:101
Alignment explanation
Indices: 34548--34766 Score: 357
Period size: 101 Copynumber: 2.2 Consensus size: 101
34538 ATTGGCATCT
*
34548 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATACTGGCGCCTTTGTCATCTTTAAGTCCAATGT
* *
34613 CGTTGGCCTTAAATCAGCACATTGGCACCTTCACCT
66 CGCTGGCCTTAAATCAGCACATTGGCACCTTCACCA
* * *
34649 TTAGGACCAATATCGCTGGCCTTGAATCAGCATGCTGGCGCCTTTGTCATCTTTAAGTCCAATGT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATACTGGCGCCTTTGTCATCTTTAAGTCCAATGT
* * *
34714 CGCTGGCCTTGAATCAGCACATTGGCACCTTTATCA
66 CGCTGGCCTTAAATCAGCACATTGGCACCTTCACCA
34750 TTAAGTCCAATATCGCT
1 TTAAGTCCAATATCGCT
34767 AGCCGTATAT
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 107 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (101 bp):
TTAAGTCCAATATCGCTGGCCTTGAATCAGCATACTGGCGCCTTTGTCATCTTTAAGTCCAATGT
CGCTGGCCTTAAATCAGCACATTGGCACCTTCACCA
Found at i:35125 original size:731 final size:732
Alignment explanation
Indices: 33721--35272 Score: 2890
Period size: 731 Copynumber: 2.1 Consensus size: 732
33711 TGAAGGCCAT
33721 CTGTAGACACCTCATTTTGTCCGGGCCAATTTTTGACAATTTGAGGCCTAGGTAGTAGGTAGAGG
1 CTGTAGACACCTCATTTTGTCCGGGCCAATTTTTGACAATTTGAGGCCTAGGTAGTAGGTAGAGG
33786 ATTCGACATATGTGGGGACGAATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
66 ATTCGACATATGTGGGGACGAATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
*
33851 TTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCAC
131 TTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGTTGGCCTTAAATCAGCACATTGGCACCTTCAC
33916 CTTTAGGACCAATATCGCTGGCCTTGAATCAGCATGCTGGCGCCTTTGTCATCTTTAAGTCCAAT
196 CTTTAGGACCAATATCGCTGGCCTTGAATCAGCATGCTGGCGCCTTTGTCATCTTTAAGTCCAAT
*
33981 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGCTAGCCACATAT
261 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATTAAGTCCAATATCGCTAGCCACATAT
*
34046 TGGATCTTTTATCCTTTTTCTCATCTTTACACCCAATATCGTTGGCCGTGAATCAACGTATTGGT
326 TGGATCTTTTATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGT
* *
34111 CCTTTTATCACTCTTCATCCTTATCATCTTTAAGTCCAATGTGGCAGGCCTTGAATCTGCACAGT
391 CCTTTTATCACTCGTCATCCTAATCATCTTTAAGTCCAATGTGGCAGGCCTTGAATCTGCACAGT
*
34176 GGCACATTGTAAAACACTGACCATAATCTCCCAAATCCCTTCCAAACTCTACACCAATCTACACC
456 GGCACATTGCAAAACACTGACCATAATCTCCCAAATCCCTTCCAAACTCTACACCAATCTACACC
34241 TATCTAAGGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAAGACAAACCCTACAAACTC
521 TATCTAAGGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAAGACAAACCCTACAAACTC
* *
34306 ATTTTTCCATCGGAACCGCCGCCAATACACTCTTCATCATGGCGAAGCATTAATCACCCAAAGCT
586 ATTTTTCCATCGGAACCGCCGCCAATACACTCTTCACCACGGCGAAGCATTAATCACCCAAAGCT
*** *
34371 CACAACATGTGGCCGTGGACAAAATGGTGTCTATTTGTCTTTGGCCTGTTCTTGATACTCAGAAA
651 CACAACATGTGGCCACAGACAAAATGGTGTCTATTTGTCTTTGGCCTGTTCCTGATACTCAGAAA
34436 CGGCC-AAGAGGGGCAG
716 CGGCCAAAGAGGGGCAG
*
34452 CTGTAGACACCTCATTTTGTCCGGGCCAATTTTTGATAATTTGAGGCCTAGGTAGTAGGTAGAGG
1 CTGTAGACACCTCATTTTGTCCGGGCCAATTTTTGACAATTTGAGGCCTAGGTAGTAGGTAGAGG
34517 ATTCGACATATGTGGGGACGAATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
66 ATTCGACATATGTGGGGACGAATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
34582 TTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGTTGGCCTTAAATCAGCACATTGGCACCTTCAC
131 TTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGTTGGCCTTAAATCAGCACATTGGCACCTTCAC
34647 CTTTAGGACCAATATCGCTGGCCTTGAATCAGCATGCTGGCGCCTTTGTCATCTTTAAGTCCAAT
196 CTTTAGGACCAATATCGCTGGCCTTGAATCAGCATGCTGGCGCCTTTGTCATCTTTAAGTCCAAT
**
34712 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATTAAGTCCAATATCGCTAGCCGTATAT
261 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATTAAGTCCAATATCGCTAGCCACATAT
*
34777 TGGCTCTTTTATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGT
326 TGGATCTTTTATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGT
*
34842 CCTTTTATCACTCGTCATCCTAATCATCTTTAAGTCCAATGTGGCAGGCCTTGAATTTGCACAGT
391 CCTTTTATCACTCGTCATCCTAATCATCTTTAAGTCCAATGTGGCAGGCCTTGAATCTGCACAGT
*
34907 GGCACATTGCAAAACACTGACCATAATCTCCCAAATCCCTTCCAAATTCTACACCAATCTACACC
456 GGCACATTGCAAAACACTGACCATAATCTCCCAAATCCCTTCCAAACTCTACACCAATCTACACC
*
34972 TATCTAAGGAGGTCAAGCCTTAGAAAATTTCAAAACCTAGTAGGGAAGACAAACCCTACAAACTC
521 TATCTAAGGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAAGACAAACCCTACAAACTC
*
35037 ATTTTTCCATCGGAACCGCCGCCAATACACTCTTCACCACGGTGAAGCATTAATCACCCAAAGCT
586 ATTTTTCCATCGGAACCGCCGCCAATACACTCTTCACCACGGCGAAGCATTAATCACCCAAAGCT
*
35102 CACAATATGTGGCCACAGACAAAATGGTGTCTATTTGTCTTTGGCCTGTTCCTGATACTCAGAAA
651 CACAACATGTGGCCACAGACAAAATGGTGTCTATTTGTCTTTGGCCTGTTCCTGATACTCAGAAA
35167 CGGCCAAAGAGGGGCAG
716 CGGCCAAAGAGGGGCAG
*
35184 CTGTAGACACCTCATTTTGTCCGGGCCAATTTTCGACAATTTGAGGCCTAGGTAGTAGGTAGAGG
1 CTGTAGACACCTCATTTTGTCCGGGCCAATTTTTGACAATTTGAGGCCTAGGTAGTAGGTAGAGG
*
35249 ATTCGACATATGTGGGGACAAATT
66 ATTCGACATATGTGGGGACGAATT
35273 CGCCAGGCGC
Statistics
Matches: 796, Mismatches: 24, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
731 699 0.88
732 97 0.12
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (732 bp):
CTGTAGACACCTCATTTTGTCCGGGCCAATTTTTGACAATTTGAGGCCTAGGTAGTAGGTAGAGG
ATTCGACATATGTGGGGACGAATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
TTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGTTGGCCTTAAATCAGCACATTGGCACCTTCAC
CTTTAGGACCAATATCGCTGGCCTTGAATCAGCATGCTGGCGCCTTTGTCATCTTTAAGTCCAAT
GTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATTAAGTCCAATATCGCTAGCCACATAT
TGGATCTTTTATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGGT
CCTTTTATCACTCGTCATCCTAATCATCTTTAAGTCCAATGTGGCAGGCCTTGAATCTGCACAGT
GGCACATTGCAAAACACTGACCATAATCTCCCAAATCCCTTCCAAACTCTACACCAATCTACACC
TATCTAAGGAGGTCAAGCCTTAGAAAATTCCAAAACCTAGTAGGGAAGACAAACCCTACAAACTC
ATTTTTCCATCGGAACCGCCGCCAATACACTCTTCACCACGGCGAAGCATTAATCACCCAAAGCT
CACAACATGTGGCCACAGACAAAATGGTGTCTATTTGTCTTTGGCCTGTTCCTGATACTCAGAAA
CGGCCAAAGAGGGGCAG
Found at i:35515 original size:32 final size:32
Alignment explanation
Indices: 35479--35644 Score: 314
Period size: 32 Copynumber: 5.2 Consensus size: 32
35469 TTCAACGATC
35479 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
35511 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
35543 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
35575 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
35607 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
35639 TGTATC
1 TGTATC
35645 ACTACGAAGC
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 131 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:35516 original size:13 final size:13
Alignment explanation
Indices: 35498--35618 Score: 71
Period size: 13 Copynumber: 7.9 Consensus size: 13
35488 ACATAAGTGT
35498 TGTATCGATACAA
1 TGTATCGATACAA
35511 TGTATCGATACATAA
1 TGTATCGATAC--AA
35526 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
35543 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
35558 GTGTTGTATCAATACAA
1 ----TGTATCGATACAA
35575 TGTATCGATACATAA
1 TGTATCGATAC--AA
35590 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
35607 TGTATCGATACA
1 TGTATCGATACA
35619 TAAGTTTTGT
Statistics
Matches: 88, Mismatches: 2, Indels: 36
0.70 0.02 0.29
Matches are distributed among these distances:
13 44 0.50
15 6 0.07
17 6 0.07
19 32 0.36
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:35694 original size:96 final size:95
Alignment explanation
Indices: 35479--35734 Score: 270
Period size: 96 Copynumber: 2.7 Consensus size: 95
35469 TTCAACGATC
* ** *
35479 TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATACAAT
1 TGTATCGATACATAACTAATGTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACAAT
* ** * *
35544 GTATCGATACATAAGTGTTGTATCAATACAA
66 GTATCGATACAGAAGTACTG-ACCAATAAAA
* **
35575 TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACAAT
1 TGTATCGATACATAACTAATGTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACAAT
35640 GTATC-ACTAC-GAAGCTACTG-CCAA-AAAA
66 GTATCGA-TACAGAAG-TACTGACCAATAAAA
* * *
35668 TTGTATCGATACATTACTCAAATGTATCGATACATTGTATCGATACACTGA-TATTTGTATCGAT
1 -TGTATCGATACATAACT--AATGTATCGATACAATGTATCGATACA-TAAGT-TTTGTATCGAT
35732 ACA
61 ACA
35735 TGCAGGCAAA
Statistics
Matches: 141, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
93 3 0.02
94 18 0.13
95 4 0.03
96 100 0.71
97 16 0.11
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (95 bp):
TGTATCGATACATAACTAATGTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACAAT
GTATCGATACAGAAGTACTGACCAATAAAA
Found at i:35708 original size:13 final size:13
Alignment explanation
Indices: 35690--35714 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35680 ATTACTCAAA
35690 TGTATCGATACAT
1 TGTATCGATACAT
35703 TGTATCGATACA
1 TGTATCGATACA
35715 CTGATATTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:35768 original size:52 final size:52
Alignment explanation
Indices: 35703--35851 Score: 237
Period size: 52 Copynumber: 2.9 Consensus size: 52
35693 ATCGATACAT
**
35703 TGTATCGATACACTGAT-ATTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
35755 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAACTTGCCCAGA
1 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
35807 TGTATCGATACACTATGAAATGTATCGATATATGCAGGCAAATTT
1 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTT
35852 TCATATTTTG
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
51 2 0.02
52 88 0.98
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:42745 original size:15 final size:15
Alignment explanation
Indices: 42727--42756 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42717 AGTCAAAAGT
*
42727 AAACACAAAAAAACA
1 AAACAAAAAAAAACA
42742 AAACAAAAAAAAACA
1 AAACAAAAAAAAACA
42757 CAAAAAATGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (15 bp):
AAACAAAAAAAAACA
Found at i:42749 original size:12 final size:12
Alignment explanation
Indices: 42727--42763 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
42717 AGTCAAAAGT
42727 AAACACAAAAAA
1 AAACACAAAAAA
*
42739 ACAAAACAAAAAA
1 A-AACACAAAAAA
42752 AAACACAAAAAA
1 AAACACAAAAAA
42764 TGCAAAGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (12 bp):
AAACACAAAAAA
Found at i:44145 original size:31 final size:30
