Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 30 of 185
Found at i:8823295 original size:25 final size:25
Alignment explanation
Indices: 8823267--8823369 Score: 70
Period size: 25 Copynumber: 4.0 Consensus size: 25
8823257 TGTTTAAATC
** *
8823267 TATATATATGTATATTTATTTCTTT
1 TATATATATACATATTTATTTATTT
*
8823292 TATATATGTACATATTTATTTATTT
1 TATATATATACATATTTATTTATTT
* *
8823317 T-TCA-A-CTA-ATATTTTTTTTCATATT
1 TAT-ATATATACATA-TTTATTT-AT-TT
8823342 TATATATATACATATATTTATTTATTT
1 TATATATATAC--ATATTTATTTATTT
8823369 T
1 T
8823370 TCATTTTTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
22 3 0.05
23 8 0.13
24 4 0.07
25 27 0.45
26 2 0.03
27 5 0.08
28 2 0.03
29 6 0.10
30 3 0.05
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (25 bp):
TATATATATACATATTTATTTATTT
Found at i:8823346 original size:18 final size:18
Alignment explanation
Indices: 8823302--8823373 Score: 53
Period size: 17 Copynumber: 4.2 Consensus size: 18
8823292 TATATATGTA
8823302 CATATTTAT-TTATTTTT
1 CATATTTATATTATTTTT
* * *
8823319 CA-ACTAATATTTTTTTT
1 CATATTTATATTATTTTT
***
8823336 CATATTTATATATATACAT
1 CATATTTATAT-TATTTTT
8823355 -ATATTTAT-TTATTTTT
1 CATATTTATATTATTTTT
8823371 CAT
1 CAT
8823374 TTTTTAAATG
Statistics
Matches: 39, Mismatches: 12, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
16 8 0.21
17 14 0.36
18 14 0.36
19 3 0.08
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (18 bp):
CATATTTATATTATTTTT
Found at i:8823795 original size:11 final size:11
Alignment explanation
Indices: 8823771--8823801 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
8823761 CATGTCATTG
8823771 ATTTATTT-TT
1 ATTTATTTATT
8823781 ATTTATTTATT
1 ATTTATTTATT
8823792 ATTTATTTAT
1 ATTTATTTAT
8823802 ATTATTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
ATTTATTTATT
Found at i:8829687 original size:88 final size:88
Alignment explanation
Indices: 8829562--8829752 Score: 267
Period size: 88 Copynumber: 2.2 Consensus size: 88
8829552 CTACACCTAT
8829562 AGCGAAGCAGATCGAAGACATCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAAGTTAAAAATAGC
1 AGCGAAGCAGATCGAAGACATCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAAGTTAAAAATAGC
** * **
8829627 AGATCTTCCTTTCCTGTACCGAC
66 AGATCTGACATTCCTAAACCGAC
* * ** *
8829650 AGCGAAGCAGATCGGAGACA-CTAGCCTTGCCTCCCTGGGTTGCGGTGGAGCAGGTTAAAAATAG
1 AGCGAAGCAGATCGAAGACATC-AGCCTTGCCTCCCTGGGTTGCAGCAGAGCAAGTTAAAAATAG
*
8829714 CAGATCTGACATTCCTAAACTGAC
65 CAGATCTGACATTCCTAAACCGAC
8829738 AGCGAAGCAGATCGA
1 AGCGAAGCAGATCGA
8829753 TGACCCCAAC
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
87 1 0.01
88 89 0.99
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (88 bp):
AGCGAAGCAGATCGAAGACATCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAAGTTAAAAATAGC
AGATCTGACATTCCTAAACCGAC
Found at i:8829831 original size:44 final size:44
Alignment explanation
Indices: 8829767--8830021 Score: 332
Period size: 44 Copynumber: 5.8 Consensus size: 44
8829757 CCCAACCCTT
* * * *
8829767 TCTCCCTGGACAACAATGGAATAGGTTAAAGATTACGAATCTTA
1 TCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATTACGAATCTTA
* *
8829811 TCTCCCTGGTCAGCAGTGGAATAAGTTGAAGATTATGAATCTTA
1 TCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATTACGAATCTTA
8829855 TCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATTACGAATCTTA
1 TCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATTACGAATCTTA
* * *
8829899 TCTCCCTAGTCAGCAGTGGAATAAGTTGAAGAATACGAATCTTA
1 TCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATTACGAATCTTA
** * * ** *
8829943 TCTCCCTCTTCAGCAGTGGAATAA-TTGGAGGATTGTGAATCCTA
1 TCTCCCTGGTCAGCAGTGGAATAAGTT-AAAGATTACGAATCTTA
* *
8829987 TCTCCCTCGTCAGCAGTGGAATAGGTTAAAGATTA
1 TCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATTA
8830022 TAGACCTTGT
Statistics
Matches: 186, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
43 2 0.01
44 182 0.98
45 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
TCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATTACGAATCTTA
Found at i:8830004 original size:132 final size:132
Alignment explanation
Indices: 8829783--8830021 Score: 372
Period size: 132 Copynumber: 1.8 Consensus size: 132
8829773 TGGACAACAA
* * *
8829783 TGGAATAGGTTAAAGATTACGAATCTTATCTCCCTGGTCAGCAGTGGAATAAGTTGAAGATTATG
1 TGGAATAAGTTAAAGAATACGAATCTTATCTCCCTCGTCAGCAGTGGAATAAGTTGAAGATTATG
* *
8829848 AATCTTATCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATTACGAATCTTATCTCCCTAGTCAGC
66 AATCCTATCTCCCTCGTCAGCAGTGGAATAAGTTAAAGATTACGAATCTTATCTCCCTAGTCAGC
8829913 AG
131 AG
* * * *
8829915 TGGAATAAGTTGAAGAATACGAATCTTATCTCCCTCTTCAGCAGTGGAATAA-TTGGAGGATTGT
1 TGGAATAAGTTAAAGAATACGAATCTTATCTCCCTCGTCAGCAGTGGAATAAGTT-GAAGATTAT
*
8829979 GAATCCTATCTCCCTCGTCAGCAGTGGAATAGGTTAAAGATTA
65 GAATCCTATCTCCCTCGTCAGCAGTGGAATAAGTTAAAGATTA
8830022 TAGACCTTGT
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
131 2 0.02
132 94 0.98
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (132 bp):
TGGAATAAGTTAAAGAATACGAATCTTATCTCCCTCGTCAGCAGTGGAATAAGTTGAAGATTATG
AATCCTATCTCCCTCGTCAGCAGTGGAATAAGTTAAAGATTACGAATCTTATCTCCCTAGTCAGC
AG
Found at i:8830035 original size:132 final size:132
Alignment explanation
Indices: 8829763--8830050 Score: 370
Period size: 132 Copynumber: 2.2 Consensus size: 132
8829753 TGACCCCAAC
* * * *
8829763 CCTT-TCTCCCTG-GACAACAATGGAATAGGTTAAAGATTACGAATCTTATCTCCCTGGTCAGCA
1 CCTTATCTCCCTGAG-CAGCAATGGAATAAGTTAAAGAATACGAATCTTATCTCCCTCGTCAGCA
* * *
8829826 GTGGAATAAGTTGAAGATTATGAATCTTATCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATTAC
65 GTGGAATAAGTTGAAGATTATGAATCCTATCTCCCTCGTCAGCAGTGGAATAAGTTAAAGATTAA
8829891 GAA
130 GAA
* * * *
8829894 TCTTATCTCCCT-AGTCAGCAGTGGAATAAGTTGAAGAATACGAATCTTATCTCCCTCTTCAGCA
1 CCTTATCTCCCTGAG-CAGCAATGGAATAAGTTAAAGAATACGAATCTTATCTCCCTCGTCAGCA
* * *
8829958 GTGGAATAA-TTGGAGGATTGTGAATCCTATCTCCCTCGTCAGCAGTGGAATAGGTTAAAGATTA
65 GTGGAATAAGTT-GAAGATTATGAATCCTATCTCCCTCGTCAGCAGTGGAATAAGTTAAAGATTA
8830022 TAG-A
129 -AGAA
*
8830026 CCTTGTCTCCCTGAGCAGCAATGGA
1 CCTTATCTCCCTGAGCAGCAATGGA
8830051 GCGGGTTGAA
Statistics
Matches: 134, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
131 5 0.04
132 126 0.94
133 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (132 bp):
CCTTATCTCCCTGAGCAGCAATGGAATAAGTTAAAGAATACGAATCTTATCTCCCTCGTCAGCAG
TGGAATAAGTTGAAGATTATGAATCCTATCTCCCTCGTCAGCAGTGGAATAAGTTAAAGATTAAG
AA
Found at i:8830045 original size:88 final size:88
Alignment explanation
Indices: 8829767--8830050 Score: 326
Period size: 88 Copynumber: 3.2 Consensus size: 88
8829757 CCCAACCCTT
* * * *
8829767 TCTCCCTGGACAACAATGGAATAGGTTAAAGATTACGAATCTTATCTCCCTGGTCAGCAGTGGAA
1 TCTCCCTGG-CAGCAGTGGAATAAGTTAAAGATTACGAATCTTATCTCCCTAGTCAGCAGTGGAA
8829832 TAAGTTGAAGATTAT-GAATCTTA
65 TAAGTTGAAGATTATAGAATCTTA
8829855 TCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATTACGAATCTTATCTCCCTAGTCAGCAGTGGAA
1 TCTCCCTGG-CAGCAGTGGAATAAGTTAAAGATTACGAATCTTATCTCCCTAGTCAGCAGTGGAA
8829920 TAAGTTGAAGA--ATACGAATCTTA
65 TAAGTTGAAGATTATA-GAATCTTA
** * * ** * *
8829943 TCTCCCTCTTCAGCAGTGGAATAA-TTGGAGGATTGTGAATCCTATCTCCCTCGTCAGCAGTGGA
1 TCTCCCT-GGCAGCAGTGGAATAAGTT-AAAGATTACGAATCTTATCTCCCTAGTCAGCAGTGGA
* * * *
8830007 ATAGGTTAAAGATTATAG-ACCTTG
64 ATAAGTTGAAGATTATAGAATCTTA
*
8830031 TCTCCCTGAGCAGCAATGGA
1 TCTCCCTG-GCAGCAGTGGA
8830051 GCGGGTTGAA
Statistics
Matches: 169, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
86 2 0.01
87 2 0.01
88 161 0.95
89 1 0.01
90 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (88 bp):
TCTCCCTGGCAGCAGTGGAATAAGTTAAAGATTACGAATCTTATCTCCCTAGTCAGCAGTGGAAT
AAGTTGAAGATTATAGAATCTTA
Found at i:8830715 original size:44 final size:44
Alignment explanation
Indices: 8830606--8830717 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 44
8830596 GCATAAGTCT
* * * * *
8830606 TATCTCGCTGAAGTTGTAGTGGAGCAGACTGAGTAAGAAAGTCT
1 TATCTCCCTAAAGTTGTAGTGGAGCAGACTGAATAAGAAAATCC
* *
8830650 TAT-TCCCCTGAAA-TTGCAGTGGGGCAGACTGAATGAA-AAAATCC
1 TATCT-CCCT-AAAGTTGTAGTGGAGCAGACTGAAT-AAGAAAATCC
8830694 TATCTCCCTAAAGTTGTAGTGGAG
1 TATCTCCCTAAAGTTGTAGTGGAG
8830718 TGGATTAGAA
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
43 4 0.07
44 45 0.83
45 5 0.09
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (44 bp):
TATCTCCCTAAAGTTGTAGTGGAGCAGACTGAATAAGAAAATCC
Found at i:8831484 original size:7 final size:7
Alignment explanation
Indices: 8831472--8831496 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8831462 ATCTATTTTC
8831472 TTTTTAT
1 TTTTTAT
8831479 TTTTTAT
1 TTTTTAT
8831486 TTTTTAT
1 TTTTTAT
8831493 TTTT
1 TTTT
8831497 ATATACTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:8834122 original size:16 final size:16
Alignment explanation
Indices: 8834070--8834114 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
8834060 TTGGTTCGCT
8834070 GTAATGGAATAGATGC
1 GTAATGGAATAGATGC
8834086 GTAATGGAATAGATGC
1 GTAATGGAATAGATGC
*
8834102 ATAATGGAATAGA
1 GTAATGGAATAGA
8834115 GACGTAATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.42, C:0.04, G:0.29, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGATGC
Found at i:8834161 original size:46 final size:44
Alignment explanation
Indices: 8834104--8834196 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
8834094 ATAGATGCAT
* * * *
8834104 AATGGAATAGAGACGTAATAGGTAATTATTTTGTTTGGTTGAATGG
1 AATGGAATAGAGACATAACA-GT-ATTATTGTGTTTGGTTGAATAG
* * *
8834150 AATGGAGTAGAGGCATAACAGTATTCTTGTGTTTGGTTGAATAG
1 AATGGAATAGAGACATAACAGTATTATTGTGTTTGGTTGAATAG
8834194 AAT
1 AAT
8834197 AGAGGTGTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 22 0.55
45 2 0.05
46 16 0.40
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAGACATAACAGTATTATTGTGTTTGGTTGAATAG
Found at i:8851660 original size:28 final size:28
Alignment explanation
Indices: 8851625--8851751 Score: 173
