Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009623.1 Hibiscus syriacus cultivar Beakdansim tig00117012_pilon, whole genome shotgun sequence
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: 3488723
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 18
Found at i:2609654 original size:16 final size:16
Alignment explanation
Indices: 2609633--2609664 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2609623 GATGAGAAAT
2609633 CATCGAATAGGTTAAA
1 CATCGAATAGGTTAAA
*
2609649 CATCGAATGGGTTAAA
1 CATCGAATAGGTTAAA
2609665 TGTTTCATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (16 bp):
CATCGAATAGGTTAAA
Found at i:2610857 original size:14 final size:14
Alignment explanation
Indices: 2610840--2610889 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
2610830 ATTTCAAAAT
2610840 ATATTATAATTATA
1 ATATTATAATTATA
*
2610854 ATATTATTAATTATT
1 ATATTA-TAATTATA
*
2610869 A-ATTATATTTA-A
1 ATATTATAATTATA
2610881 TATATTATA
1 -ATATTATA
2610890 CATATAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 6 0.20
14 16 0.53
15 8 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATATTATAATTATA
Found at i:2610984 original size:16 final size:15
Alignment explanation
Indices: 2610960--2611047 Score: 63
Period size: 16 Copynumber: 5.5 Consensus size: 15
2610950 ATCTATTTTA
*
2610960 ATTACTATATTTATTT
1 ATTA-TATATTTAATT
2610976 ATTAGTATATTTTAATT
1 ATTA-TATA-TTTAATT
*
2610993 ATTTATTATATTTAATA
1 A-TTA-TATATTTAATT
2611010 ATTA-ATACTATTAATT
1 ATTATATA-T-TTAATT
*
2611026 ATTAT-TATGTTATTT
1 ATTATATAT-TTAATT
2611041 ATTATAT
1 ATTATAT
2611048 TTATATGTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
14 3 0.05
15 12 0.20
16 23 0.39
17 14 0.24
18 7 0.12
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (15 bp):
ATTATATATTTAATT
Found at i:2611006 original size:17 final size:16
Alignment explanation
Indices: 2610960--2611033 Score: 69
Period size: 16 Copynumber: 4.5 Consensus size: 16
2610950 ATCTATTTTA
* *
2610960 ATTACTATATTTATTT
1 ATTATTATATTTAATT
*
2610976 ATTAGTATATTTTAATT
1 ATTATTATA-TTTAATT
*
2610993 ATTTATTATATTTAATA
1 A-TTATTATATTTAATT
*
2611010 ATTAATACTA-TTAATT
1 ATTATTA-TATTTAATT
2611026 ATTATTAT
1 ATTATTAT
2611034 GTTATTTATT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
15 1 0.02
16 24 0.50
17 16 0.33
18 7 0.15
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (16 bp):
ATTATTATATTTAATT
Found at i:2611044 original size:18 final size:20
Alignment explanation
Indices: 2611018--2611063 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2611008 TAATTAATAC
2611018 TATTAATTAT-TAT-TATGT
1 TATTAATTATATATATATGT
* *
2611036 TATTTATTATATTTATATGT
1 TATTAATTATATATATATGT
2611056 TATTAATT
1 TATTAATT
2611064 TCAATTTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 9 0.39
19 2 0.09
20 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (20 bp):
TATTAATTATATATATATGT
Found at i:2615467 original size:49 final size:51
Alignment explanation
Indices: 2615414--2615515 Score: 172
Period size: 53 Copynumber: 2.0 Consensus size: 51
2615404 AGAAGACACG
2615414 ATGTATATTATTTAAATT-AAT-TTTTTTTATTTTAAAATCAAATCGAATT
1 ATGTATATTATTTAAATTAAATATTTTTTTATTTTAAAATCAAATCGAATT
2615463 ATGTATATTATTTAAATTAAAAATATTTTTTTATTTTAAAATCAAATCGAATT
1 ATGTATATTATTTAAATT--AAATATTTTTTTATTTTAAAATCAAATCGAATT
2615516 TTAGATGACA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
49 18 0.37
52 3 0.06
53 28 0.57
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (51 bp):
ATGTATATTATTTAAATTAAATATTTTTTTATTTTAAAATCAAATCGAATT
Found at i:2632571 original size:7 final size:7
Alignment explanation
Indices: 2632545--2632639 Score: 65
Period size: 7 Copynumber: 13.4 Consensus size: 7
2632535 ATTTTGCTTG
2632545 AAGAAAA
1 AAGAAAA
*
2632552 AATG-AAG
1 AA-GAAAA
2632559 AAGAAAA
1 AAGAAAA
2632566 AAGAAAGA
1 AAGAAA-A
2632574 AA-AAAA
1 AAGAAAA
*
2632580 GAGAAAA
1 AAGAAAA
2632587 AATGAAAA
1 AA-GAAAA
*
2632595 ATGAAAA
1 AAGAAAA
*
2632602 ATGAAAA
1 AAGAAAA
2632609 AA-ATAAA
1 AAGA-AAA
2632616 AA-AAATA
1 AAGAAA-A
2632623 AA-AAAGA
1 AAGAAA-A
2632630 AAGAAAA
1 AAGAAAA
2632637 AAG
1 AAG
2632640 GGGGTTCAAG
Statistics
Matches: 73, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
6 6 0.08
7 54 0.74
8 13 0.18
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (7 bp):
AAGAAAA
Found at i:2632586 original size:8 final size:8
Alignment explanation
Indices: 2632545--2632636 Score: 57
Period size: 8 Copynumber: 11.2 Consensus size: 8
2632535 ATTTTGCTTG
2632545 AAGAAAAA
1 AAGAAAAA
*
2632553 ATGAAGAAGA
1 AAGAA-AA-A
*
2632563 AA-AAAGA
1 AAGAAAAA
2632570 AAGAAAAA
1 AAGAAAAA
2632578 AAGAGAAAA
1 AAGA-AAAA
2632587 AATG-AAAA
1 AA-GAAAAA
*
2632595 ATG-AAAA
1 AAGAAAAA
*
2632602 ATGAAAAA
1 AAGAAAAA
*
2632610 AATAAAAA
1 AAGAAAAA
2632618 AA-ATAAAA
1 AAGA-AAAA
2632626 AAGAAAGAA
1 AAGAAA-AA
2632635 AA
1 AA
2632637 AAGGGGGTTC
Statistics
Matches: 68, Mismatches: 7, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
7 12 0.18
8 38 0.56
9 15 0.22
10 3 0.04
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (8 bp):
AAGAAAAA
Found at i:2632601 original size:22 final size:20
Alignment explanation
Indices: 2632549--2632631 Score: 66
Period size: 22 Copynumber: 4.2 Consensus size: 20
2632539 TGCTTGAAGA
*
2632549 AAAAATGAAGAAGAAAAAAG
1 AAAAATGAAAAAGAAAAAAG
*
2632569 AAAGAA-AAAAAGAGAAAAAATG
1 AAA-AATGAAAA-AGAAAAAA-G
2632591 AAAAATGAAAAATGAAAAAA-
1 AAAAATGAAAAA-GAAAAAAG
* *
2632611 ATAAA--AAAAATAAAAAAG
1 AAAAATGAAAAAGAAAAAAG
2632629 AAA
1 AAA
2632632 GAAAAAAGGG
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
17 6 0.12
18 7 0.14
20 10 0.20
21 13 0.25
22 15 0.29
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (20 bp):
AAAAATGAAAAAGAAAAAAG
Found at i:2632619 original size:32 final size:31
Alignment explanation
Indices: 2632572--2632631 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
2632562 AAAAAAGAAA
* *
2632572 GAAAAAAAGAGAAAAAATGAAAAATGAAAAAT
1 GAAAAAAAGAAAAAAAAT-AAAAAAGAAAAAT
*
2632604 GAAAAAAATAAAAAAAATAAAAAAGAAA
1 GAAAAAAAGAAAAAAAATAAAAAAGAAA
2632632 GAAAAAAGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 9 0.36
32 16 0.64
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (31 bp):
GAAAAAAAGAAAAAAAATAAAAAAGAAAAAT
Found at i:2635692 original size:9 final size:9
Alignment explanation
Indices: 2635662--2635703 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