Alignment explanation
Indices: 44074--44427 Score: 333
Period size: 31 Copynumber: 11.4 Consensus size: 30
44064 GTGTTTTGTC
* * *
44074 TCAAAGTCCATGACTCAGTGGCATTTTTTT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTT
*
44104 CTCCAAAGTCCACAACTCAGTGGCAATCTCTTT
1 -T-CAAAGTCCACGACTCAGTGGC-ATCTCTTT
* *
44137 TCAAAGTCCATGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTCTT-T
*
44168 TCAAAGTCCACGACGT-AGTGACAATCTCTTT
1 TCAAAGTCCACGAC-TCAGTGGC-ATCTCTTT
44199 TCAAAGTCCACGACTCAGTGGCATCT-TTT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTT
**
44228 CTCCAAAGTCCATAACTCAGTGGCAATCTCTTT
1 -T-CAAAGTCCACGACTCAGTGGC-ATCTCTTT
*
44261 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTCTT-T
* *
44292 TCAAAGTCCACGA-TGTAGTGACAATCTCTTT
1 TCAAAGTCCACGACT-CAGTGGC-ATCTCTTT
* *
44323 TCAAAGTCCATGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTCTT-T
*
44354 TCAAAGTCCACGACTCCA-TGGCACCTTTTTCTTT
1 TCAAAGTCCACGACT-CAGTGGCA----TCTCTTT
*
44388 TCAAAGTCCACAACTTC-GTGGCA-CTCTTT
1 TCAAAGTCCACGAC-TCAGTGGCATCTCTTT
* *
44417 TTAAAGCCCAC
1 TCAAAGTCCAC
44428 ACAAGTCGAT
Statistics
Matches: 271, Mismatches: 30, Indels: 46
0.78 0.09 0.13
Matches are distributed among these distances:
29 17 0.06
30 25 0.09
31 154 0.57
32 41 0.15
33 9 0.03
34 20 0.07
35 5 0.02
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (30 bp):
TCAAAGTCCACGACTCAGTGGCATCTCTTT
Found at i:44166 original size:62 final size:62
Alignment explanation
Indices: 44074--44369 Score: 452
Period size: 62 Copynumber: 4.8 Consensus size: 62
44064 GTGTTTTGTC
* * * *
44074 TCAAAGTCCATGACTCAGTGGCATTTTTTTCTCCAAAGTCCACAACTCAGTGGCAATCTCTTT
1 TCAAAGTCCATGACTCAGTGGCA-TCTTTTCTTCAAAGTCCACGACTCAGTGACAATCTCTTT
44137 TCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACGT-AGTGACAATCTCTTT
1 TCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTCCACGAC-TCAGTGACAATCTCTTT
* * ** *
44199 TCAAAGTCCACGACTCAGTGGCATCTTTTCTCCAAAGTCCATAACTCAGTGGCAATCTCTTT
1 TCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGACAATCTCTTT
* *
44261 TCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGA-TGTAGTGACAATCTCTTT
1 TCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACT-CAGTGACAATCTCTTT
44323 TCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTC
1 TCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTC
44370 CATGGCACCT
Statistics
Matches: 213, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
61 2 0.01
62 186 0.87
63 25 0.12
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (62 bp):
TCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGACAATCTCTTT
Found at i:44233 original size:124 final size:124
Alignment explanation
Indices: 44074--44417 Score: 521
Period size: 124 Copynumber: 2.7 Consensus size: 124
44064 GTGTTTTGTC
*
44074 TCAAAGTCCATGACTCAGTGGCATTTTTTTCTCCAAAGTCCACAACTCAGTGGCAATCTCTTTTC
1 TCAAAGTCCATGACTCAGTGGCA-TCTTTTCTCCAAAGTCCACAACTCAGTGGCAATCTCTTTTC
*
44139 AAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACGTAGTGACAATCTCTTT
65 AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACGTAGTGACAATCTCTTT
* *
44199 TCAAAGTCCACGACTCAGTGGCATCTTTTCTCCAAAGTCCATAACTCAGTGGCAATCTCTTTTCA
1 TCAAAGTCCATGACTCAGTGGCATCTTTTCTCCAAAGTCCACAACTCAGTGGCAATCTCTTTTCA
*
44264 AAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGATGTAGTGACAATCTCTTT
66 AAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACGTAGTGACAATCTCTTT
* * * *
44323 TCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCCA-TGGCACCTTTTTCTT
1 TCAAAGTCCATGACTCAGTGGCATCTTTTCTCCAAAGTCCACAACT-CAGTGGCA---ATCTCTT
*
44387 TTCAAAGTCCACAACTTC-GTGGCACTCTTTT
62 TTCAAAGTCCACGAC-TCAGTGGCA-TCTTTT
44418 TAAAGCCCAC
Statistics
Matches: 201, Mismatches: 12, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
124 144 0.72
125 24 0.12
127 25 0.12
128 8 0.04
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.33
Consensus pattern (124 bp):
TCAAAGTCCATGACTCAGTGGCATCTTTTCTCCAAAGTCCACAACTCAGTGGCAATCTCTTTTCA
AAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACGTAGTGACAATCTCTTT
Found at i:44388 original size:37 final size:35
Alignment explanation
Indices: 44318--44418 Score: 106
Period size: 34 Copynumber: 3.0 Consensus size: 35
44308 AGTGACAATC
**
44318 TCTTTTCAAAGTCCATGACT-CAGTGGCA-TC-TTT
1 TCTTTTCAAAGTCCACAACTCCA-TGGCACTCTTTT
*
44351 TC--TTCAAAGTCCACGACTCCATGGCAC-CTTTT
1 TCTTTTCAAAGTCCACAACTCCATGGCACTCTTTT
* *
44383 TCTTTTCAAAGTCCACAACTTCGTGGCACTCTTTT
1 TCTTTTCAAAGTCCACAACTCCATGGCACTCTTTT
44418 T
1 T
44419 AAAGCCCACA
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
31 21 0.36
32 7 0.12
33 2 0.03
34 22 0.38
35 6 0.10
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.38
Consensus pattern (35 bp):
TCTTTTCAAAGTCCACAACTCCATGGCACTCTTTT
Found at i:44455 original size:32 final size:32
Alignment explanation
Indices: 44384--44538 Score: 149
Period size: 32 Copynumber: 4.9 Consensus size: 32
44374 GCACCTTTTT
* ** *
44384 CTTTTCAAAGTCCACA-ACTTC-GTGGC-ACT
1 CTTTTCAAAGCCCACACAAGTCGGTGGCAACC
* *
44413 CTTTTTAAAGCCCACACAAGTCGATGGCAACC
1 CTTTTCAAAGCCCACACAAGTCGGTGGCAACC
*
44445 CTTTTCAAAGCCCACACAAGTTGGTGGCAATCC
1 CTTTTCAAAGCCCACACAAGTCGGTGGCAA-CC
* * *
44478 CCTCT-AAAGCCCATACAAGTCGGTGGCAA-C
1 CTTTTCAAAGCCCACACAAGTCGGTGGCAACC
*
44508 CTTCTTCAAAAGCCCACACAAGTTGGTGGCA
1 CTT-TTC-AAAGCCCACACAAGTCGGTGGCA
44539 TCTTCCTTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
29 14 0.14
30 6 0.06
31 5 0.05
32 51 0.50
33 26 0.25
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.23
Consensus pattern (32 bp):
CTTTTCAAAGCCCACACAAGTCGGTGGCAACC
Found at i:44497 original size:64 final size:65
Alignment explanation
Indices: 44418--44538 Score: 201
Period size: 64 Copynumber: 1.9 Consensus size: 65
44408 GCACTCTTTT
44418 TAAAGCCCACACAAGTCGATGGCAACCCTT-TTC-AAAGCCCACACAAGTTGGTGGCAATCCCCT
1 TAAAGCCCACACAAGTCGATGGCAA-CCTTCTTCAAAAGCCCACACAAGTTGGTGGCAATCCCCT
44481 C
65 C
* *
44482 TAAAGCCCATACAAGTCGGTGGCAACCTTCTTCAAAAGCCCACACAAGTTGGTGGCA
1 TAAAGCCCACACAAGTCGATGGCAACCTTCTTCAAAAGCCCACACAAGTTGGTGGCA
44539 TCTTCCTTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
63 4 0.08
64 26 0.49
65 23 0.43
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (65 bp):
TAAAGCCCACACAAGTCGATGGCAACCTTCTTCAAAAGCCCACACAAGTTGGTGGCAATCCCCTC
Found at i:44669 original size:49 final size:49
Alignment explanation
Indices: 44544--45232 Score: 649
Period size: 49 Copynumber: 14.4 Consensus size: 49
44534 TGGCATCTTC
* * * * *
44544 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTAGCGCCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-AT
* * *
44596 CTTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCATCTTTAT
1 C-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * *
44646 CTTTAAGTCCAATGTTGTTGGCCTTGAATTAGCACATTGGCA--TTCT-T
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TAT
* * *
44693 CTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGTCA-C-----
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * * * *
44736 CTTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCATCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
*
44785 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * * * * *
44828 CTTTAAGTCTAATATCACTGGCCTTGAATCAACATATTGGCACCATTAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* *
44877 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA-C-----
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * *
44920 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* *
44969 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGG---C---AT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * *
45012 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-AT
* * * *
45064 CTTTAAGTCCAATGTCGTTAGCCTTGAATCAGCACATTGGCACCTTCAC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * * ** * *
45113 CTTTAGGACCAATATCGCTGGCCTTGAATCAGCATGTTGGCGTCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC-ACCTT-T-AT
*
45165 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
*
45214 CTTTAAGTCCAATATCGCT
1 CTTTAAGTCCAATGTCGCT
45233 AGCCGCATAT
Statistics
Matches: 528, Mismatches: 76, Indels: 69
0.78 0.11 0.10
Matches are distributed among these distances:
43 148 0.28
44 3 0.01
46 2 0.00
47 40 0.08
48 3 0.01
49 202 0.38
50 7 0.01
51 6 0.01
52 80 0.15
53 37 0.07
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (49 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
Found at i:44820 original size:92 final size:92
Alignment explanation
Indices: 44543--45212 Score: 797
Period size: 92 Copynumber: 7.1 Consensus size: 92
44533 GTGGCATCTT
* * *
44543 CCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTAGCGCCTTTGTCATCTTTTAAGTCCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC---GTCATC-TTTAAGTCCA
*
44608 ATGTAGCTGGCCTTGAATCAGCATATTGGCA
62 ATGTAGCTGGCCTTGAATCAGCACATTGGCA
* * * * * * *
44639 TCTTTATCTTTAAGTCCAATGTTGTTGGCCTTGAATTAGCACATTGGCA--TTCTTCTTTAAGTC
1 -C-----CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTC
* *
44702 CAATGTAGCTAGCCTTGAATCAGCACATTGTCA
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* *
44735 CCTTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGT
44800 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
44827 CCTTTAAGTCTAATATCACTGGCCTTGAATCAACATATTGGCACCATTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGT
*
44892 AGCTGGCCTTGAATCAACACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
44919 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGT
* *
44984 CGTTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
45011 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC---GTCATCTTTAAGTCCAA
* * *
45076 TGTCGTTAGCCTTGAATCAGCACATTGGCACCTTCA
63 TGTAGCTGGCCTTGAATCAGCACATTGG------CA
* * * * *
45112 CCTTTAGGACCAATATCGCTGGCCTTGAATCAGCATGTTGGCGTCTTTGTCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-AC--CGTCATCTTTAAGTCCAA
45177 TGTCA-CTGGCCTTGAATCAGCACATTGGCA
63 TGT-AGCTGGCCTTGAATCAGCACATTGGCA
45207 CCTTTA
1 CCTTTA
45213 TCTTTAAGTC
Statistics
Matches: 505, Mismatches: 48, Indels: 42
0.85 0.08 0.07
Matches are distributed among these distances:
