Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 159 of 213
Found at i:47646639 original size:579 final size:579
Alignment explanation
Indices: 47645798--47647132 Score: 2175
Period size: 579 Copynumber: 2.3 Consensus size: 579
47645788 ATAAGACTTG
* * * * *
47645798 TATCTTCGATCTACTTCGCCACCAATATGGGAAGACAATATCTACTATCTTTGATTTACTTCATT
1 TATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCA-C
* * * *
47645863 GCCAGTACATGAAGACAAGATTTGCTTTCTTCGATCTACTTCACGCCAATATATGAGTACAAGAT
65 ACCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATATATGAATACAAGAT
47645928 CTGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTT
130 CTGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTT
* * * *
47645993 CACTGCAAGTACAAGAAGACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACGTGGAGACA
195 CACTGCAAGTACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACA
** * * * *
47646058 AGATCTGCTATCTTCGATCTACTTCATGCCAATATATGAAGATAAGATCTGCTATCCTCTGATCT
260 AGATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTACAATCCTCTGATCT
* * *
47646123 ACTTCATGCTAGTACATGGAGACAAGATCTGCTTTGTTTGATCTACTCCGCCACCAGTACGGGAA
325 ACTTCATGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAGTACGGGAA
* *
47646188 GATAAGATCTACTATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTATTTGA
390 GACAAGATCTACTATCTTTAATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTATTTGA
*
47646253 TCTACTTCGCTGCCAGTACAGGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATG
455 TCTACTTCGCTGCCAGTACAAGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATG
*
47646318 GGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTAT
520 GGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTAC
* * * *
47646378 TTTCTTCAATCTACTTCACCACCAATATGGGATGACAAGATCTGCTATCTTTGATCTACTTCACC
1 TATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACA
47646443 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATATATGAATACAAGATC
66 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATATATGAATACAAGATC
*
47646508 TGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTATTTC
131 TGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTTC
* * *
47646573 ACTGCCAGTACAGGAAGACAAGATCTGCTATGTTCGATCTACTTCACGCCAATACATGAAGACAA
196 ACTGCAAGTACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
*
47646638 GATCTGCTATCTTTGATCTACTTCACACCAATACATGAAGACAAGATCTACAATCCTCTGATCTA
261 GATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTACAATCCTCTGATCTA
* *
47646703 CTTCATGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
326 CTTCATGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAGTACGGGAAG
* *
47646768 ACAAGATCTGCTATCTTTAATCTGCTTCATGCCAATACATGAAGACAAGATCTGCTTTATTTGAT
391 ACAAGATCTACTATCTTTAATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTATTTGAT
* *
47646833 CTACTTCGCTGCCAGTACAAGAAGACAAGATTTATTTTCTTCGATCTACTTCGCCACCAGTATGG
456 CTACTTCGCTGCCAGTACAAGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATGG
* *
47646898 GAAGACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGC
521 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTAC
* * *
47646957 TATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATTTGCTATCTTCGATCTACTTCACA
1 TATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACA
* * * ** *
47647022 CCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGAT
66 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCA-CGCCAATATATGAATACAAGAT
*
47647087 TTGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATC
130 CTGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATC
47647133 CGTTGCCTTT
Statistics
Matches: 698, Mismatches: 56, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
579 580 0.83
580 118 0.17
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (579 bp):
TATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACA
CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATATATGAATACAAGATC
TGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTTC
ACTGCAAGTACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
GATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTACAATCCTCTGATCTA
CTTCATGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAGTACGGGAAG
ACAAGATCTACTATCTTTAATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTATTTGAT
CTACTTCGCTGCCAGTACAAGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATGG
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTAC
Found at i:47648456 original size:28 final size:28
Alignment explanation
Indices: 47648424--47648488 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 28
47648414 TTATCCTCTC
47648424 CATTTTACTTTTTCCA-TTTTTCATTTC-T
1 CATTTTAC-TTTT-CATTTTTTCATTTCAT
47648452 CATTTTCACTTTTCATTTTTTCATTTCAT
1 CATTTT-ACTTTTCATTTTTTCATTTCAT
47648481 CATTTTAC
1 CATTTTAC
47648489 GACTCAAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
27 2 0.06
28 23 0.68
29 9 0.26
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.62
Consensus pattern (28 bp):
CATTTTACTTTTCATTTTTTCATTTCAT
Found at i:47653329 original size:22 final size:23
Alignment explanation
Indices: 47653285--47653337 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
47653275 AAATTATTAA
*
47653285 ATATATGAAAAAATAGAATTATGT
1 ATATAT-AAAAAATAGAAATATGT
*
47653309 ATATATAAAAATTA-AAATATGT
1 ATATATAAAAAATAGAAATATGT
*
47653331 ATGTATA
1 ATATATA
47653338 TATGTATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 13 0.50
23 7 0.27
24 6 0.23
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (23 bp):
ATATATAAAAAATAGAAATATGT
Found at i:47653758 original size:3 final size:3
Alignment explanation
Indices: 47653750--47653802 Score: 63
Period size: 3 Copynumber: 17.0 Consensus size: 3
47653740 ATATGTACAT
*
47653750 ATA ATA ATA GTA AGTA AT- ATA ATA ATA ATTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
47653796 AGTA ATA
1 A-TA ATA
47653803 GTAGCAACGA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 2 0.05
3 33 0.75
4 9 0.20
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:47653773 original size:15 final size:16
Alignment explanation
Indices: 47653750--47653802 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
47653740 ATATGTACAT
*
47653750 ATAATAATAGTAAGTA
1 ATAATAATAATAAGTA
*
47653766 AT-ATAATAATAATTA
1 ATAATAATAATAAGTA
47653781 ATAATAATAATAA-TA
1 ATAATAATAATAAGTA
47653796 AGTAATA
1 A-TAATA
47653803 GTAGCAACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 16 0.48
16 17 0.52
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (16 bp):
ATAATAATAATAAGTA
Found at i:47665500 original size:47 final size:47
Alignment explanation
Indices: 47665442--47665790 Score: 500
Period size: 47 Copynumber: 7.3 Consensus size: 47
47665432 CAGCCAAGAG
47665442 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
47665489 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
47665536 AGTGTATGTATATATGTAATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
47665587 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
47665634 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
47665681 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
47665728 AGTGTATATATGTGACAAGGCCGAGTGGCCAACGTAATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
47665775 AGTGCATAAATGTGAT
1 AGTGTATATATGTGAT
47665791 GAGTCCCGAA
Statistics
Matches: 278, Mismatches: 20, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
47 233 0.84
49 2 0.01
51 43 0.15
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:47665968 original size:37 final size:37
Alignment explanation
Indices: 47665912--47665990 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
47665902 CCGAGCTCTA
* * *
47665912 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
47665949 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
47665986 AAGAC
1 AAGAC
47665991 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:47669241 original size:27 final size:26
Alignment explanation
Indices: 47669142--47669239 Score: 115
Period size: 27 Copynumber: 3.7 Consensus size: 26
47669132 AACACCAGAA
* *
47669142 AAAGGAAGCCTTTGTGGCAATATATG
1 AAAGGAAGCCTTTGTGGCGATTTATG
*
47669168 AAACGGAAGCCTTTGTAGCGATTTATG
1 AAA-GGAAGCCTTTGTGGCGATTTATG
*
47669195 ATAAGGAAGCCTTTGTGGTGATTTATG
1 A-AAGGAAGCCTTTGTGGCGATTTATG
* *
47669222 AAGGGGATGCCTTTGTGG
1 AA-AGGAAGCCTTTGTGG
47669240 TGCACTCTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
26 4 0.06
27 56 0.90
28 2 0.03
ACGTcount: A:0.28, C:0.11, G:0.31, T:0.31
Consensus pattern (26 bp):
AAAGGAAGCCTTTGTGGCGATTTATG
Found at i:47680436 original size:19 final size:19
Alignment explanation
Indices: 47680412--47680450 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
47680402 TCCAGGGAAG
*
47680412 TACTTTCAGAAATACTCTA
1 TACTTTCAAAAATACTCTA
47680431 TACTTTCAAAAATACTCTA
1 TACTTTCAAAAATACTCTA
47680450 T
1 T
47680451 CGCAAATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (19 bp):
TACTTTCAAAAATACTCTA
Found at i:47690853 original size:21 final size:23
Alignment explanation
Indices: 47690799--47690853 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
47690789 AAATTGATTT
*
47690799 ATGATATGAATTCTTGAAATGAGA
1 ATGATATG-ATTCTTGAAAGGAGA
*
47690823 ATGAGA-GATT-TTGAAAGGA-A
1 ATGATATGATTCTTGAAAGGAGA
47690843 ATGATATGATT
1 ATGATATGATT
47690854 GAGTTATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 6 0.22
21 12 0.44
22 3 0.11
23 1 0.04
24 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.24, T:0.33
Consensus pattern (23 bp):
ATGATATGATTCTTGAAAGGAGA
Found at i:47695354 original size:27 final size:27
Alignment explanation
Indices: 47695290--47695355 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