Period size: 28 Copynumber: 4.5 Consensus size: 28
8851615 TAATTTTCGA
*
8851625 CACTAAGTGTGCGAATTTAATTATAAAG
1 CACTAAGTGTGCGAGTTTAATTATAAAG
* * *
8851653 CGCTAAGTGTGCGAGTTTAATTGTAGAG
1 CACTAAGTGTGCGAGTTTAATTATAAAG
**
8851681 CACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTATAAAG
* **
8851709 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTATAAAG
8851737 CACTAAGTGTGCGAG
1 CACTAAGTGTGCGAG
8851752 CTTATTAAAT
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 87 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.31
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTATAAAG
Found at i:8851751 original size:56 final size:56
Alignment explanation
Indices: 8851625--8851751 Score: 191
Period size: 56 Copynumber: 2.3 Consensus size: 56
8851615 TAATTTTCGA
* * * *
8851625 CACTAAGTGTGCGAATTTAATTATAAAGCGCTAAGTGTGCGAGTTTAATTGTAGAG
1 CACTAAGTGTGCGAGTTTAATGATAAAGCACTAAGTGTGCGAGTTTAATTATAGAG
* * *
8851681 CACTAAGTGTGCGAGTTTAATGGTAAAGCACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATGATAAAGCACTAAGTGTGCGAGTTTAATTATAGAG
8851737 CACTAAGTGTGCGAG
1 CACTAAGTGTGCGAG
8851752 CTTATTAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.31
Consensus pattern (56 bp):
CACTAAGTGTGCGAGTTTAATGATAAAGCACTAAGTGTGCGAGTTTAATTATAGAG
Found at i:8852526 original size:46 final size:45
Alignment explanation
Indices: 8852472--8852964 Score: 355
Period size: 46 Copynumber: 10.6 Consensus size: 45
8852462 TTGTTATGCT
* *
8852472 TAAATGCTGCCCAA-TTGTTATATGTATGCTGCCCAATTTTGATAAA
1 TAAATGCTGCCAAATTTG-TATATGTATGCTGCCCAATTTTG-TGAA
* * ** *** *
8852518 TCAATGCTGTCAAATTTTGTATATACATGCTGTTAAATTTTGTGTA
1 TAAATGCTGCCAAA-TTTGTATATGTATGCTGCCCAATTTTGTGAA
* *
8852564 TAAATGCTGTCCAAATTTGTGTATGTATGCTGCCTAATTTTGGGTGAA
1 TAAATGCTG-CCAAATTTGTATATGTATGCTGCCCAATTTT--GTGAA
* ** ** *
8852612 TAAATGCTGTCCAATTTTGTATATACATGCTG-TTATATTTTGTGTA
1 TAAATGCTG-CCAAATTTGTATATGTATGCTGCCCA-ATTTTGTGAA
*
8852658 TAAGTGCTGTCCAAATTTGTATATGTATGCTGCCCAATTTTGGTGAA
1 TAAATGCTG-CCAAATTTGTATATGTATGCTGCCCAATTTT-GTGAA
* * ** *** *
8852705 TCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTGTGTA
1 TAAATGCTG-CCAAATTTGTATATGTATGCTGCCCAATTTTGTGAA
* *
8852751 TAAGTGCTGTCCAAATTTGTGTATGTATGCTGCCCAATTTTGGTGAA
1 TAAATGCTG-CCAAATTTGTATATGTATGCTGCCCAATTTT-GTGAA
** * * ** ** *
8852798 GCAATGCTGTCAAATTTTGTACATACATGCTG-TTATATTTTGTGTA
1 TAAATGCTGCCAAA-TTTGTATATGTATGCTGCCCA-ATTTTGTGAA
*
8852844 TAAGTGCTGTCCAAATTTGTATATGTATGCTGCCCAATTTTGGTGAA
1 TAAATGCTG-CCAAATTTGTATATGTATGCTGCCCAATTTT-GTGAA
* ** ** *
8852891 TCAATGCTGCCAAATTTTGTATATACATGCTG-TTATATTTTGTGTA
1 TAAATGCTGCCAAA-TTTGTATATGTATGCTGCCCA-ATTTTGTGAA
*
8852937 TAAGTGCTGTCCAAATTTGTAATATGTA
1 TAAATGCTG-CCAAATTTGT-ATATGTA
8852965 GTATAATTAG
Statistics
Matches: 346, Mismatches: 83, Indels: 35
0.75 0.18 0.08
Matches are distributed among these distances:
46 170 0.49
47 136 0.39
48 40 0.12
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (45 bp):
TAAATGCTGCCAAATTTGTATATGTATGCTGCCCAATTTTGTGAA
Found at i:8852533 original size:24 final size:22
Alignment explanation
Indices: 8852497--8852954 Score: 257
Period size: 23 Copynumber: 19.6 Consensus size: 22
8852487 TGTTATATGT
* * *
8852497 ATGCTGCCCAATTTTGATAAATCA
1 ATGCTGTCAAATTTTG-TATAT-A
8852521 ATGCTGTCAAATTTTGTATATA
1 ATGCTGTCAAATTTTGTATATA
* *
8852543 CATGCTGTTAAATTTTGTGTATAA
1 -ATGCTGTCAAATTTTGTATAT-A
*
8852567 ATGCTGTCCAAATTTGTGTATGT-
1 ATGCTGT-CAAATTT-TGTATATA
* *
8852590 ATGCTGCCTAATTTTGGGTGA-ATAA
1 ATGCTGTCAAATTTT--GT-ATAT-A
*
8852615 ATGCTGTCCAATTTTGTATATA
1 ATGCTGTCAAATTTTGTATATA
* * *
8852637 CATGCTGTTATATTTTGTGTATA
1 -ATGCTGTCAAATTTTGTATATA
*
8852660 AGTGCTGTCCAAA-TTTGTATATGT
1 A-TGCTGT-CAAATTTTGTATAT-A
* *
8852684 ATGCTGCCCAATTTTGGTGA-ATCA
1 ATGCTGTCAAATTTT-GT-ATAT-A
*
8852708 ATGCTGTCCAATTTTGTATATA
1 ATGCTGTCAAATTTTGTATATA
* *
8852730 CATGCTGTTAAATTTTGTGTATA
1 -ATGCTGTCAAATTTTGTATATA
*
8852753 AGTGCTGTCCAAATTTGTGTATGT-
1 A-TGCTGT-CAAATTT-TGTATATA
* * *
8852777 ATGCTGCCCAATTTTGGTGA-AGCA
1 ATGCTGTCAAATTTT-GT-ATA-TA
*
8852801 ATGCTGTCAAATTTTGTACATA
1 ATGCTGTCAAATTTTGTATATA
* * *
8852823 CATGCTGTTATATTTTGTGTATA
1 -ATGCTGTCAAATTTTGTATATA
*
8852846 AGTGCTGTCCAAA-TTTGTATATGT
1 A-TGCTGT-CAAATTTTGTATAT-A
* *
8852870 ATGCTGCCCAATTTTGGTGA-ATCA
1 ATGCTGTCAAATTTT-GT-ATAT-A
*
8852894 ATGCTGCCAAATTTTGTATATA
1 ATGCTGTCAAATTTTGTATATA
* * *
8852916 CATGCTGTTATATTTTGTGTATA
1 -ATGCTGTCAAATTTTGTATATA
8852939 AGTGCTGTCCAAATTT
1 A-TGCTGT-CAAATTT
8852955 GTAATATGTA
Statistics
Matches: 338, Mismatches: 58, Indels: 76
0.72 0.12 0.16
Matches are distributed among these distances:
21 2 0.01
22 33 0.10
23 189 0.56
24 89 0.26
25 25 0.07
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (22 bp):
ATGCTGTCAAATTTTGTATATA
Found at i:8852595 original size:93 final size:93
Alignment explanation
Indices: 8852490--8852964 Score: 806
Period size: 93 Copynumber: 5.1 Consensus size: 93
8852480 GCCCAATTGT
* * *
8852490 TATATGTATGCTGCCCAATTTTGATAAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTATA
*
8852555 TTTTGTGTATAAATGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
* * * *
8852583 TGTATGTATGCTGCCTAATTTTGGGTGAATAAATGCTGTCCAATTTTGTATATACATGCTGTTAT
1 TATATGTATGCTGCCCAATTTT-GGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAT
8852648 ATTTTGTGTATAAGTGCTGTCCAAATTTG
65 ATTTTGTGTATAAGTGCTGTCCAAATTTG
* *
8852677 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTATA
8852742 TTTTGTGTATAAGTGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
* * *
8852770 TGTATGTATGCTGCCCAATTTTGGTGAAGCAATGCTGTCAAATTTTGTACATACATGCTGTTATA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTATA
8852835 TTTTGTGTATAAGTGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
*
8852863 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGCCAAATTTTGTATATACATGCTGTTATA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTATA
8852928 TTTTGTGTATAAGTGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
8852956 TAATATGTA
1 T-ATATGTA
8852965 GTATAATTAG
Statistics
Matches: 359, Mismatches: 21, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
93 267 0.74
94 92 0.26
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (93 bp):
TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTATA
TTTTGTGTATAAGTGCTGTCCAAATTTG
Found at i:8858732 original size:15 final size:18
Alignment explanation
Indices: 8858696--8858729 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8858686 TTCAGAAAAT
8858696 TAAATAAATATAATTGTG
1 TAAATAAATATAATTGTG
8858714 TAAATAAATAT-ATTGT
1 TAAATAAATATAATTGT
8858730 AAAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
TAAATAAATATAATTGTG
Found at i:8862394 original size:32 final size:34
Alignment explanation
Indices: 8862358--8862458 Score: 88
Period size: 34 Copynumber: 3.0 Consensus size: 34
8862348 TCAATCACTT
*
8862358 AAAAAATTAAGAAAT-TGA-AAAA-ATATTTAAAA
1 AAAAAATTAA-AAATAAGATAAAATATATTTAAAA
* *
8862390 AAAAAGTTAAAAGTAAGATAAAATATATTTAAAA
1 AAAAAATTAAAAATAAGATAAAATATATTTAAAA
*
8862424 ACAAAAAAT-AAAAT-A-ATCAAAATATAATTTAAAA
1 A-AAAAATTAAAAATAAGAT-AAAATAT-ATTTAAAA
8862458 A
1 A
8862459 TATTTTTTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
31 3 0.05
32 13 0.23
33 12 0.21
34 24 0.42
35 5 0.09
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (34 bp):
AAAAAATTAAAAATAAGATAAAATATATTTAAAA
Found at i:8862423 original size:34 final size:33
Alignment explanation
Indices: 8862375--8862458 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
8862365 TAAGAAATTG
* **
8862375 AAAAAATATTTAAAAA-AAAAGTTAAAAGTAAGAT-
1 AAAATATATTTAAAAACAAAAAATAAAA-T-A-ATC
8862409 AAAATATATTTAAAAACAAAAAATAAAATAATC
1 AAAATATATTTAAAAACAAAAAATAAAATAATC
8862442 AAAATATAATTTAAAAA
1 AAAATAT-ATTTAAAAA
8862459 TATTTTTTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
32 2 0.05
33 8 0.18
34 25 0.57
35 9 0.20
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (33 bp):
AAAATATATTTAAAAACAAAAAATAAAATAATC
Found at i:8863019 original size:19 final size:20
Alignment explanation
Indices: 8862990--8863030 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
8862980 ATCTTTAAAA
8862990 AACTCAATTTTTTCAATT-TT
1 AACTCAA-TTTTTCAATTCTT
8863010 AACT-AATTTTTCAATTCTT
1 AACTCAATTTTTCAATTCTT
8863029 AA
1 AA
8863031 TTTCTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 10 0.50
19 6 0.30
20 4 0.20
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (20 bp):
AACTCAATTTTTCAATTCTT
Found at i:8867027 original size:15 final size:16
Alignment explanation
Indices: 8866997--8867027 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8866987 GAATAAATCC
8866997 AAATTTATACCAAAAT
1 AAATTTATACCAAAAT
8867013 AAATTTATA-CAAAAT
1 AAATTTATACCAAAAT
8867028 TATATGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTTATACCAAAAT
Found at i:8871383 original size:25 final size:25
Alignment explanation
Indices: 8871355--8871426 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
8871345 TCTTGTACAT
* *
8871355 GTATGATCACACGATCTGTGAATTG
1 GTATGCTCACACGATCTGTGAATTA
*
8871380 GTATGCTCACACGAGT-TGTAAATTA
1 GTATGCTCACACGA-TCTGTGAATTA
*
8871405 GTATGCTCACACGAGCTGTGAA
1 GTATGCTCACACGATCTGTGAA
8871427 AATGGACCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 39 0.98
26 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (25 bp):
GTATGCTCACACGATCTGTGAATTA
Found at i:8879093 original size:154 final size:154
Alignment explanation
Indices: 8878809--8879094 Score: 401
Period size: 154 Copynumber: 1.9 Consensus size: 154
8878799 GGAGGAATTT
* * * * *
8878809 TTAATGAACATAACATACGAAGATGCGTATGAACTGATAGAAAACATGGCAATGAATTCCTGCCA
1 TTAATGAACAGAACATACGAAGATGAGTATGAACTGATAAAAAACATGGCAATAAATTCCTACCA
* * * *
8878874 GTAGCCAATTAAACACTATACATATGGCCAAAAACCATCTACGGTAAAAATTGTCCAGGAGGATG
66 ATAGCCAACTAAACACTATACATATGGCCAAAAACCATCTACGGTAAAAATTATCCAGGAAGATG
8878939 ATCGACGGAGCCGAATGATGAGCA
131 ATCGACGGAGCCGAATGATGAGCA