90 38 0.08
92 255 0.50
95 51 0.10
96 38 0.08
97 5 0.01
101 81 0.16
102 37 0.07
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:45088 original size:52 final size:50
Alignment explanation
Indices: 45009--45232 Score: 272
Period size: 52 Copynumber: 4.4 Consensus size: 50
44999 AGCACATTGG
* *
45009 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T
* * *
45061 CATCTTTAAGTCCAATGTCGTTAGCCTTGAATCAGCACATTGGCACC-TT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT
* * * ** * *
45110 CACCTTTAGGACCAATATCGCTGGCCTTGAATCAGCATGTTGGCGTCTTTGT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGC-ACCTT-T
* *
45162 CATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT
45212 -ATCTTTAAGTCCAATATCGCT
1 CATCTTTAAGTCCAATATCGCT
45233 AGCCGCATAT
Statistics
Matches: 143, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
49 56 0.39
50 3 0.02
51 4 0.03
52 80 0.56
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (50 bp):
CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT
Found at i:45980 original size:32 final size:32
Alignment explanation
Indices: 45944--46009 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
45934 TTCAACGATT
*
45944 TGTATCAATAAATGAGTATTGTATCGATACAA
1 TGTATCAATAAATAAGTATTGTATCGATACAA
* * *
45976 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCAATAAATAAGTATTGTATCGATACAA
46008 TG
1 TG
46010 CATTGCTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCAATAAATAAGTATTGTATCGATACAA
Found at i:45981 original size:13 final size:13
Alignment explanation
Indices: 45963--45987 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45953 AAATGAGTAT
45963 TGTATCGATACAA
1 TGTATCGATACAA
45976 TGTATCGATACA
1 TGTATCGATACA
45988 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:46154 original size:52 final size:52
Alignment explanation
Indices: 46098--46220 Score: 219
Period size: 52 Copynumber: 2.4 Consensus size: 52
46088 TCTTTGTATT
*
46098 GATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATATATC
1 GATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATATATC
* *
46150 GATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATGTATC
1 GATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATATATC
46202 GATACATGTAGGCAAATTT
1 GATACATGTAGGCAAATTT
46221 TCATATTTCG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (52 bp):
GATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATATATC
Found at i:48338 original size:24 final size:26
Alignment explanation
Indices: 48311--48364 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
48301 TCAAAATTTT
*
48311 ATTCAT-CGA-GGACACTCCAACCTC
1 ATTCATCCGAGGGACACTCCAACCCC
*
48335 ATTCTTCCGAGGGGACACTCCAACCCC
1 ATTCATCCGA-GGGACACTCCAACCCC
48362 ATT
1 ATT
48365 TTCAACCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 3 0.12
27 17 0.68
ACGTcount: A:0.26, C:0.37, G:0.15, T:0.22
Consensus pattern (26 bp):
ATTCATCCGAGGGACACTCCAACCCC
Found at i:49394 original size:52 final size:53
Alignment explanation
Indices: 49301--49613 Score: 272
Period size: 52 Copynumber: 6.0 Consensus size: 53
49291 TTATCCAAAT
* ** * * *
49301 CAAAG-TCCATACT-AGCTGGCACCTGTATGGGGAGATTAAGCCATATAGAA-C
1 CAAAGATCCATACTAAGCTGGCACTTGTAT-AAGAGGTCAAGCCCTATAGAACC
* *
49352 CAAAGATCCATA-TAAGCTGGCAATTGTATAGAGAGGTCAAGCCCTATA-AAAC
1 CAAAGATCCATACTAAGCTGGCACTTGTATA-AGAGGTCAAGCCCTATAGAACC
* * * * * * **
49404 CTAAGGTCTACACT-AGTTGACACTTGTATAAGGAGGTCAAGCCCTATAGAAGT
1 CAAAGATCCATACTAAGCTGGCACTTGTATAA-GAGGTCAAGCCCTATAGAACC
* * * *
49457 CAAA-ATCCACACT-AGTTGACACCTGTATAAGAAGGTCAAGCCCTATAGAACC
1 CAAAGATCCATACTAAGCTGGCACTTGTATAAG-AGGTCAAGCCCTATAGAACC
** *
49509 CAAA-ATCCATGTTAA-CTAGCACTTGTATATAGAGGTCAAGCCCTATAGAACC
1 CAAAGATCCATACTAAGCTGGCACTTGTATA-AGAGGTCAAGCCCTATAGAACC
*
49561 CAAAG-TCCATATTAA-CTGGCACTTGTATAAGGAGGTCAAGCCCTATAGAACC
1 CAAAGATCCATACTAAGCTGGCACTTGTATAA-GAGGTCAAGCCCTATAGAACC
49613 C
1 C
49614 TAAGCCCACA
Statistics
Matches: 219, Mismatches: 31, Indels: 23
0.80 0.11 0.08
Matches are distributed among these distances:
51 11 0.05
52 199 0.91
53 9 0.04
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (53 bp):
CAAAGATCCATACTAAGCTGGCACTTGTATAAGAGGTCAAGCCCTATAGAACC
Found at i:49623 original size:156 final size:156
Alignment explanation
Indices: 49338--49629 Score: 372
Period size: 156 Copynumber: 1.9 Consensus size: 156
49328 TGGGGAGATT
*
49338 AAGCCATATAGAACCAAAGATCCATATAAGCTGGCAATTGTATAGAGAGGTCAAGCCCTATAAAA
1 AAGCCATATAGAACCAAAGATCCATATAAGCTAGCAATTGTATAGAGAGGTCAAGCCCTATAAAA
* * * ** ** *
49403 CCTAAGGTCTACACTAGTTGACACTTGTATAAGGAGGTCAAGCCCTATAGAAGTCAAAATCCACA
66 CCCAAAGTCCACACTAACTGACACTTGTATAAGGAGGTCAAGCCCTATAGAACCCAAAACCCACA
49468 CTAGTTGACACCTGTATAAGAAGGTC
131 CTAGTTGACACCTGTATAAGAAGGTC
* * * * *
49494 AAGCCCTATAGAACCCAAA-ATCCATGTTAA-CTAGCACTTGTATATAGAGGTCAAGCCCTATAG
1 AAGCCATATAGAA-CCAAAGATCCAT-ATAAGCTAGCAATTGTATAGAGAGGTCAAGCCCTATAA
* * * * *
49557 AACCCAAAGTCCATATTAACTGGCACTTGTATAAGGAGGTCAAGCCCTATAGAACCCTAAGCCCA
64 AACCCAAAGTCCACACTAACTGACACTTGTATAAGGAGGTCAAGCCCTATAGAACCCAAAACCCA
*
49622 CATTAGTT
129 CACTAGTT
49630 AGCTCCTATA
Statistics
Matches: 114, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
156 106 0.93
157 8 0.07
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.23
Consensus pattern (156 bp):
AAGCCATATAGAACCAAAGATCCATATAAGCTAGCAATTGTATAGAGAGGTCAAGCCCTATAAAA
CCCAAAGTCCACACTAACTGACACTTGTATAAGGAGGTCAAGCCCTATAGAACCCAAAACCCACA
CTAGTTGACACCTGTATAAGAAGGTC
Found at i:49647 original size:52 final size:52
Alignment explanation
Indices: 49430--49661 Score: 189
Period size: 52 Copynumber: 4.5 Consensus size: 52
49420 TTGACACTTG
** ** * * * *
49430 TATAAGGAGGTCAAGCCCTATAGAAGTCAAAATCCACACT-AGTTGACACCTG
1 TATAAGGAGGTCAAGCCCTATAGAACCCAAAGCCCACATTAACTAG-CACCTA
* ** ** * *
49482 TATAAGAAGGTCAAGCCCTATAGAACCCAAAATCCATGTTAACTAGCACTTG
1 TATAAGGAGGTCAAGCCCTATAGAACCCAAAGCCCACATTAACTAGCACCTA
* * * * *
49534 TATATA-GAGGTCAAGCCCTATAGAACCCAAAGTCCATATTAACTGGCACTTG
1 TATA-AGGAGGTCAAGCCCTATAGAACCCAAAGCCCACATTAACTAGCACCTA
* ** *
49586 TATAAGGAGGTCAAGCCCTATAGAACCCTAAGCCCACATTAGTTAGCTCCTA
1 TATAAGGAGGTCAAGCCCTATAGAACCCAAAGCCCACATTAACTAGCACCTA
* * *
49638 TATAGGGAGGACAAGCCCAATAGA
1 TATAAGGAGGTCAAGCCCTATAGA
49662 GTCAAAATTC
Statistics
Matches: 152, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
51 1 0.01
52 147 0.97
53 4 0.03
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (52 bp):
TATAAGGAGGTCAAGCCCTATAGAACCCAAAGCCCACATTAACTAGCACCTA
Found at i:49653 original size:104 final size:102
Alignment explanation
Indices: 49338--49661 Score: 296
Period size: 104 Copynumber: 3.1 Consensus size: 102
49328 TGGGGAGATT
* *
49338 AAGCCATATAGAACCAAAGATCCATATAAGCTGGCAATTGTAT-AGAGAGGTCAAGCCCTATA-A
1 AAGCCCTATAGAACCAAAG-TCCATATAA-CTGGCACTTGTATAAG-GAGGTCAAGCCCTATAGA
* * *
49401 AACCTAAGGTCTACACTAGTT-GACACTTGTATAAGGAGGTC
63 ACCCTAA-GTCCACATTAGTTAG-CACTTGTATAAGGAGGTC
* * * ** * * *
49442 AAGCCCTATAGAAGTCAAAATCCACACTAGTTGACACCTGTATAAGAAGGTCAAGCCCTATAGAA
1 AAGCCCTATAGAA-CCAAAGTCCATA-TAACTGGCACTTGTATAAGGAGGTCAAGCCCTATAGAA
* * ** **
49507 CCCAAAATCCATGTTAACTAGCACTTGTATATA-GAGGTC
64 CCCTAAGTCCACATTAGTTAGCACTTGTATA-AGGAGGTC
49546 AAGCCCTATAGAACCCAAAGTCCATATTAACTGGCACTTGTATAAGGAGGTCAAGCCCTATAGAA
1 AAGCCCTATAGAA-CCAAAGTCCATA-TAACTGGCACTTGTATAAGGAGGTCAAGCCCTATAGAA
* * * * * *
49611 CCCTAAGCCCACATTAGTTAGCTCCTATATAGGGAGGAC
64 CCCTAAGTCCACATTAGTTAGCACTTGTATAAGGAGGTC
*
49650 AAGCCCAATAGA
1 AAGCCCTATAGA
49662 GTCAAAATTC
Statistics
Matches: 171, Mismatches: 42, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
104 155 0.91
105 16 0.09
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.22
Consensus pattern (102 bp):
AAGCCCTATAGAACCAAAGTCCATATAACTGGCACTTGTATAAGGAGGTCAAGCCCTATAGAACC
CTAAGTCCACATTAGTTAGCACTTGTATAAGGAGGTC
Found at i:51911 original size:18 final size:18
Alignment explanation
Indices: 51888--51926 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
51878 CAAAAAATAA
*
51888 CCAAAAATATTTTATTTT
1 CCAAAAATATTTAATTTT
*
51906 CCAAAATTATTTAATTTT
1 CCAAAAATATTTAATTTT
51924 CCA
1 CCA
51927 CGCACATGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (18 bp):
CCAAAAATATTTAATTTT
Found at i:53031 original size:29 final size:29
Alignment explanation
Indices: 52999--53089 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 29
52989 AAAATATATG
*
52999 AAATGACATAAAAGTCCCTAGATCATGAA
1 AAATGACATAAAAGTCCTTAGATCATGAA
* * * * *
53028 AAATGACCTAAATGACATTA-A-AATGCATA
1 AAATGACATAAAAGTCCTTAGATCATG-A-A
*
53057 AAATAACATAAAAGTCCTTAGATCATGAA
1 AAATGACATAAAAGTCCTTAGATCATGAA
53086 AAAT
1 AAAT
53090 TATATTTAAA
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
27 3 0.07
28 2 0.04
29 36 0.78
30 2 0.04
31 3 0.07
ACGTcount: A:0.52, C:0.14, G:0.11, T:0.23
Consensus pattern (29 bp):
AAATGACATAAAAGTCCTTAGATCATGAA
Found at i:53032 original size:58 final size:58
Alignment explanation
Indices: 52939--53089 Score: 176
Period size: 58 Copynumber: 2.6 Consensus size: 58
52929 AAAATAACCT
* * ** * * *
52939 AAATGACATCAAAATTCATCTAGATCATGGTAAATGACCCAAATGATATCAAAATATATG
1 AAATGACAT-AAAAGTC-CCTAGATCATGAAAAATGACCCAAATGACATCAAAATACATA
* * *
52999 AAATGACATAAAAGTCCCTAGATCATGAAAAATGACCTAAATGACATTAAAATGCATA
1 AAATGACATAAAAGTCCCTAGATCATGAAAAATGACCCAAATGACATCAAAATACATA
* *
53057 AAATAACATAAAAGTCCTTAGATCATGAAAAAT
1 AAATGACATAAAAGTCCCTAGATCATGAAAAAT
53090 TATATTTAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
58 64 0.81
59 6 0.08
60 9 0.11
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.25
Consensus pattern (58 bp):
AAATGACATAAAAGTCCCTAGATCATGAAAAATGACCCAAATGACATCAAAATACATA
Found at i:57109 original size:20 final size:20
Alignment explanation
Indices: 57084--57134 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
57074 GTTAGGCATA
*
57084 ATGTATCGATACAAT-TCTTC
1 ATGTATCGATACAATGTC-CC
*
57104 ATGTATCGATACAGTGTCCC
1 ATGTATCGATACAATGTCCC
57124 ATGTATCGATA
1 ATGTATCGATA
57135 GATTTCACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATGTCCC
Found at i:57191 original size:20 final size:20
Alignment explanation
Indices: 57165--57219 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