47695280 AAAAAAGGAG
*
47695290 GCCTTTGTGGAAATCTATGAAAAGAAA
1 GCCTTTGTGGCAATCTATGAAAAGAAA
* ** *
47695317 GCCTTTGTGGCATTCTATGAATGGAAT
1 GCCTTTGTGGCAATCTATGAAAAGAAA
47695344 GCCTTTGTGGCA
1 GCCTTTGTGGCA
47695356 CAGTCTAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (27 bp):
GCCTTTGTGGCAATCTATGAAAAGAAA
Found at i:47702024 original size:25 final size:26
Alignment explanation
Indices: 47701992--47702042 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
47701982 AAGTTTAAGA
47701992 ATGTATATATA-T-TATATAAAGAAAT
1 ATGTATATATACTATATATAAA-AAAT
47702017 ATGTATATATACTATATATAAAAAAT
1 ATGTATATATACTATATATAAAAAAT
47702043 GCGTGTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 11 0.46
26 5 0.21
27 8 0.33
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (26 bp):
ATGTATATATACTATATATAAAAAAT
Found at i:47702057 original size:25 final size:26
Alignment explanation
Indices: 47701993--47702057 Score: 60
Period size: 27 Copynumber: 2.5 Consensus size: 26
47701983 AGTTTAAGAA
* *
47701993 TGTATATATATTATATAAAGAAATATG
1 TGTATAAATA-TATATAAAGAAATACG
* * *
47702020 TATATATACTATATATAAA-AAATGCG
1 TGTATA-AATATATATAAAGAAATACG
47702046 TGTATAAATATA
1 TGTATAAATATA
47702058 AAAATAGTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
25 5 0.17
26 10 0.33
27 13 0.43
28 2 0.07
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.38
Consensus pattern (26 bp):
TGTATAAATATATATAAAGAAATACG
Found at i:47702781 original size:19 final size:19
Alignment explanation
Indices: 47702747--47702788 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
47702737 TAAAAAAATC
*
47702747 CTTTGTATTCTCTGTATTTT
1 CTTTCTATTCTCTGTA-TTT
47702767 CTTTCTATT-TCTGTATTT
1 CTTTCTATTCTCTGTATTT
47702785 CTTT
1 CTTT
47702789 ACACCGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 6 0.29
20 8 0.38
ACGTcount: A:0.10, C:0.17, G:0.07, T:0.67
Consensus pattern (19 bp):
CTTTCTATTCTCTGTATTT
Found at i:47705317 original size:13 final size:13
Alignment explanation
Indices: 47705278--47705320 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
47705268 TTTTTGGTGC
*
47705278 TATATATATTTGT
1 TATATATAGTTGT
* *
47705291 TGTTTATAGCTTGT
1 TATATATAG-TTGT
47705305 TATATATAGTTGT
1 TATATATAGTTGT
47705318 TAT
1 TAT
47705321 TTTTAGTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (13 bp):
TATATATAGTTGT
Found at i:47713506 original size:29 final size:29
Alignment explanation
Indices: 47713430--47713500 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
47713420 AATGATAACT
47713430 TAAGTGACTAAAACATAACATGTCAAAAC
1 TAAGTGACTAAAACATAACATGTCAAAAC
47713459 TAAGTGACTAAAACATAACATGTCAAAAC
1 TAAGTGACTAAAACATAACATGTCAAAAC
47713488 TAAGTGACTAAAA
1 TAAGTGACTAAAA
47713501 TGTAACCTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.21
Consensus pattern (29 bp):
TAAGTGACTAAAACATAACATGTCAAAAC
Found at i:47716500 original size:5 final size:5
Alignment explanation
Indices: 47716472--47716561 Score: 130
Period size: 5 Copynumber: 18.2 Consensus size: 5
47716462 TTTTTATGCT
*
47716472 TTATA -TATA TTATT TTAT- TATATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA TTATA TTATA
* *
47716521 TTGTA TTATA TTATA TTATA TTATA TTGTA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
47716562 AAGTAAAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
4 5 0.06
5 71 0.92
6 1 0.01
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:47717383 original size:3 final size:3
Alignment explanation
Indices: 47717375--47717418 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
47717365 AATAAAAATT
* * * *
47717375 TTA TTA TTA TTA TTA TTG TTA ATA TAA TAA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
47717419 TTAATGATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:47717407 original size:27 final size:27
Alignment explanation
Indices: 47717377--47717434 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
47717367 TAAAAATTTT
47717377 ATTATTATTATTATTGTTAAT-ATAATA
1 ATTATTATTATTATT-TTAATGATAATA
*
47717404 ATTATTATTATTATTTTAATGATTATA
1 ATTATTATTATTATTTTAATGATAATA
47717431 ATTA
1 ATTA
47717435 AAAGTGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.17
27 24 0.83
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (27 bp):
ATTATTATTATTATTTTAATGATAATA
Found at i:47717423 original size:18 final size:18
Alignment explanation
Indices: 47717375--47717434 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
47717365 AATAAAAATT
*
47717375 TTATTATTATT-ATTATTG
1 TTATTATT-TTAATTATTA
* **
47717393 TTAATATAATAATTATTA
1 TTATTATTTTAATTATTA
*
47717411 TTATTATTTTAATGATTA
1 TTATTATTTTAATTATTA
*
47717429 TAATTA
1 TTATTA
47717435 AAAGTGAAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 1 0.03
18 31 0.97
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TTATTATTTTAATTATTA
Found at i:47717423 original size:21 final size:21
Alignment explanation
Indices: 47717383--47717434 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
47717373 TTTTATTATT
*
47717383 ATTATTATTGTTAATATAATA
1 ATTATTATTATTAATATAATA
* * *
47717404 ATTATTATTATTATTTTAATG
1 ATTATTATTATTAATATAATA
*
47717425 ATTATAATTA
1 ATTATTATTA
47717435 AAAGTGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
ATTATTATTATTAATATAATA
Found at i:47724644 original size:47 final size:47
Alignment explanation
Indices: 47724537--47724965 Score: 633
Period size: 47 Copynumber: 9.1 Consensus size: 47
47724527 GAAATGATAG
47724537 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
47724586 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
47724633 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47724680 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
47724727 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
47724774 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47724821 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47724868 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * *
47724915 CAAGGCCGAGTGGCCAACGTAATGGATGTGGAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47724962 TAAG
1 TAAG
47724966 TCCCGAAAGG
Statistics
Matches: 353, Mismatches: 27, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 318 0.90
49 35 0.10
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:47725140 original size:37 final size:37
Alignment explanation
Indices: 47725084--47725162 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
47725074 CCGAGCTCTA
* * *
47725084 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
47725121 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
47725158 AAGAC
1 AAGAC
47725163 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:47727060 original size:43 final size:43
Alignment explanation
Indices: 47727012--47727114 Score: 190
Period size: 43 Copynumber: 2.4 Consensus size: 43
47727002 TTGGTTTTCA
47727012 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
47727055 GCACTAAGTGTGC-AGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGA-GCAATAAGTGTTCACGGTTGTGAGATTG
47727098 GCACTAAGTGTGCGAGC
1 GCACTAAGTGTGCGAGC
47727115 TTGAAATGCA
Statistics
Matches: 58, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
42 1 0.02
43 56 0.97
44 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:47727131 original size:29 final size:29
Alignment explanation
Indices: 47727096--47727169 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
47727086 GTTGTGAGAT
*
47727096 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
47727125 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
*
47727154 TGGAACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47727170 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:47727528 original size:40 final size:40
Alignment explanation
Indices: 47727480--47727674 Score: 248
Period size: 40 Copynumber: 4.9 Consensus size: 40
47727470 TTGAATGATG
*
47727480 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
47727520 TCCGGGCTAAGTCCCGAGGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
47727560 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * * * *
47727600 TCCGTGCTAA-ACCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
47727639 TCTGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
47727675 CGTGTATTCG
Statistics
Matches: 136, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
39 31 0.23
40 105 0.77
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:47731529 original size:47 final size:47
Alignment explanation
Indices: 47731139--47731521 Score: 613
Period size: 47 Copynumber: 8.1 Consensus size: 47
47731129 GAAATGATAG
*
47731139 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
47731186 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47731233 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
47731280 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
47731327 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
47731374 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47731421 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47731468 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47731515 CAAGGCC
1 TAAGGCC
47731522 GAGTGGCCAA
Statistics
Matches: 320, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 320 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:47731561 original size:141 final size:141
Alignment explanation
Indices: 47731139--47731565 Score: 638
Period size: 141 Copynumber: 3.0 Consensus size: 141
47731129 GAAATGATAG
* *
47731139 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAGGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGAT
* *