2635652 TGTAAAATAA
2635662 AAATAAATAT
1 AAATAAA-AT
*
2635672 AAA-AAAAG
1 AAATAAAAT
2635680 AAATAAAAT
1 AAATAAAAT
2635689 AAATAAAAT
1 AAATAAAAT
*
2635698 AGATAA
1 AAATAA
2635704 CAGAGGTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
8 4 0.14
9 21 0.75
10 3 0.11
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:2637078 original size:10 final size:10
Alignment explanation
Indices: 2637063--2637097 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
2637053 AAAATAATAG
2637063 AATTAATAAT
1 AATTAATAAT
2637073 AATTAATAAT
1 AATTAATAAT
2637083 AA-TAATAAAT
1 AATTAAT-AAT
2637093 AATTA
1 AATTA
2637098 TTATAATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.17
10 17 0.74
11 2 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AATTAATAAT
Found at i:2637087 original size:16 final size:16
Alignment explanation
Indices: 2637066--2637106 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
2637056 ATAATAGAAT
*
2637066 TAATAATAATTAATAA
1 TAATAATAAATAATAA
*
2637082 TAATAATAAATAATTA
1 TAATAATAAATAATAA
*
2637098 TTATAATAA
1 TAATAATAA
2637107 CACATATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATAATAAATAATAA
Found at i:2637103 original size:13 final size:13
Alignment explanation
Indices: 2637055--2637095 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
2637045 TGCAAAAAAA
2637055 AATAATAGAATTAAT
1 AATAATA-AA-TAAT
*
2637070 AATAATTAATAAT
1 AATAATAAATAAT
2637083 AATAATAAATAAT
1 AATAATAAATAAT
2637096 TATTATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 16 0.67
14 2 0.08
15 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (13 bp):
AATAATAAATAAT
Found at i:2637471 original size:85 final size:84
Alignment explanation
Indices: 2637357--2637860 Score: 520
Period size: 83 Copynumber: 6.0 Consensus size: 84
2637347 CTCTTCAGTT
* * * * *
2637357 TTTTGGTGGCAGATAGCCCTTCTCGATTTAAGCTATGCTGCAAATGATGTGCATTTGAGCTGAGT
1 TTTTGGTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTCGAGCTGAGT
*
2637422 GTAATCGAACTCGAGGGTC
66 GTAATCGAACTCGAAGGTC
* * * * *
2637441 TTTTGGATGGCAGATAGCTCTTCTCGATTTAAGCTATGCTGCAAAT-ATTGTGCCTTTGAGCTGA
1 TTTTGG-TGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGA-TGTGCCTTCGAGCTGA
2637505 GTGTAATCGAACTCGAAGGTC
64 GTGTAATCGAACTCGAAGGTC
* * * * * * *
2637526 --TTGGTTGGTAGATAACCCTTCTAGCCCTAAGTTATGTTGCAAATGATGTGCCTTGGAGCTGAA
1 TTTTGG-TGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTCGAGCTGAG
* *
2637589 CGTAGTCGAACTCGAAGGTC
65 TGTAATCGAACTCGAAGGTC
* * * * * * * *
2637609 -TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAG
1 TTTTGGTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTCG-AGCTGAG
**
2637673 TGTAATCGAACTCGGGGGTC
65 TGTAATCGAACTCGAAGGTC
* * * *
2637693 --TT--TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
1 TTTTGGTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTCGAGCTGAGT
*
2637754 GTAGTCGAACTCGAAGGTC
66 GTAATCGAACTCGAAGGTC
* * * * * *
2637773 TTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAG
1 TTTTGGTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTCG-AGCTGAG
**
2637838 TGTAATCGAACTCGGGGGTC
65 TGTAATCGAACTCGAAGGTC
2637858 TTT
1 TTT
2637861 GGCAGATAGC
Statistics
Matches: 352, Mismatches: 58, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
80 23 0.07
81 40 0.11
82 2 0.01
83 112 0.32
84 76 0.22
85 99 0.28
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (84 bp):
TTTTGGTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTCGAGCTGAGT
GTAATCGAACTCGAAGGTC
Found at i:2637830 original size:165 final size:165
Alignment explanation
Indices: 2637363--2637878 Score: 698
Period size: 165 Copynumber: 3.1 Consensus size: 165
2637353 AGTTTTTTGG
* * * * *
2637363 TGGCAGATAGCCCTTCTCGATTTAAGCTATGCTGCAAATGATGTGCATTTGAGCTGAGTGTAATC
1 TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
* * * * * ** * * *
2637428 GAACTCGAGGGTCTTTTGGATGGCAGATAGCTCTTCTCGATTTAAGCTATGCTGCAAAT-ATTGT
66 GAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGA-TGT
* * **
2637492 GCCTTTG-AGCTGAGTGTAATCGAACTCGAAGGTCTTGGT
129 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-T--T
* * * * * * * *
2637531 TGGTAGATAACCCTTCTAGCCCTAAGTTATGTTGCAAATGATGTGCCTTGGAGCTGAACGTAGTC
1 TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
* *
2637596 GAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGC
66 GAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
2637660 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
131 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
2637695 TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
1 TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
2637760 GAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
66 GAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
2637825 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
131 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
2637860 TGGCAGATAG-CCTTCTCGA
1 TGGCAGATAGCCCTTCTCGA
2637879 GTTGGATATC
Statistics
Matches: 306, Mismatches: 39, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
164 80 0.26
165 94 0.31
166 37 0.12
167 31 0.10
168 64 0.21
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (165 bp):
TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
GAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
Found at i:2638271 original size:106 final size:106
Alignment explanation
Indices: 2638081--2639102 Score: 1679
Period size: 106 Copynumber: 9.6 Consensus size: 106
2638071 TCGTGAAGTT
* *
2638081 GAAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
1 GAAA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTC
* * *
2638146 CAATATTCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGG
65 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
* * *
2638188 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCC
1 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
*
2638253 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
* *
2638294 GAAGTT-TTTTTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
1 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
* *
2638358 AATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGATATTGG
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
* * *
2638399 GAAATTGTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACATACGTTGTCTGGAGTCC
1 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
* *
2638464 AATATCCTTCGTTGTGAAGTTGAAATTGGCTATGATATTGG
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
* *
2638505 GAAATTGTTTGTTGACAACCAGCGGTTCCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCC
1 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
* *
2638570 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
*
2638611 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
1 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
*
2638676 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-AATATTGA
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA-ATTGG
* * * *
2638717 GAAGTTATTTGTTGATAACCAGCGGTCCCTTCGTAGTGAAGTTGAACATGCGTTGTCTGGAGTCC
1 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
*
2638782 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATATTGG
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
* *
2638823 GAAATTGTTTGTTCACAACCAACGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
1 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
*
2638888 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATATTGG
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
* * *
2638929 GAAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
*
2638994 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
*
2639035 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
1 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
2639100 AAT
66 AAT
2639103 TTTCTTCATG
Statistics
Matches: 860, Mismatches: 52, Indels: 7
0.94 0.06 0.01
Matches are distributed among these distances:
105 100 0.12
106 755 0.88
107 5 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
Found at i:2639703 original size:69 final size:69
Alignment explanation
Indices: 2639592--2639730 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
2639582 ATCAAATTGT
2639592 AAATGTGAGTCCAAAAAATATCAAAGGAATCAAGAGCTCTTTTAATGCTTTCAGAGTTACAAATC
1 AAATGTGAGTCCAAAAAATATCAAAGGAATCAAGAGCTCTTTTAATGCTTTCAGAGTTACAAATC
2639657 TTTG
66 TTTG
2639661 AAATGTGAGTCCAAAAAATATCAAAGGAATCAAGAGCTCTTTTAATGCTTTCAGAGTTACAAATC
1 AAATGTGAGTCCAAAAAATATCAAAGGAATCAAGAGCTCTTTTAATGCTTTCAGAGTTACAAATC
2639726 TTTG
66 TTTG
2639730 A
1 A
2639731 CAAATGTTCA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (69 bp):
AAATGTGAGTCCAAAAAATATCAAAGGAATCAAGAGCTCTTTTAATGCTTTCAGAGTTACAAATC
TTTG
Found at i:2642903 original size:18 final size:17
Alignment explanation
Indices: 2642881--2642928 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
2642871 TGTTAGATTG
2642881 TAAAATAAAAATAAATA
1 TAAAATAAAAATAAATA
2642898 TAAAA-AAGAAATAAA-A
1 TAAAATAA-AAATAAATA
2642914 T-AAAT-AAAATAAATA
1 TAAAATAAAAATAAATA
2642929 AAATAGATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 7 0.25
15 5 0.18
16 4 0.14
17 12 0.43
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (17 bp):
TAAAATAAAAATAAATA
Found at i:2642916 original size:5 final size:5
Alignment explanation
Indices: 2642881--2642933 Score: 56
Period size: 5 Copynumber: 10.4 Consensus size: 5
2642871 TGTTAGATTG
*
2642881 TAAAA TAAAAA TAAATA TAAAA AAGAAA TAAAA T-AAA TAAAA T-AAA
1 TAAAA T-AAAA TAAA-A TAAAA TA-AAA TAAAA TAAAA TAAAA TAAAA
2642927 TAAAA TA
1 TAAAA TA
2642934 GATAACAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
4 8 0.20
5 19 0.46
6 14 0.34
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:2642918 original size:9 final size:9
Alignment explanation
Indices: 2642881--2642938 Score: 64
Period size: 9 Copynumber: 6.3 Consensus size: 9
2642871 TGTTAGATTG
2642881 TAAAATAAA
1 TAAAATAAA
*
2642890 AATAAATATAA
1 TA-AAATA-AA
*
2642901 -AAAAGAAA
1 TAAAATAAA
2642909 TAAAATAAA
1 TAAAATAAA
2642918 TAAAATAAA
1 TAAAATAAA
*
2642927 TAAAATAGA
1 TAAAATAAA
2642936 TAA
1 TAA
2642939 CAGAGGTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
8 2 0.05
9 32 0.76
10 6 0.14
11 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (9 bp):
TAAAATAAA
Found at i:2642985 original size:11 final size:11
Alignment explanation
Indices: 2642964--2642994 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
2642954 GTTAGTAAAC
2642964 AAAAT-AAATA
1 AAAATAAAATA
2642974 AAAATAAAATA
1 AAAATAAAATA
2642985 AAAATAAAAT
1 AAAATAAAAT
2642995 GACTAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:2644317 original size:19 final size:19
Alignment explanation
Indices: 2644295--2644338 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2644285 TTAATAGAAT
* *
2644295 TAATAATAATTAATAATAA
1 TAATAAAAAATAATAATAA
* *
2644314 TAATAAAAAATAATTATTA
1 TAATAAAAAATAATAATAA
2644333 TAATAA
1 TAATAA
2644339 CATATATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAATAAAAAATAATAATAA
Found at i:2645092 original size:62 final size:63
Alignment explanation
Indices: 2645025--2645143 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 63
2645015 TATTTGTTAC
*
2645025 CTATTTAACTTTGAATA-TTAAAGAT-A-TTATATCCTTTACAATATTTCAAATTAAAATAATAT
1 CTATTTAACTTTGAATAGTAAAAGATGACTT-TAT-CTTTACAATATTTCAAATTAAAATAATAT
* * **
2645087 CTATTTAAGTTTGAATAGTAAAAGGTGACTTTATCTTTTGAATATTTCAAATTAAAA
1 CTATTTAACTTTGAATAGTAAAAGATGACTTTATCTTTACAATATTTCAAATTAAAA
2645144 GATATTATTA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
62 16 0.33
63 27 0.55
64 4 0.08
65 2 0.04
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (63 bp):
CTATTTAACTTTGAATAGTAAAAGATGACTTTATCTTTACAATATTTCAAATTAAAATAATAT
Found at i:2651424 original size:17 final size:17
Alignment explanation
Indices: 2651399--2651432 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2651389 TTAATTAAAA
*
2651399 CATGTTTGGGAAGATAT
1 CATGATTGGGAAGATAT
*
2651416 CATGATTGGGTAGATAT
1 CATGATTGGGAAGATAT
2651433 TATATTCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.35
Consensus pattern (17 bp):
CATGATTGGGAAGATAT
Found at i:2653549 original size:19 final size:18
Alignment explanation
Indices: 2653525--2653560 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2653515 AAGGACTTCA
*
2653525 AGAATTTATTGACAAATGG
1 AGAATTAATTGA-AAATGG
2653544 AGAATTAATTGAAAATG
1 AGAATTAATTGAAAATG
2653561 TGATAAACGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (18 bp):
AGAATTAATTGAAAATGG
Found at i:2655096 original size:14 final size:14
Alignment explanation
Indices: 2655069--2655148 Score: 60
Period size: 15 Copynumber: 5.6 Consensus size: 14
2655059 CATCCATCAG
2655069 GAAAAAAAAGAGAAA