57155 CTACTAGTTT
57165 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAG
* *
57185 TATGTATTGATACAA-TGAG
1 CATGTATCGATACAATTGAG
57204 CATGTATCGATACAAT
1 CATGTATCGATACAAT
57220 ATATCGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:65928 original size:13 final size:13
Alignment explanation
Indices: 65910--65935 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65900 ACAATTATTC
65910 ATGTATCGATACA
1 ATGTATCGATACA
65923 ATGTATCGATACA
1 ATGTATCGATACA
65936 GTGTCCCACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:70147 original size:152 final size:148
Alignment explanation
Indices: 69805--70524 Score: 577
Period size: 152 Copynumber: 4.8 Consensus size: 148
69795 GTAGTACCTT
* * * * * * *
69805 TAAAGGACTTAAAAAAGATCATAGATGGGATGAACATAACTTAAATATCCACCTTCGACATAAAA
1 TAAAGGACTTAAAAAGGATTATAGATGAGATGAACCTATCCTAAATACCCACCTTCGACATAAAA
** * * * * * * *
69870 G-CAAATCTGATGATAACCGAGGACTCAGTT-TTGAAAAATTATGAAAATGCTCTTAAAGTATAC
66 GTGGACTC-GATGACAACCTAAGACTCGGTTATAG-AAAATTATGAAAATG--C--AGA-TA-AC
** * * * *
69933 CTTTGACTTAAAAGTACTCGATAACCC
123 C-TCAACTTAGAAGTGCCCAATAACCC
* * *
69960 TAAAGGACTTAAAAA-GATTATAGATGAGATGAACCTATCATAAATACCCACCTTTGGCATAAAA
1 TAAAGGACTTAAAAAGGATTATAGATGAGATGAACCTATCCTAAATACCCACCTTCGACATAAAA
* * * * *
70024 GTGGACCCGATGACAACCTAGGACTCGGTTCTGGTAAAATTATGAAAATGCAGATAAACCTAAAG
66 GTGGACTCGATGACAACCTAAGACTCGGTTATAG-AAAATTATGAAAATGCAGAT-AACCT-CA-
*
70089 GACTTAGAAGTGCCTAATAACCC
127 -ACTTAGAAGTGCCCAATAACCC
* * **
70112 TAAAGGACTT-AAAAGGATTATAGATGGGATAAACCTATCCTAAATAGTCACCTTCGACATAAAA
1 TAAAGGACTTAAAAAGGATTATAGATGAGATGAACCTATCCTAAATACCCACCTTCGACATAAAA
* * * *
70176 GCGGACTTGGTGACAACCTAAGACTCAGTTATAAGAAAATTATGAAAAT---G-T----TCAACT
66 GTGGACTCGATGACAACCTAAGACTCGGTTAT-AGAAAATTATGAAAATGCAGATAACCTCAACT
*
70233 TAGAAGTGCCCAATATCCC
130 TAGAAGTGCCCAATAACCC
* * * * *
70252 TAATGGACTTGAAAAGGATTATAGATGGGATGAACCTATCCTAAATATACCTACCTTCGATATAA
1 TAAAGGACTTAAAAAGGATTATAGATGAGATGAACCTATCCT-AA-ATACCCACCTTCGACATAA
* * *
70317 AAGTGGACTCAATGACAACCTAAGACTCGGTTTTAGAAAAATTATG-AAATGACCCCTAGAGGAT
64 AAGTGGACTCGATGACAACCTAAGACTCGGTTATAG-AAAATTATGAAAATG----C-AGA-TA-
*
70381 ACCTTCAACTTAGAAGTGCCCAATACCCC
121 ACC-TCAACTTAGAAGTGCCCAATAACCC
* * * *
70410 TAATGGACTTAAAAAGGATTATAGAT-AGATGAACCTATCCTAAATACCTACCTTCAACATCAAA
1 TAAAGGACTTAAAAAGGATTATAGATGAGATGAACCTATCCTAAATACCCACCTTCGACATAAAA
** * * *
70474 GCAGACTCGGTGACAACCTAAGACTCGATTATAAAAAAATTATGAAAATGC
66 GTGGACTCGATGACAACCTAAGACTCGGTTAT-AGAAAATTATGAAAATGC
70525 CCATAGGGGA
Statistics
Matches: 466, Mismatches: 69, Indels: 63
0.78 0.12 0.11
Matches are distributed among these distances:
140 29 0.06
141 30 0.06
142 9 0.02
143 53 0.11
148 1 0.00
149 2 0.00
150 5 0.01
151 7 0.02
152 109 0.23
153 2 0.00
154 61 0.13
155 87 0.19
156 8 0.02
157 14 0.03
158 49 0.11
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.25
Consensus pattern (148 bp):
TAAAGGACTTAAAAAGGATTATAGATGAGATGAACCTATCCTAAATACCCACCTTCGACATAAAA
GTGGACTCGATGACAACCTAAGACTCGGTTATAGAAAATTATGAAAATGCAGATAACCTCAACTT
AGAAGTGCCCAATAACCC
Found at i:70337 original size:143 final size:142
Alignment explanation
Indices: 70090--70523 Score: 479
Period size: 155 Copynumber: 3.0 Consensus size: 142
70080 AACCTAAAGG
* * *
70090 ACTTAGAAGTGCCTAATAACCCTAAAGGACTTAAAAGGATTATAGATGGGATAAACCTATCCTAA
1 ACTTAGAAGTGCCCAATAACCCTAATGGACTTAAAAGGATTATAGATGGGATGAACCTATCCTAA
*
70155 ATAGT--C-ACCTTCGACATAAAAGCGGACTTGGTGACAACCTAAGACTCAGTTATAAGAAAATT
66 ATA-TACCTACCTTCGACATAAAAGCGGACTCGGTGACAACCTAAGACTC-GTTATAAGAAAATT
70217 ATGAAAATG-TTCA
129 ATGAAAATGATTCA
*
70230 ACTTAGAAGTGCCCAATATCCCTAATGGACTTGAAAAGGATTATAGATGGGATGAACCTATCCTA
1 ACTTAGAAGTGCCCAATAACCCTAATGGACTT-AAAAGGATTATAGATGGGATGAACCTATCCTA
* * ** *
70295 AATATACCTACCTTCGATATAAAAGTGGACTCAATGACAACCTAAGACTCGGTT-TTAGAAAAAT
65 AATATACCTACCTTCGACATAAAAGCGGACTCGGTGACAACCTAAGACTC-GTTATAAG-AAAAT
70359 TATGAAATGACCCCTAGAGGATACCTTCA
128 TATGAAA--A----T----G--A--TTCA
* *
70388 ACTTAGAAGTGCCCAATACCCCTAATGGACTTAAAAAGGATTATAGAT-AGATGAACCTATCCT-
1 ACTTAGAAGTGCCCAATAACCCTAATGGACTT-AAAAGGATTATAGATGGGATGAACCTATCCTA
* * * *
70451 AA-ATACCTACCTTCAACATCAAAGCAGACTCGGTGACAACCTAAGACTCGATTATAAAAAAATT
65 AATATACCTACCTTCGACATAAAAGCGGACTCGGTGACAACCTAAGACTCG-TTATAAGAAAATT
70515 ATGAAAATG
129 ATGAAAATG
70524 CCCATAGGGG
Statistics
Matches: 249, Mismatches: 23, Indels: 39
0.80 0.07 0.13
Matches are distributed among these distances:
140 30 0.12
141 35 0.14
142 4 0.02
143 51 0.20
145 2 0.01
149 2 0.01
153 2 0.01
154 1 0.00
155 54 0.22
156 4 0.02
157 14 0.06
158 50 0.20
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (142 bp):
ACTTAGAAGTGCCCAATAACCCTAATGGACTTAAAAGGATTATAGATGGGATGAACCTATCCTAA
ATATACCTACCTTCGACATAAAAGCGGACTCGGTGACAACCTAAGACTCGTTATAAGAAAATTAT
GAAAATGATTCA
Found at i:70488 original size:298 final size:291
Alignment explanation
Indices: 69957--70523 Score: 721
Period size: 298 Copynumber: 1.9 Consensus size: 291
69947 TACTCGATAA
* *
69957 CCCTAAAGGACTTAAAAAGATTATAGATGAGATGAACCTATCATAAATACCCACCTTTGGCATAA
1 CCCTAAAGGACTTAAAAAGATTATAGATGAGATGAACCTATCATAAATACCCACCTTCGACATAA
* * * * *
70022 AAGTGGACCCGATGACAACCTAGGACTCGGTTCTGGTAAAATTATGAAAATGCAGATAAACCTAA
66 AAGTGGACCCAATGACAACCTAAGACTCGGTTCTAGAAAAATTATGAAAATGCAGAGAAACCTAA
* *
70087 AGGACTTAGAAGTGCCTAATAACCCTAAAGGACTTAAAAGGATTATAGATGGGATAAACCTATCC
131 A-GACTTAGAAGTGCCCAATAACCCTAAAGGACTTAAAAGGATTATAGATGAGATAAACCTATCC
* * * * *
70152 TAAATAGTCACCTTCGACATAAAAGCGGACTTGGTGACAACCTAAGACTC-AGTTATAAGAAAAT
195 TAAATACTCACCTTCAACATAAAAGCAGACTCGGTGACAACCTAAGACTCGA-TTATAAAAAAAT
70216 TATGAAAATGTTCAACTTAGAAGTGCCCAATAT
259 TATGAAAATGTTCAACTTAGAAGTGCCCAATAT
* * * * * *
70249 CCCTAATGGACTTGAAAAGGATTATAGATGGGATGAACCTATCCTAAATATACCTACCTTCGATA
1 CCCTAAAGGACTT-AAAAAGATTATAGATGAGATGAACCTATCAT-AA-ATACCCACCTTCGACA
* *
70314 TAAAAGTGGACTCAATGACAACCTAAGACTCGGTTTTAGAAAAATTATG-AAATGACCCCTAGAG
63 TAAAAGTGGACCCAATGACAACCTAAGACTCGGTTCTAGAAAAATTATGAAAATG----C-AGA-
* ** * * *
70378 GATACCTTCA-ACTTAGAAGTGCCCAATACCCCTAATGGACTTAAAAAGGATTATAGAT-AGATG
122 GAAACCTAAAGACTTAGAAGTGCCCAATAACCCTAAAGGACTT-AAAAGGATTATAGATGAGATA
*
70441 AACCTATCCTAAATAC-CTACCTTCAACATCAAAGCAGACTCGGTGACAACCTAAGACTCGATTA
186 AACCTATCCTAAATACTC-ACCTTCAACATAAAAGCAGACTCGGTGACAACCTAAGACTCGATTA
70505 TAAAAAAATTATGAAAATG
250 TAAAAAAATTATGAAAATG
70524 CCCATAGGGG
Statistics
Matches: 234, Mismatches: 29, Indels: 18
0.83 0.10 0.06
Matches are distributed among these distances:
292 12 0.05
293 28 0.12
294 7 0.03
295 55 0.24
297 1 0.00
298 106 0.45
299 19 0.08
300 6 0.03
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (291 bp):
CCCTAAAGGACTTAAAAAGATTATAGATGAGATGAACCTATCATAAATACCCACCTTCGACATAA
AAGTGGACCCAATGACAACCTAAGACTCGGTTCTAGAAAAATTATGAAAATGCAGAGAAACCTAA
AGACTTAGAAGTGCCCAATAACCCTAAAGGACTTAAAAGGATTATAGATGAGATAAACCTATCCT
AAATACTCACCTTCAACATAAAAGCAGACTCGGTGACAACCTAAGACTCGATTATAAAAAAATTA
TGAAAATGTTCAACTTAGAAGTGCCCAATAT
Found at i:70998 original size:14 final size:14
Alignment explanation
Indices: 70979--71006 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
70969 TAAATTTGCT
70979 ATTTAATCCCTAAA
1 ATTTAATCCCTAAA
70993 ATTTAATCCCTAAA
1 ATTTAATCCCTAAA
71007 CTTTCTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTTAATCCCTAAA
Found at i:71767 original size:42 final size:42
Alignment explanation
Indices: 71646--71788 Score: 112
Period size: 42 Copynumber: 3.3 Consensus size: 42
71636 AAAAATCACA
* * * *
71646 CTTTTATCCTCAAAGAGCAGGACACACTTCA-TTCCCTTCTTTT
1 CTTTTATCCTCAAAGAGCAAGACGCATTTCATTTTCC-TC-TTT
* * * *
71689 CCCTTTTGTCCTCAAATAG-TAGAATGCACTTT-ATTTTCCTCTTT
1 --CTTTTATCCTCAAAGAGCAAG-ACGCA-TTTCATTTTCCTCTTT
* *
71733 CTTTTGTCCTCAAAGAGCAAGACGCATTTCATTTTCCTTTTT
1 CTTTTATCCTCAAAGAGCAAGACGCATTTCATTTTCCTCTTT
*
71775 CCTTTATCCTCAAA
1 CTTTTATCCTCAAA
71789 AAACAGGATG
Statistics
Matches: 79, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
41 3 0.04
42 43 0.54
43 2 0.03
44 4 0.05
45 21 0.27
46 6 0.08
ACGTcount: A:0.22, C:0.27, G:0.09, T:0.41
Consensus pattern (42 bp):
CTTTTATCCTCAAAGAGCAAGACGCATTTCATTTTCCTCTTT
Found at i:71886 original size:42 final size:41
Alignment explanation
Indices: 71803--71903 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
71793 AGGATGTACT
71803 TTTTTTCACTTTGTCCTCAAGAAGCAAGATATTTTCCTTCTC
1 TTTTTTC-CTTTGTCCTCAAGAAGCAAGATATTTTCCTTCTC
* *
71845 TTTTTTCCTTTGTCCTTAAGGAGCAAGACCTA-TTT-CTT-TC
1 TTTTTTCCTTTGTCCTCAAGAAGCAAGA--TATTTTCCTTCTC
*
71885 TCTTTTCCTTTGTCCTCAA
1 TTTTTTCCTTTGTCCTCAA
71904 AAAGTGGGAC
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
40 19 0.36
41 22 0.42
42 10 0.19
43 2 0.04
ACGTcount: A:0.18, C:0.25, G:0.10, T:0.48
Consensus pattern (41 bp):
TTTTTTCCTTTGTCCTCAAGAAGCAAGATATTTTCCTTCTC
Found at i:72537 original size:49 final size:48
Alignment explanation
Indices: 72484--72669 Score: 160
Period size: 49 Copynumber: 3.7 Consensus size: 48
72474 TTTCACAATT
* * *
72484 TGTATCAATACATTGTT-TATTGTATCGATACATTCTAGGTTTACCCAGA
1 TGTATCGATACATT-TTACATTGTATCGATACATTCT-GGTTTACCCAAA
* * * *
72533 TGTATCGATACATTTTGCATTGTATCGATACATTGCTTGTTGTATCAATACA
1 TGTATCGATACATTTTACATTGTATCGATACATT-CTGGTT-TACCCA-A-A
** *
72585 TTGTATCGATACAATGCT-CATTGTATCGATACATGCTGGATTTACCCAAA
1 -TGTATCGATAC-ATTTTACATTGTATCGATACATTCTGG-TTTACCCAAA
* * *
72635 TATATCGATACATTTTATAATGTATCGATACATTC
1 TGTATCGATACATTTTACATTGTATCGATACATTC
72670 AGGCATTTTT
Statistics
Matches: 110, Mismatches: 18, Indels: 18
0.75 0.12 0.12
Matches are distributed among these distances:
48 5 0.05
49 57 0.52
50 7 0.06
51 1 0.01
52 8 0.07
53 29 0.26
54 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.40
Consensus pattern (48 bp):
TGTATCGATACATTTTACATTGTATCGATACATTCTGGTTTACCCAAA
Found at i:72575 original size:20 final size:20
Alignment explanation
Indices: 72533--72588 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
72523 TTTACCCAGA
72533 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGTTG-AT
72553 TGTATCGATACATTGCTTG-T
1 TGTATCGATACATTG-TTGAT
*
72573 TGTATCAATACATTGT
1 TGTATCGATACATTGT
72589 ATCGATACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 1 0.03
20 29 0.88
22 3 0.09