47731204 GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG
*
47731269 TATATACGTGA
131 TATATATGTGA
* * *
47731280 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAC
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGAT
* * *
47731345 GTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG
* *
47731410 TATGTGTGTGA
131 TATATATGTGA
*
47731421 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGAT
* * * * * * * *
47731486 GTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCAACGTAATGGATATGGAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG
* *
47731551 CATAAATGTGA
131 TATATATGTGA
47731562 TAAG
1 TAAG
47731566 TCCCGAAAGG
Statistics
Matches: 254, Mismatches: 32, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
141 254 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (141 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG
TATATATGTGA
Found at i:47731740 original size:37 final size:37
Alignment explanation
Indices: 47731684--47731762 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
47731674 CCGAGCTCTA
* * *
47731684 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
47731721 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
47731758 AAGAC
1 AAGAC
47731763 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:47736452 original size:17 final size:17
Alignment explanation
Indices: 47736430--47736492 Score: 72
Period size: 19 Copynumber: 3.4 Consensus size: 17
47736420 TTTTTATGCT
*
47736430 TTATATATATTATTTTA
1 TTATATATATTATTATA
47736447 TTATATATTATATATTATA
1 TTATATA-TAT-TATTATA
47736466 TTATATTATATTGTATTATA
1 TTATA-TATA-T-TATTATA
47736486 TTATATA
1 TTATATA
47736493 AGTAAAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
17 7 0.17
18 3 0.08
19 15 0.38
20 15 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TTATATATATTATTATA
Found at i:47736457 original size:7 final size:7
Alignment explanation
Indices: 47736433--47736466 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
47736423 TTATGCTTTA
47736433 TATATAT
1 TATATAT
*
47736440 TATTTTAT
1 TA-TATAT
47736448 TATATAT
1 TATATAT
47736455 TATATAT
1 TATATAT
47736462 TATAT
1 TATAT
47736467 TATATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TATATAT
Found at i:47736458 original size:5 final size:5
Alignment explanation
Indices: 47736430--47736491 Score: 71
Period size: 5 Copynumber: 13.2 Consensus size: 5
47736420 TTTTTATGCT
47736430 TTATA -TATA TTAT- TT-TA TTATA -TAT- TATATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA
*
47736476 TTGTA TTATA TTATA T
1 TTATA TTATA TTATA T
47736492 AAGTAAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
3 1 0.02
4 11 0.22
5 36 0.73
6 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:47737341 original size:27 final size:27
Alignment explanation
Indices: 47737311--47737363 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
47737301 AAATTTTATT
47737311 ATTATTATTATTGTTAAT-ATAATAATA
1 ATTATTATTATT-TTAATGATAATAATA
*
47737338 ATTATTATTATTTTAATGATTATAAT
1 ATTATTATTATTTTAATGATAATAAT
47737364 TAAAAGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (27 bp):
ATTATTATTATTTTAATGATAATAATA
Found at i:47740339 original size:41 final size:39
Alignment explanation
Indices: 47740230--47740339 Score: 134
Period size: 37 Copynumber: 2.8 Consensus size: 39
47740220 AGATAATTCA
**
47740230 AAGTAGTAAATTGGCACCCAGTGTCTCATCGGTTAAACCG
1 AAGTAGT-AATTGGCACCCAGTGTCTCATCGAATAAACCG
*
47740270 AAGTA--AATTGGCACCCAGTGCCTCATCGAATAAATCCG
1 AAGTAGTAATTGGCACCCAGTGTCTCATCGAATAAA-CCG
* *
47740308 AAGTAGTATATTGACACCTAGTGTCTCATCGA
1 AAGTAGTA-ATTGGCACCCAGTGTCTCATCGA
47740340 CTCGAAGTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
37 26 0.43
38 8 0.13
40 6 0.10
41 20 0.33
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (39 bp):
AAGTAGTAATTGGCACCCAGTGTCTCATCGAATAAACCG
Found at i:47741243 original size:15 final size:16
Alignment explanation
Indices: 47741213--47741251 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
47741203 CTTGCGTCTA
47741213 TTTCTTTCTCCTTTTC
1 TTTCTTTCTCCTTTTC
*
47741229 TTTCTTT-TTCTTTTC
1 TTTCTTTCTCCTTTTC
47741244 TTTCTTTC
1 TTTCTTTC
47741252 CTTTCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCTTTCTCCTTTTC
Found at i:47742742 original size:13 final size:13
Alignment explanation
Indices: 47742708--47742877 Score: 111
Period size: 13 Copynumber: 12.8 Consensus size: 13
47742698 CCAATGTTTC
* *
47742708 ATTTTATATATCT
1 ATTTCATATAACT
47742721 ATTTCCATATAACT
1 ATTT-CATATAACT
47742735 GA-TTCATATAA-T
1 -ATTTCATATAACT
*
47742747 CATTTCATATATCT
1 -ATTTCATATAACT
47742761 ATTTCCATATAACT
1 ATTT-CATATAACT
47742775 GA-TTCATATAA-T
1 -ATTTCATATAACT
*
47742787 CATTTCATATATCT
1 -ATTTCATATAACT
* *
47742801 ACTTCTATATAAAT
1 ATTTC-ATATAACT
* *
47742815 GA-TTCGTATAACC
1 -ATTTCATATAACT
*
47742828 ATCTT-ATATATCT
1 AT-TTCATATAACT
47742841 ATTTCCATATAACT
1 ATTT-CATATAACT
47742855 GA-TTCATATAACT
1 -ATTTCATATAACT
47742868 ATTTCATATA
1 ATTTCATATA
47742878 TTCATTATTC
Statistics
Matches: 124, Mismatches: 17, Indels: 32
0.72 0.10 0.18
Matches are distributed among these distances:
12 8 0.06
13 71 0.57
14 41 0.33
15 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.45
Consensus pattern (13 bp):
ATTTCATATAACT
Found at i:47742743 original size:27 final size:27
Alignment explanation
Indices: 47742708--47742878 Score: 101
Period size: 27 Copynumber: 6.4 Consensus size: 27
47742698 CCAATGTTTC
*
47742708 ATTTTATATATCTATTTCCATATAACTG
1 ATTTCATATATCTATTT-CATATAACTG
*
47742736 A-TTCATATAATC-ATTTCATATATCT-
1 ATTTCATAT-ATCTATTTCATATAACTG
* *
47742761 ATTTCCATATAACTGA-TTCATATAA-TC
1 ATTT-CATATATCT-ATTTCATATAACTG
* *
47742788 ATTTCATATATCTACTTCTATATAAATG
1 ATTTCATATATCTATTTC-ATATAACTG
* * * *
47742816 A-TTCGTATAACCATCTT-ATATATCT-
1 ATTTCATATATCTAT-TTCATATAACTG
*
47742841 ATTTCCATATAACTGA-TTCATATAACT-
1 ATTT-CATATATCT-ATTTCATATAACTG
47742868 ATTTCATATAT
1 ATTTCATATAT
47742879 TCATTATTCA
Statistics
Matches: 113, Mismatches: 16, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
25 3 0.03
26 40 0.35
27 60 0.53
28 10 0.09
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.46
Consensus pattern (27 bp):
ATTTCATATATCTATTTCATATAACTG
Found at i:47742750 original size:40 final size:40
Alignment explanation
Indices: 47742706--47742878 Score: 260
Period size: 40 Copynumber: 4.3 Consensus size: 40
47742696 ATCCAATGTT
*
47742706 TCATTTTATATATCTATTTCCATATAACTGATTCATATAA
1 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
47742746 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
1 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
* * * *
47742786 TCATTTCATATATCTACTTCTATATAAATGATTCGTATAA
1 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
*
47742826 CCATCTT-ATATATCTATTTCCATATAACTGATTCATATAA
1 TCAT-TTCATATATCTATTTCCATATAACTGATTCATATAA
47742866 -CTATTTCATATAT
1 TC-ATTTCATATAT
47742879 TCATTATTCA
Statistics
Matches: 120, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
39 3 0.03
40 115 0.96
41 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.03, T:0.46
Consensus pattern (40 bp):
TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
Found at i:47745353 original size:25 final size:25
Alignment explanation
Indices: 47745317--47745507 Score: 108
Period size: 25 Copynumber: 7.6 Consensus size: 25
47745307 ACCAAACAAA
*
47745317 GCCTTTGTGGCAAGTTATCTGAAAG
1 GCCTATGTGGCAAGTTATCTGAAAG
*
47745342 GCCTATGCGGCATA-TTATCTGGAAA-
1 GCCTATGTGGCA-AGTTATCT-GAAAG
* * *
47745367 TCCTTTGTGGCGAGTTATCTGAAAG
1 GCCTATGTGGCAAGTTATCTGAAAG
*
47745392 GCCTATGTGGCATA-TTATTTGGAAA-
1 GCCTATGTGGCA-AGTTATCT-GAAAG
* * * *
47745417 ACCTTTGTGGCAAGTTACCTAAAAG
1 GCCTATGTGGCAAGTTATCTGAAAG
* * * *
47745442 ACCAATGTGGCATA-TTATTTGAAAA
1 GCCTATGTGGCA-AGTTATCTGAAAG
*
47745467 GCCT-TAGTCGCGAAGTTATCTAGAAA-
1 GCCTAT-GTGGC-AAGTTATCT-GAAAG
* *
47745493 GCCTTTGCGGCAAGT
1 GCCTATGTGGCAAGT
47745508 CATTTGGAAA
Statistics
Matches: 125, Mismatches: 27, Indels: 28
0.69 0.15 0.16
Matches are distributed among these distances:
24 10 0.08
25 86 0.69
26 24 0.19
27 5 0.04
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (25 bp):
GCCTATGTGGCAAGTTATCTGAAAG
Found at i:47745393 original size:50 final size:50
Alignment explanation
Indices: 47745318--47745519 Score: 230
Period size: 50 Copynumber: 4.0 Consensus size: 50
47745308 CCAAACAAAG
* *
47745318 CCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATCTGGAAAT
1 CCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATTTGGAAAA
* *
47745368 CCTTTGTGGCGAGTTATCTGAAAGGCCTATGTGGCATATTATTTGGAAAA
1 CCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATTTGGAAAA
* * * * *
47745418 CCTTTGTGGCAAGTTACCTAAAAGACCAATGTGGCATATTATTT-GAAAA
1 CCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATTTGGAAAA
* * * *
47745467 GCCTTAGTCGCGAAGTTATCTAGAAA-GCCTTTGCGGCA-AGTCATTTGGAAAA
1 -CCTTTGTGGC-AAGTTATCT-GAAAGGCCTATGCGGCATA-TTATTTGGAAAA
47745519 C
1 C
47745520 TTGTATGGCG
Statistics
Matches: 129, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
49 5 0.04
50 94 0.73
51 22 0.17
52 8 0.06
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (50 bp):
CCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATTTGGAAAA
Found at i:47750766 original size:18 final size:17
Alignment explanation
Indices: 47750724--47750767 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
47750714 TGCCTTTCGT
47750724 TTTCAAAACATTATTCA
1 TTTCAAAACATTATTCA
* *
47750741 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTC-A
47750760 TTTCAAAA
1 TTTCAAAA
47750768 AGTTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 15 0.68
19 4 0.18