* ** * *
8878963 TTAATGAATAGAACATGTGAAGATGAGTATGAACTGATAAAAAACATGGCGATAAATTTCTACCA
1 TTAATGAACAGAACATACGAAGATGAGTATGAACTGATAAAAAACATGGCAATAAATTCCTACCA
* * ** *
8879028 ATGGCCGACTAAATTCTATACATATGGCCAAAAACTATCTACGGTAAAAATTATCCAGGAAGATG
66 ATAGCCAACTAAACACTATACATATGGCCAAAAACCATCTACGGTAAAAATTATCCAGGAAGATG
8879093 AT
131 AT
8879095 AGATACGAAC
Statistics
Matches: 113, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
154 113 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (154 bp):
TTAATGAACAGAACATACGAAGATGAGTATGAACTGATAAAAAACATGGCAATAAATTCCTACCA
ATAGCCAACTAAACACTATACATATGGCCAAAAACCATCTACGGTAAAAATTATCCAGGAAGATG
ATCGACGGAGCCGAATGATGAGCA
Found at i:8898124 original size:28 final size:28
Alignment explanation
Indices: 8898093--8898152 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
8898083 TCTTGACACG
* *
8898093 CTTACCTTGTGTTTACTGTCCCAGTGAA
1 CTTACCTAGTGTTTACTGTCCCAATGAA
* *
8898121 CTTACCTAGTGTTTATTGTCCCAATGGA
1 CTTACCTAGTGTTTACTGTCCCAATGAA
8898149 CTTA
1 CTTA
8898153 GTCTCTATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (28 bp):
CTTACCTAGTGTTTACTGTCCCAATGAA
Found at i:8914861 original size:67 final size:69
Alignment explanation
Indices: 8914778--8914919 Score: 180
Period size: 67 Copynumber: 2.1 Consensus size: 69
8914768 GTTTGAATAT
* * * *
8914778 GAATTATTCTTTATTGATGGCTGAGATCCAACATATATTGT-TT-TCGATAGCTTGAGTGAGCAA
1 GAATTATTCCTTATTGATGACAGAGATCCAACATATATTGTATTCTCGACAGCTTGAGTGAGCAA
*
8914841 CATG
66 CATC
* *
8914845 GAATTATTCCTTATTGATTACAGAGATCCAACATATGTTGTAGATTCTCGACAGCTTGAGTGAGC
1 GAATTATTCCTTATTGATGACAGAGATCCAACATATATTGT--ATTCTCGACAGCTTGAGTGAGC
*
8914910 AGCATC
64 AACATC
8914916 GAAT
1 GAAT
8914920 AAAGCTTGTA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 36 0.57
70 2 0.03
71 25 0.40
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (69 bp):
GAATTATTCCTTATTGATGACAGAGATCCAACATATATTGTATTCTCGACAGCTTGAGTGAGCAA
CATC
Found at i:8915212 original size:12 final size:12
Alignment explanation
Indices: 8915195--8915223 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
8915185 GAATGAAAAT
8915195 AAATGAGTTATG
1 AAATGAGTTATG
8915207 AAATGAGTTATG
1 AAATGAGTTATG
8915219 AAATG
1 AAATG
8915224 GCTTTTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.31
Consensus pattern (12 bp):
AAATGAGTTATG
Found at i:8923583 original size:10 final size:11
Alignment explanation
Indices: 8923568--8923594 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
8923558 TATCTTATGC
8923568 TTTTTTTATTT
1 TTTTTTTATTT
8923579 TTTTTTTATTT
1 TTTTTTTATTT
8923590 TTTTT
1 TTTTT
8923595 CTAAAGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:8926723 original size:29 final size:29
Alignment explanation
Indices: 8926690--8926748 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
8926680 TATACCAAAG
8926690 TATGATAAATGCTTTGCATGTCTTCTATA
1 TATGATAAATGCTTTGCATGTCTTCTATA
*
8926719 TATGATAAATGTTTTGCATGTCTTCTATA
1 TATGATAAATGCTTTGCATGTCTTCTATA
8926748 T
1 T
8926749 GTCCTTTGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (29 bp):
TATGATAAATGCTTTGCATGTCTTCTATA
Found at i:8930328 original size:5 final size:5
Alignment explanation
Indices: 8930318--8930349 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
8930308 TAATTCCTAC
8930318 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
8930350 AAACACCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:8945903 original size:2 final size:2
Alignment explanation
Indices: 8945896--8945940 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
8945886 GTCGATATGT
8945896 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8945938 TC T
1 TC T
8945941 TCTTTTTTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:8949703 original size:61 final size:60
Alignment explanation
Indices: 8949578--8949701 Score: 162
Period size: 59 Copynumber: 2.1 Consensus size: 60
8949568 TTTTTTTAAA
* * * *
8949578 TTTTTAGAGTTAGGACTAAATTGACAGATTTTATAAATATTGAGGGCAAAATTTATTGAAT
1 TTTTTAGAATTAGAACTAAAATGACA-ATTTTATAAACATTGAGGGCAAAATTTATTGAAT
* * *
8949639 TTTTTAGAATTAGAACTAAAATGAC-ATTTTGTAAACATTGAGGGCTAAATTTGTT-AAT
1 TTTTTAGAATTAGAACTAAAATGACAATTTTATAAACATTGAGGGCAAAATTTATTGAAT
8949697 TTTTT
1 TTTTT
8949702 TTATATATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
58 8 0.14
59 26 0.46
61 22 0.39
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (60 bp):
TTTTTAGAATTAGAACTAAAATGACAATTTTATAAACATTGAGGGCAAAATTTATTGAAT
Found at i:8955257 original size:28 final size:27
Alignment explanation
Indices: 8955225--8955281 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
8955215 AATATTTTTA
8955225 TTTTTTATTTTAAATTATTTTTAAAATAC
1 TTTTTTATTTT--ATTATTTTTAAAATAC
*
8955254 TTTTTTTATTTTTTTATTTTTAAAATAC
1 -TTTTTTATTTTATTATTTTTAAAATAC
8955282 ATTTCCGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 15 0.58
30 11 0.42
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTTTATTTTATTATTTTTAAAATAC
Found at i:8956491 original size:18 final size:17
Alignment explanation
Indices: 8956458--8956496 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
8956448 TTTTATAAAT
8956458 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
8956476 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
8956493 TGTG
1 TGTG
8956497 GAAGGCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:8956757 original size:23 final size:23
Alignment explanation
Indices: 8956722--8956797 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
8956712 AGTATTATTG
* *
8956722 ATCAATGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
8956745 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
8956768 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
8956791 ATCAGTG
1 ATCAGTG
8956798 TGACACCTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:8958787 original size:17 final size:17
Alignment explanation
Indices: 8958765--8958800 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
8958755 AAATCTCAGA
*
8958765 TTTTGATACTCATATCT
1 TTTTGATACCCATATCT
8958782 TTTTGATACCCATATCT
1 TTTTGATACCCATATCT
8958799 TT
1 TT
8958801 CACTTTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTTGATACCCATATCT
Found at i:8979113 original size:50 final size:50
Alignment explanation
Indices: 8979046--8979223 Score: 164
Period size: 50 Copynumber: 3.6 Consensus size: 50
8979036 GAGGTTTTAT
* * * ** *
8979046 GTAAGACTATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCAC
* * *
8979096 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCAC
* * * * *
8979146 GTAAGACCATATCTGGGATATGGCATTGGCA--GTACAGGA-AACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAAC-TCCCAC
* * *
8979195 GCAAGACCATGTCTCGGACATGGCTTTGG
1 GTAAGACCATGTCTGGGACATGGCATTGG
8979224 AATGTTATTA
Statistics
Matches: 107, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
48 4 0.04
49 34 0.32
50 69 0.64
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCAC
Found at i:8986671 original size:50 final size:50
Alignment explanation
Indices: 8986567--8986805 Score: 180
Period size: 50 Copynumber: 4.7 Consensus size: 50
8986557 TAAAGAGATC
* *
8986567 CCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTT
* *
8986623 CCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG-T
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTT
* * ** *
8986672 CTC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTC
1 C-CAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTT
* * * * * * * * ** *
8986723 CCATGTAAGACCATATTTGGGATATGACATTGGTA--GTACAGGAAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTT
*
8986772 CCATGTAAGACCATGTCTGGGACATGGCTTTGGC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGC
8986806 TTGTTATTAT
Statistics
Matches: 150, Mismatches: 28, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
48 1 0.01
49 38 0.25
50 73 0.49
51 2 0.01
53 3 0.02
55 1 0.01
56 32 0.21
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTT
Found at i:9015861 original size:23 final size:21
Alignment explanation
Indices: 9015820--9015893 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 21
9015810 GTGATCTTCA
*
9015820 ATGATATGTAATCCT--AGAT
1 ATGATATGTAATCTTAGAGAT
9015839 ATGATATGTAATCTTTAGAAGAT
1 ATGATATGTAATC-TTAG-AGAT
* *
9015862 ACGATTCTGTAATCTTAGAGAT
1 ATGA-TATGTAATCTTAGAGAT
* *
9015884 TTGATTTGTA
1 ATGATATGTA
9015894 GATAGCTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
19 13 0.30
20 1 0.02
21 5 0.11
22 6 0.14
23 11 0.25
24 8 0.18
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.41
Consensus pattern (21 bp):
ATGATATGTAATCTTAGAGAT
Found at i:9015889 original size:22 final size:23
Alignment explanation
Indices: 9015835--9015893 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
9015825 ATGTAATCCT
* *
9015835 AGATATGATATGTAATCTTTAGA
1 AGATACGATTTGTAATCTTTAGA
9015858 AGATACGATTCTGTAATC-TTAG-
1 AGATACGATT-TGTAATCTTTAGA
**
9015880 AGATTTGATTTGTA
1 AGATACGATTTGTA
9015894 GATAGCTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 8 0.26
23 12 0.39
24 7 0.23
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.41
Consensus pattern (23 bp):
AGATACGATTTGTAATCTTTAGA
Found at i:9016831 original size:322 final size:322
Alignment explanation
Indices: 9016246--9016885 Score: 1271
Period size: 322 Copynumber: 2.0 Consensus size: 322
9016236 ACACTAGGGG
9016246 TTGTAGGAACACATATAGGTTGTTTGATTTTGTAGTGAAGTTTAATTATTTTGCAACTTGTTTCA
1 TTGTAGGAACACATATAGGTTGTTTGATTTTGTAGTGAAGTTTAATTATTTTGCAACTTGTTTCA
9016311 TGTTTCTATTGATAAAATTTTGTTACTTTTTATTTTCAGAGCACTAGTTCAACAATTCCCCTACC
66 TGTTTCTATTGATAAAATTTTGTTACTTTTTATTTTCAGAGCACTAGTTCAACAATTCCCCTACC
9016376 TCACTATACAACATCAACAGCTTCTCATGGTCCACTAACTCCAACATTAGAATTTTTAGCAAATT
131 TCACTATACAACATCAACAGCTTCTCATGGTCCACTAACTCCAACATTAGAATTTTTAGCAAATT
9016441 CAACCCTTGTTTAGTGTCTTCATTCAAGTGTAATAACTATCTTGCCCCCAAATTTATGTGAAATA