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATTGTTGAT
Found at i:72592 original size:33 final size:33
Alignment explanation
Indices: 72550--72618 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
72540 ATACATTTTG
* **
72550 CATTGTATCGATACATTGCTTGTTGTATCAATA
1 CATTGTATCGATACAATGCTCATTGTATCAATA
*
72583 CATTGTATCGATACAATGCTCATTGTATCGATA
1 CATTGTATCGATACAATGCTCATTGTATCAATA
72616 CAT
1 CAT
72619 GCTGGATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.39
Consensus pattern (33 bp):
CATTGTATCGATACAATGCTCATTGTATCAATA
Found at i:72606 original size:20 final size:19
Alignment explanation
Indices: 72583--72621 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
72573 TGTATCAATA
72583 CATTGTATCGATACAATGCT
1 CATTGTATCGATAC-ATGCT
72603 CATTGTATCGATACATGCT
1 CATTGTATCGATACATGCT
72622 GGATTTACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:72618 original size:102 final size:102
Alignment explanation
Indices: 72483--72668 Score: 266
Period size: 102 Copynumber: 1.8 Consensus size: 102
72473 TTTTCACAAT
* * * * * *
72483 TTGTATCAATACATTGTTTATTGTATCGATACATTCTAGG-TTTACCCAGATGTATCGATACATT
1 TTGTATCAATACAATGCTCATTGTATCGATACATGCT-GGATTTACCCAAATATATCGATACATT
* *
72547 TTGCATTGTATCGATACATTGCTTGTTGTATCAATACA
65 TTACAATGTATCGATACATTGCTTGTTGTATCAATACA
*
72585 TTGTATCGATACAATGCTCATTGTATCGATACATGCTGGATTTACCCAAATATATCGATACATTT
1 TTGTATCAATACAATGCTCATTGTATCGATACATGCTGGATTTACCCAAATATATCGATACATTT
*
72650 TATAATGTATCGATACATT
66 TACAATGTATCGATACATT
72669 CAGGCATTTT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 2 0.03
102 71 0.97
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (102 bp):
TTGTATCAATACAATGCTCATTGTATCGATACATGCTGGATTTACCCAAATATATCGATACATTT
TACAATGTATCGATACATTGCTTGTTGTATCAATACA
Found at i:75048 original size:51 final size:50
Alignment explanation
Indices: 74993--75136 Score: 166
Period size: 51 Copynumber: 2.8 Consensus size: 50
74983 TCCTGGCTCC
74993 ATTTCCAAAACATCAATTTTTCTTAATCGAGGATACTCCAACTCCGATTTT
1 ATTTCCAAAACATCAATTTTTCTTAATCG-GGATACTCCAACTCCGATTTT
* * * *
75044 ATTTCTAAAGCATCGA-TTTACTGCT-ATCGGGGATACTCCAACTCCGATTTT
1 ATTTCCAAAACATCAATTTTTCT--TAATC-GGGATACTCCAACTCCGATTTT
* * *
75095 ATTTTCAAAACACCAATTTTTCTTAATTTGGGATACTCCAAC
1 ATTTCCAAAACATCAATTTTTCTTAA-TCGGGATACTCCAAC
75137 CCCGTTATTT
Statistics
Matches: 76, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
50 6 0.08
51 62 0.82
52 8 0.11
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (50 bp):
ATTTCCAAAACATCAATTTTTCTTAATCGGGATACTCCAACTCCGATTTT
Found at i:75156 original size:28 final size:28
Alignment explanation
Indices: 75124--75193 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
75114 TTCTTAATTT
* **
75124 GGGATACTCCAACCCCGTTATTTCATCG
1 GGGATACTCCAACCACGTTATTTCAGAG
* *
75152 GGGATACTCCAACCATGTTATTTCCGAG
1 GGGATACTCCAACCACGTTATTTCAGAG
75180 GGGATACTCCAACC
1 GGGATACTCCAACC
75194 TCGGCTTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (28 bp):
GGGATACTCCAACCACGTTATTTCAGAG
Found at i:75330 original size:109 final size:109
Alignment explanation
Indices: 75072--75331 Score: 303
Period size: 109 Copynumber: 2.4 Consensus size: 109
75062 TACTGCTATC
* * * *
75072 GGGGATACTCCAACTCCGATTTTATTT-TCAAAACACCAA--TTTTTCTTAATTTGGGATACTCC
1 GGGGATACTCCAACCCCGATTTTATTTCT-AAAATACCAATTTTTTTCATAATTGGGGATACTCC
* * * *
75134 AACCCCGTTATTTCATCGGGGATACTCCAACCATGTTATTTCCGA
65 AACCCCATTATGTCATCGGCGATACTCCAACCATGTTATTTCCAA
* ** * *** * *
75179 GGGGATACTCCAACCTCGGCTTTATGTCTAAAATATTGATTTTTTTCATAATTGGGGGTACTCCG
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTTTCATAATTGGGGATACTCCA
75244 ACCCCATTATGTCATCGGCGATACTCCAATCC-TGTTATTTCCAA
66 ACCCCATTATGTCATCGGCGATACTCCAA-CCATGTTATTTCCAA
* *
75288 GGGGATACTCTAACCCCAATTTTATTTCTAAAATACCAATTTTT
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTT
75332 CACAATCGGA
Statistics
Matches: 123, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
107 28 0.23
108 1 0.01
109 92 0.75
110 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (109 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTTTCATAATTGGGGATACTCCA
ACCCCATTATGTCATCGGCGATACTCCAACCATGTTATTTCCAA
Found at i:75781 original size:13 final size:13
Alignment explanation
Indices: 75763--75787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75753 CATAAAGTGT
75763 TGTATCGATACAA
1 TGTATCGATACAA
75776 TGTATCGATACA
1 TGTATCGATACA
75788 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:75785 original size:33 final size:33
Alignment explanation
Indices: 75743--75809 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
75733 TTCAACGATT
75743 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
75776 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
75809 T
1 T
75810 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:75868 original size:13 final size:13
Alignment explanation
Indices: 75850--75874 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75840 ATTACTCAAA
75850 TGTATCGATACAT
1 TGTATCGATACAT
75863 TGTATCGATACA
1 TGTATCGATACA
75875 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:75924 original size:32 final size:32
Alignment explanation
Indices: 75883--75958 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
75873 CACTGATCTT
75883 TGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGA
*
75915 TGTATCGATACATGCAGGCAAATTTGCCGAGA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGA
75947 TGTATCGATACA
1 TGTATCGATACA
75959 CTATTAAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (32 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:79126 original size:19 final size:18
Alignment explanation
Indices: 79100--79168 Score: 76
Period size: 19 Copynumber: 4.0 Consensus size: 18
79090 AATTTCAGCG
79100 ATTTGTATCGATACATAA
1 ATTTGTATCGATACATAA
79118 ATGTTGTATCGATAC---A
1 AT-TTGTATCGATACATAA
79134 A--TGTATCGATACATAA
1 ATTTGTATCGATACATAA
*
79150 GTATTGTATCGATACATAA
1 AT-TTGTATCGATACATAA
79169 TTAGCTATTG
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.26
16 3 0.07
18 2 0.05
19 27 0.63
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
ATTTGTATCGATACATAA
Found at i:79139 original size:32 final size:32
Alignment explanation
Indices: 79103--79165 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
79093 TTCAGCGATT
*
79103 TGTATCGATACATAAATGTTGTATCGATACAA
1 TGTATCGATACATAAATATTGTATCGATACAA
*
79135 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAATATTGTATCGATACA
79166 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAATATTGTATCGATACAA
Found at i:79140 original size:13 final size:13
Alignment explanation
Indices: 79122--79146 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79112 ACATAAATGT
79122 TGTATCGATACAA
1 TGTATCGATACAA
79135 TGTATCGATACA
1 TGTATCGATACA
79147 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:79251 original size:34 final size:33
Alignment explanation
Indices: 79188--79254 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
79178 GCCAAGGGAA
* *
79188 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCAATACATTATTCTGTGTATCGATACAT
*
79221 TGTATCAATACATCTATTCTTTGTATCGATACAT
1 TGTATCAATACAT-TATTCTGTGTATCGATACAT
79255 CTAGGAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 12 0.40
34 18 0.60
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (33 bp):
TGTATCAATACATTATTCTGTGTATCGATACAT
Found at i:81737 original size:27 final size:28
Alignment explanation
Indices: 81707--81780 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 28
81697 TTTCTTCACA
81707 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
* *
81734 ATCGGGGGTACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
81762 CGAGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
81781 TGACTTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:81876 original size:52 final size:52
Alignment explanation
Indices: 81802--82252 Score: 325
Period size: 52 Copynumber: 8.6 Consensus size: 52
81792 CAAAATATTG
* *
81802 ATTTTT-CATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTA
1 ATTTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACCA
* * *
81853 ATTTTTCCATAATTGGGGATACTCCAACCCCGGTTTTATT-TTCAAAACACCA
1 ATTTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTGCT-AAAACACCA
* * * * *
81905 A-TTTTCCTTTAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCA
1 ATTTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTA-TTGC-TAAAACACCA
* * * *** * *
81959 ATTTCTT-CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCA
1 ATTT-TTCCATAATCGGGGATACTCCAACCCCGATT--TTATTGCTAAAACACCA
* * * * * ***
82012 ACCCCGTTATTTCC--GA--GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTG
1 A-----TT-TTTCCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACCA
* * *
82066 ATTTTT-CATAATCAGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTA
1 ATTTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACCA
* *
82117 ATTTTTCCACAATCGGGGATACTCCAACCCCGATTTTATT-TTCAAAACACCA
1 ATTTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTGCT-AAAACACCA
* * * * *
82169 A-TTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCA
1 ATTTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTA-TTGCTAAAACACCA
* *
82222 ATTTCT-CATAATTGGGGATACTCCAACCCCG
1 ATTTTTCCATAATCGGGGATACTCCAACCCCG
82253 TTATTTTCGA
Statistics
Matches: 312, Mismatches: 60, Indels: 55
0.73 0.14 0.13
Matches are distributed among these distances:
47 1 0.00
48 3 0.01
49 3 0.01
51 56 0.18
52 153 0.49
53 23 0.07
54 40 0.13
55 23 0.07
56 3 0.01
57 1 0.00
58 4 0.01
59 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (52 bp):
ATTTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACCA
Found at i:82000 original size:27 final size:28
Alignment explanation
Indices: 81970--82045 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
81960 TTTCTTCACA
81970 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
81997 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
82025 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
82046 ACTTTATTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.55
28 20 0.45