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (17 bp):
TTTCAAAACATTATTCA
Found at i:47757676 original size:7 final size:7
Alignment explanation
Indices: 47757660--47757740 Score: 83
Period size: 7 Copynumber: 10.9 Consensus size: 7
47757650 CAACCCAATT
47757660 TTTATT-
1 TTTATTA
47757666 TTTATTA
1 TTTATTA
47757673 TTTATTA
1 TTTATTA
47757680 TTTATTA
1 TTTATTA
*
47757687 TTTATTC
1 TTTATTA
47757694 TTTAATTTA
1 TTT-A-TTA
47757703 TTTATTA
1 TTTATTA
47757710 CTTTAATTTA
1 -TTT-A-TTA
47757720 TTTTATTA
1 -TTTATTA
47757728 TTTATTA
1 TTTATTA
*
47757735 CTTATT
1 TTTATT
47757741 TGGATATTAA
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
6 6 0.09
7 38 0.58
8 8 0.12
9 7 0.11
10 6 0.09
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTATTA
Found at i:47757684 original size:4 final size:4
Alignment explanation
Indices: 47757660--47757733 Score: 50
Period size: 4 Copynumber: 18.5 Consensus size: 4
47757650 CAACCCAATT
* *
47757660 TTTA TTTT TATTA TTTA -TTA TTTA -TTA TTTA TTCT- TTAA TTTA TTTA
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA
47757707 -TTA CTTTAA TTTA TTT- TATTA TTTA TT
1 TTTA -TTT-A TTTA TTTA T-TTA TTTA TT
47757734 ACTTATTTGG
Statistics
Matches: 56, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
3 10 0.18
4 35 0.62
5 10 0.18
6 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:47757715 original size:17 final size:16
Alignment explanation
Indices: 47757670--47757731 Score: 83
Period size: 17 Copynumber: 3.9 Consensus size: 16
47757660 TTTATTTTTA
47757670 TTATTTATTATTT-A-
1 TTATTTATTATTTAAT
*
47757684 TTATTTATTCTTTAAT
1 TTATTTATTATTTAAT
47757700 TTATTTATTACTTTAAT
1 TTATTTATTA-TTTAAT
47757717 TTATTTTATTATTTA
1 TTA-TTTATTATTTA
47757732 TTACTTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
14 12 0.29
15 1 0.02
16 9 0.21
17 13 0.31
18 7 0.17
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTTATTATTTAAT
Found at i:47759412 original size:12 final size:14
Alignment explanation
Indices: 47759372--47759407 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
47759362 GACTCTATTT
47759372 TAATTATATTAAGA
1 TAATTATATTAAGA
47759386 TAATTAATATTAAGA
1 TAATT-ATATTAAGA
47759401 TAATTAT
1 TAATTAT
47759408 TAAGAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (14 bp):
TAATTATATTAAGA
Found at i:47767814 original size:20 final size:21
Alignment explanation
Indices: 47767789--47767827 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
47767779 ATTCTAAAAA
47767789 TAATATTAT-TTTAATATATT
1 TAATATTATATTTAATATATT
47767809 TAATATTATATTTAATATA
1 TAATATTATATTTAATATA
47767828 ATATTTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATATTATATTTAATATATT
Found at i:47767820 original size:12 final size:12
Alignment explanation
Indices: 47767803--47767834 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
47767793 ATTATTTTAA
47767803 TATATTTAATAT
1 TATATTTAATAT
47767815 TATATTTAATAT
1 TATATTTAATAT
*
47767827 AATATTTA
1 TATATTTA
47767835 TCTTATAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TATATTTAATAT
Found at i:47767883 original size:61 final size:59
Alignment explanation
Indices: 47767791--47767923 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 59
47767781 TCTAAAAATA
* * *
47767791 ATATTATTTTAAT-ATATTTAATATTATATTTAATA-TAATATTTATCTTATAGACAAATATT
1 ATATTAATTTAATAATATTTAATAATAGATTTAA-ACTAATATTTATC-T-T-GACAAATATT
* *
47767852 CTATTAA-TTAATAATATTTAATAATAGATTTAAACTAATATTTATCTTGATAAATATT
1 ATATTAATTTAATAATATTTAATAATAGATTTAAACTAATATTTATCTTGACAAATATT
47767910 ATATTAATTTAATA
1 ATATTAATTTAATA
47767924 TTAAAGTGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
58 15 0.24
59 7 0.11
60 7 0.11
61 34 0.54
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (59 bp):
ATATTAATTTAATAATATTTAATAATAGATTTAAACTAATATTTATCTTGACAAATATT
Found at i:47768501 original size:25 final size:25
Alignment explanation
Indices: 47768471--47768522 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
47768461 CCTAGAAGGG
47768471 AATTGAATGATAGTTAGACAATTTT
1 AATTGAATGATAGTTAGACAATTTT
47768496 AATTGAATGATAGTTAGACAATTTT
1 AATTGAATGATAGTTAGACAATTTT
47768521 AA
1 AA
47768523 GTATTATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.38
Consensus pattern (25 bp):
AATTGAATGATAGTTAGACAATTTT
Found at i:47771153 original size:19 final size:19
Alignment explanation
Indices: 47771129--47771167 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
47771119 CAATGTAGCC
47771129 ATTGAGAAAAACAGTCTTA
1 ATTGAGAAAAACAGTCTTA
* *
47771148 ATTGAGAAACATAGTCTTA
1 ATTGAGAAAAACAGTCTTA
47771167 A
1 A
47771168 CATCCATCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.28
Consensus pattern (19 bp):
ATTGAGAAAAACAGTCTTA
Found at i:47776444 original size:40 final size:39
Alignment explanation
Indices: 47776400--47776522 Score: 112
Period size: 40 Copynumber: 3.2 Consensus size: 39
47776390 TTCCTAGTGT
47776400 TGGGCACACGATTATATTTGTCGGTTTATTCGACTAGCGC
1 TGGGCACAC-ATTATATTTGTCGGTTTATTCGACTAGCGC
* * * *
47776440 TGGGCACA-A--CT-TTCGTCAGTTTA-TCTGACTAGTGC
1 TGGGCACACATTATATTTGTCGGTTTATTC-GACTAGCGC
* * * *
47776475 TGGGCACATCATTATATCTGTCGGTTTATCCGGCTAGCAC
1 TGGGCACA-CATTATATTTGTCGGTTTATTCGACTAGCGC
47776515 TGGGCACA
1 TGGGCACA
47776523 ACTTTCGTCA
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
34 2 0.03
35 26 0.41
36 1 0.02
37 1 0.02
38 1 0.02
39 1 0.02
40 31 0.48
41 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (39 bp):
TGGGCACACATTATATTTGTCGGTTTATTCGACTAGCGC
Found at i:47776470 original size:35 final size:35
Alignment explanation
Indices: 47776423--47776546 Score: 124
Period size: 35 Copynumber: 3.4 Consensus size: 35
47776413 ATATTTGTCG
47776423 GTTTAT-TCGACTAGCGCTGGGCACAACTTTCGTCA
1 GTTTATCT-GACTAGCGCTGGGCACAACTTTCGTCA
* * *
47776458 GTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCG
1 GTTTATCTGACTAGCGCTGGGCACA--ACT-T-TC-GTCA
* * *
47776498 GTTTATCCGGCTAGCACTGGGCACAACTTTCGTCA
1 GTTTATCTGACTAGCGCTGGGCACAACTTTCGTCA
*
47776533 GTTTATTTGACTAG
1 GTTTATCTGACTAG
47776547 TACTGGGTAC
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
35 36 0.51
36 3 0.04
37 3 0.04
38 3 0.04
39 2 0.03
40 24 0.34
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (35 bp):
GTTTATCTGACTAGCGCTGGGCACAACTTTCGTCA
Found at i:47776503 original size:75 final size:75
Alignment explanation
Indices: 47776380--47776659 Score: 348
Period size: 75 Copynumber: 3.7 Consensus size: 75
47776370 ACGAATATTA
** * * * *
47776380 TCAGTTTATCTTCCTAGTGTTGGGCACA-CGATTATATTTGTCGGTTTATTCGACTAGCGCTGGG
1 TCAGTTTATCTGACTAGTGCTGGGCACATC-ATTATATCTGTCGGTTTATCCGACTAGCACTGGG
47776444 CACAACTTTCG
65 CACAACTTTCG
*
47776455 TCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGGCTAGCACTGGGC
1 TCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTAGCACTGGGC
47776520 ACAACTTTCG
66 ACAACTTTCG
* * * * * * *
47776530 TCAGTTTATTTGACTAGTACTGGGTACATCGTTATATCTATCGGTTTATCCAACTAGCACTGGGT
1 TCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTAGCACTGGGC
* *
47776595 GCAACTTT-T
66 ACAACTTTCG
* * * * *
47776604 TCAGTTTATATGACTAGTGATGGGCACATCAATATATATGTCGGTTTATCTGACTA
1 TCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTA
47776660 ACGTGGGGCG
Statistics
Matches: 177, Mismatches: 27, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
74 46 0.26
75 130 0.73
76 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (75 bp):
TCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTAGCACTGGGC
ACAACTTTCG
Found at i:47783257 original size:47 final size:47
Alignment explanation
Indices: 47783188--47783286 Score: 153
Period size: 47 Copynumber: 2.1 Consensus size: 47
47783178 TTATTGGACG
* * *
47783188 TTTATCTATGATTTTGGTGGCTTGTCCACGATATTGATTGTTGGCAA
1 TTTATCTACGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAA
* *
47783235 TTTATCTGCGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAG
1 TTTATCTACGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAA
47783282 TTTAT
1 TTTAT
47783287 AAGTGTTACT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.19, C:0.13, G:0.22, T:0.45
Consensus pattern (47 bp):
TTTATCTACGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAA
Found at i:47785362 original size:42 final size:42
Alignment explanation
Indices: 47785255--47785414 Score: 144
Period size: 42 Copynumber: 3.8 Consensus size: 42
47785245 TCATGTTTAC
* * * *
47785255 TTTCCGTTTAGCTCTCACGAGCTTCTGTTTAACTCATATGAG
1 TTTCCGTTCAGCTCTCACGAGCTTCTGTTCAACCCATATGGG
* * ** * *
47785297 TTTCTGTTCAGTTCT-ATTAAGCTTCTGTTTAACCCTTATGGG
1 TTTCCGTTCAGCTCTCA-CGAGCTTCTGTTCAACCCATATGGG
* *
47785339 TTCCCGTTCAGCTCTTACGAGCTT-TCGTTCAACCCATATGGG
1 TTTCCGTTCAGCTCTCACGAGCTTCT-GTTCAACCCATATGGG
** * *
47785381 TTTCTATTTAGCTCTCATGAGCTTCTGTTCAACC
1 TTTCCGTTCAGCTCTCACGAGCTTCTGTTCAACC
47785415 TTCAGGCTTC
Statistics
Matches: 93, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
41 2 0.02
42 89 0.96
43 2 0.02
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.41
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTCACGAGCTTCTGTTCAACCCATATGGG
Found at i:47785404 original size:84 final size:84
Alignment explanation
Indices: 47785258--47785414 Score: 192
Period size: 84 Copynumber: 1.9 Consensus size: 84
47785248 TGTTTACTTT
* * * * *
47785258 CCGTTTAGCTCTCACGAGCTTCTGTTTAACTCATATGAGTTTCTGTTCAGTTCTATTAAGCTTCT
1 CCGTTCAGCTCTCACGAGCTTCTGTTCAACCCATATGAGTTTCTATTCAGCTCTATTAAGCTTCT
*
47785323 GTTTAACCCTTATGGGTTC
66 GTTCAACCCTTATGGGTTC
* * * *
47785342 CCGTTCAGCTCTTACGAGCTT-TCGTTCAACCCATATGGGTTTCTATTTAGCTCTCA-TGAGCTT
1 CCGTTCAGCTCTCACGAGCTTCT-GTTCAACCCATATGAGTTTCTATTCAGCTCT-ATTAAGCTT
47785405 CTGTTCAACC
64 CTGTTCAACC