196 CAACCCTTGTTTAGTGTCTTCATTCAAGTGTAATAACTATCTTGCCCCCAAATTTATGTGAAATA
9016506 AAATTGAAATAAATTATGTAAAAAAAGACATCTTTCATATATTTCGATATATATTTTTGATT
261 AAATTGAAATAAATTATGTAAAAAAAGACATCTTTCATATATTTCGATATATATTTTTGATT
9016568 TTGTAGGAACACATATAGGTTGTTTGATTTTGTAGTGAAGTTTAATTATTTTGCAACTTGTTTCA
1 TTGTAGGAACACATATAGGTTGTTTGATTTTGTAGTGAAGTTTAATTATTTTGCAACTTGTTTCA
9016633 TGTTTCTATTGATAAAATTTTGTTACTTTTTATTTTCAGAGCACTAGTTCAACAATTCCCCTACC
66 TGTTTCTATTGATAAAATTTTGTTACTTTTTATTTTCAGAGCACTAGTTCAACAATTCCCCTACC
9016698 TCACTATACAACATCAACAGCTTCTCATGGTCCACTAACTCCAACATTAGAATTTTTAGCAAATT
131 TCACTATACAACATCAACAGCTTCTCATGGTCCACTAACTCCAACATTAGAATTTTTAGCAAATT
*
9016763 CAACCCTTGTTTAGTGTCTTCATTCAAGTGTAATAACTATCTTGTCCCCAAATTTATGTGAAATA
196 CAACCCTTGTTTAGTGTCTTCATTCAAGTGTAATAACTATCTTGCCCCCAAATTTATGTGAAATA
9016828 AAATTGAAATAAATTATGTAAAAAAAGACATCTTTCATATATTTCGATATATATTTTT
261 AAATTGAAATAAATTATGTAAAAAAAGACATCTTTCATATATTTCGATATATATTTTT
9016886 TGTAGATTTC
Statistics
Matches: 317, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
322 317 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.40
Consensus pattern (322 bp):
TTGTAGGAACACATATAGGTTGTTTGATTTTGTAGTGAAGTTTAATTATTTTGCAACTTGTTTCA
TGTTTCTATTGATAAAATTTTGTTACTTTTTATTTTCAGAGCACTAGTTCAACAATTCCCCTACC
TCACTATACAACATCAACAGCTTCTCATGGTCCACTAACTCCAACATTAGAATTTTTAGCAAATT
CAACCCTTGTTTAGTGTCTTCATTCAAGTGTAATAACTATCTTGCCCCCAAATTTATGTGAAATA
AAATTGAAATAAATTATGTAAAAAAAGACATCTTTCATATATTTCGATATATATTTTTGATT
Found at i:9019199 original size:66 final size:66
Alignment explanation
Indices: 9019129--9019323 Score: 250
Period size: 66 Copynumber: 2.9 Consensus size: 66
9019119 TTACAACATA
9019129 TAGGGTTCACATATCTAACATATGGGGTTCGCATGCAATAGATAGGGTTCGA-ATGTAATAACAA
1 TAGGGTTCACATATCTAACATATGGGGTTCGCATGCAATAGATA-GGTTCGACATGTAATAACAA
9019193 TT
65 TT
* * ** * *
9019195 TAGGGTTCACATATCTTACATATGGAGTTCGCATGCAATAGATAGGTTTTACATGTAATAATAGT
1 TAGGGTTCACATATCTAACATATGGGGTTCGCATGCAATAGATAGGTTCGACATGTAATAACAAT
9019260 T
66 T
* * *
9019261 TAGGGTCTCACAAACCTAACATATGGGGTTCGCATGTAATAATGTATAGGTTC-ACATGTAATA
1 TAGGGT-TCACATATCTAACATATGGGGTTCGCATGCAAT-A-G-ATAGGTTCGACATGTAATA
9019324 CTCTAGAGGT
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
65 5 0.04
66 60 0.54
67 28 0.25
68 1 0.01
69 11 0.10
70 7 0.06
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (66 bp):
TAGGGTTCACATATCTAACATATGGGGTTCGCATGCAATAGATAGGTTCGACATGTAATAACAAT
T
Found at i:9019333 original size:22 final size:22
Alignment explanation
Indices: 9019287--9019344 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
9019277 TAACATATGG
* *
9019287 GGTTCGCATGTAATAATGTATA
1 GGTTCGCATGTAATAATCTAGA
* *
9019309 GGTTCACATGTAATACTCTAGA
1 GGTTCGCATGTAATAATCTAGA
*
9019331 GGTTTGCATGTAAT
1 GGTTCGCATGTAAT
9019345 TATAGTTTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.36
Consensus pattern (22 bp):
GGTTCGCATGTAATAATCTAGA
Found at i:9023851 original size:18 final size:18
Alignment explanation
Indices: 9023788--9023851 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
9023778 GTTTGGCTAT
*
9023788 TTTACTTTATTCCATTAG
1 TTTAATTTATTCCATTAG
* * *
9023806 TTTAATTTGGTT-TAGTTAT
1 TTTAATTT-ATTCCA-TTAG
*
9023825 TTTACTTTATTCCATTAG
1 TTTAATTTATTCCATTAG
9023843 TTTAATTTA
1 TTTAATTTA
9023852 ACTTAGTTTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
18 21 0.62
19 13 0.38
ACGTcount: A:0.23, C:0.09, G:0.08, T:0.59
Consensus pattern (18 bp):
TTTAATTTATTCCATTAG
Found at i:9023858 original size:37 final size:37
Alignment explanation
Indices: 9023785--9023859 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
9023775 AATGTTTGGC
***
9023785 TATTTTACTTTATTCCATTAGTTTAATTTGGTTTAGT
1 TATTTTACTTTATTCCATTAGTTTAATTTAACTTAGT
9023822 TATTTTACTTTATTCCATTAGTTTAATTTAACTTAGT
1 TATTTTACTTTATTCCATTAGTTTAATTTAACTTAGT
9023859 T
1 T
9023860 TAATTTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.24, C:0.09, G:0.08, T:0.59
Consensus pattern (37 bp):
TATTTTACTTTATTCCATTAGTTTAATTTAACTTAGT
Found at i:9023859 original size:15 final size:15
Alignment explanation
Indices: 9023839--9023867 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9023829 CTTTATTCCA
9023839 TTAGTTTAATTTAAC
1 TTAGTTTAATTTAAC
9023854 TTAGTTTAATTTAA
1 TTAGTTTAATTTAA
9023868 TTTCTACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (15 bp):
TTAGTTTAATTTAAC
Found at i:9029722 original size:17 final size:17
Alignment explanation
Indices: 9029700--9029745 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 17
9029690 CACTGGCTGC
9029700 CACATGGCCGTGTGCCA
1 CACATGGCCGTGTGCCA
*
9029717 CACATGGCC---T-CCT
1 CACATGGCCGTGTGCCA
9029730 CACATGGCCGTGTGCC
1 CACATGGCCGTGTGCC
9029746 TTATTGGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 8
0.73 0.03 0.24
Matches are distributed among these distances:
13 11 0.46
14 1 0.04
16 1 0.04
17 11 0.46
ACGTcount: A:0.15, C:0.39, G:0.26, T:0.20
Consensus pattern (17 bp):
CACATGGCCGTGTGCCA
Found at i:9029992 original size:13 final size:13
Alignment explanation
Indices: 9029970--9030045 Score: 50
Period size: 13 Copynumber: 6.1 Consensus size: 13
9029960 AACCCAACCC
9029970 ATATTAAATATAT
1 ATATTAAATATAT
*
9029983 ATATTTAATATAT
1 ATATTAAATATAT
*
9029996 A-A-AAAATATAT
1 ATATTAAATATAT
* * * *
9030007 AT-TTGATTAAAA
1 ATATTAAATATAT
**
9030019 ATAAAAAATATAT
1 ATATTAAATATAT
*
9030032 ATATTTAATATAT
1 ATATTAAATATAT
9030045 A
1 A
9030046 ATCGGGCCGG
Statistics
Matches: 43, Mismatches: 17, Indels: 6
0.65 0.26 0.09
Matches are distributed among these distances:
11 8 0.19
12 7 0.16
13 28 0.65
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (13 bp):
ATATTAAATATAT
Found at i:9030004 original size:22 final size:22
Alignment explanation
Indices: 9029970--9030046 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 22
9029960 AACCCAACCC
* *
9029970 ATATTAAATATATATATTTAAT
1 ATATAAAAAATATATATTTAAT
*
9029992 ATATAAAAAATATATATTTGATTAA
1 ATATAAAAAATATATATTT-A--AT
*
9030017 AAATAAAAAATATATATATTTAAT
1 ATAT-AAAAA-ATATATATTTAAT
9030041 ATATAA
1 ATATAA
9030047 TCGGGCCGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
22 17 0.39
23 3 0.07
24 4 0.09
25 4 0.09
26 6 0.14
27 10 0.23
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (22 bp):
ATATAAAAAATATATATTTAAT
Found at i:9032912 original size:23 final size:20
Alignment explanation
Indices: 9032886--9032939 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 20
9032876 TTCTAAGTCG
9032886 ATATTCAATTCAATTCTACACCT
1 ATATTCAATTCAA-T-TACA-CT
9032909 ATATTCATTATTCAATTACACT
1 ATATTCA--ATTCAATTACACT
9032931 -TATTCAATT
1 ATATTCAATT
9032940 TCCCGATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 3 0.10
21 6 0.21
22 2 0.07
23 11 0.38
24 1 0.03
25 6 0.21
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATTCAATTCAATTACACT
Found at i:9033031 original size:45 final size:45
Alignment explanation
Indices: 9032976--9033067 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
9032966 CAGATACTCG
* *
9032976 GTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCA
1 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCA
* * *
9033021 GTGGAATCAGCACATAGCAACCAGCTTACTAATTAATGATGTTCA
1 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCA
9033066 GT
1 GT
9033068 TCACATAGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCA
Found at i:9033131 original size:51 final size:51
Alignment explanation
Indices: 9033071--9033209 Score: 190
Period size: 51 Copynumber: 2.7 Consensus size: 51
9033061 GTTCAGTTCA
* * *
9033071 CATAGTAGCCTGCACATAGTACTATACATGTGACCATTACCATCCGATACG
1 CATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCCGATACG
* * * *
9033122 CGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATCCGGTACG
1 CATAGTAGCCTGCACATAGTACTACACACGTGA-CCATAACCATCCGATACG
*
9033173 TATAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CATAGTAGCCTGCACATAGTACTACACACGTGACCAT
9033210 CACTTTCACT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
50 2 0.03
51 72 0.95
52 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (51 bp):
CATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCCGATACG
Found at i:9035361 original size:26 final size:27
Alignment explanation
Indices: 9035330--9035399 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
9035320 TCTCATCCCC
* *
9035330 ATTTTACCCCTAGTAAAA-TTTTGATA
1 ATTTTACCCCTAGTAAAATTTTTAACA
*
9035356 ATTTTACTCC-AGATAAAATTTTTAACA
1 ATTTTACCCCTAG-TAAAATTTTTAACA
*
9035383 ATTTTAGCCCTAGTAAA
1 ATTTTACCCCTAGTAAA
9035400 TTGTCGAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.06
26 14 0.39
27 18 0.50
28 2 0.06
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (27 bp):
ATTTTACCCCTAGTAAAATTTTTAACA
Found at i:9043709 original size:28 final size:27
Alignment explanation
Indices: 9043668--9043753 Score: 109
Period size: 28 Copynumber: 3.1 Consensus size: 27
9043658 CAGTAACAAA
*
9043668 ACAGAACAATGTGGGCTTTAGCCCAAT
1 ACAGAACAATGTGGGCCTTAGCCCAAT
*
9043695 ACAGAAACAAGGTGGGCCTTAGCCCAAT
1 ACAG-AACAATGTGGGCCTTAGCCCAAT
* * *
9043723 ATAGGAACAATGTGGGCCTAAGCCCGAT
1 ACA-GAACAATGTGGGCCTTAGCCCAAT
9043751 ACA
1 ACA
9043754 ATATCAGTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 4 0.08
28 45 0.90
29 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.17
Consensus pattern (27 bp):
ACAGAACAATGTGGGCCTTAGCCCAAT
Found at i:9044165 original size:54 final size:54
Alignment explanation
Indices: 9044082--9044443 Score: 227
Period size: 54 Copynumber: 6.7 Consensus size: 54
9044072 ACAGACAAAT
* ** * *
9044082 CAATCA-TTTACCCT-CGAGGGGTAAAACAGTCATTTTACCCT-TTGAGGGTACTA
1 CAATCATTTTACCCTAC-AGAGGTATTACAGTTATTTTACCCTATAG-GGGTACTA
* * * *
9044135 CAATTATTTTATCCTACA-AGGGTATTACAGTTATTTTACCCTATAGGGGTATTG
1 CAATCATTTTACCCTACAGA-GGTATTACAGTTATTTTACCCTATAGGGGTACTA
* * * *
9044189 CAGTCATTTTACCCTACAGAGGTATTACTGTTATTTTACCCTACAGGGGAACTA
1 CAATCATTTTACCCTACAGAGGTATTACAGTTATTTTACCCTATAGGGGTACTA