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:82104 original size:212 final size:211
Alignment explanation
Indices: 81815--82196 Score: 522
Period size: 212 Copynumber: 1.8 Consensus size: 211
81805 TTTCATAATC
** * **
81815 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTGCCAAAACACTAATTTTTCCATAATCAGGGATACTCCAA
* ** *
81880 CCCCGGTTTTATT-TTCAAAACACCAA-TTTTCCTTTAATCGAGGATACTCCAACTCCGATTTTA
66 CCCCGGTTTTATTGCT-AAAACACCAATTTTTCC-ACAATCGAGGATACTCCAACCCCGATTTTA
81943 TTTCCAAAAAACACCAA-TTT-CTTCACAATCGGGGATACTCCAACCCCGTTAATCATCGGGGAT
129 TTTCC--AAAACACCAATTTTCCTT--CAATCGGGGATACTCCAACCCCGTTAATCATCGGGGAT
82006 ACTCCAACCCCGTTATTTCCGA
190 ACTCCAACCCCGTTATTTCCGA
* * * *
82028 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTT-CATAATCAGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTGCCAAAACACTAATTTTTCCATAATCAGGGATACTCCAA
* *
82092 CCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATCGGGGATACTCCAACCCCGATTTTATT
66 CCCCGGTTTTATTGCTAAAACACCAATTTTTCCACAATCGAGGATACTCCAACCCCGATTTTATT
* *
82157 TTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAAC
131 TCCAAAACACCAATTTTCCTTCAATCGGGGATACTCCAAC
82197 TCCGATTTTA
Statistics
Matches: 148, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
210 28 0.19
211 3 0.02
212 73 0.49
213 44 0.30
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (211 bp):
GGGGATACTCCAACCCCGACTTTATTGCCAAAACACTAATTTTTCCATAATCAGGGATACTCCAA
CCCCGGTTTTATTGCTAAAACACCAATTTTTCCACAATCGAGGATACTCCAACCCCGATTTTATT
TCCAAAACACCAATTTTCCTTCAATCGGGGATACTCCAACCCCGTTAATCATCGGGGATACTCCA
ACCCCGTTATTTCCGA
Found at i:82224 original size:263 final size:263
Alignment explanation
Indices: 81596--82255 Score: 1155
Period size: 264 Copynumber: 2.5 Consensus size: 263
81586 TTCTCAATTC
* * * *
81596 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGAGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGAGG
*
81660 ATACTCCTACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
66 ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
* *
81725 CCGTTAATCATCGGGGGTACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTGACTTATT
131 CCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTATT
*
81790 TCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
196 TCCAAAATATTGATTTTTCATAATCAGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
81855 TTT
261 TTT
* * *
81858 TCCATAATTGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGAGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGAGG
81923 ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
66 ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
81988 CCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTAT
131 CCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGAC-TTAT
82053 TTCCAAAATATTGATTTTTCATAATCAGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAA
195 TTCCAAAATATTGATTTTTCATAATCAGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAA
82118 TTTT
260 TTTT
*
82122 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGAGG
* * *
82187 ATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTTC-TCATAATTGGGGATACTCCAACC
66 ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
82250 CCGTTA
131 CCGTTA
82256 TTTTCGAGGA
Statistics
Matches: 378, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
262 73 0.19
263 147 0.39
264 158 0.42
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (263 bp):
TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGAGG
ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
CCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTATT
TCCAAAATATTGATTTTTCATAATCAGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
TTT
Found at i:87099 original size:13 final size:13
Alignment explanation
Indices: 87081--87106 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87071 TACACAAAGT
87081 ATGTATCGATACA
1 ATGTATCGATACA
87094 ATGTATCGATACA
1 ATGTATCGATACA
87107 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:87099 original size:32 final size:33
Alignment explanation
Indices: 87063--87126 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
87053 TAGCTAAACT
**
87063 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
87095 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
87127 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:97171 original size:55 final size:55
Alignment explanation
Indices: 96970--97587 Score: 728
Period size: 55 Copynumber: 10.9 Consensus size: 55
96960 GACGCCTTTT
* ** *
96970 CTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGTGGGACGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACAC
* *
97024 CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAACAGGATGCTTTTT
1 C-TTTC----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----A
97088 C
55 C
* * * *
97089 TTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTTAAAGAGCAGGACCC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACAC
**
97144 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACAC
* * *
97199 CCTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAAGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACAC
*
97254 CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTC
1 CT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----AC
* * *
97315 TTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACAC
* *
97370 CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAAGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACAC
*
97425 CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACAC
* **
97480 CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGATGC
1 CT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACAC
* * *
97535 CTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAAGAGCAGGA
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC-AAAGAGCAGGA
97588 TACACTTTAT
Statistics
Matches: 498, Mismatches: 39, Indels: 52
0.85 0.07 0.09
Matches are distributed among these distances:
54 10 0.02
55 323 0.65
56 20 0.04
57 1 0.00
59 45 0.09
60 27 0.05
61 67 0.13
64 4 0.01
65 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (55 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACAC
Found at i:97375 original size:226 final size:226
Alignment explanation
Indices: 96975--97587 Score: 945
Period size: 226 Copynumber: 2.7 Consensus size: 226
96965 CTTTTCTTTT
** ** *
96975 AAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGTGGGACGCCTTTTCTTTTAAAGC
1 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC---TC--TTAAAGC
*
97039 CCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAACAGGATGCTTTTTCTTTTCAAAGCCCAC
61 CCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCAC
* **
97103 ACAAGTTGGTGGCACCTTTCAATCCTTAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGT
126 ACAAGTTGGTGGCACCTTTCAGTCCCAAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGT
* *
97168 GGCATTTTTCAGTCCTCAAAGAGCAGGACACCCTTC
191 GGCATTTTCCAGTCCTCAAAGAGCAAGACACCCTTC
*
97204 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACACCTCTTAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
97269 CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAG
66 CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAG
* *
97334 TTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAT
131 TTGGTGGCACCTTTCAGTCCCAAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
97399 TTTCCAGTCCTCAAAGAGCAAGACACCTTTC
196 TTTCCAGTCCTCAAAGAGCAAGACACCCTTC
97430 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
* *
97495 CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGATGC-----C-TTTCAAAGCCCACACGAG
66 CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAG
* *
97554 TTGGTGGCACTTTTTAGTCCTCAAAAGAGCAGGA
131 TTGGTGGCACCTTTCAGTCC-CAAAAGAGCAGGA
97588 TACACTTTAT
Statistics
Matches: 361, Mismatches: 20, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
220 35 0.10
221 13 0.04
225 27 0.07
226 240 0.66
227 2 0.01
229 25 0.07
230 19 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (226 bp):
AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAG
TTGGTGGCACCTTTCAGTCCCAAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCAT
TTTCCAGTCCTCAAAGAGCAAGACACCCTTC
Found at i:98404 original size:19 final size:18
Alignment explanation
Indices: 98378--98446 Score: 76
Period size: 19 Copynumber: 4.0 Consensus size: 18
98368 AATTTCAGCG
98378 ATTTGTATCGATACATAA
1 ATTTGTATCGATACATAA
98396 ATGTTGTATCGATAC---A
1 AT-TTGTATCGATACATAA
98412 A--TGTATCGATACATAA
1 ATTTGTATCGATACATAA
*
98428 GTATTGTATCGATACATAA
1 AT-TTGTATCGATACATAA
98447 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.26
16 3 0.07
18 2 0.05
19 27 0.63
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
ATTTGTATCGATACATAA
Found at i:98417 original size:32 final size:32
Alignment explanation
Indices: 98381--98443 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
98371 TTCAGCGATT
*
98381 TGTATCGATACATAAATGTTGTATCGATACAA
1 TGTATCGATACATAAATATTGTATCGATACAA
*
98413 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAATATTGTATCGATACA
98444 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAATATTGTATCGATACAA
Found at i:98418 original size:13 final size:13
Alignment explanation
Indices: 98400--98424 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98390 ACATAAATGT
98400 TGTATCGATACAA
1 TGTATCGATACAA
98413 TGTATCGATACA
1 TGTATCGATACA
98425 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:98504 original size:13 final size:13
Alignment explanation
Indices: 98486--98511 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98476 CATTTTTCTG
98486 TGTATCGATACAT
1 TGTATCGATACAT
98499 TGTATCGATACAT
1 TGTATCGATACAT
98512 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:98529 original size:34 final size:33
Alignment explanation
Indices: 98466--98532 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
98456 GCCAAGGGAA
*
98466 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
98499 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
98533 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:100936 original size:51 final size:53
Alignment explanation