47785415 TTCAGGCTTC
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
83 1 0.02
84 59 0.97
85 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (84 bp):
CCGTTCAGCTCTCACGAGCTTCTGTTCAACCCATATGAGTTTCTATTCAGCTCTATTAAGCTTCT
GTTCAACCCTTATGGGTTC
Found at i:47787882 original size:16 final size:16
Alignment explanation
Indices: 47787861--47787893 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
47787851 ATTAAATAAC
47787861 TAAAATAAACAAACAA
1 TAAAATAAACAAACAA
47787877 TAAAATAAACAAACAA
1 TAAAATAAACAAACAA
47787893 T
1 T
47787894 TAAACCAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (16 bp):
TAAAATAAACAAACAA
Found at i:47789882 original size:15 final size:15
Alignment explanation
Indices: 47789862--47789892 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
47789852 AAAACAACAT
47789862 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
47789877 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
47789892 A
1 A
47789893 CTTACATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:47798069 original size:26 final size:26
Alignment explanation
Indices: 47798031--47798087 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
47798021 CGGCTATGGC
47798031 AACATAGAGAGTCCACC-GAGACAGTA
1 AACATAGAGAGTCCACCAG-GACAGTA
* *
47798057 AACATA-AGAAGTCCGCCAGGACATTA
1 AACATAGAG-AGTCCACCAGGACAGTA
47798083 AACAT
1 AACAT
47798088 GGAACCTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 2 0.07
26 24 0.89
27 1 0.04
ACGTcount: A:0.44, C:0.23, G:0.19, T:0.14
Consensus pattern (26 bp):
AACATAGAGAGTCCACCAGGACAGTA
Found at i:47802180 original size:16 final size:14
Alignment explanation
Indices: 47802143--47802181 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 14
47802133 GCGAAAAATA
47802143 AATAATAAAAAAAG
1 AATAATAAAAAAAG
47802157 AA-AATAAAAAAACG
1 AATAATAAAAAAA-G
47802171 AATAATTAAAA
1 AATAA-TAAAA
47802182 GAATGATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 5 0.23
15 2 0.09
16 5 0.23
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (14 bp):
AATAATAAAAAAAG
Found at i:47803449 original size:39 final size:39
Alignment explanation
Indices: 47803384--47803471 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
47803374 GTGTTGTTTG
*
47803384 AAATTATA-TTTAAGTATTTAAATAAATTATATTAAGTT
1 AAATTATATTTTAAGTATCTAAATAAATTATATTAAGTT
* * * *
47803422 AACTTATATTTTAAGTCTCTAAGTAAATTATGTTAAGTT
1 AAATTATATTTTAAGTATCTAAATAAATTATATTAAGTT
47803461 AAATTATATTT
1 AAATTATATTT
47803472 GAGCCTTGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 7 0.16
39 36 0.84
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (39 bp):
AAATTATATTTTAAGTATCTAAATAAATTATATTAAGTT
Found at i:47810132 original size:41 final size:43
Alignment explanation
Indices: 47810068--47810148 Score: 130
Period size: 41 Copynumber: 1.9 Consensus size: 43
47810058 TAAACATTAA
*
47810068 AAAATTATTTTAAAAATAAAAAAAATAAAAATAAAAATATTTT
1 AAAAGTATTTTAAAAATAAAAAAAATAAAAATAAAAATATTTT
*
47810111 AAAAGTATTTT-AAAAT-TAAAAAATAAAAATAAAAATAT
1 AAAAGTATTTTAAAAATAAAAAAAATAAAAATAAAAATAT
47810149 ATATTTATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 21 0.58
42 5 0.14
43 10 0.28
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (43 bp):
AAAAGTATTTTAAAAATAAAAAAAATAAAAATAAAAATATTTT
Found at i:47811339 original size:13 final size:14
Alignment explanation
Indices: 47811321--47811381 Score: 67
Period size: 13 Copynumber: 4.6 Consensus size: 14
47811311 CATAAGTATA
*
47811321 TTCATATAAAC-AC
1 TTCATATAAACTAT
47811334 TTCATAT-AACTAT
1 TTCATATAAACTAT
*
47811347 TTCATAT-ATCTAT
1 TTCATATAAACTAT
47811360 TTCCATATAAAC-AT
1 TT-CATATAAACTAT
47811374 TTCATATA
1 TTCATATA
47811382 TCCATTTCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
12 3 0.07
13 28 0.67
14 9 0.21
15 2 0.05
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (14 bp):
TTCATATAAACTAT
Found at i:47811350 original size:40 final size:40
Alignment explanation
Indices: 47811306--47811390 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
47811296 AAATGTCCCT
* *
47811306 TTTCACATAAGTATATT-CATATAAACACTTCATATAACTA
1 TTTCACATAACTAT-TTCCATATAAACACTTCATATAACCA
* * * *
47811346 TTTCATATATCTATTTCCATATAAACATTTCATATATCCA
1 TTTCACATAACTATTTCCATATAAACACTTCATATAACCA
47811386 TTTCA
1 TTTCA
47811391 TATTACCATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 36 0.95
ACGTcount: A:0.38, C:0.19, G:0.01, T:0.42
Consensus pattern (40 bp):
TTTCACATAACTATTTCCATATAAACACTTCATATAACCA
Found at i:47811366 original size:27 final size:25
Alignment explanation
Indices: 47811334--47811402 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 25
47811324 ATATAAACAC
*
47811334 TTCATATAACTATTTCATATATCTAT
1 TTCATATAAC-ATTTCATATATCCAT
47811360 TTCCATATAAACATTTCATATATCCAT
1 TT-CATAT-AACATTTCATATATCCAT
*
47811387 TTCATATTACCATTTC
1 TTCATA-TAACATTTC
47811403 TGTTTACTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 13 0.34
27 22 0.58
28 3 0.08
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCATATAACATTTCATATATCCAT
Found at i:47811387 original size:13 final size:13
Alignment explanation
Indices: 47811334--47811402 Score: 68
Period size: 13 Copynumber: 5.2 Consensus size: 13
47811324 ATATAAACAC
* *
47811334 TTCATATAACTAT
1 TTCATATATCCAT
*
47811347 TTCATATATCTAT
1 TTCATATATCCAT
**
47811360 TTCCATATAAACAT
1 TT-CATATATCCAT
47811374 TTCATATATCCAT
1 TTCATATATCCAT
47811387 TTCATAT-TACCAT
1 TTCATATAT-CCAT
47811400 TTC
1 TTC
47811403 TGTTTACTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
12 1 0.02
13 37 0.77
14 10 0.21
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.46
Consensus pattern (13 bp):
TTCATATATCCAT
Found at i:47811402 original size:40 final size:40
Alignment explanation
Indices: 47811323--47811402 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
47811313 TAAGTATATT
* *
47811323 CATATAAACACTTCATATAACTATTTCATATATCTATTTC
1 CATATAAACACTTCATATAACCATTTCATATATCCATTTC
* *
47811363 CATATAAACATTTCATATATCCATTTCATAT-TACCATTTC
1 CATATAAACACTTCATATAACCATTTCATATAT-CCATTTC
47811403 TGTTTACTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.03
40 34 0.97
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.42
Consensus pattern (40 bp):
CATATAAACACTTCATATAACCATTTCATATATCCATTTC
Found at i:47817903 original size:51 final size:51
Alignment explanation
Indices: 47817838--47817969 Score: 167
Period size: 51 Copynumber: 2.6 Consensus size: 51
47817828 TGATAGGTCG
* ***
47817838 CATGTGTAGTACTATGTGAAGGCTACTATGCGTACCGGAT-AGCTTCGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAAT-GATCA
* * * *
47817889 CATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGGTCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGATCA
*
47817940 CATGTGTAATACTATGTGCAGGCTACTATG
1 CATGTGTAGTACTATGTGCAGGCTACTATG
47817970 TGAACCAGGT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
51 68 0.97
52 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (51 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGATCA
Found at i:47818008 original size:102 final size:101
Alignment explanation
Indices: 47817792--47817975 Score: 262
Period size: 102 Copynumber: 1.8 Consensus size: 101
47817782 AGGTCACGTT
* * * * *
47817792 TGTAGTGCTATGTCCAGGCTACTACGTGTATCGGAATGATAGGTCGCATGTGTAGTACTATGTGA
1 TGTAGTACTATGTGCAGGCTACTACGTGTATCGGAATGAAAGGTCACATGTGTAATACTATGTGA
* *
47817857 AGGCTACTATGCGTACCGGATAGCTTCGATCACATG
66 AGGCTACTATGCGAACCGGATAGCTTCGATCACAAG
47817893 TGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGAAAATGGTCACATGTGTAATACTATGT
1 TGTAGTACTATGTGCAGGCTACTACGTGTATCGGAATG-AAA-GGTCACATGTGTAATACTATGT
* *
47817957 GCAGGCTACTATGTGAACC
64 GAAGGCTACTATGCGAACC
47817976 AGGTATCATT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
100 3 0.04
101 34 0.47
102 36 0.49
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (101 bp):
TGTAGTACTATGTGCAGGCTACTACGTGTATCGGAATGAAAGGTCACATGTGTAATACTATGTGA
AGGCTACTATGCGAACCGGATAGCTTCGATCACAAG
Found at i:47822648 original size:51 final size:51
Alignment explanation
Indices: 47822505--47822687 Score: 165
Period size: 51 Copynumber: 3.6 Consensus size: 51
47822495 AGTTGCTAGG
* * * *
47822505 TCACGTGTGTAGTGCTATGTGCATGCTACTACGTGTATCAGA-ATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATATGATAGA
* * * * * * * *
47822555 TCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTACCGGATA-GCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATATG-ATAGA
* ** *
47822606 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAAT-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT-ATGATAGA
* *
47822657 TCACATGTGTAATACTATGTGCAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
47822688 TGTGAACCGG
Statistics
Matches: 104, Mismatches: 25, Indels: 7
0.76 0.18 0.05
Matches are distributed among these distances:
50 34 0.33
51 68 0.65
52 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATATGATAGA
Found at i:47822697 original size:102 final size:101
Alignment explanation
Indices: 47822505--47822697 Score: 271
Period size: 101 Copynumber: 1.9 Consensus size: 101
47822495 AGTTGCTAGG
* * * * * *
47822505 TCACGTGTGTAGTGCTATGTGCATGCTACTACGTGTATCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCAGAATGAAAGGTCACATGTGTAATAC
* *
47822570 TATGTGTAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGAACCGGATAGCTTCGA
*
47822606 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATC-GGATGAAAATGGTCACATGTGTAAT
1 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCAGAATG-AAA-GGTCACATGTGTAAT
*
47822670 ACTATGTGCAGGCTACTATGTGAACCGG
64 ACTATGTGCAGGCTACTATGCGAACCGG
47822698 GTATCATTTA
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
100 4 0.05