1 GAAAAAAAAGA-AAA
*
2655084 AAAAAGAAAAGAAAA
1 GAAAA-AAAAGAAAA
2655099 -AAGAAAAAAGAAAAA
1 GAA-AAAAAAG-AAAA
2655114 GAAAAAAAA-ATAAA
1 GAAAAAAAAGA-AAA
* *
2655128 -ATAAAAAAG-AGA
1 GAAAAAAAAGAAAA
2655140 GAAAAAAAA
1 GAAAAAAAA
2655149 TAAATTGAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
12 2 0.04
13 15 0.28
14 10 0.19
15 19 0.35
16 8 0.15
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.03
Consensus pattern (14 bp):
GAAAAAAAAGAAAA
Found at i:2655106 original size:30 final size:30
Alignment explanation
Indices: 2655070--2655148 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 30
2655060 ATCCATCAGG
*
2655070 AAAAAAAAGAGAAAAAAAAGAAAAGAAAA-
1 AAAAAAAAGAGAAAAAAAAAAAAAGAAAAT
*
2655099 AAGAAAAAAGA-AAAAGAAAAAAAAATAAAAT
1 AA-AAAAAAGAGAAAA-AAAAAAAAAGAAAAT
*
2655130 AAAAAAGAGAGAAAAAAAA
1 AAAAAAAAGAGAAAAAAAA
2655149 TAAATTGAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
29 6 0.14
30 31 0.72
31 6 0.14
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (30 bp):
AAAAAAAAGAGAAAAAAAAAAAAAGAAAAT
Found at i:2655148 original size:1 final size:1
Alignment explanation
Indices: 2655070--2655135 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
2655060 ATCCATCAGG
* * * * * * * * *
2655070 AAAAAAAAGAGAAAAAAAAGAAAAGAAAAAAGAAAAAAGAAAAAGAAAAAAAAATAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2655135 A
1 A
2655136 GAGAGAAAAA
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (1 bp):
A
Found at i:2655152 original size:25 final size:23
Alignment explanation
Indices: 2655070--2655148 Score: 90
Period size: 23 Copynumber: 3.3 Consensus size: 23
2655060 ATCCATCAGG
*
2655070 AAAAAAAAGAGAAAAAAAAGA-A
1 AAAAAAAAGAAAAAAAAAAGAGA
2655092 AAGAAAAAAGAAAAAAGAAAA-AGA
1 AA-AAAAAAGAAAAAA-AAAAGAGA
*
2655116 AAAAAAAATAAAATAAAAAAGAGA
1 AAAAAAAAGAAAA-AAAAAAGAGA
2655140 GAAAAAAAA
1 -AAAAAAAA
2655149 TAAATTGAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.04
23 27 0.55
24 12 0.24
25 8 0.16
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (23 bp):
AAAAAAAAGAAAAAAAAAAGAGA
Found at i:2656587 original size:38 final size:38
Alignment explanation
Indices: 2656545--2656634 Score: 153
Period size: 38 Copynumber: 2.4 Consensus size: 38
2656535 GATCTACAAA
*
2656545 TGGGGAATCTTGAATACTCACATTAGCATGAAAAATGT
1 TGGGGCATCTTGAATACTCACATTAGCATGAAAAATGT
*
2656583 TGGGGCATCTTGAATGCTCACATTAGCATGAAAAATGT
1 TGGGGCATCTTGAATACTCACATTAGCATGAAAAATGT
*
2656621 TGGGGCATTTTGAA
1 TGGGGCATCTTGAA
2656635 GGCCAATTTC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.30
Consensus pattern (38 bp):
TGGGGCATCTTGAATACTCACATTAGCATGAAAAATGT
Found at i:2656731 original size:82 final size:80
Alignment explanation
Indices: 2656583--2656772 Score: 236
Period size: 82 Copynumber: 2.4 Consensus size: 80
2656573 TGAAAAATGT
* * * * *
2656583 TGGGGCATCTTGAATGCTCACATTAGCATGAAAAATGTTGGGGCATTTTGAAGGCCAATTTCAGA
1 TGGGGCATCTTGAAAGCTCACATCAGCAAGAAAAATATTGAGGCATTTTGAAGGCCAATTTCAGA
2656648 CAAAAATGATCCATG
66 CAAAAATGATCCATG
* * * * *
2656663 TGGGGCATTTTGAAAGCTCATATCAGCAAGAAGCAAATATTGAGGCATTTTGTAGGCCCATTTTA
1 TGGGGCATCTTGAAAGCTCACATCAGCAAGAA--AAATATTGAGGCATTTTGAAGGCCAATTTCA
*
2656728 GACAGAAATGATCCATG
64 GACAAAAATGATCCATG
* * *
2656745 TGAGGTATCTTGAAGGCTCACATCAGCA
1 TGGGGCATCTTGAAAGCTCACATCAGCA
2656773 TAAAAAGATA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
80 27 0.29
82 65 0.71
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (80 bp):
TGGGGCATCTTGAAAGCTCACATCAGCAAGAAAAATATTGAGGCATTTTGAAGGCCAATTTCAGA
CAAAAATGATCCATG
Found at i:2658640 original size:130 final size:130
Alignment explanation
Indices: 2658389--2658718 Score: 527
Period size: 130 Copynumber: 2.5 Consensus size: 130
2658379 GTCTTTCTGA
* * * *
2658389 CCATCCATAAGACCTTCAGTGTAGGATGTTTTCAAATGAGATTTTAGAAACTAAGTCTTTGGGGG
1 CCATCCATAAGACCTCCAGTGCAGGATGTTTTCAAATGAGATTTTAGAAACTAAG-CCTTCGGGG
* * *
2658454 GTTTTTTTATTTTAAATCCTCTGGGTTATCTGTAAGCCTTCCGAGCAAGATGATAAGACCTCCGA
65 GTTTCTTGATTTTAAATCCTCTGGGTCATCTGTAAGCCTTCCGAGCAAGATGATAAGACCTCCG-
2658519 GT
129 GT
*
2658521 -CATCCATAAGACCTCCAGTGCATGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGGG
1 CCATCCATAAGACCTCCAGTGCAGGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGGG
*
2658585 TTTCTTGATTTTAAATCCTCTGGGTCATCTGTAAGCCTTCCGAGTAAGATGATAAGACCTCCGGT
66 TTTCTTGATTTTAAATCCTCTGGGTCATCTGTAAGCCTTCCGAGCAAGATGATAAGACCTCCGGT
* * *
2658650 CCATCCATAAGACCTCTAGTGCAGGATGTTTTCAAATGATATTTTAGAAATTAAGCCTTCGGGGG
1 CCATCCATAAGACCTCCAGTGCAGGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGGG
2658715 TTTC
66 TTTC
2658719 CTAATTATCT
Statistics
Matches: 184, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
129 2 0.01
130 131 0.71
131 51 0.28
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (130 bp):
CCATCCATAAGACCTCCAGTGCAGGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGGG
TTTCTTGATTTTAAATCCTCTGGGTCATCTGTAAGCCTTCCGAGCAAGATGATAAGACCTCCGGT
Found at i:2658970 original size:217 final size:217
Alignment explanation
Indices: 2658565--2659085 Score: 717
Period size: 217 Copynumber: 2.4 Consensus size: 217
2658555 ATGAGATTTT
*
2658565 AGAAACTAAGCCTTC-GGGGGTTTCTTGATTTTAAATCCTCTGGGTCATCTGTAAGCCTTCCGAG
1 AGAAACTAAGCCTTCAGGGGGTTTCTTGATTTTAAATCCTCCGGGTCATCTGTAAGCCTTCCGAG
* *
2658629 TAAGATGATAAGACCTCCGGTCCATCCATAAGACCTCTAGTGCAGGATGTTTTCAAATGATATTT
66 CAAGATGATAAGACCTCCGGTCCATCCATAAGACCTCTAGTGCAGGATGTTTTCAAATGAGATTT
* * * *
2658694 TAGAAATTAAGCCTTCGGGGGTTTCCTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTT
131 TAAAAACTAAGCCTTCAGGGGTTTCCTAATTATCTCAAAAGAGTTGTTAAAGAAAGCTAAGCCTT
* * * *
2658759 ACAAAGGGGTTCCTTTACAACTA
196 -CAAAGAGCTTCCTTGACAACCA
*
2658782 AGAAACTAAGCCTTCAGGGGGTTTCTTGATTTTAAATCTTCCGGGTCATCTGTAAGCCTTCCGAG
1 AGAAACTAAGCCTTCAGGGGGTTTCTTGATTTTAAATCCTCCGGGTCATCTGTAAGCCTTCCGAG
* * * *
2658847 CAAGATGATAAGACCTCTGG-CCATCTATAAGACCTCTAGTGCATGATGTTTTTAAATGAGATTT
66 CAAGATGATAAGACCTCCGGTCCATCCATAAGACCTCTAGTGCAGGATGTTTTCAAATGAGATTT
*
2658911 TAAAAACTAAGCCTTTCAGGGGTTTCTTAATTATCTC-AAAGAGTTGTTAAAGAAAGCTAAGCCT
131 TAAAAACTAAGCC-TTCAGGGGTTTCCTAATTATCTCAAAAGAGTTGTTAAAGAAAGCTAAGCCT
**
2658975 TTTAAGAGCTTCCTTGACAACCA
195 TCAAAGAGCTTCCTTGACAACCA
* ****
2658998 AGAAACTAAG-CTTGATTTTTAAAAGTTTCTTGATGTTTAAATCCTCCGGGTCATCTGTAAGCCT
1 AGAAACTAAGCCTTCA-----GGGGGTTTCTTGAT-TTTAAATCCTCCGGGTCATCTGTAAGCCT
*
2659062 TCCAAGCAAGATGATAAGACCTCC