Indices: 100872--101526 Score: 202
Period size: 52 Copynumber: 12.5 Consensus size: 53
100862 AGTTTCTCAA
* * * *
100872 TTCTCCACAATCGGGGATATTCCAACTCCAATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAAT
* * *
100923 TT-TTCTATAATCGGGGATACTCCTACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCAATTTTATTTCC-AAAAACACCAAT
** * * * *
100977 TTCTTCACAATCGGGGATACTCCAAC-CC-CGTTAATCATCGGAGATACTCCAAC-CCCAT
1 TTCTTCACAATCGGGGATACTCCAACTCCAATTTTAT-TTC-CA-A-A----AACACCAAT
* * * * * * ***
101035 TAT-TTC-CGA--GGGGATACTCCAACCCCGACTTTATTTCC-TAAATATTGAT
1 T-TCTTCACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAAT
* * ** * * *
101084 TT-TTCATAATCGGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAAT
1 TTCTTCACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAAT
* * ** *
101135 TT-TTCCACAATCGGGGATA--CAAACCCCGGTTTTATTTTC-AAAACACCAATT
1 TTCTT-CACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAA-T
* * *
101186 TTCCTT--TAATCGGGGATACTTCAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCAATTTTATTTCC-AAAAACACCAAT
* * * * *** * * *
101239 TTCTTCACAATCGGGGATACTCCAACACC--GTTAATCATCTGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAACTCCAATTTTAT-TTC-CAAAAACACCAAT
** ** * * * * ***
101292 CCCGTT-A-TTTCCGAGGAGATACTCCAACCCCGACTTTATTTCC-AAAATATTGAT
1 TTC-TTCACAAT-CG-GG-GATACTCCAACTCCAATTTTATTTCCAAAAACACCAAT
* * * * * *
101346 TT-TTCATAATCGGGGATACTCCAACCCCAGTTTTA-TTGCTAAAACACTAAT
1 TTCTTCACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAAT
* * * *
101397 TT-TTCCACAATCGGGGATACTACAACCCCAGTTTTATTTTC-AAAACACCAATT
1 TTCTT-CACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAA-T
* * * *
101450 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAAT
* **
101502 TTC-TCATAATTAGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
101527 CCCGTTATTT
Statistics
Matches: 456, Mismatches: 97, Indels: 101
0.70 0.15 0.15
Matches are distributed among these distances:
48 6 0.01
49 4 0.01
50 43 0.09
51 102 0.22
52 132 0.29
53 50 0.11
54 58 0.13
55 33 0.07
56 6 0.01
57 10 0.02
58 8 0.02
59 4 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAAT
Found at i:101016 original size:27 final size:28
Alignment explanation
Indices: 100986--101061 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 28
100976 TTTCTTCACA
100986 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
* * *
101013 ATCGGAGATACTCCAACCCCATTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
101041 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
101062 ACTTTATTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:101153 original size:52 final size:51
Alignment explanation
Indices: 101082--101530 Score: 266
Period size: 52 Copynumber: 8.6 Consensus size: 51
101072 CTAAATATTG
*
101082 ATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTA
1 ATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACCA
* * *
101133 ATTTTTCCACAATCGGGGATA--CAAACCCCGGTTTTATT-TTCAAAACACCA
1 ATTTTT-CATAATCGGGGATACTCCAACCCCGGTTTTATTGCT-AAAACACCA
* * * * * * *
101183 ATTTTCCTTTAATCGGGGATACTTCAACTCCGATTTTATTTCCAAAAAACACCA
1 ATTTTTC-ATAATCGGGGATACTCCAACCCCGGTTTTA-TTGC-TAAAACACCA
* * * ** * *
101237 ATTTCTTCACAATCGGGGATACTCCAACACC-GTTAATCATCTG-GGATACTCCA
1 ATTT-TTCATAATCGGGGATACTCCAACCCCGGTT--TTAT-TGCTAAAACACCA
*** * ** * * * ***
101290 ACCCCGTT-AT-TTCCGAGGAGATACTCCAACCCCGACTTTATTTCCAAAATATTG
1 A--TTTTTCATAAT-CG-GG-GATACTCCAACCCCGGTTTTATTGCTAAAACACCA
* *
101344 ATTTTTCATAATCGGGGATACTCCAACCCCAGTTTTATTGCTAAAACACTA
1 ATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACCA
* * * *
101395 ATTTTTCCACAATCGGGGATACTACAACCCCAGTTTTATT-TTCAAAACACCA
1 ATTTTT-CATAATCGGGGATACTCCAACCCCGGTTTTATTGCT-AAAACACCA
* * * * * * *
101447 ATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAATACCA
1 ATTTTTC-ATAATCGGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACCA
* **
101500 ATTTCTCATAATTAGGGATACTCCAACCCCG
1 ATTTTTCATAATCGGGGATACTCCAACCCCG
101531 TTATTTTCGA
Statistics
Matches: 297, Mismatches: 75, Indels: 51
0.70 0.18 0.12
Matches are distributed among these distances:
49 2 0.01
50 40 0.13
51 41 0.14
52 117 0.39
53 34 0.11
54 44 0.15
55 18 0.06
56 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
ATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACCA
Found at i:101162 original size:50 final size:48
Alignment explanation
Indices: 101082--101258 Score: 156
Period size: 50 Copynumber: 3.4 Consensus size: 48
101072 CTAAATATTG
* *
101082 ATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTA
1 ATTTTTCACAATCGGGGATA--CCAACCCCGGTTTTATT-CTAAAACACCA
* *
101133 ATTTTTCCACAATCGGGGATACAAACCCCGGTTTTATTTTCAAAACACCA
1 ATTTTT-CACAATCGGGGATACCAACCCCGGTTTTATTCT-AAAACACCA
* ** * * *
101183 ATTTTCCTTTAATCGGGGATACTTCAACTCCGATTTTATTTCCAAAAAACACCA
1 ATTTTTC-ACAATCGGGGATAC--CAACCCCGGTTTTA-TT-C-TAAAACACCA
101237 ATTTCTTCACAATCGGGGATAC
1 ATTT-TTCACAATCGGGGATAC
101259 TCCAACACCG
Statistics
Matches: 102, Mismatches: 15, Indels: 15
0.77 0.11 0.11
Matches are distributed among these distances:
49 2 0.02
50 41 0.40
51 6 0.06
52 24 0.24
53 2 0.02
54 25 0.25
55 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (48 bp):
ATTTTTCACAATCGGGGATACCAACCCCGGTTTTATTCTAAAACACCA
Found at i:101274 original size:24 final size:26
Alignment explanation
Indices: 101248--101298 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
101238 TTTCTTCACA
101248 ATCGGGGATACTCCAACACCGTTAATC
1 ATCGGGGATACTCCAACACCGTTAA-C
* *
101275 ATCTGGGATACTCCAACCCCGTTA
1 ATCGGGGATACTCCAACACCGTTA
101299 TTTCCGAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (26 bp):
ATCGGGGATACTCCAACACCGTTAAC
Found at i:101395 original size:262 final size:262
Alignment explanation
Indices: 100875--101533 Score: 1083
Period size: 262 Copynumber: 2.5 Consensus size: 262
100865 TTCTCAATTC
* * * * *
100875 TCCACAATCGGGGATATTCCAACTCCAATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGG
1 TCCACAATCGGGGATA--CAAACCCCAGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGG
*
100939 ATACTCCTACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
64 ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
*
101004 CCGTTAATCATCGGAGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGACTTTAT
129 CCGTTAATCATCGGAGATACTCCAACCCCATTATTTCCGAGGAGATACTCCAACCCCGACTTTAT
* *
101069 TTCCTAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAA
194 TTCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCAGTTTTATTGCTAAAACACTAA
101134 TTTT
259 TTTT
*
101138 TCCACAATCGGGGATACAAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
1 TCCACAATCGGGGATACAAACCCCAGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
* *
101203 ACTTCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACACC
66 ACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCC
*
101268 GTTAATCATCTGG-GATACTCCAACCCCGTTATTTCCGAGGAGATACTCCAACCCCGACTTTATT
131 GTTAATCATC-GGAGATACTCCAACCCCATTATTTCCGAGGAGATACTCCAACCCCGACTTTATT
101332 TCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCAGTTTTATTGCTAAAACACTAAT
195 TCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCAGTTTTATTGCTAAAACACTAAT
101397 TTT
260 TTT
101400 TCCACAATCGGGGATACTACAACCCCAGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGG
1 TCCACAATCGGGGATAC-A-AACCCCAGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGG
* * * **
101465 ATACTCCAACTCCGATTTTATTTTC-AAAAATACCAATTTC-TCATAATTAGGGATACTCCAACC
64 ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
101528 CCGTTA
129 CCGTTA
101534 TTTTCGAGGG
Statistics
Matches: 371, Mismatches: 21, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
261 29 0.08
262 242 0.65
263 33 0.09
264 67 0.18
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (262 bp):
TCCACAATCGGGGATACAAACCCCAGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
ACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCC
GTTAATCATCGGAGATACTCCAACCCCATTATTTCCGAGGAGATACTCCAACCCCGACTTTATTT
CCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCAGTTTTATTGCTAAAACACTAATT
TT
Found at i:102706 original size:28 final size:28
Alignment explanation
Indices: 102653--102706 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
102643 TTCTCACAAT
**
102653 CGGGGATACTCCAACCCCGTTATTATCA
1 CGGGGATACTCCAACCCCGACATTATCA
* *
102681 CGGGGATACTCTAACCCCGACCTTAT
1 CGGGGATACTCCAACCCCGACATTAT
102707 TTCTAAAGCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (28 bp):
CGGGGATACTCCAACCCCGACATTATCA
Found at i:102765 original size:79 final size:78
Alignment explanation
Indices: 102619--102907 Score: 294
Period size: 79 Copynumber: 3.7 Consensus size: 78
102609 ATTCCAACTT
* * * *
102619 CGATTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAACCCCGTTA-TTATCACG
1 CGATTTTATTTTCAAAACA-CGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTATGA-G
*
102683 GGGATACTCTAACCC
64 GGGATACTCCAACCC
** * *
102698 CGACCTTA-TTTCTAAAGCATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAG
1 CGATTTTATTTTC-AAAACA-CGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTATGAG
*
102762 GGGATACTCCAACCT
64 GGGATACTCCAACCC
* * * * * * * *
102777 CAATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACTCCAACCCTGTTATTTCTGTGG
1 CGATTTTATTTTCAAAACACGATTTTTC-ACAATCGGGGATACTCCAACCCCGTTATTTATGAGG
* * *
102842 GAATACACCAAACC
65 GGATACTCCAACCC
* * *
102856 CGATTTTATTTTCAAAACACCGATTTTCCATAATCGGGGATACTCCACCCCC
1 CGATTTTATTTTCAAAACA-CGATTTTTCACAATCGGGGATACTCCAACCCC
102908 ATTGTTATCT
Statistics
Matches: 172, Mismatches: 33, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
78 10 0.06
79 148 0.86
80 14 0.08
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.31
Consensus pattern (78 bp):
CGATTTTATTTTCAAAACACGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTATGAGGG
GATACTCCAACCC
Found at i:102899 original size:158 final size:158
Alignment explanation
Indices: 102606--102907 Score: 378
Period size: 158 Copynumber: 1.9 Consensus size: 158
102596 TGCGACAGGA
* * * *
102606 GATATTCCAACTTCGATTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAACCCC
1 GATACTCCAACCTCAATTTTATTTCCAAAACACCAATTTCTCACAATCAGGGATACTCCAACCCC