101 38 0.47
102 38 0.47
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCAGAATGAAAGGTCACATGTGTAATAC
TATGTGCAGGCTACTATGCGAACCGGATAGCTTCGA
Found at i:47827790 original size:19 final size:19
Alignment explanation
Indices: 47827755--47827803 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
47827745 TTTTCATATG
*
47827755 GGGACCATTTT-TTGATAA
1 GGGAACATTTTGTTGATAA
47827773 GGGAACATTTTGTTGATAA
1 GGGAACATTTTGTTGATAA
47827792 -GGACACATTTTG
1 GGGA-ACATTTTG
47827804 AGGATATTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 13 0.46
19 15 0.54
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (19 bp):
GGGAACATTTTGTTGATAA
Found at i:47827809 original size:19 final size:19
Alignment explanation
Indices: 47827768--47827809 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
47827758 ACCATTTTTT
**
47827768 GATAAGGGAACATTTTGTT
1 GATAAGGGAACATTTTGAG
47827787 GATAA-GGACACATTTTGAG
1 GATAAGGGA-ACATTTTGAG
47827806 GATA
1 GATA
47827810 TTGAAGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (19 bp):
GATAAGGGAACATTTTGAG
Found at i:47835055 original size:18 final size:19
Alignment explanation
Indices: 47835023--47835061 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
47835013 ATCAAGAGAA
*
47835023 TTTTTTGGTGATTTTTTTCT
1 TTTTTTGGT-ATTTTTCTCT
47835043 TTTTTTGGT-TTTTTCTCT
1 TTTTTTGGTATTTTTCTCT
47835061 T
1 T
47835062 CAAAAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.03, C:0.08, G:0.13, T:0.77
Consensus pattern (19 bp):
TTTTTTGGTATTTTTCTCT
Found at i:47838305 original size:28 final size:30
Alignment explanation
Indices: 47838273--47838328 Score: 82
Period size: 28 Copynumber: 1.9 Consensus size: 30
47838263 TTTTTTTAAA
47838273 TGTATGTATAT-TATTATAA-AA-AATAATG
1 TGTATGTATATATA-TATAATAATAATAATG
47838301 TGTATGTATATATATATAATAATAATAA
1 TGTATGTATATATATATAATAATAATAA
47838329 AAATAATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 16 0.64
29 4 0.16
30 5 0.20
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (30 bp):
TGTATGTATATATATATAATAATAATAATG
Found at i:47838325 original size:6 final size:6
Alignment explanation
Indices: 47838316--47838358 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
47838306 GTATATATAT
* * * *
47838316 ATAATA ATAATA AAAATA ATAAGA ATAAGA ATAATA AGAATA A
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA A
47838359 CTTAATAACA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (6 bp):
ATAATA
Found at i:47838336 original size:15 final size:15
Alignment explanation
Indices: 47838316--47838358 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
47838306 GTATATATAT
*
47838316 ATAATAATAATAAAA
1 ATAATAAGAATAAAA
*
47838331 ATAATAAGAATAAGA
1 ATAATAAGAATAAAA
47838346 ATAATAAGAATAA
1 ATAATAAGAATAA
47838359 CTTAATAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (15 bp):
ATAATAAGAATAAAA
Found at i:47839367 original size:44 final size:44
Alignment explanation
Indices: 47839317--47839428 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 44
47839307 GATATGCTCT
* * *
47839317 CTGCAACTTTAGAGAGATAAGATCTA-TCACTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGAT-TATTCACTTTAATCCACTCCA
** ** *
47839361 CTGCAACTTCAGGGAGATTGGATTATTGGCTTTAATCTACTCCA
1 CTGCAACTTCAGGGAGATAAGATTATTCACTTTAATCCACTCCA
47839405 CTGCAACTTCAGGGAGATAAGATT
1 CTGCAACTTCAGGGAGATAAGATT
47839429 CGCTATCTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 2 0.04
44 55 0.96
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATTATTCACTTTAATCCACTCCA
Found at i:47839690 original size:169 final size:169
Alignment explanation
Indices: 47839503--47840126 Score: 1018
Period size: 169 Copynumber: 3.7 Consensus size: 169
47839493 TGTTCTATTG
* * * * * *
47839503 TAATGCCAAAGAGATAGGATTCCCTTCCCACAGCTTTAATCTGCTTCTCTTCAGCTACTTCAAGT
1 TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
*
47839568 CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGA
66 CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGA
47839633 AACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACCA
131 AACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACCA
*
47839672 TAATGCCAAAGAGATAGGATTCGCTGCCCATAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
1 TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
*
47839737 GTTAACGCCAGGGAGATAAGATTCGCTG-CCTCCAGCTTTAATCTGCTCCGCTGCAACGCTAGGG
66 CTTAACGCCAGGGAGATAAGATTCGCTGCCCT-CAGCTTTAATCTGCTCCGCTGCAACGCTAGGG
47839801 AAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACTC-
130 AAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCAC-CA
* *
47839841 TAATGCGAAAGAGATAGGATTCGCTGCCCACAGCTTTATTCCGCTCCACTTCAGCTATTTCAAGT
1 TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
* *
47839906 CTTAACGCCAGAGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCACTGCAACGCTAGGGA
66 CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGA
* * * *
47839971 AACAATATTCGCTACCTTTAGCTTTAATTTGTTCCACTA
131 AACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACCA
* *
47840010 TAATGCCAAAGAGATAGGATTTGCTACCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
1 TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
* * *
47840075 CTTAACGCCAAGGAGATAAAATTCGCTGCCCTCAGCCTTAATCTGCTCCGCT
66 CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCT
47840127 ATAACATCAG
Statistics
Matches: 423, Mismatches: 28, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
168 3 0.01
169 416 0.98
170 4 0.01
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (169 bp):
TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGA
AACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACCA
Found at i:47840249 original size:34 final size:34
Alignment explanation
Indices: 47840160--47840263 Score: 109
Period size: 34 Copynumber: 3.0 Consensus size: 34
47840150 GCAATCTTCA
* * * *
47840160 ACCTATTCCACTGTTAACCAAGGAGATAGGATTCAC
1 ACCTATTCCACTGCTGACCAGGGAGATAGGA--CTC
* *
47840196 AACCTATTCCACTGTTGACCAGGGAGATATGACTC
1 -ACCTATTCCACTGCTGACCAGGGAGATAGGACTC
* *
47840231 ACCTATTCTATTGCTGACCAGGGAGATAGGACT
1 ACCTATTCCACTGCTGACCAGGGAGATAGGACT
47840264 TATAATATTC
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
34 29 0.49
35 2 0.03
37 28 0.47
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (34 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGACTC
Found at i:47840294 original size:44 final size:43
Alignment explanation
Indices: 47840245--47840392 Score: 208
Period size: 44 Copynumber: 3.4 Consensus size: 43
47840235 ATTCTATTGC
* *
47840245 TGACCAGGGAGATAGGACTTATAATATTCAACCTATTCCACTA
1 TGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTA
*
47840288 TTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTA
1 -TGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTA
*
47840332 CTGACCAGGGAGATAGGA-TTCACAATCTTCAGCCTATTCCACTGA
1 -TGACCAGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACT-A
*
47840377 TGTCCAGGGAGATAGG
1 TGACCAGGGAGATAGG
47840393 GCTGGGGTTA
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
43 1 0.01
44 93 0.98
45 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (43 bp):
TGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTA
Found at i:47842663 original size:12 final size:12
Alignment explanation
Indices: 47842648--47842678 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
47842638 ATTTTTTCAA
47842648 TTTTTTTCTTTC
1 TTTTTTTCTTTC
47842660 TTTTTTTCTTTC
1 TTTTTTTCTTTC
47842672 TTTTTTT
1 TTTTTTT
47842679 AATGCATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTTTCTTTC
Found at i:47848232 original size:9 final size:10
Alignment explanation
Indices: 47848200--47848238 Score: 53
Period size: 9 Copynumber: 3.8 Consensus size: 10
47848190 TAGAAATAAT
47848200 ATAAACAAATAA
1 ATAAAC-AA-AA
47848212 ATAAACAAAA
1 ATAAACAAAA
47848222 ATAAA-AAAA
1 ATAAACAAAA
47848231 ATAAACAA
1 ATAAACAA
47848239 TCACAATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 9 0.35
10 9 0.35
11 2 0.08
12 6 0.23
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (10 bp):
ATAAACAAAA
Found at i:47848703 original size:28 final size:31
Alignment explanation
Indices: 47848671--47848728 Score: 86
Period size: 28 Copynumber: 2.0 Consensus size: 31
47848661 TTTTTTTAAA
*
47848671 TGTATGTATAT-TATTATAA-AA-AATAATG
1 TGTATGTATATATATAATAATAATAATAATG
47848699 TGTATGTATATATATAATAATAATAATAAT
1 TGTATGTATATATATAATAATAATAATAAT
47848729 AATAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 11 0.42
29 7 0.27
30 2 0.08
31 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (31 bp):
TGTATGTATATATATAATAATAATAATAATG
Found at i:47848720 original size:3 final size:3
Alignment explanation
Indices: 47848712--47848742 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
47848702 ATGTATATAT
47848712 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
47848743 CTTAATAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:47850172 original size:13 final size:13
Alignment explanation
Indices: 47850154--47850178 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47850144 CAAATAAAAA
47850154 ATAAATAAATATG
1 ATAAATAAATATG
47850167 ATAAATAAATAT
1 ATAAATAAATAT
47850179 AACAATAAAT
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATAAATAAATATG
Found at i:47850217 original size:12 final size:12
Alignment explanation
Indices: 47850200--47850224 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47850190 AAAGATTGGA
47850200 AAAATAAAGAAG
1 AAAATAAAGAAG
47850212 AAAATAAAGAAG
1 AAAATAAAGAAG
47850224 A
1 A
47850225 TAGATGGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAATAAAGAAG
Found at i:47854995 original size:21 final size:21