60 TCCGAGCAAGATGATAAGACCTCC
2659086 AGGCAGAATG
Statistics
Matches: 269, Mismatches: 27, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
215 4 0.01
216 26 0.10
217 93 0.35
218 86 0.32
220 10 0.04
221 50 0.19
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (217 bp):
AGAAACTAAGCCTTCAGGGGGTTTCTTGATTTTAAATCCTCCGGGTCATCTGTAAGCCTTCCGAG
CAAGATGATAAGACCTCCGGTCCATCCATAAGACCTCTAGTGCAGGATGTTTTCAAATGAGATTT
TAAAAACTAAGCCTTCAGGGGTTTCCTAATTATCTCAAAAGAGTTGTTAAAGAAAGCTAAGCCTT
CAAAGAGCTTCCTTGACAACCA
Found at i:2660492 original size:14 final size:16
Alignment explanation
Indices: 2660469--2660500 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2660459 TTTATTTTGG
2660469 TTTAAGTATTT-TATT
1 TTTAAGTATTTATATT
2660484 TTTAA-TATTTATATT
1 TTTAAGTATTTATATT
2660499 TT
1 TT
2660501 AGTCACACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTAAGTATTTATATT
Found at i:2661105 original size:2 final size:2
Alignment explanation
Indices: 2661100--2661131 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2661090 GATATATTTG
2661100 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2661132 CTTAATACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2664982 original size:87 final size:90
Alignment explanation
Indices: 2664869--2665044 Score: 241
Period size: 87 Copynumber: 2.0 Consensus size: 90
2664859 TCAAGCTAAG
*
2664869 GTTGAACAAGTTATTCTCATTATGAACTTTTTCTCCCTC-ATCGGATGAG-TTCTCATTATGAAC
1 GTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTTCTCATTATGAAC
*
2664932 TCTCCA-TTGAAATGTTGATCCAAA
66 TCTCCATTTAAAATGTTGATCCAAA
* * * * * *
2664956 GTTGAACAAGTTCTTCTTATTGTGAACTTCTTCTTCCTCTGTTGGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAG-T-TTCTCATTATGA
2665021 ACTCTCCATTTAAAATGTTGATCC
64 ACTCTCCATTTAAAATGTTGATCC
2665045 CTCGAGAGAG
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
87 34 0.45
88 8 0.11
91 20 0.26
92 14 0.18
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.41
Consensus pattern (90 bp):
GTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTTCTCATTATGAAC
TCTCCATTTAAAATGTTGATCCAAA
Found at i:2665281 original size:105 final size:105
Alignment explanation
Indices: 2665103--2665388 Score: 457
Period size: 105 Copynumber: 2.7 Consensus size: 105
2665093 TCTAATAAGC
*
2665103 TCTTCTCTTTATGAACTTCTTCTCCCTCTATCGGATGAGTT-TTTCTCATTATGAACTCTCCATT
1 TCTTCTCATTATGAACTTCTTCTCCCT-TATCGGATGAGTTCTTT-TCATTATGAACTCTCCATT
*
2665167 CGAAATGTTGATCCCTCGAGTGAGGTATTGGGTTGAACAAGT
64 TGAAATGTTGATCCCTCGAGTGAGGTATTGGGTTGAACAAGT
* * * * *
2665209 TCTTCTCATTATGAACTTTTTCTCCCTTGTCGAATAAGTTCTTTTCATTATGAACTCTCCGTTTG
1 TCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTTTCATTATGAACTCTCCATTTG
*
2665274 AAATGTTGATCCCTCGAGTGAGGTGTTGGGTTGAACAAGT
66 AAATGTTGATCCCTCGAGTGAGGTATTGGGTTGAACAAGT
* *
2665314 TCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCATTTG
1 TCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTTTCATTATGAACTCTCCATTTG
2665379 AAATGTTGAT
66 AAATGTTGAT
2665389 TGGTTTATCT
Statistics
Matches: 164, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
105 136 0.83
106 28 0.17
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (105 bp):
TCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTTTCATTATGAACTCTCCATTTG
AAATGTTGATCCCTCGAGTGAGGTATTGGGTTGAACAAGT
Found at i:2667470 original size:17 final size:16
Alignment explanation
Indices: 2667448--2667574 Score: 103
Period size: 17 Copynumber: 7.4 Consensus size: 16
2667438 TTCAAAAAAA
2667448 TTCTCTTCTTTTCTTTTT
1 TTCTCTT-TTTTC-TTTT
2667466 TCTCTCTTTTTTCTTTT
1 T-TCTCTTTTTTCTTTT
*
2667483 CTTCCCTTTTTTCTTTT
1 -TTCTCTTTTTTCTTTT
* *
2667500 TTTTGTTTTTTTCTCTTT
1 TTCT-CTTTTTTCT-TTT
2667518 TTCCTCTTTTTTCTTTT
1 TT-CTCTTTTTTCTTTT
*
2667535 TTCT-TTTTATCTTATTT
1 TTCTCTTTTTTC-T-TTT
* *
2667552 TTTTCTATTTTTTTTTT
1 TTCTCT-TTTTTCTTTT
2667569 TTCTCT
1 TTCTCT
2667575 CATTTTTTAT
Statistics
Matches: 89, Mismatches: 11, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
15 6 0.07
16 5 0.06
17 45 0.51
18 22 0.25
19 11 0.12
ACGTcount: A:0.02, C:0.19, G:0.01, T:0.78
Consensus pattern (16 bp):
TTCTCTTTTTTCTTTT
Found at i:2667484 original size:28 final size:27
Alignment explanation
Indices: 2667456--2667609 Score: 117
Period size: 26 Copynumber: 5.7 Consensus size: 27
2667446 AATTCTCTTC
2667456 TTTTCTTTTTTCTCTCTTTTTTCTTTT
1 TTTTCTTTTTTCTCTCTTTTTTCTTTT
** *
2667483 CTTCCCTTTTTTCT-T-TTTTTT-GTTT
1 -TTTTCTTTTTTCTCTCTTTTTTCTTTT
2667508 TTTTCTCTTTTTC-CTCTTTTTTC--TT
1 TTTTCT-TTTTTCTCTCTTTTTTCTTTT
* *
2667533 TTTTCTTTTTATCT-TATTTTTTTCTATT
1 TTTTCTTTTT-TCTCT-CTTTTTTCTTTT
*
2667561 TTTT-TTTTTTCTCTCATTTTTTATTTT
1 TTTTCTTTTTTCTCTC-TTTTTTCTTTT
*
2667588 TATTTTTATTTTTCTCATCTTT
1 T-TTTCT-TTTTTCTC-TCTTT
2667610 AAAACAAAAG
Statistics
Matches: 102, Mismatches: 9, Indels: 28
0.73 0.06 0.20
Matches are distributed among these distances:
24 8 0.08
25 21 0.21
26 22 0.22
27 17 0.17
28 20 0.20
29 1 0.01
30 11 0.11
31 2 0.02
ACGTcount: A:0.05, C:0.16, G:0.01, T:0.78
Consensus pattern (27 bp):
TTTTCTTTTTTCTCTCTTTTTTCTTTT
Found at i:2667495 original size:35 final size:33
Alignment explanation
Indices: 2667456--2667588 Score: 117
Period size: 35 Copynumber: 3.8 Consensus size: 33
2667446 AATTCTCTTC
*
2667456 TTTTCTTTTTTCTCTCTTTTTTCTTTTCTTCCCTT
1 TTTTCTTTTTTCTCT-TTTTTTATTTT-TTCCCTT
* * *
2667491 TTTTCTTTTTTTTGTTTTTTTCTCTTTTTCCTCTT
1 TTTTCTTTTTTCTCTTTTTTTAT-TTTTTCC-CTT
*
2667526 TTTTCTTTTTTCT-TTTTATCTTATTTTTT-TCTAT
1 TTTTCTTTTTTCTCTTTT-T-TTATTTTTTCCCT-T
*
2667560 TTTTTTTTTTTCTCTCATTTTTTATTTTT
1 TTTTCTTTTTTCTCT--TTTTTTATTTTT
2667589 ATTTTTATTT
Statistics
Matches: 84, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
33 2 0.02
34 29 0.35
35 46 0.55
36 4 0.05
37 3 0.04
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.79
Consensus pattern (33 bp):
TTTTCTTTTTTCTCTTTTTTTATTTTTTCCCTT
Found at i:2667580 original size:17 final size:17
Alignment explanation
Indices: 2667456--2667588 Score: 51
Period size: 18 Copynumber: 7.6 Consensus size: 17
2667446 AATTCTCTTC
*
2667456 TTTTCTTTTTTCTCTC-
1 TTTTTTTTTTTCTCTCA
* * *
2667472 TTTTTTCTTTTCTTCCCT
1 TTTTTTTTTTTC-TCTCA
* * *
2667490 TTTTTCTTTTTTTTGT-T
1 TTTTT-TTTTTTCTCTCA
*
2667507 TTTTTCTCTTTTTC-CTCT
1 TTTTT-T-TTTTTCTCTCA
* *
2667525 TTTTTCTTTTTTCTTTTTA
1 TTTTT-TTTTTTC-TCTCA
* *
2667544 TCTTATTTTTT-TCT-A
1 TTTTTTTTTTTCTCTCA
2667559 TTTTTTTTTTTTCTCTCA
1 -TTTTTTTTTTTCTCTCA