* * * * * *
102671 GTTATTATCACGGGGATACTCTAACCCCGACCTTATTTCTAAAGCATCGATTTTTCACAATCGGG
66 GTTATTATCACGGGGATACACCAAACCCGACCTTATTTCTAAAACACCGATTTTCCACAATCGGG
102736 GATACTCCAACCCCGTTATTTTTGAGGG
131 GATACTCCAACCCCGTTATTTTTGAGGG
* *
102764 GATACTCCAACCTCAATTTTATTTTCAAAACACCAATTT-TCTATAATCAGGGATACTCCAACCC
1 GATACTCCAACCTCAATTTTATTTCCAAAACACCAATTTCTC-ACAATCAGGGATACTCCAACCC
* * ** *
102828 TGTTATT-TC-TGTGGGAATACACCAAACCCGATTTTATTT-TCAAAACACCGATTTTCCATAAT
65 CGTTATTATCACG-GGG-ATACACCAAACCCGACCTTATTTCT-AAAACACCGATTTTCCACAAT
*
102890 CGGGGATACTCCACCCCC
127 CGGGGATACTCCAACCCC
102908 ATTGTTATCT
Statistics
Matches: 122, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
156 1 0.01
157 8 0.07
158 113 0.93
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (158 bp):
GATACTCCAACCTCAATTTTATTTCCAAAACACCAATTTCTCACAATCAGGGATACTCCAACCCC
GTTATTATCACGGGGATACACCAAACCCGACCTTATTTCTAAAACACCGATTTTCCACAATCGGG
GATACTCCAACCCCGTTATTTTTGAGGG
Found at i:104584 original size:25 final size:25
Alignment explanation
Indices: 104530--104585 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
104520 GAAACATTTC
* *
104530 TTACCTTTACTCCTATATTCCATGT
1 TTACGTTTACTCCTATATACCATGT
104555 TTACGTTTACTCCTATATACCATGT
1 TTACGTTTACTCCTATATACCATGT
104580 TTACGT
1 TTACGT
104586 ATGTGATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.07, T:0.46
Consensus pattern (25 bp):
TTACGTTTACTCCTATATACCATGT
Found at i:112522 original size:34 final size:35
Alignment explanation
Indices: 112484--112550 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
112474 CCTTACAACA
112484 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
112518 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
112551 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:113037 original size:13 final size:13
Alignment explanation
Indices: 113019--113045 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
113009 TACTATTTAT
113019 AGTGTATCGATAC
1 AGTGTATCGATAC
113032 AGTGTATCGATAC
1 AGTGTATCGATAC
113045 A
1 A
113046 TGAATAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (13 bp):
AGTGTATCGATAC
Found at i:113088 original size:16 final size:15
Alignment explanation
Indices: 113062--113092 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
113052 GTGATACATG
113062 AACAGTATGAACAGT
1 AACAGTATGAACAGT
113077 AACAGATATGAACAGT
1 AACAG-TATGAACAGT
113093 GATGTATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (15 bp):
AACAGTATGAACAGT
Found at i:113140 original size:9 final size:9
Alignment explanation
Indices: 113126--113152 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
113116 GTATCGATAC
113126 ATGAACAGT
1 ATGAACAGT
113135 ATGAACAGT
1 ATGAACAGT
113144 ATGAACAGT
1 ATGAACAGT
113153 GAAAAATCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (9 bp):
ATGAACAGT
Found at i:113409 original size:124 final size:124
Alignment explanation
Indices: 113252--113501 Score: 500
Period size: 124 Copynumber: 2.0 Consensus size: 124
113242 ACTTGAAATC
113252 ATTTTGTTACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTC
1 ATTTTGTTACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTC
113317 TTTATAAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACA
66 TTTATAAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACA
113376 ATTTTGTTACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTC
1 ATTTTGTTACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTC
113441 TTTATAAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACA
66 TTTATAAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACA
113500 AT
1 AT
113502 CTCCCCCTTT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 126 1.00
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.43
Consensus pattern (124 bp):
ATTTTGTTACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTC
TTTATAAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACA
Found at i:116531 original size:84 final size:84
Alignment explanation
Indices: 116376--116540 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
116366 CATTTTCCAC
* * * *
116376 TTGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAATTATTTTCTAAAC
1 TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
116441 TCATTGATTTACTTTCATT
66 TCATTGATTTACTTTCATT
* *
116460 TTGCAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCTA
1 TTGCAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAAT-T-ATTCTCTA
* * *
116522 CACTTATTGATTTATTTTC
63 AACTCATTGATTTACTTTC
116541 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 6 0.09
83 9 0.13
84 54 0.78
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:118104 original size:34 final size:35
Alignment explanation
Indices: 118066--118132 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
118056 CCTTACAACA
118066 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
118100 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
118133 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:118619 original size:13 final size:13
Alignment explanation
Indices: 118601--118627 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
118591 TACTATTTAT
118601 AGTGTATCGATAC
1 AGTGTATCGATAC
118614 AGTGTATCGATAC
1 AGTGTATCGATAC
118627 A
1 A
118628 TGAATAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (13 bp):
AGTGTATCGATAC
Found at i:118670 original size:16 final size:15
Alignment explanation
Indices: 118644--118674 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
118634 GTGATACATG
118644 AACAGTATGAACAGT
1 AACAGTATGAACAGT
118659 AACAGATATGAACAGT
1 AACAG-TATGAACAGT
118675 GATGTATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (15 bp):
AACAGTATGAACAGT
Found at i:118722 original size:9 final size:9
Alignment explanation
Indices: 118708--118734 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
118698 GTATCGATAC
118708 ATGAACAGT
1 ATGAACAGT
118717 ATGAACAGT
1 ATGAACAGT
118726 ATGAACAGT
1 ATGAACAGT
118735 GAAAAATCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (9 bp):
ATGAACAGT
Found at i:118991 original size:124 final size:124
Alignment explanation
Indices: 118834--119083 Score: 500
Period size: 124 Copynumber: 2.0 Consensus size: 124
118824 ACTTGAAATC
118834 ATTTTGTTACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTC
1 ATTTTGTTACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTC
118899 TTTATAAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACA
66 TTTATAAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACA
118958 ATTTTGTTACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTC
1 ATTTTGTTACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTC
119023 TTTATAAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACA
66 TTTATAAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACA
119082 AT
1 AT
119084 CTCCCCCTTT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 126 1.00
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.43
Consensus pattern (124 bp):
ATTTTGTTACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTC
TTTATAAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACA
Found at i:121060 original size:34 final size:35
Alignment explanation
Indices: 121022--121088 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
121012 CCTTACAACA
121022 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
121056 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
121089 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:121575 original size:13 final size:13
Alignment explanation
Indices: 121557--121596 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
121547 TACTATTTAT
121557 AGTGTATCGATAC
1 AGTGTATCGATAC
121570 AGTGTATCGATAC
1 AGTGTATCGATAC
*
121583 AATGTATCGATAC
1 AGTGTATCGATAC
121596 A
1 A
121597 TGAATAGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (13 bp):
AGTGTATCGATAC
Found at i:121673 original size:16 final size:15
Alignment explanation
Indices: 121647--121677 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
121637 GTGATACATG
121647 AACAGTATGAACAGT
1 AACAGTATGAACAGT
121662 AACAGATATGAACAGT
1 AACAG-TATGAACAGT
121678 GATGTATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (15 bp):
AACAGTATGAACAGT
Found at i:121725 original size:9 final size:9
Alignment explanation
Indices: 121711--121737 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
121701 GTATCGATAC
121711 ATGAACAGT
1 ATGAACAGT
121720 ATGAACAGT
1 ATGAACAGT
121729 ATGAACAGT
1 ATGAACAGT
121738 GAAAAATCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (9 bp):
ATGAACAGT
Found at i:121994 original size:124 final size:124
Alignment explanation
Indices: 121837--122086 Score: 500
Period size: 124 Copynumber: 2.0 Consensus size: 124
121827 ACTTGAAATC
121837 ATTTTGTTACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTC
1 ATTTTGTTACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTC
121902 TTTATAAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACA
66 TTTATAAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACA
121961 ATTTTGTTACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTC
1 ATTTTGTTACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTC
122026 TTTATAAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACA
66 TTTATAAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACA
122085 AT
1 AT
122087 GTTATACCAT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 126 1.00
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.43
Consensus pattern (124 bp):
ATTTTGTTACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTC
TTTATAAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACA
Found at i:124153 original size:8 final size:8
Alignment explanation
Indices: 124140--124183 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
124130 CATTTTCAAA
124140 AAAACAAC
1 AAAACAAC
124148 AAAACAAC
1 AAAACAAC
124156 AAAACAA-
1 AAAACAAC
124163 AACAA-AA-
1 AA-AACAAC
124170 AAAA-AAC
1 AAAACAAC
124177 AAAACAA
1 AAAACAA
124184 AACAAAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 4 0.12
7 10 0.30
8 19 0.58
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAACAAC
Done.