Alignment explanation
Indices: 47854969--47855008 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47854959 ATGTATAATT
*
47854969 TATTT-AGATATTTTTAATATA
1 TATTTAAGA-ATTTTAAATATA
47854990 TATTTAAGAATTTTAAATA
1 TATTTAAGAATTTTAAATA
47855009 AAATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TATTTAAGAATTTTAAATATA
Found at i:47855677 original size:23 final size:23
Alignment explanation
Indices: 47855647--47855691 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
47855637 AAACGCTATT
47855647 AAAATAAAATTTTAAAAAATGAG
1 AAAATAAAATTTTAAAAAATGAG
47855670 AAAATAAAATTTTAAAAAATGA
1 AAAATAAAATTTTAAAAAATGA
47855692 CACTTACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (23 bp):
AAAATAAAATTTTAAAAAATGAG
Found at i:47855932 original size:2 final size:2
Alignment explanation
Indices: 47855925--47855952 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
47855915 CCTTTTCTAC
47855925 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
47855953 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:47866628 original size:14 final size:13
Alignment explanation
Indices: 47866609--47866651 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
47866599 TTCAAAAAAT
47866609 ATATATAATATATA
1 ATATATAATAT-TA
47866623 ATATATAACTATTA
1 ATATATAA-TATTA
*
47866637 ATAGA-AATATTA
1 ATATATAATATTA
47866649 ATA
1 ATA
47866652 CGTATATAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 8 0.30
13 2 0.07
14 14 0.52
15 3 0.11
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATATAATATTA
Found at i:47869949 original size:16 final size:17
Alignment explanation
Indices: 47869928--47869961 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47869918 ACATAATTAT
*
47869928 TAGTAA-AAGGTTAATA
1 TAGTAATAAGGTAAATA
47869944 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
47869961 T
1 T
47869962 TAAATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:47875796 original size:10 final size:10
Alignment explanation
Indices: 47875768--47875803 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
47875758 TTACAAAACT
47875768 AATACAAAAA
1 AATACAAAAA
47875778 AATA-AAAAA
1 AATACAAAAA
*
47875787 AATACCAAAA
1 AATACAAAAA
47875797 AATACAA
1 AATACAA
47875804 GCATTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (10 bp):
AATACAAAAA
Found at i:47875912 original size:27 final size:27
Alignment explanation
Indices: 47875847--47875918 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
47875837 GAGTGGAGGG
* * *
47875847 ACTGCCACAAGTGGCACCAAAGGTGCT
1 ACTGCCACAGGCGGCACCAAAGGTGCC
* ** *
47875874 AGTGGTAGAGGCGGCACCAAAGGTGCC
1 ACTGCCACAGGCGGCACCAAAGGTGCC
47875901 ACTGCCACAGGCGGCACC
1 ACTGCCACAGGCGGCACC
47875919 GCCCCCCTTA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.26, C:0.31, G:0.32, T:0.11
Consensus pattern (27 bp):
ACTGCCACAGGCGGCACCAAAGGTGCC
Found at i:47876378 original size:42 final size:42
Alignment explanation
Indices: 47876332--47876458 Score: 108
Period size: 41 Copynumber: 3.1 Consensus size: 42
47876322 AAAACACACT
47876332 TAACAAATAAATTAAATAAAATAATAAAACATAGAATGTACA
1 TAACAAATAAATTAAATAAAATAATAAAACATAGAATGTACA
* * *
47876374 TAAC--ATAAATGATAA-AACATAAATAATAACATA-AA--TAAA
1 TAACAAATAAATTA-AATAAAAT-AATAA-AACATAGAATGTACA
* * *
47876413 TAATAACATAAA-T-AATAAAATAATAAGACATAGTATGTACA
1 TAACAA-ATAAATTAAATAAAATAATAAAACATAGAATGTACA
47876454 TAACA
1 TAACA
47876459 TAAATAATAA
Statistics
Matches: 65, Mismatches: 10, Indels: 21
0.68 0.10 0.22
Matches are distributed among these distances:
38 5 0.08
39 14 0.22
40 15 0.23
41 16 0.25
42 15 0.23
ACGTcount: A:0.63, C:0.08, G:0.05, T:0.24
Consensus pattern (42 bp):
TAACAAATAAATTAAATAAAATAATAAAACATAGAATGTACA
Found at i:47876389 original size:30 final size:30
Alignment explanation
Indices: 47876350--47876500 Score: 157
Period size: 30 Copynumber: 5.4 Consensus size: 30
47876340 AAATTAAATA
47876350 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
*
47876380 AAATGATAAAACATA-AA--TA-ATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
47876406 AAATAAATAATAACATA-AA--TA-AT---A-
1 AAAT-AATAA-AACATAGAATGTACATAACAT
* *
47876430 AAATAATAAGACATAGTATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
47876460 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
47876490 AAA-AATTAAAA
1 AAATAA-TAAAA
47876501 TCAAAACCAA
Statistics
Matches: 104, Mismatches: 6, Indels: 22
0.79 0.05 0.17
Matches are distributed among these distances:
22 5 0.05
23 6 0.06
24 4 0.04
25 3 0.03
26 13 0.12
27 6 0.06
28 12 0.12
29 5 0.05
30 50 0.48
ACGTcount: A:0.63, C:0.08, G:0.05, T:0.24
Consensus pattern (30 bp):
AAATAATAAAACATAGAATGTACATAACAT
Found at i:47876404 original size:12 final size:12
Alignment explanation
Indices: 47876373--47876435 Score: 54
Period size: 12 Copynumber: 4.8 Consensus size: 12
47876363 TAGAATGTAC
47876373 ATAACATAAATGA
1 ATAACATAAAT-A
*
47876386 TAAAACATAAATA
1 -ATAACATAAATA
47876399 ATAACATAAATAAATA
1 ATAAC----ATAAATA
47876415 ATAACATAAATA
1 ATAACATAAATA
*
47876427 ATAAAATAA
1 ATAACATAA
47876436 TAAGACATAG
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
12 19 0.45
13 1 0.02
14 10 0.24
16 12 0.29
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.24
Consensus pattern (12 bp):
ATAACATAAATA
Found at i:47876413 original size:16 final size:16
Alignment explanation
Indices: 47876371--47876427 Score: 73
Period size: 16 Copynumber: 3.6 Consensus size: 16
47876361 CATAGAATGT
*
47876371 ACATAACATAAATGATA
1 ACATAA-ATAAATAATA
*
47876388 A-A-ACATAAATAATA
1 ACATAAATAAATAATA
47876402 ACATAAATAAATAATA
1 ACATAAATAAATAATA
47876418 ACATAAATAA
1 ACATAAATAA
47876428 TAAAATAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 10 0.29
15 2 0.06
16 22 0.63
17 1 0.03
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.23
Consensus pattern (16 bp):
ACATAAATAAATAATA
Found at i:47876490 original size:16 final size:16
Alignment explanation
Indices: 47876440--47876490 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
47876430 AAATAATAAG
*
47876440 ACATAGTATGTACATA
1 ACATAGAATGTACATA
*
47876456 ACATA-AATAATA-A-A
1 ACATAGAAT-GTACATA
47876470 ACATAGAATGTACATA
1 ACATAGAATGTACATA
47876486 ACATA
1 ACATA
47876491 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
14 8 0.29
15 7 0.25
16 13 0.46
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (16 bp):
ACATAGAATGTACATA
Found at i:47876741 original size:27 final size:27
Alignment explanation
Indices: 47876693--47876757 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
47876683 GTAAGGGGGG
* * * *
47876693 TGGTGCCACCTGTGGCAGTGGCACCTT
1 TGGTGCCGCCTCTGCCACTGGCACCTT
47876720 TGGTGCCGCCTCTGCCACTGGCACCTT
1 TGGTGCCGCCTCTGCCACTGGCACCTT
47876747 TGGTGCCGCCT
1 TGGTGCCGCCT
47876758 GTGGCAGTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.08, C:0.35, G:0.31, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCTCTGCCACTGGCACCTT
Found at i:47876831 original size:11 final size:10
Alignment explanation
Indices: 47876808--47876855 Score: 53
Period size: 11 Copynumber: 4.6 Consensus size: 10
47876798 TAATAAAATG
47876808 TTTGTATTATT
1 TTTGTATT-TT
*
47876819 TTGGTATTTT
1 TTTGTATTTT
47876829 TTT-TAATTTT
1 TTTGT-ATTTT
47876839 TTTGTATTATT
1 TTTGTATT-TT
47876850 TTTGTA
1 TTTGTA
47876856 AAAAACCCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 1 0.03
10 15 0.47
11 16 0.50
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (10 bp):
TTTGTATTTT
Found at i:47898109 original size:50 final size:50
Alignment explanation
Indices: 47898006--47898244 Score: 180
Period size: 50 Copynumber: 4.7 Consensus size: 50
47897996 ATGAGATCCG
*
47898006 ATGTAAGACCATGTCTGGGACATGG-GATTGGCATTATTGAAGTTATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCG-TTGGC---ATCG-AG--ATGAGAGGTCCC
*
47898062 ATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGTGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGGTCCC
** * * * * **
47898112 CGGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCC
1 ATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGGTCCC
* * * * * * **
47898162 ATGTAAGACCATATATGGGATATGACATTGGCAGTAC-A-A-GAAACATCCC
1 ATGTAAGACCATGTCTGGGACATGGCGTTGGCA-T-CGAGATGAGAGGTCCC
* * *
47898211 ATGTAAGACCATATTTGGGACATGGCTTTGGCAT
1 ATGTAAGACCATGTCTGGGACATGGCGTTGGCAT
47898245 GTTGTTATCA
Statistics
Matches: 154, Mismatches: 26, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
48 1 0.01
49 36 0.23
50 79 0.51
51 1 0.01
52 3 0.02
53 3 0.02
56 30 0.19
57 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (50 bp):
ATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGGTCCC
Found at i:47905927 original size:157 final size:156
Alignment explanation
Indices: 47905737--47906045 Score: 519
Period size: 157 Copynumber: 2.0 Consensus size: 156
47905727 ATAAGAATAT
*
47905737 TAATTATTAAGAATTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTTA
1 TAATTATTAAGAATTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTTA
* * *
47905802 AATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAAT
66 AATATGATTAAAATATTCATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAAT
47905867 AATAATTTACCAAAACAAATTTCTGG
131 AATAATTTACCAAAACAAATTTCTGG
* *
47905893 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAA-TTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
47905958 AAATATGATTAAAATATTCATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
65 AAATATGATTAAAATATTCATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
* *
47906023 TAATCATTTACCAAAATAAATTT
130 TAATAATTTACCAAAACAAATTT
47906046 ATGCTAAGGG
Statistics
Matches: 142, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
156 13 0.09