*** * * * * * * *
9044243 TGGTCATTTTACCCTACAG-GAGCATTAC-GATCACTTTACCCTACAAGGGCATTA
1 CAATCATTTTACCCTACAGAG-GTATTACAG-TTATTTTACCCTATAGGGGTACTA
* * * * * * *
9044297 CGATCATTTTACCCTACAGGGGCATTACGGTCACTTTACCCTATAGGGGTATTA
1 CAATCATTTTACCCTACAGAGGTATTACAGTTATTTTACCCTATAGGGGTACTA
*** * ** ** * *
9044351 TGGTCATTTTACCCTATA-AGGGTATTATGGTCGTTTTACCCTACAGGGGTATTA
1 CAATCATTTTACCCTACAGA-GGTATTACAGTTATTTTACCCTATAGGGGTACTA
** *
9044405 TGATCATTTTACCCTACAG-GGTATTACGGTTATTTTACC
1 CAATCATTTTACCCTACAGAGGTATTACAGTTATTTTACC
9044444 TTACAGGGTA
Statistics
Matches: 254, Mismatches: 44, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
53 24 0.09
54 224 0.88
55 6 0.02
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (54 bp):
CAATCATTTTACCCTACAGAGGTATTACAGTTATTTTACCCTATAGGGGTACTA
Found at i:9044319 original size:27 final size:27
Alignment explanation
Indices: 9044140--9044471 Score: 355
Period size: 27 Copynumber: 12.4 Consensus size: 27
9044130 TACTACAATT
* * * *
9044140 ATTTTATCCTACAAGGGTATTACAGTT
1 ATTTTACCCTACAGGGGTATTACGGTC
* * *
9044167 ATTTTACCCTATAGGGGTATTGCAGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
* * *
9044194 ATTTTACCCTACAGAGGTATTACTGTT
1 ATTTTACCCTACAGGGGTATTACGGTC
* * *
9044221 ATTTTACCCTACAGGGGAACTATGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
* * *
9044248 ATTTTACCCTACAGGAGCATTACGATC
1 ATTTTACCCTACAGGGGTATTACGGTC
* * * *
9044275 ACTTTACCCTACAAGGGCATTACGATC
1 ATTTTACCCTACAGGGGTATTACGGTC
*
9044302 ATTTTACCCTACAGGGGCATTACGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
* * *
9044329 ACTTTACCCTATAGGGGTATTATGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
* * *
9044356 ATTTTACCCTATAAGGGTATTATGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
* * *
9044383 GTTTTACCCTACAGGGGTATTATGATC
1 ATTTTACCCTACAGGGGTATTACGGTC
*
9044410 ATTTTACCCTACA-GGGTATTACGGTT
1 ATTTTACCCTACAGGGGTATTACGGTC
*
9044436 ATTTTACCTTACA-GGGTATTACGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
9044462 A-TTTACCCTA
1 ATTTTACCCTA
9044472 TGGGGGTCTT
Statistics
Matches: 261, Mismatches: 44, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
25 8 0.03
26 35 0.13
27 218 0.84
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
ATTTTACCCTACAGGGGTATTACGGTC
Found at i:9046837 original size:37 final size:37
Alignment explanation
Indices: 9046794--9047010 Score: 208
Period size: 37 Copynumber: 5.9 Consensus size: 37
9046784 ATGCCAATTT
*
9046794 CTCATAAGAGCTAATCCACTCGATAACACGCCAAACA
1 CTCATAAGAGCTAATCCACTCGATAACACGCCAAACG
* ** *
9046831 CCCATAA-ATGCTAATCCACTATATAACACACCAAACG
1 CTCATAAGA-GCTAATCCACTCGATAACACGCCAAACG
* *
9046868 CTCATAAGAGCCAATCCAAC-CGATAACATGCCAAACG
1 CTCATAAGAGCTAATCC-ACTCGATAACACGCCAAACG
* * * *
9046905 CTCATAAGAGCTAATTCAACT-GATAACATGCTAAACA
1 CTCATAAGAGCTAA-TCCACTCGATAACACGCCAAACG
* * *
9046942 CTCATAAGAGTTAATCCAATCGA-AACACGCCAATCG
1 CTCATAAGAGCTAATCCACTCGATAACACGCCAAACG
* * * * *
9046978 TTCATAAGATCTAATCCAATTGATAGCACGCCA
1 CTCATAAGAGCTAATCCACTCGATAACACGCCA
9047011 TGGCACTAAG
Statistics
Matches: 146, Mismatches: 27, Indels: 14
0.78 0.14 0.07
Matches are distributed among these distances:
36 33 0.23
37 108 0.74
38 5 0.03
ACGTcount: A:0.41, C:0.29, G:0.11, T:0.20
Consensus pattern (37 bp):
CTCATAAGAGCTAATCCACTCGATAACACGCCAAACG
Found at i:9049639 original size:6 final size:6
Alignment explanation
Indices: 9049628--9049662 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
9049618 GCAAATAGAT
9049628 CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
9049663 TTGGGAGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.51
Consensus pattern (6 bp):
CATTTC
Found at i:9050269 original size:16 final size:16
Alignment explanation
Indices: 9050248--9050278 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9050238 ACAACTTGGG
9050248 TCAAGGAAAAGCTAGC
1 TCAAGGAAAAGCTAGC
9050264 TCAAGGAAAAGCTAG
1 TCAAGGAAAAGCTAG
9050279 ATTGCTCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.16, G:0.26, T:0.13
Consensus pattern (16 bp):
TCAAGGAAAAGCTAGC
Found at i:9056797 original size:2 final size:2
Alignment explanation
Indices: 9056790--9056833 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
9056780 CTTGGTCGCT
9056790 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9056832 TC
1 TC
9056834 CTCGCAAATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:9057563 original size:14 final size:14
Alignment explanation
Indices: 9057544--9057570 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9057534 AGCCATTAAA
9057544 AGGCATGAAAAGGG
1 AGGCATGAAAAGGG
9057558 AGGCATGAAAAGG
1 AGGCATGAAAAGG
9057571 AAGCCATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.41, T:0.07
Consensus pattern (14 bp):
AGGCATGAAAAGGG
Found at i:9063463 original size:51 final size:50
Alignment explanation
Indices: 9063289--9063525 Score: 275
Period size: 51 Copynumber: 4.7 Consensus size: 50
9063279 TATCATTCGA
* *
9063289 TACACGTAGTAGCCTTCACATAGTACTACACACGTCATCAAGTTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGG
* * * *
9063339 TTCAC-TAGTAGCCTTTACATAGTACTACACACATGATCAAGTTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGG
* * *
9063388 TTCACGTAGTAGCCTTCACATAGTATTACACACGTGACCAAAGCTTTT-TGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTACGG
* * * *
9063439 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACC-A-TTATTGATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTT-TT-A-CGG
*
9063490 TACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTG
9063526 TTCATCGATA
Statistics
Matches: 160, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
47 2 0.01
48 2 0.01
49 47 0.29
50 33 0.21
51 72 0.45
52 4 0.03
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (50 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGG
Found at i:9063470 original size:99 final size:100
Alignment explanation
Indices: 9063285--9063525 Score: 278
Period size: 99 Copynumber: 2.4 Consensus size: 100
9063275 CTTTTATCAT
* * *
9063285 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTCATCAAGTTTTACGGTTCACTAGTAG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTACACTAGTAG
*
9063350 CCTTTACATAGTACTACACACATG-ATCAAGTT-TT-A
66 CCTTCACATAGTACTA-ACACATGTA-CAA-TTATTGA
* * * *
9063385 -CGGTTCACGTAGTAGCCTTCACATAGTATTACACACGTGACCAAAGCTTTT-TGGTACACATAG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTACGGTACAC-TAG
* *
9063448 TAGCCTTCACTTAGTACT-ACACATGTGACCATTATTGA
63 TAGCCTTCACATAGTACTAACACATGT-ACAATTATTGA
*
9063486 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
9063526 TTCATCGATA
Statistics
Matches: 119, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
99 46 0.39
100 13 0.11
101 25 0.21
102 35 0.29
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (100 bp):
TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTACACTAGTAG
CCTTCACATAGTACTAACACATGTACAATTATTGA
Found at i:9070452 original size:51 final size:50
Alignment explanation
Indices: 9070289--9070573 Score: 272
Period size: 51 Copynumber: 5.7 Consensus size: 50
9070279 TCATTCGATA
* * *
9070289 CACGTAGTAGCCTTCACATAGTACTACACACGTCATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTTACGGTT
* * * * **
9070339 CACGTAGTAGCCTTTACATAGTACTACACACATGATCAAGTTTTACATTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTTACGGTT
* * ** *
9070389 CACATAGTAGCCTTCACATCGTACTACACACGTGACCAAATCTTTTTGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAT-TTTACGGTT
* * * * *
9070440 CACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCA-TTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AATTTTA-CGGTT
* * * * *
9070491 CACGTAGTAGCCTTCACACAGTACTACACATGTGACCATTAATTAT-CGATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCA--AATTTTACGGTT
*
9070542 GACGTAGTAGCCTTCAC--AGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
9070574 TTCATTGATA
Statistics
Matches: 198, Mismatches: 32, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
49 14 0.07
50 83 0.42
51 96 0.48
52 3 0.02
53 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTTACGGTT
Found at i:9089923 original size:29 final size:29
Alignment explanation
Indices: 9089897--9090018 Score: 208
Period size: 29 Copynumber: 4.2 Consensus size: 29
9089887 CCCCGTTTGA
9089897 ACCATCGAATATGAAAAGGGATGGTTTCG
1 ACCATCGAATATGAAAAGGGATGGTTTCG
*
9089926 ACCATCGAATATGAAAAAGGATGGTTTCG
1 ACCATCGAATATGAAAAGGGATGGTTTCG
* *
9089955 ACCATCAAATATGAAAAGGGATGGTTTTG
1 ACCATCGAATATGAAAAGGGATGGTTTCG
*
9089984 ACCATCGAATAAGAAAAGGGATGGTTTCG
1 ACCATCGAATATGAAAAGGGATGGTTTCG
9090013 ACCATC
1 ACCATC
9090019 ACTTAGCACA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 86 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.24
Consensus pattern (29 bp):
ACCATCGAATATGAAAAGGGATGGTTTCG
Found at i:9091778 original size:8 final size:8
Alignment explanation
Indices: 9091765--9091792 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
9091755 GATTTTTAAA
9091765 TATTATTT
1 TATTATTT
9091773 TATTATTT
1 TATTATTT
9091781 TATTATTT
1 TATTATTT
9091789 TATT
1 TATT
9091793 GTTTAGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TATTATTT
Found at i:9100767 original size:57 final size:60
Alignment explanation
Indices: 9100652--9100768 Score: 141
Period size: 57 Copynumber: 2.0 Consensus size: 60
9100642 TTTAGTATTC
* *
9100652 TTAATATGATGTATTTATATGTTTAAATTTCATTTTACTTACAATTTGATATAATTTTTTG
1 TTAATATGATGTATTTATATGTTTAAATTT-ATTTTACTCACAATTTAATATAATTTTTTG
* * * * *
9100713 TTAATCTGATGTA-TT-TGTGTTTAACTTT-TTTTACTCACGATTTAATCTAATTTTTT
1 TTAATATGATGTATTTATATGTTTAAATTTATTTTACTCACAATTTAATATAATTTTTT
9100769 ATTTTAATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
57 24 0.49
59 11 0.22
60 2 0.04
61 12 0.24
ACGTcount: A:0.27, C:0.08, G:0.09, T:0.56
Consensus pattern (60 bp):
TTAATATGATGTATTTATATGTTTAAATTTATTTTACTCACAATTTAATATAATTTTTTG
Found at i:9105589 original size:21 final size:20