2667577 TTTTTTATTTTT
1 TTTTTT-TTTTT
2667589 ATTTTTATTT
Statistics
Matches: 89, Mismatches: 17, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
15 1 0.01
16 21 0.24
17 27 0.30
18 31 0.35
19 9 0.10
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.79
Consensus pattern (17 bp):
TTTTTTTTTTTCTCTCA
Found at i:2667588 original size:52 final size:50
Alignment explanation
Indices: 2667456--2667600 Score: 147
Period size: 52 Copynumber: 2.8 Consensus size: 50
2667446 AATTCTCTTC
*
2667456 TTTTCTTTTTTCTCTCTTTTTTCTTTTCTTCCCTTTTT-TCTTTTTTTTGTTT
1 TTTTTTTTTTTCTCTCTTTTTTCTTTT-TT--CTTTTTATCTTTTTTTTGTTT
*
2667508 TTTTCTCTTTTTC-CTCTTTTTTCTTTTTTCTTTTTATCTTATTTTTT-TCTAT
1 TTTT-TTTTTTTCTCTCTTTTTTCTTTTTTCTTTTTATCTT-TTTTTTGT-T-T
* *
2667560 TTTTTTTTTTTCTCTCATTTTTT-ATTTTTATTTTTAT-TTTT
1 TTTTTTTTTTTCTCTC-TTTTTTCTTTTTTCTTTTTATCTTTT
2667601 CTCATCTTTA
Statistics
Matches: 81, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
49 6 0.07
50 7 0.09
51 18 0.22
52 38 0.47
53 12 0.15
ACGTcount: A:0.05, C:0.15, G:0.01, T:0.79
Consensus pattern (50 bp):
TTTTTTTTTTTCTCTCTTTTTTCTTTTTTCTTTTTATCTTTTTTTTGTTT
Found at i:2679701 original size:26 final size:26
Alignment explanation
Indices: 2679667--2679751 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
2679657 TGTTTTTTTG
* *
2679667 TTCTGTTCTATATATTCCTCTTTGTC
1 TTCTATTCTATATATTCCTCTCTGTC
* *
2679693 TTCTATTCTCTATGTTCCTCTCTGTC
1 TTCTATTCTATATATTCCTCTCTGTC
* * * *
2679719 TTATATTCTCT-TCTT-TTCTCTGTC
1 TTCTATTCTATATATTCCTCTCTGTC
2679743 TTCTATTCT
1 TTCTATTCT
2679752 CTTGCATGTG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
24 16 0.31
25 3 0.06
26 32 0.63
ACGTcount: A:0.09, C:0.26, G:0.06, T:0.59
Consensus pattern (26 bp):
TTCTATTCTATATATTCCTCTCTGTC
Found at i:2679744 original size:14 final size:14
Alignment explanation
Indices: 2679689--2679753 Score: 52
Period size: 14 Copynumber: 5.1 Consensus size: 14
2679679 TATTCCTCTT
2679689 TGTCTTCTATTCTC
1 TGTCTTCTATTCTC
* * *
2679703 TATGTTC--CTCTC
1 TGTCTTCTATTCTC
*
2679715 TGTCTTATATTCTC
1 TGTCTTCTATTCTC
2679729 T-TC-T-T-TTCTC
1 TGTCTTCTATTCTC
2679739 TGTCTTCTATTCTC
1 TGTCTTCTATTCTC
2679753 T
1 T
2679754 TGCATGTGGG
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
10 6 0.16
11 3 0.08
12 10 0.26
13 3 0.08
14 16 0.42
ACGTcount: A:0.08, C:0.28, G:0.06, T:0.58
Consensus pattern (14 bp):
TGTCTTCTATTCTC
Found at i:2680273 original size:3 final size:3
Alignment explanation
Indices: 2680265--2680321 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
2680255 AATTATTTTT
* **
2680265 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA GGA TAA -ACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
2680313 TAA TAA TAA
1 TAA TAA TAA
2680322 ATATATGAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 1 0.02
3 44 0.96
4 1 0.02
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:2680917 original size:90 final size:90
Alignment explanation
Indices: 2680662--2683543 Score: 3509
Period size: 90 Copynumber: 32.3 Consensus size: 90
2680652 GACGGGTCTC
* * *
2680662 CTCCACTACTCTTTAGGGGAGATCAGACTCAATGATTGATTTGCTTCGCTGCTTCTTCA-GAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* *
2680726 CCAAATCTGAAATAAGAAGACTCTG
66 CCAAATCTGAAATAAGAAGAATCTA
* * * ***
2680751 TTCCACTACT-TATCATGGGAGATCAAACTCGAGG-TTGATTTGCTTTAATGCTTCTTCAGGAAG
1 CTCCACTACTCT-TCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAG
* * *
2680814 ACCAAATTTGAAATAAAAAGAATCTG
65 ACCAAATCTGAAATAAGAAGAATCTA
* * * *
2680840 CTCCACTACTCTTCAGGGGATATCAAACTCAATGATTGAATTG-TCTCGCTGCTTCTTCAGGAAT
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCT-TCGCTGCTTCTTCAGGAAG
* *
2680904 ACCAAAACTGAAATAAGAAGAATCTG
65 ACCAAATCTGAAATAAGAAGAATCTA
* * * * *
2680930 CTCCACTACTCTTTAGGGGAGATAAAACTCAAGGATTGATTTGTTTCGTTGCTTCTTCAGGAATA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* *
2680995 CCAAATCTGAAATAAGAAGAATATG
66 CCAAATCTGAAATAAGAAGAATCTA
* * * * *
2681020 CTCCACTACTCTTCAGGTGAGATCAAACTCAAGGATTGATTCT-CTTTGTTGCTTCTTCAAGAAT
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATT-TGCTTCGCTGCTTCTTCAGGAAG
* * * *
2681084 ACAAAATCTGAAATAAAAAGAATATG
65 ACCAAATCTGAAATAAGAAGAATCTA
* * * ** *
2681110 CTCCACTACTCTTCAGAGAAGATCAAACTCGAGGA-TGATTTGCTTCATTTCTTCTTCAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * *
2681174 CCAAATCTGAAATAAGAAGAGTATG
66 CCAAATCTGAAATAAGAAGAATCTA
* * * * *
2681199 CTCCACTACTCTTCAAGGGAGATCAAACTCAATGATTGATTTGCTTCGTTGTTTCTTCACGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* *
2681264 --AAATATGAAATAAGAAGAATCTG
66 CCAAATCTGAAATAAGAAGAATCTA
* * * *
2681287 CTCCATTACTCTTCAGGGGAGATCAAACTTAAGGATTGATTTGCTTCGGTGCTTCTTCAGGGAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* *
2681352 CCAAATCTGAAATAAGAAGAATATG
66 CCAAATCTGAAATAAGAAGAATCTA
* * * * * * *
2681377 CTCCACTACTTTTCAGGGGATATCAAACTCAAGGATTGAGTTGCTTCGATGTTTCTTCAAGAATA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * *
2681442 TCAAATTTGAAATAAGAAGAATCTG
66 CCAAATCTGAAATAAGAAGAATCTA
* * * *
2681467 CTCCACTACTCTTCA-GGGAGATC-AACTCGAGG-TTGATTTACTTCACTACTTCTTCAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * *
2681529 CCAAATCTGAAATAAAAAGAATATG
66 CCAAATCTGAAATAAGAAGAATCTA
* * * *
2681554 CTCAACTAATCTTCAGGGGAGATCAAACTCAAGGATTGATTTTCTTCACTGCTTCTTCAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
2681619 CCAAATCTGAAATAAGAAGAATCTA
66 CCAAATCTGAAATAAGAAGAATCTA
* * * *
2681644 CTCCACTACTCTTCAGGGGAGATCAAGCACAAGGATTGATTTGCTTCACTACTTCTTCAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
2681709 CCAAATCTGAAATAAGAAGAATCTA
66 CCAAATCTGAAATAAGAAGAATCTA
* * * * * * * *
2681734 CTCTACTACCCTTCAGGGGAGATCAGACT-GAGG-TTGATCTGATTCACTTCTTCTTCAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* *
2681797 CCAAATCAGAAATAAGAAGAATCAA
66 CCAAATCTGAAATAAGAAGAATCTA
* * * * ** * *
2681822 CTCTACTACTCTTCAGTGGAGATCAGACTCGAGG-TTGATTTGCTTAACTACTTCTTCAGGATGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * *
2681886 CCAAATCTAAAATAAGAATAATCTG
66 CCAAATCTGAAATAAGAAGAATCTA
* * *
2681911 CTCCACTACTCTTCA-GGGAAATCAAACTCAAGGATTGATTTGCTTCGTTGTTTCTTCAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
** *
2681975 CTTAATCTAAAATAAGAAGAATCTA
66 CCAAATCTGAAATAAGAAGAATCTA
* * * * * * *
2682000 TTCCACTATTATTCATGGGAGATCAAACTAAAGGAATT-ATTTTCTTCGTTGCTTCTTCAGGAAG
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGG-ATTGATTTGCTTCGCTGCTTCTTCAGGAAG