157 129 0.91
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.44
Consensus pattern (156 bp):
TAATTATTAAGAATTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTTA
AATATGATTAAAATATTCATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAAT
AATAATTTACCAAAACAAATTTCTGG
Found at i:47906196 original size:16 final size:16
Alignment explanation
Indices: 47906175--47906242 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
47906165 GATTTGCTAT
47906175 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47906191 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
47906207 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
*
47906223 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
47906239 TACA
1 TACA
47906243 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:47915677 original size:49 final size:49
Alignment explanation
Indices: 47915583--47915678 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 49
47915573 CTTCTATTTA
* * * *
47915583 TAGGTTGAAAAACCTTATTCTAATCAATGTTAAATAGAAGCAGTGTAGT
1 TAGGTTGAAAAACATTATTCTAATCAATATCAAATAGAAGAAGTGTAGT
** *
47915632 TAGGTTGAAGCACATTATTCTAATCAATATCAAATAGAATAAGTGTA
1 TAGGTTGAAAAACATTATTCTAATCAATATCAAATAGAAGAAGTGTA
47915679 CTTCTATATG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (49 bp):
TAGGTTGAAAAACATTATTCTAATCAATATCAAATAGAAGAAGTGTAGT
Found at i:47918543 original size:23 final size:23
Alignment explanation
Indices: 47918493--47918544 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
47918483 ATGGTTCACA
47918493 TAAT-ATATAGGGTTCAAATACT
1 TAATCATATAGGGTTCAAATACT
* *
47918515 TTATCATATAGGGTTCACAT-CT
1 TAATCATATAGGGTTCAAATACT
47918537 TAAATCAT
1 T-AATCAT
47918545 GTACTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (23 bp):
TAATCATATAGGGTTCAAATACT
Found at i:47919098 original size:17 final size:16
Alignment explanation
Indices: 47919058--47919106 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
47919048 TTCTCTAAGT
47919058 GTCCGCA-ATACAGGGG
1 GTCCGCATA-ACAGGGG
*
47919074 GT-CACATAACATGGGG
1 GTCCGCATAACA-GGGG
47919090 GTCCGCATAACAGGGG
1 GTCCGCATAACAGGGG
47919106 G
1 G
47919107 CTTGCACACA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 6 0.21
16 14 0.50
17 8 0.29
ACGTcount: A:0.27, C:0.22, G:0.37, T:0.14
Consensus pattern (16 bp):
GTCCGCATAACAGGGG
Found at i:47919644 original size:3 final size:3
Alignment explanation
Indices: 47919636--47919678 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
47919626 CAACAAGCTC
47919636 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
47919679 AGGCCTTCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:47920312 original size:30 final size:29
Alignment explanation
Indices: 47920273--47920329 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
47920263 TCACTATCAT
* * *
47920273 TTATAAAATTATTGATATTTTATTTAGACA
1 TTATAAAATT-TTCAAATTTTAGTTAGACA
*
47920303 TTATGAAATTTTCAAATTTTAGTTAGA
1 TTATAAAATTTTCAAATTTTAGTTAGA
47920330 AATTTTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 14 0.61
30 9 0.39
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (29 bp):
TTATAAAATTTTCAAATTTTAGTTAGACA
Found at i:47921051 original size:14 final size:15
Alignment explanation
Indices: 47921024--47921066 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
47921014 AAACTTCTTG
47921024 ATTA-AAAATAAATA
1 ATTATAAAATAAATA
47921038 ATTATAAAAT-AATA
1 ATTATAAAATAAATA
*
47921052 A-TATATAATAAATA
1 ATTATAAAATAAATA
47921066 A
1 A
47921067 CAAATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 7 0.27
14 14 0.54
15 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATTATAAAATAAATA
Found at i:47924390 original size:99 final size:99
Alignment explanation
Indices: 47924219--47924418 Score: 382
Period size: 99 Copynumber: 2.0 Consensus size: 99
47924209 TAAAAGAAGG
* *
47924219 AAATAAGAAAATAAATCCATTTTGGTATCAATTTGTGCGTGAAAGTGGGATTTTCTTTAACATTT
1 AAATAAGAAAATAAATCCATTTTAGTATCAATTTGTGCGCGAAAGTGGGATTTTCTTTAACATTT
47924284 GCAACGATAACTTCAATTGCAATTGGAATCCAAA
66 GCAACGATAACTTCAATTGCAATTGGAATCCAAA
47924318 AAATAAGAAAATAAATCCATTTTAGTATCAATTTGTGCGCGAAAGTGGGATTTTCTTTAACATTT
1 AAATAAGAAAATAAATCCATTTTAGTATCAATTTGTGCGCGAAAGTGGGATTTTCTTTAACATTT
47924383 GCAACGATAACTTCAATTGCAATTGGAATCCAAA
66 GCAACGATAACTTCAATTGCAATTGGAATCCAAA
47924417 AA
1 AA
47924419 TAAATAAAGA
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.33
Consensus pattern (99 bp):
AAATAAGAAAATAAATCCATTTTAGTATCAATTTGTGCGCGAAAGTGGGATTTTCTTTAACATTT
GCAACGATAACTTCAATTGCAATTGGAATCCAAA
Found at i:47925454 original size:17 final size:18
Alignment explanation
Indices: 47925432--47925466 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47925422 TATTTTTTTA
47925432 ATTTAT-ATTTCTTATTT
1 ATTTATAATTTCTTATTT
*
47925449 ATTTATAATTTTTTATTT
1 ATTTATAATTTCTTATTT
47925467 GTTCTTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTATAATTTCTTATTT
Found at i:47926760 original size:2 final size:2
Alignment explanation
Indices: 47926753--47926795 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
47926743 ATACATACAT
*
47926753 AG AG AG AG AG TG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
47926795 A
1 A
47926796 TCTCACCAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.02
Consensus pattern (2 bp):
AG
Found at i:47928616 original size:12 final size:13
Alignment explanation
Indices: 47928578--47928619 Score: 50
Period size: 12 Copynumber: 3.1 Consensus size: 13
47928568 AAGAATTAAG
47928578 AGAAGAGAGAGAGA
1 AGAAGAGAGA-AGA
47928592 GAGAGAGAGAGAAGA
1 -AGA-AGAGAGAAGA
47928607 AGAAGA-AGAAGA
1 AGAAGAGAGAAGA
47928619 A
1 A
47928620 AGCAAAGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 7 0.27
13 3 0.12
14 3 0.12
15 6 0.23
16 7 0.27
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (13 bp):
AGAAGAGAGAAGA
Found at i:47928619 original size:6 final size:7
Alignment explanation
Indices: 47928576--47928618 Score: 54
Period size: 8 Copynumber: 6.1 Consensus size: 7
47928566 TTAAGAATTA
47928576 AGAGAAG
1 AGAGAAG
47928583 AGAGAGAG
1 AGAGA-AG
47928591 AGAGAGAG
1 AGAGA-AG
47928599 AGAGAAG
1 AGAGAAG
47928606 A-AGAAG
1 AGAGAAG
47928612 A-AGAAG
1 AGAGAAG
47928618 A
1 A
47928619 AAGCAAAGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.34
7 8 0.23
8 15 0.43
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (7 bp):
AGAGAAG
Found at i:47928796 original size:6 final size:6
Alignment explanation
Indices: 47928785--47928828 Score: 72
Period size: 6 Copynumber: 7.3 Consensus size: 6
47928775 TTATTCTCTC
47928785 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTTT TTTCTT TTT-TT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT TTTCTT TT
47928829 ATATTAACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
5 4 0.11
6 27 0.73
7 6 0.16
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTCTT
Found at i:47931032 original size:38 final size:38
Alignment explanation
Indices: 47930989--47931158 Score: 236
Period size: 38 Copynumber: 4.5 Consensus size: 38
47930979 TTACCGATTG
*
47930989 CATGTTCAA-CATGCCTACTGTTACTGTTGAACCGAGA-A
1 CATGTT-AAGCATGTCTACTGTTACTGTTGAACCGA-ATA
*
47931027 CATGTTAAGCATGTCTACTGTTACTGTTGAACTGAATA
1 CATGTTAAGCATGTCTACTGTTACTGTTGAACCGAATA
* * *
47931065 CATGTTAAACATGTCTACTATTACTGTTGAACCCAATA
1 CATGTTAAGCATGTCTACTGTTACTGTTGAACCGAATA
* **
47931103 CATGTTAAGCATGTCTACTGCTACTGTTGAATTGAATA
1 CATGTTAAGCATGTCTACTGTTACTGTTGAACCGAATA
47931141 CATGTTAAGCATGTCTAC
1 CATGTTAAGCATGTCTAC
47931159 AATTTTTACA
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
37 3 0.03
38 115 0.97
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (38 bp):
CATGTTAAGCATGTCTACTGTTACTGTTGAACCGAATA
Found at i:47931083 original size:76 final size:76
Alignment explanation
Indices: 47930989--47931158 Score: 261
Period size: 76 Copynumber: 2.2 Consensus size: 76
47930979 TTACCGATTG
* * * * *
47930989 CATGTTCAACATGCCTACTGTTACTGTTGAACCGAGA-ACATGTTAAGCATGTCTACTGTTACTG
1 CATGTTAAACATGTCTACTATTACTGTTGAACCCA-ATACATGTTAAGCATGTCTACTGCTACTG
47931053 TTGAACTGAATA
65 TTGAACTGAATA
47931065 CATGTTAAACATGTCTACTATTACTGTTGAACCCAATACATGTTAAGCATGTCTACTGCTACTGT
1 CATGTTAAACATGTCTACTATTACTGTTGAACCCAATACATGTTAAGCATGTCTACTGCTACTGT
*
47931130 TGAATTGAATA
66 TGAACTGAATA
*
47931141 CATGTTAAGCATGTCTAC
1 CATGTTAAACATGTCTAC
47931159 AATTTTTACA
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
75 1 0.01
76 85 0.99
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (76 bp):
CATGTTAAACATGTCTACTATTACTGTTGAACCCAATACATGTTAAGCATGTCTACTGCTACTGT
TGAACTGAATA
Found at i:47932203 original size:4 final size:4
Alignment explanation
Indices: 47932194--47932222 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
47932184 TATATCTAGA
47932194 ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
47932223 ACTCATAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:47940125 original size:5 final size:5
Alignment explanation
Indices: 47940115--47940277 Score: 164
Period size: 5 Copynumber: 31.0 Consensus size: 5
47940105 AGCATATCTT
47940115 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
* * * * * *
47940165 ATATT ATATC ATATC GAATTTC ATATC ATGTC GTAGCAC ATTTC ATATC
1 ATATC ATATC ATATC --ATATC ATATC ATATC ATA--TC ATATC ATATC
* * *
47940214 ATATCTC ATATC ATATC ACATT ATATCTC TTATC ATATC ATATC ATATC
1 ATA--TC ATATC ATATC ATATC ATA--TC ATATC ATATC ATATC ATATC
*
47940263 ATATC ATATC CTATC
1 ATATC ATATC ATATC
47940278 TCATCTACTA
Statistics
Matches: 131, Mismatches: 19, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
5 117 0.89
7 14 0.11
ACGTcount: A:0.36, C:0.21, G:0.02, T:0.41
Consensus pattern (5 bp):
ATATC
Done.