Alignment explanation
Indices: 9105558--9105606 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
9105548 TCAAAAACAT
9105558 TAAAAATTATTAAATAATTA
1 TAAAAATTATTAAATAATTA
*
9105578 TAAAAATATATTAAATGATTA
1 TAAAAAT-TATTAAATAATTA
9105599 TAGAAAAT
1 TA-AAAAT
9105607 CATAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 7 0.27
21 14 0.54
22 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
TAAAAATTATTAAATAATTA
Found at i:9105591 original size:31 final size:31
Alignment explanation
Indices: 9105556--9105619 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
9105546 ATTCAAAAAC
*
9105556 ATTAAA-AATTATTA-AATAATTATAAAAATAT
1 ATTAAATAATTA-TAGAA-AATCATAAAAATAT
*
9105587 ATTAAATGATTATAGAAAATCATAAAAATAT
1 ATTAAATAATTATAGAAAATCATAAAAATAT
9105618 AT
1 AT
9105620 GTCTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 23 0.79
32 6 0.21
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (31 bp):
ATTAAATAATTATAGAAAATCATAAAAATAT
Found at i:9105805 original size:19 final size:18
Alignment explanation
Indices: 9105715--9105814 Score: 73
Period size: 19 Copynumber: 5.5 Consensus size: 18
9105705 TTATATAAGT
9105715 TATAGAAAAATTTTAAAAA
1 TATAGAAAAA-TTTAAAAA
* * *
9105734 CATTA-ATAAATTT-TAAA
1 TA-TAGAAAAATTTAAAAA
* *
9105751 TATATATAAATTATGAAAAA
1 TATAGAAAAATT-T-AAAAA
9105771 T-TA-AAAAATTTAAAAA
1 TATAGAAAAATTTAAAAA
*
9105787 TATAGAAAAATGTTTAAAA
1 TATAGAAAAAT-TTAAAAA
9105806 TATAGAAAA
1 TATAGAAAA
9105815 TTATTAAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
16 8 0.12
17 14 0.21
18 16 0.24
19 22 0.33
20 6 0.09
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (18 bp):
TATAGAAAAATTTAAAAA
Found at i:9105815 original size:18 final size:19
Alignment explanation
Indices: 9105715--9105825 Score: 69
Period size: 18 Copynumber: 6.1 Consensus size: 19
9105705 TTATATAAGT
9105715 TATAGAAAAATT-TTAAAAA
1 TATAGAAAAATTATT-AAAA
* *
9105734 CATTA-ATAAATT-TT-AAA
1 TA-TAGAAAAATTATTAAAA
* * *
9105751 TATATATAAATTATGAAAA
1 TATAGAAAAATTATTAAAA
*
9105770 -ATTA-AAAAATT-TAAAAA
1 TA-TAGAAAAATTATTAAAA
9105787 TATAGAAAAATGT-TTAAAA
1 TATAGAAAAAT-TATTAAAA
9105806 TATAG-AAAATTATTAAAA
1 TATAGAAAAATTATTAAAA
9105824 TA
1 TA
9105826 GAAAATTACA
Statistics
Matches: 76, Mismatches: 7, Indels: 19
0.75 0.07 0.19
Matches are distributed among these distances:
16 2 0.03
17 19 0.25
18 28 0.37
19 25 0.33
20 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (19 bp):
TATAGAAAAATTATTAAAA
Found at i:9105920 original size:18 final size:17
Alignment explanation
Indices: 9105897--9105937 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
9105887 TTCAAAAATT
9105897 AATATAAAAAATTAAAAA
1 AATATAAAAAA-TAAAAA
*
9105915 AATATAAAATATAAAAA
1 AATATAAAAAATAAAAA
9105932 AGATAT
1 A-ATAT
9105938 TTACATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AATATAAAAAATAAAAA
Found at i:9106334 original size:33 final size:35
Alignment explanation
Indices: 9106238--9106334 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
9106228 TTAATATTTT
*
9106238 AATATATGAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* *
9106273 AATAAATATTAATTAT-TTATAAAT-TTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAGC
9106306 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
9106335 ATATAACCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.20
32 7 0.14
33 11 0.22
34 9 0.18
35 7 0.14
36 3 0.06
37 4 0.08
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:9107016 original size:16 final size:16
Alignment explanation
Indices: 9106975--9107017 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
9106965 TATTTTCATG
*
9106975 ATTTATATTTTTTATA
1 ATTTATATTTTTAATA
*
9106991 ATATATATTTTTAATA
1 ATTTATATTTTTAATA
9107007 TATTTA-ATTTT
1 -ATTTATATTTT
9107018 ATATTTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATATTTTTAATA
Found at i:9107166 original size:11 final size:11
Alignment explanation
Indices: 9107150--9107175 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9107140 AGTTTCTATG
9107150 ATTTTTTTATA
1 ATTTTTTTATA
9107161 ATTTTTTTATA
1 ATTTTTTTATA
9107172 ATTT
1 ATTT
9107176 GTAATGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTTTTTATA
Found at i:9107886 original size:3 final size:3
Alignment explanation
Indices: 9107878--9107994 Score: 234
Period size: 3 Copynumber: 39.0 Consensus size: 3
9107868 TTATGAAATT
9107878 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9107926 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9107974 ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
9107995 TACTAGGAAA
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 114 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9109581 original size:15 final size:15
Alignment explanation
Indices: 9109563--9109596 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9109553 TTAATTAAAA
* *
9109563 TAAACTATGTTTAAT
1 TAAACTAAGATTAAT
9109578 TAAACTAAGATTAAT
1 TAAACTAAGATTAAT
9109593 TAAA
1 TAAA
9109597 ACTTAATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (15 bp):
TAAACTAAGATTAAT
Found at i:9112770 original size:23 final size:23
Alignment explanation
Indices: 9112739--9112789 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
9112729 ACCTATTTTC
*
9112739 TTACTGTAGTAATTTTCAGGG-TA
1 TTACAGTAGTAATTTTC-GGGATA
9112762 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
9112785 TTACA
1 TTACA
9112790 CATATTATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:9114467 original size:5 final size:5
Alignment explanation
Indices: 9114453--9114499 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
9114443 GGGTGAGTAT
* *
9114453 TTGA- TTGAG TTGAG TTGAG TTGAG TTGAA TTGAG TT-AG TCGAG TTGA
1 TTGAG TTGAG TTGAG TTGAG TTGAG TTGAG TTGAG TTGAG TTGAG TTGA
9114500 TGAATTATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
4 7 0.19
5 30 0.81
ACGTcount: A:0.23, C:0.02, G:0.34, T:0.40
Consensus pattern (5 bp):
TTGAG
Found at i:9119827 original size:9 final size:9
Alignment explanation
Indices: 9119813--9119964 Score: 70
Period size: 9 Copynumber: 16.6 Consensus size: 9
9119803 AAATAATTTT
9119813 TTTTTATAA
1 TTTTTATAA
9119822 -TTTT-TAA
1 TTTTTATAA
*
9119829 TTTTTCTAA
1 TTTTTATAA
9119838 TTTTTAATAA
1 TTTTT-ATAA
9119848 -TTTTATAA
1 TTTTTATAA
*
9119856 TTTATTA-GA
1 TTT-TTATAA
9119865 TTTTTAT--
1 TTTTTATAA
*
9119872 TATTTATAA
1 TTTTTATAA
9119881 GTTTTTATAA
1 -TTTTTATAA
**
9119891 GATTTA-AA
1 TTTTTATAA
9119899 TATTTTA-AA
1 T-TTTTATAA
9119908 TATGCTTTATTAA
1 T-T--TTTA-TAA
9119921 TTTTTTTTATAA
1 ---TTTTTATAA
*
9119933 TTTATTAGAA
1 TTT-TTATAA
9119943 -TTTTATAA
1 TTTTTATAA
*
9119951 ATTTTATAA
1 TTTTTATAA
9119960 TTTTT
1 TTTTT
9119965 TGAGTAAACT
Statistics
Matches: 113, Mismatches: 11, Indels: 38
0.70 0.07 0.23
Matches are distributed among these distances:
7 9 0.08
8 22 0.19
9 48 0.42
10 19 0.17
11 4 0.04
12 3 0.03
13 6 0.05
15 1 0.01
16 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:9119868 original size:26 final size:26
Alignment explanation
Indices: 9119812--9119870 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
9119802 TAAATAATTT
* *
9119812 TTTTTTATAATTTTTAATTTTTCTAA
1 TTTTTAATAATTTTTAATTTATCTAA
9119838 TTTTTAATAATTTTATAATTTAT-TAGA
1 TTTTTAATAATTTT-TAATTTATCTA-A
9119865 TTTTTA
1 TTTTTA
9119871 TTATTTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTTTAATAATTTTTAATTTATCTAA
Found at i:9119869 original size:18 final size:16
Alignment explanation
Indices: 9119813--9119890 Score: 84
Period size: 18 Copynumber: 4.6 Consensus size: 16
9119803 AAATAATTTT
9119813 TTTTTATAATTTTTAA
1 TTTTTATAATTTTTAA
*
9119829 TTTTTCTAATTTTTAA
1 TTTTTATAATTTTTAA
9119845 TAATTTTATAATTTATTAGA
1 T--TTTTATAATTT-TTA-A
* *
9119865 TTTTTATTATTTATAA
1 TTTTTATAATTTTTAA
9119881 GTTTTTATAA
1 -TTTTTATAA
9119891 GATTTAAATA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
16 17 0.33
17 10 0.19
18 20 0.38
19 3 0.06
20 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTTTATAATTTTTAA
Found at i:9120077 original size:31 final size:29
Alignment explanation
Indices: 9120009--9120080 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
9119999 CTTAGGTTAT
*
9120009 ATTTTAGTCACTTATGTTTGAAATGTTAC
1 ATTTTAGTCACTTATGTTTGAAATGTAAC
* ***
9120038 GTTTTAGTCACTTATGTTATCGCGTTGTAAC
1 ATTTTAGTCACTTATGTT-T-GAAATGTAAC
9120069 ATTTTAGTCACT
1 ATTTTAGTCACT
9120081 GAGCCGTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 17 0.49
30 1 0.03
31 17 0.49
ACGTcount: A:0.24, C:0.14, G:0.15, T:0.47
Consensus pattern (29 bp):
ATTTTAGTCACTTATGTTTGAAATGTAAC
Found at i:9133341 original size:22 final size:22
Alignment explanation
Indices: 9133300--9133341 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9133290 AGATAGGGAA
* * *
9133300 TTAAAAGGTGATAGATTAAAAT
1 TTAAAAGCTGAAAGAGTAAAAT
9133322 TTAAAAGCTGAAAGAGTAAA
1 TTAAAAGCTGAAAGAGTAAA
9133342 GGGGTTGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.02, G:0.19, T:0.26
Consensus pattern (22 bp):
TTAAAAGCTGAAAGAGTAAAAT
Found at i:9134188 original size:20 final size:21
Alignment explanation
Indices: 9134160--9134212 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 21
9134150 AAAGTATAAA
*
9134160 TTTGGAATTTTTATAAA-TAT
1 TTTGAAATTTTTATAAATTAT
9134180 TTTGAAA-TTTTA-AAATTAT
1 TTTGAAATTTTTATAAATTAT
*
9134199 TTTGTAATTTTTAT
1 TTTGAAATTTTTAT
9134213 TGAGAGAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 3 0.11
19 14 0.50
20 11 0.39
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (21 bp):
TTTGAAATTTTTATAAATTAT
Found at i:9138359 original size:22 final size:22
Alignment explanation
Indices: 9138318--9138359 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9138308 AGATAGGGAA
* * *
9138318 TTAAAAGGTGATAGATTAAAAT
1 TTAAAAGCTGAAAGAGTAAAAT
9138340 TTAAAAGCTGAAAGAGTAAA
1 TTAAAAGCTGAAAGAGTAAA
9138360 GGGGTTGGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.02, G:0.19, T:0.26