2682064 ACCAAATCTGAAATAAGAAGAATCTA
65 ACCAAATCTGAAATAAGAAGAATCTA
* * * * *
2682090 -TTC-CTACTCTTCA-GGGAGATCAAACTCAAGGATTGATTTGTTTCGCTGATTTTTTAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * *
2682152 ACAAATCTGAAATAAGAAGAATATG
66 CCAAATCTGAAATAAGAAGAATCTA
* * *
2682177 CTCCACTACTCTTCAGGGGAGGTCAAATTCAAGGATTGATTTGCTTCGCTGTTTCTTCAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
2682242 CCAAATCTGAAATAAGAAGAATCTA
66 CCAAATCTGAAATAAGAAGAATCTA
* * * ** *
2682267 CTCCACTACTCTTCAGGGGAGATCAGACTCGA-GTTTGATTTGCTTAACTTCTTCTTCAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * *
2682331 CCAAATATGAAATAAGAATAATCTT
66 CCAAATCTGAAATAAGAAGAATCTA
* * * *
2682356 CTCCACTACTCTTCAGGGGAAATCAAACTTAAGGATTGATTTGCTTCGTTGTTTCTTCAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* *
2682421 CTAAATCT-AATATAAGAAGAATATA
66 CCAAATCTGAA-ATAAGAAGAATCTA
* *
2682446 TTCCACTACTATTCAGGGGAGATCAAACTCAAGGAATT-ATTTGCTTCGCTGCTTCTTCAGGAAG
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGG-ATTGATTTGCTTCGCTGCTTCTTCAGGAAG
*
2682510 AGCAAATCTGAAATAAGAAGAATCTA
65 ACCAAATCTGAAATAAGAAGAATCTA
* * * * * *
2682536 TTCCACTACTCTTCAGGGGAGATCAGACTCGA-GTTTGATTTGCTTCACTGCTTCTTCTGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
2682600 CCAAATCTGAAATAAGAAGAATCTA
66 CCAAATCTGAAATAAGAAGAATCTA
* * ** * * ** *
2682625 CTCTACCACTCTTCAGTAGAGATCAGACTCGAGG-TTGATTTGCTTAACTGCTTCTTCAGGATGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * *
2682689 CCAAATCTAAAATAAGAATAATCTG
66 CCAAATCTGAAATAAGAAGAATCTA
* * * * *
2682714 CTCCACTACTCTTTAGGGGAAATCAAACTCAAGGATTGTTTTGCTTCGTTGCTTCTTTAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* *
2682779 CTAAATCTAAAATAAGAAGAATCTA
66 CCAAATCTGAAATAAGAAGAATCTA
* * * *
2682804 TTCCACTACTATTCAGGGGAGATCAAACTCAAGGAATT-ATTTTCTTCGCTGCTTCTTTAGGAAG
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGG-ATTGATTTGCTTCGCTGCTTCTTCAGGAAG
2682868 ACCAAATCTGAAATAAGAAGAATCTA
65 ACCAAATCTGAAATAAGAAGAATCTA
* * * * * *
2682894 TTCCACTACTCTTCAAGGGAGATCAAACTCAAGGATTGATTTGTTTCGCTGATTTTTTAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
*
2682959 CCAAATATGAAATAAGAAGAATCTA
66 CCAAATCTGAAATAAGAAGAATCTA
* * *
2682984 CTCCACTACTCTTCAGGGGAGGTTAAACTCAAGGATTGATTTGCTTCGCTGTTTCTTCAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
2683049 CCAAATCTGAAATAAGAAGAATCTA
66 CCAAATCTGAAATAAGAAGAATCTA
* * * * * *
2683074 CTCCATTACTATTCAGGGGAGATCAGACTCGA-GTTTGATTTGCTTCGCTGCTTCTTTAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* *
2683138 CTAAATATGAAATAAGAAGAATCTA
66 CCAAATCTGAAATAAGAAGAATCTA
* * * * * * * **
2683163 CTCTACCATTATTCAGCGGAGATCAGACTCGAGG-TTGATTTGCTTAACTGCTTCTTCAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * *
2683227 CCAAATCTAAAATAAGAATAATCTG
66 CCAAATCTGAAATAAGAAGAATCTA
*
2683252 CTCCACTACTCTTCAGGGGAAATCAAACTCAAGGATTGATTTGCTTCG-TGCTTCTTCAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * *
2683316 CCAAATCTAAAATAAAAAGAATATA
66 CCAAATCTGAAATAAGAAGAATCTA
* * * * *
2683341 TTCCACTACTATTCAGGGGAGATCAAACTCAAGAAATT-ATTTTCTTCACTGCTTCTTCAGGAAG
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAG-GATTGATTTGCTTCGCTGCTTCTTCAGGAAG
2683405 ACCAAATCTGAAATAAGAAGAATCTA
65 ACCAAATCTGAAATAAGAAGAATCTA
* * * * *
2683431 CTCCACTACTCTTCAAGGGAGATCAAACTCAAGGATTGATTTGTTTCGCTTCTTTTTCAGGAATA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
*
2683496 CCAAATCTGAAATAAGAAGAATCTG
66 CCAAATCTGAAATAAGAAGAATCTA
2683521 CTCCACTACTCTTCAGGGGAGAT
1 CTCCACTACTCTTCAGGGGAGAT
2683544 AAAAATTTAT
Statistics
Matches: 2414, Mismatches: 343, Indels: 71
0.85 0.12 0.03
Matches are distributed among these distances:
86 3 0.00
87 116 0.05
88 219 0.09
89 769 0.32
90 1294 0.54
91 13 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (90 bp):
CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
CCAAATCTGAAATAAGAAGAATCTA
Found at i:2681223 original size:179 final size:180
Alignment explanation
Indices: 2680662--2683543 Score: 3518
Period size: 179 Copynumber: 16.1 Consensus size: 180
2680652 GACGGGTCTC
* * *
2680662 CTCCACTACTCTTTAGGGGAGATCAGACTCAATGATTGATTTGCTTCGCTGCTTCTTCA-GAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * * *
2680726 CCAAATCTGAAATAAGAAGACTCTGTTCCACTACT-TATCATGGGAGATCAAACTCGAGG-TTGA
66 CCAAATCTGAAATAAGAAGAATCTGCTCCACTACTCT-TCAGGGGAGATCAAACTCAAGGATTGA
*** * * *
2680789 TTTGCTTTAATGCTTCTTCAGGAAGACCAAATTTGAAATAAAAAGAATCTG
130 TTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
* * * *
2680840 CTCCACTACTCTTCAGGGGATATCAAACTCAATGATTGAATTG-TCTCGCTGCTTCTTCAGGAAT
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCT-TCGCTGCTTCTTCAGGAAG
* * *
2680904 ACCAAAACTGAAATAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGATAAAACTCAAGGATTGA
65 ACCAAATCTGAAATAAGAAGAATCTGCTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGA
* * * * *
2680969 TTTGTTTCGTTGCTTCTTCAGGAATACCAAATCTGAAATAAGAAGAATATG
130 TTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
* * * * *
2681020 CTCCACTACTCTTCAGGTGAGATCAAACTCAAGGATTGATTCT-CTTTGTTGCTTCTTCAAGAAT
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATT-TGCTTCGCTGCTTCTTCAGGAAG
* * * * * *
2681084 ACAAAATCTGAAATAAAAAGAATATGCTCCACTACTCTTCAGAGAAGATCAAACTCGAGGA-TGA
65 ACCAAATCTGAAATAAGAAGAATCTGCTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGA
** * * * *
2681148 TTTGCTTCATTTCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAGTATG
130 TTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
* * * * *
2681199 CTCCACTACTCTTCAAGGGAGATCAAACTCAATGATTGATTTGCTTCGTTGTTTCTTCACGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * *
2681264 --AAATATGAAATAAGAAGAATCTGCTCCATTACTCTTCAGGGGAGATCAAACTTAAGGATTGAT
66 CCAAATCTGAAATAAGAAGAATCTGCTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGAT
* * * *
2681327 TTGCTTCGGTGCTTCTTCAGGGAGACCAAATCTGAAATAAGAAGAATATG
131 TTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
* * * * * * *
2681377 CTCCACTACTTTTCAGGGGATATCAAACTCAAGGATTGAGTTGCTTCGATGTTTCTTCAAGAATA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * *
2681442 TCAAATTTGAAATAAGAAGAATCTGCTCCACTACTCTTCA-GGGAGATC-AACTCGAGG-TTGAT
66 CCAAATCTGAAATAAGAAGAATCTGCTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGAT
* * * * * *
2681504 TTACTTCACTACTTCTTCAGGAAGACCAAATCTGAAATAAAAAGAATATG
131 TTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