Consensus pattern (22 bp):
TTAAAAGCTGAAAGAGTAAAAT
Found at i:9154868 original size:18 final size:18
Alignment explanation
Indices: 9154830--9154865 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9154820 TTATTATTTT
*
9154830 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
9154848 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
9154866 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:9154877 original size:31 final size:29
Alignment explanation
Indices: 9154840--9154905 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
9154830 TAAAATTTAC
*
9154840 TATTAAAATAA-AATTTAAATATTAAATAATT
1 TATTAAAATAATAAATT--ATATT-AATAATT
9154871 TATTAAAAATAATAAATTATATTAATAATT
1 TATT-AAAATAATAAATTATATTAATAATT
9154901 TATTA
1 TATTA
9154906 TATGACTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 1 0.03
30 11 0.34
31 9 0.28
32 7 0.22
33 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TATTAAAATAATAAATTATATTAATAATT
Found at i:9155001 original size:10 final size:9
Alignment explanation
Indices: 9154972--9154997 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9154962 AGTTTCTATT
9154972 AATATTTTA
1 AATATTTTA
9154981 AATATTTTA
1 AATATTTTA
9154990 AATATTTT
1 AATATTTT
9154998 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTA
Found at i:9161824 original size:68 final size:68
Alignment explanation
Indices: 9161704--9161891 Score: 241
Period size: 68 Copynumber: 2.8 Consensus size: 68
9161694 GTCATAGGTG
* * * * *
9161704 CATGGCACCATAATGTGTAAGACCATAGTTGGGCTATGGTAACATATAAAGTCTACTAAGACAGT
1 CATGGGACCATAATGTGTAAGACCATAGTTGGGCTATGGCAACATATGAAGTCCACCAAGACAGT
9161769 AAA
66 AAA
* * * * *
9161772 GATGGGACCATAGTGTGTAAGATCATAGTTGGGCTATGGCAACATATGAAGTCCACCAGGATAGT
1 CATGGGACCATAATGTGTAAGACCATAGTTGGGCTATGGCAACATATGAAGTCCACCAAGACAGT
9161837 AAA
66 AAA
* * ** *
9161840 CATGAGATCATAATGTGTAAGACCATAGCAGGGCTATGGCCACATATGAAGT
1 CATGGGACCATAATGTGTAAGACCATAGTTGGGCTATGGCAACATATGAAGT
9161892 TCGTAAGTAC
Statistics
Matches: 102, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 102 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (68 bp):
CATGGGACCATAATGTGTAAGACCATAGTTGGGCTATGGCAACATATGAAGTCCACCAAGACAGT
AAA
Found at i:9164713 original size:27 final size:27
Alignment explanation
Indices: 9164675--9164881 Score: 229
Period size: 27 Copynumber: 7.7 Consensus size: 27
9164665 AGGTTGATAT
* *
9164675 ATGACCGAAATACCCCTATAGGGTAGA
1 ATGACTGAAATACCCCTATAGGGTAAA
* **
9164702 ATGACTGAAATACCCCCATAAAGTAAA
1 ATGACTGAAATACCCCTATAGGGTAAA
*
9164729 ATGACCGAAATACCCCTATAGGGTAAA
1 ATGACTGAAATACCCCTATAGGGTAAA
* * *
9164756 ATAACTGAAATACCCCCATATGGTAAA
1 ATGACTGAAATACCCCTATAGGGTAAA
* *
9164783 ATAACTGAAATA-CCCTCATAGGATAAA
1 ATGACTGAAATACCCCT-ATAGGGTAAA
* * *
9164810 ATGACTAAAATACCCCCATAGGGTAGA
1 ATGACTGAAATACCCCTATAGGGTAAA
9164837 ATGA-TCGAAATACCCCTATAGGGTAAA
1 ATGACT-GAAATACCCCTATAGGGTAAA
* **
9164864 ATGGCTGTTATACCCCTA
1 ATGACTGAAATACCCCTA
9164882 GGAGATGAAA
Statistics
Matches: 149, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.03
27 141 0.95
28 4 0.03
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (27 bp):
ATGACTGAAATACCCCTATAGGGTAAA
Found at i:9164879 original size:54 final size:54
Alignment explanation
Indices: 9164675--9164866 Score: 269
Period size: 54 Copynumber: 3.6 Consensus size: 54
9164665 AGGTTGATAT
* *
9164675 ATGACCGAAATACCCCTATAGGGTAGAATGACTGAAATACCCCCATAAAGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAAATGACTGAAATACCCCCATAAGGTAAA
* *
9164729 ATGACCGAAATACCCCTATAGGGTAAAATAACTGAAATACCCCCATATGGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAAATGACTGAAATACCCCCATAAGGTAAA
* * * * * *
9164783 ATAACTGAAATA-CCCTCATAGGATAAAATGACTAAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCT-ATAGGGTAAAATGACTGAAATACCCCCATAAGGTAAA
*
9164837 ATGATCGAAATACCCCTATAGGGTAAAATG
1 ATGACCGAAATACCCCTATAGGGTAAAATG
9164867 GCTGTTATAC
Statistics
Matches: 121, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 4 0.03
54 113 0.93
55 4 0.03
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (54 bp):
ATGACCGAAATACCCCTATAGGGTAAAATGACTGAAATACCCCCATAAGGTAAA
Found at i:9171931 original size:7 final size:7
Alignment explanation
Indices: 9171919--9171965 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
9171909 AAACAAAAGT
9171919 AAAGACA
1 AAAGACA
9171926 AAAGACA
1 AAAGACA
*
9171933 AAAGAAA
1 AAAGACA
9171940 AAAGAC-
1 AAAGACA
9171946 AAA-ACA
1 AAAGACA
9171952 AAA-ACA
1 AAAGACA
9171958 AAA-ACA
1 AAAGACA
9171964 AA
1 AA
9171966 TAAAATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
5 2 0.05
6 17 0.46
7 18 0.49
ACGTcount: A:0.79, C:0.13, G:0.09, T:0.00
Consensus pattern (7 bp):
AAAGACA
Found at i:9171955 original size:6 final size:6
Alignment explanation
Indices: 9171892--9171965 Score: 55
Period size: 6 Copynumber: 12.3 Consensus size: 6
9171882 AAAATAAAAT
* ** *
9171892 AAAAC- AAAA-A AAAACA GAAACA AAAGTA AAGACA AAAGACA AAAGA-A
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAA-ACA AAA-ACA
*
9171939 AAAAGA CAAAACA AAAACA AAAACA AA
1 AAAACA -AAAACA AAAACA AAAACA AA
9171966 TAAAATATAA
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
5 9 0.16
6 33 0.60
7 13 0.24
ACGTcount: A:0.78, C:0.12, G:0.08, T:0.01
Consensus pattern (6 bp):
AAAACA
Found at i:9172544 original size:19 final size:20
Alignment explanation
Indices: 9172507--9172546 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
9172497 TTTTTTTTTC
* *
9172507 AAAATAACATGAAAGTAAAA
1 AAAATAACATAAAAATAAAA
9172527 AAAATAA-ATAAAAATAAAA
1 AAAATAACATAAAAATAAAA
9172546 A
1 A
9172547 CACTTGGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
AAAATAACATAAAAATAAAA
Found at i:9175961 original size:21 final size:21
Alignment explanation
Indices: 9175937--9175976 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
9175927 ATTTTGTAAT
9175937 TTAATAGAAA-ATTAAAACAAA
1 TTAA-AGAAAGATTAAAACAAA
9175958 TTAAAGAAAGATTAAAACA
1 TTAAAGAAAGATTAAAACA
9175977 TTTTTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (21 bp):
TTAAAGAAAGATTAAAACAAA
Found at i:9177013 original size:37 final size:37
Alignment explanation
Indices: 9176894--9177001 Score: 155
Period size: 37 Copynumber: 2.9 Consensus size: 37
9176884 CTACATGTTT
* * * *
9176894 TGGCGTGTTTTCAGTTGGACTAGCTCTAATGAGCATC
1 TGGCGTGTTATCAGGTGGATTAGCTCTTATGAGCATC
9176931 TGGCGTGTTATC-GAGTGGATTAGCTCTTATGAGCATC
1 TGGCGTGTTATCAG-GTGGATTAGCTCTTATGAGCATC
*
9176968 TGGCGTGTTATCAGGTGGATTAGCTCTTACGAGC
1 TGGCGTGTTATCAGGTGGATTAGCTCTTATGAGC
9177002 GATTGACGTG
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
36 1 0.02
37 62 0.97
38 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.34
Consensus pattern (37 bp):
TGGCGTGTTATCAGGTGGATTAGCTCTTATGAGCATC
Found at i:9189437 original size:17 final size:17
Alignment explanation
Indices: 9189412--9189450 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
9189402 CATCAATCTC
* *
9189412 TCTTATTTTCCTTTGTT
1 TCTTTTTTTCCTTTCTT
*
9189429 TCTTTTTTTTCTTTCTT
1 TCTTTTTTTCCTTTCTT
9189446 TCTTT
1 TCTTT
9189451 CTTCATGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.77
Consensus pattern (17 bp):
TCTTTTTTTCCTTTCTT
Found at i:9198552 original size:38 final size:38
Alignment explanation
Indices: 9198463--9198557 Score: 109
Period size: 38 Copynumber: 2.5 Consensus size: 38
9198453 GTGGAATGTA
* *
9198463 ATCAGATGGAATAGCTCTTTTGAGCATACTGGCATGTT
1 ATCAGATGGAATAGCTCTTATGAGCATACTGGCATGCT
* * * * **
9198501 ATCGGATGTAATAGCTCTTATGAGGATATTGGTGTGCT
1 ATCAGATGGAATAGCTCTTATGAGCATACTGGCATGCT
*
9198539 ATCAGATGGAATAGGTCTT
1 ATCAGATGGAATAGCTCTT
9198558 CTAAGCAAAC
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (38 bp):
ATCAGATGGAATAGCTCTTATGAGCATACTGGCATGCT
Found at i:9201195 original size:52 final size:52
Alignment explanation
Indices: 9201117--9201219 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
9201107 ACAGCCTTTA
* *
9201117 CCCTAGAGGACAACCAAAGTATAAAAGGTAATAAAAATGGGATAGATGAGAT
1 CCCTACAGGACAACCAAAGTATAAAAGGTAATAAAAATGGGAGAGATGAGAT
*
9201169 CCCTACAGGACAACCCAAGTATAAAAGGTAATAAAAATGGGAGAGATGAGA
1 CCCTACAGGACAACCAAAGTATAAAAGGTAATAAAAATGGGAGAGATGAGA
9201220 GGAGAAAAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.48, C:0.14, G:0.23, T:0.16
Consensus pattern (52 bp):
CCCTACAGGACAACCAAAGTATAAAAGGTAATAAAAATGGGAGAGATGAGAT
Found at i:9205153 original size:11 final size:12
Alignment explanation
Indices: 9205122--9205168 Score: 53
Period size: 11 Copynumber: 3.9 Consensus size: 12
9205112 ATAACATAAT
9205122 TAAATAATAAGAA
1 TAAATAATAA-AA
*
9205135 TCAA-AATAAAA
1 TAAATAATAAAA
9205146 TAAA-AATAAAA
1 TAAATAATAAAA
9205157 TAGAATAATAAA
1 TA-AATAATAAA
9205169 GTTCAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 14 0.47
12 7 0.23
13 9 0.30
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.21
Consensus pattern (12 bp):
TAAATAATAAAA
Found at i:9208838 original size:27 final size:27
Alignment explanation
Indices: 9208807--9208984 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
9208797 TAAATTGTAC
9208807 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
9208834 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
9208860 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
9208888 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
9208916 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
9208943 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
9208970 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
9208985 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:9208921 original size:82 final size:81
Alignment explanation
Indices: 9208808--9208963 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
9208798 AAATTGTACA
* *
9208808 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
9208872 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
9208889 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
9208954 TGCGAGTTGA
65 TGCGAATTGA
9208964 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:9208975 original size:82 final size:81
Alignment explanation
Indices: 9208804--9208984 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
9208794 GATTAAATTG
* *
9208804 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
9208869 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
9208885 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
9208949 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
9208967 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
9208985 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:9210619 original size:21 final size:21
Alignment explanation
Indices: 9210587--9210627 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9210577 ATTTATATAA
9210587 TCCTTATGTGATATG-TTTTTC
1 TCCTTATGTGAT-TGATTTTTC
9210608 TCCTT-TGTTGATTGATTTTT
1 TCCTTATG-TGATTGATTTTT
9210628 TCGTAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.12, C:0.12, G:0.15, T:0.61
Consensus pattern (21 bp):
TCCTTATGTGATTGATTTTTC
Found at i:9217895 original size:25 final size:25
Alignment explanation
Indices: 9217867--9217923 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
9217857 CTACACCACA
*
9217867 GCTCTTATGAGCATCCCG-TTATACG
1 GCTCTTATGAGCATCCCGATTA-AAG
* *
9217892 GCTCGTTGTGAGCTTCCCGATTAAAG
1 GCTC-TTATGAGCATCCCGATTAAAG
9217918 GCTCTT
1 GCTCTT
9217924 TGTGAGCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 6 0.22
26 18 0.67
27 3 0.11
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (25 bp):
GCTCTTATGAGCATCCCGATTAAAG
Found at i:9217931 original size:26 final size:27
Alignment explanation
Indices: 9217874--9217938 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 27
9217864 ACAGCTCTTA
* *
9217874 TGAGCATCCCG-TTATACGGCTCGTTG
1 TGAGCTTCCCGATTATAAGGCTCGTTG
*
9217900 TGAGCTTCCCGATTA-AAGGCTCTTTG
1 TGAGCTTCCCGATTATAAGGCTCGTTG
*
9217926 TGAGCTTTCCGAT
1 TGAGCTTCCCGAT
9217939 ATGGCTCGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 31 0.91
27 3 0.09
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.34
Consensus pattern (27 bp):
TGAGCTTCCCGATTATAAGGCTCGTTG
Found at i:9217980 original size:24 final size:24
Alignment explanation
Indices: 9217953--9218002 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
9217943 CTCGCTTGAA
*
9217953 CTTCCCGTTAATGGCTATTCGGAG
1 CTTCCCGTTAATGGCTATTCAGAG
* *
9217977 CTTCCTGTTAATGGCTCTTCAGAG
1 CTTCCCGTTAATGGCTATTCAGAG
9218001 CT
1 CT
9218003 ACCCATTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (24 bp):
CTTCCCGTTAATGGCTATTCAGAG
Found at i:9220744 original size:1 final size:1
Alignment explanation
Indices: 9220738--9220800 Score: 117
Period size: 1 Copynumber: 63.0 Consensus size: 1
9220728 AAATCTAACA
*
9220738 CCCCCCCCCCCCCCCCCCCCCCCCCCTCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
9220801 GCCCTCCTCC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.00, C:0.98, G:0.00, T:0.02
Consensus pattern (1 bp):
C
Found at i:9229381 original size:22 final size:22
Alignment explanation
Indices: 9229353--9229396 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
9229343 ATGGAAGCAC
9229353 CTCTAAGCTTTTGATCATCATA
1 CTCTAAGCTTTTGATCATCATA
9229375 CTCTAAGCTTTTGATCATCATA
1 CTCTAAGCTTTTGATCATCATA
9229397 GTTACTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (22 bp):
CTCTAAGCTTTTGATCATCATA
Found at i:9237673 original size:20 final size:20
Alignment explanation
Indices: 9237591--9237676 Score: 86
Period size: 20 Copynumber: 4.3 Consensus size: 20
9237581 TTGTGCAGGA
9237591 TTGCACTTCGGTGCCTCTATT
1 TTGCACTTCGGTGCCTCT-TT
* *
9237612 CT-CAC-TCTGGTGCCTCTGT
1 TTGCACTTC-GGTGCCTCTTT
* * *
9237631 TTACACTTCGGTGTCTCTAT
1 TTGCACTTCGGTGCCTCTTT
*
9237651 TTGCACTACGGTGCCTCTTT
1 TTGCACTTCGGTGCCTCTTT
9237671 TTGCAC
1 TTGCAC
9237677 AATCGTGCCT
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
19 4 0.08
20 46 0.87
21 3 0.06
ACGTcount: A:0.10, C:0.30, G:0.19, T:0.41
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTTT
Found at i:9241502 original size:25 final size:25
Alignment explanation
Indices: 9241468--9241675 Score: 143
Period size: 25 Copynumber: 8.3 Consensus size: 25
9241458 AGGCTTCCAA
* *
9241468 AGAGAGTTCGCCACAAAGTCATTTC
1 AGAGAATTCGCCACAAAGGCATTTC
9241493 AGAGAATTCGCCACAAAGGCA-TTC
1 AGAGAATTCGCCACAAAGGCATTTC
* * * *
9241517 TAAAGTATTCGCGACAAAGGCTTTTC
1 -AGAGAATTCGCCACAAAGGCATTTC
* ** * *
9241543 ATAGAATTCGCCACAAACACGTTCC
1 AGAGAATTCGCCACAAAGGCATTTC
* * * * *
9241568 AAAGAATTTGCCACAAATGCGTTTT
1 AGAGAATTCGCCACAAAGGCATTTC
*
9241593 AGAGAATTTGCCACAAAGGCA-TTC
1 AGAGAATTCGCCACAAAGGCATTTC
* * *
9241617 TAGAGAATTCACCACAAAAGG-GTTCC
1 -AGAGAATTCGCCAC-AAAGGCATTTC
* * ** *
9241643 AGAGTATTTGCCACAAAGGTTTTTT
1 AGAGAATTCGCCACAAAGGCATTTC
9241668 AGAGAATT
1 AGAGAATT
9241676 TTGTGTTTAC
Statistics
Matches: 143, Mismatches: 34, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
24 10 0.07
25 123 0.86
26 10 0.07
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (25 bp):
AGAGAATTCGCCACAAAGGCATTTC
Found at i:9241534 original size:50 final size:50
Alignment explanation
Indices: 9241452--9241634 Score: 181
Period size: 50 Copynumber: 3.6 Consensus size: 50
9241442 AAGTAACACA
9241452 CCACAAAGGC-TTCCAAAGAGAGTTCGCCACAAAGTCATTTCAGAGAATTCG
1 CCACAAAGGCATTCCAAAGA-A-TTCGCCACAAAGTCATTTCAGAGAATTCG
* * * * * *
9241503 CCACAAAGGCATTCTAAAGTATTCGCGACAAAGGCTTTTCATAGAATTCG
1 CCACAAAGGCATTCCAAAGAATTCGCCACAAAGTCATTTCAGAGAATTCG
** * * * * *
9241553 CCACAAACACGTTCCAAAGAATTTGCCACAAA-TGCGTTTTAGAGAATTTG
1 CCACAAAGGCATTCCAAAGAATTCGCCACAAAGT-CATTTCAGAGAATTCG
* * *
9241603 CCACAAAGGCATTCTAGAGAATTCACCACAAA
1 CCACAAAGGCATTCCAAAGAATTCGCCACAAA
9241635 AGGGTTCCAG
Statistics
Matches: 105, Mismatches: 25, Indels: 5
0.78 0.19 0.04
Matches are distributed among these distances:
50 87 0.83
51 11 0.10
52 7 0.07
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (50 bp):
CCACAAAGGCATTCCAAAGAATTCGCCACAAAGTCATTTCAGAGAATTCG
Found at i:9241609 original size:75 final size:75
Alignment explanation
Indices: 9241495--9241676 Score: 188
Period size: 75 Copynumber: 2.4 Consensus size: 75
9241485 GTCATTTCAG
* * * * * * * * * *
9241495 AGAATTCGCCACAAAGGCATTCTAAAGTATTCGCGACAAAGGC-TTTTCATAGAATTCGCCACAA
1 AGAATTTGCCACAAAGGCGTTTTAGAGAATTTGCCACAAAGGCATTCT-AGAGAATTCACCACAA
9241559 ACA-CGTTCCAA
65 A-AGCGTTCCAA
*
9241570 AGAATTTGCCACAAATGCGTTTTAGAGAATTTGCCACAAAGGCATTCTAGAGAATTCACCACAAA
1 AGAATTTGCCACAAAGGCGTTTTAGAGAATTTGCCACAAAGGCATTCTAGAGAATTCACCACAAA
* *
9241635 AGGGTTCCAG
66 AGCGTTCCAA
* **
9241645 AGTATTTGCCACAAAGGTTTTTTAGAGAATTT
1 AGAATTTGCCACAAAGGCGTTTTAGAGAATTT
9241677 TGTGTTTACC
Statistics
Matches: 88, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
74 1 0.01
75 84 0.95
76 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (75 bp):
AGAATTTGCCACAAAGGCGTTTTAGAGAATTTGCCACAAAGGCATTCTAGAGAATTCACCACAAA
AGCGTTCCAA
Found at i:9244684 original size:26 final size:27
Alignment explanation
Indices: 9244650--9244701 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
9244640 AGAATGTATG
*
9244650 TATATTTTAGTATTTTCTATAATTTTT
1 TATATTTTAGAATTTTCTATAATTTTT
* *
9244677 TATA-TTTAGAATTTTTTATTATTTT
1 TATATTTTAGAATTTTCTATAATTTT
9244702 AAATTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (27 bp):
TATATTTTAGAATTTTCTATAATTTTT
Found at i:9244699 original size:17 final size:16
Alignment explanation
Indices: 9244670--9244716 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
9244660 TATTTTCTAT
9244670 AATTTTTTATA-TTTA
1 AATTTTTTATATTTTA
9244685 GAATTTTTTATTATTTTA
1 -AATTTTTTA-TATTTTA
9244703 AATTTTTT-TATTTT
1 AATTTTTTATATTTT
9244717 TCCTTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.21
16 9 0.31
17 10 0.34
18 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (16 bp):
AATTTTTTATATTTTA
Found at i:9244717 original size:16 final size:16
Alignment explanation
Indices: 9244660--9244717 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
9244650 TATATTTTAG
*
9244660 TATTTTCTATAATTTTT
1 TATTTT-TAGAATTTTT
*
9244677 TATATTTAGAATTTTT
1 TATTTTTAGAATTTTT
9244693 TATTATTTTA-AATTTTTT
1 TA-T-TTTTAGAA-TTTTT
9244711 TATTTTT
1 TATTTTT
9244718 CCTTTTTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
16 15 0.43
17 9 0.26
18 11 0.31
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (16 bp):
TATTTTTAGAATTTTT
Found at i:9244740 original size:16 final size:16
Alignment explanation
Indices: 9244721--9244776 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 16
9244711 TATTTTTCCT
9244721 TTTTATTTTAAATAAA
1 TTTTATTTTAAATAAA
* *
9244737 TTTTATTTTATATAAT
1 TTTTATTTTAAATAAA
9244753 TTATATATTATTATAATAAA
1 TT-T-TATT-TTA-AATAAA
9244773 TTTT
1 TTTT
9244777 CATAAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
16 16 0.50
17 1 0.03
18 5 0.16
19 4 0.12
20 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTATTTTAAATAAA
Found at i:9249085 original size:2 final size:2
Alignment explanation
Indices: 9249078--9249105 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9249068 AACTGCCTTT
9249078 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
9249106 GTAGGAGAAG
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:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:9252643 original size:30 final size:30
Alignment explanation
Indices: 9252607--9252667 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
9252597 TGGTTGAACC
9252607 TTGGTTCTTCTTTCCATGGTGTTTTGGTGA
1 TTGGTTCTTCTTTCCATGGTGTTTTGGTGA
*
9252637 TTGGTTCTTCTTTTCATGGTGTTTTGGTGA
1 TTGGTTCTTCTTTCCATGGTGTTTTGGTGA
9252667 T
1 T
9252668 GAACAAAACC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.07, C:0.11, G:0.26, T:0.56
Consensus pattern (30 bp):
TTGGTTCTTCTTTCCATGGTGTTTTGGTGA
Done.