* * * *
2681554 CTCAACTAATCTTCAGGGGAGATCAAACTCAAGGATTGATTTTCTTCACTGCTTCTTCAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * *
2681619 CCAAATCTGAAATAAGAAGAATCTACTCCACTACTCTTCAGGGGAGATCAAGCACAAGGATTGAT
66 CCAAATCTGAAATAAGAAGAATCTGCTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGAT
* *
2681684 TTGCTTCACTACTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
131 TTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
* * * * * * * *
2681734 CTCTACTACCCTTCAGGGGAGATCAGACT-GAGG-TTGATCTGATTCACTTCTTCTTCAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* ** * * * *
2681797 CCAAATCAGAAATAAGAAGAATCAACTCTACTACTCTTCAGTGGAGATCAGACTCGAGG-TTGAT
66 CCAAATCTGAAATAAGAAGAATCTGCTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGAT
** * * * * *
2681861 TTGCTTAACTACTTCTTCAGGATGACCAAATCTAAAATAAGAATAATCTG
131 TTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
* * *
2681911 CTCCACTACTCTTCA-GGGAAATCAAACTCAAGGATTGATTTGCTTCGTTGTTTCTTCAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
** * ** * * * *
2681975 CTTAATCTAAAATAAGAAGAATCTATTCCACTATTATTCATGGGAGATCAAACTAAAGGAATT-A
66 CCAAATCTGAAATAAGAAGAATCTGCTCCACTACTCTTCAGGGGAGATCAAACTCAAGG-ATTGA
* *
2682039 TTTTCTTCGTTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
130 TTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
* * * * *
2682090 -TTC-CTACTCTTCA-GGGAGATCAAACTCAAGGATTGATTTGTTTCGCTGATTTTTTAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * * *
2682152 ACAAATCTGAAATAAGAAGAATATGCTCCACTACTCTTCAGGGGAGGTCAAATTCAAGGATTGAT
66 CCAAATCTGAAATAAGAAGAATCTGCTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGAT
*
2682217 TTGCTTCGCTGTTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
131 TTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
* * * ** *
2682267 CTCCACTACTCTTCAGGGGAGATCAGACTCGA-GTTTGATTTGCTTAACTTCTTCTTCAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * * * *
2682331 CCAAATATGAAATAAGAATAATCTTCTCCACTACTCTTCAGGGGAAATCAAACTTAAGGATTGAT
66 CCAAATCTGAAATAAGAAGAATCTGCTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGAT
* * * *
2682396 TTGCTTCGTTGTTTCTTCAGGAAGACTAAATCT-AATATAAGAAGAATATA
131 TTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAA-ATAAGAAGAATCTA
* *
2682446 TTCCACTACTATTCAGGGGAGATCAAACTCAAGGAATT-ATTTGCTTCGCTGCTTCTTCAGGAAG
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGG-ATTGATTTGCTTCGCTGCTTCTTCAGGAAG
* ** * * *
2682510 AGCAAATCTGAAATAAGAAGAATCTATTCCACTACTCTTCAGGGGAGATCAGACTCGA-GTTTGA
65 ACCAAATCTGAAATAAGAAGAATCTGCTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGA
* *
2682574 TTTGCTTCACTGCTTCTTCTGGAAGACCAAATCTGAAATAAGAAGAATCTA
130 TTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
* * ** * * ** *
2682625 CTCTACCACTCTTCAGTAGAGATCAGACTCGAGG-TTGATTTGCTTAACTGCTTCTTCAGGATGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * * * *
2682689 CCAAATCTAAAATAAGAATAATCTGCTCCACTACTCTTTAGGGGAAATCAAACTCAAGGATTGTT
66 CCAAATCTGAAATAAGAAGAATCTGCTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGAT
* * * *
2682754 TTGCTTCGTTGCTTCTTTAGGAAGACTAAATCTAAAATAAGAAGAATCTA
131 TTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
* * * *
2682804 TTCCACTACTATTCAGGGGAGATCAAACTCAAGGAATT-ATTTTCTTCGCTGCTTCTTTAGGAAG
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGG-ATTGATTTGCTTCGCTGCTTCTTCAGGAAG
** *
2682868 ACCAAATCTGAAATAAGAAGAATCTATTCCACTACTCTTCAAGGGAGATCAAACTCAAGGATTGA
65 ACCAAATCTGAAATAAGAAGAATCTGCTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGA
* * * * *
2682933 TTTGTTTCGCTGATTTTTTAGGAAGACCAAATATGAAATAAGAAGAATCTA
130 TTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
* * *
2682984 CTCCACTACTCTTCAGGGGAGGTTAAACTCAAGGATTGATTTGCTTCGCTGTTTCTTCAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * * * * *
2683049 CCAAATCTGAAATAAGAAGAATCTACTCCATTACTATTCAGGGGAGATCAGACTCGA-GTTTGAT
66 CCAAATCTGAAATAAGAAGAATCTGCTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGAT
* * *
2683113 TTGCTTCGCTGCTTCTTTAGGAAGACTAAATATGAAATAAGAAGAATCTA
131 TTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
* * * * * * * **
2683163 CTCTACCATTATTCAGCGGAGATCAGACTCGAGG-TTGATTTGCTTAACTGCTTCTTCAGGAAGA
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
* * *
2683227 CCAAATCTAAAATAAGAATAATCTGCTCCACTACTCTTCAGGGGAAATCAAACTCAAGGATTGAT
66 CCAAATCTGAAATAAGAAGAATCTGCTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGAT
* * *
2683292 TTGCTTCG-TGCTTCTTCAGGAAGACCAAATCTAAAATAAAAAGAATATA
131 TTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
* * * * *
2683341 TTCCACTACTATTCAGGGGAGATCAAACTCAAGAAATT-ATTTTCTTCACTGCTTCTTCAGGAAG
1 CTCCACTACTCTTCAGGGGAGATCAAACTCAAG-GATTGATTTGCTTCGCTGCTTCTTCAGGAAG
* *
2683405 ACCAAATCTGAAATAAGAAGAATCTACTCCACTACTCTTCAAGGGAGATCAAACTCAAGGATTGA
65 ACCAAATCTGAAATAAGAAGAATCTGCTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGA
* * * * *
2683470 TTTGTTTCGCTTCTTTTTCAGGAATACCAAATCTGAAATAAGAAGAATCTG
130 TTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
2683521 CTCCACTACTCTTCAGGGGAGAT
1 CTCCACTACTCTTCAGGGGAGAT
2683544 AAAAATTTAT
Statistics
Matches: 2318, Mismatches: 352, Indels: 66
0.85 0.13 0.02
Matches are distributed among these distances:
176 14 0.01
177 407 0.18
178 536 0.23
179 715 0.31
180 640 0.28
181 6 0.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (180 bp):
CTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGATTTGCTTCGCTGCTTCTTCAGGAAGA
CCAAATCTGAAATAAGAAGAATCTGCTCCACTACTCTTCAGGGGAGATCAAACTCAAGGATTGAT
TTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTA
Found at i:2691209 original size:26 final size:26
Alignment explanation
Indices: 2691159--2691229 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
2691149 TTTTTCCGTT
* **
2691159 CTCTCTGTCTTCTATTCTC--CATTG
1 CTCTCTGTCTTCTCTTCTCTTTGTTG
*
2691183 CTCTCTTTCTTCTCTTCTCTTTGTTG
1 CTCTCTGTCTTCTCTTCTCTTTGTTG
*
2691209 CTCTCTGTCTTCTGTTCTCTT
1 CTCTCTGTCTTCTCTTCTCTT
2691230 GCAGATGAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 17 0.44
26 22 0.56
ACGTcount: A:0.03, C:0.32, G:0.08, T:0.56
Consensus pattern (26 bp):
CTCTCTGTCTTCTCTTCTCTTTGTTG
Found at i:2691651 original size:24 final size:24
Alignment explanation
Indices: 2691624--2691685 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
2691614 ACTGATTTGC
* *
2691624 TTGTAACTGGGCTTTGGGTTTACT
1 TTGTAACTGGGCTTCGGGTTTAAT
** *
2691648 TTGTATTTGGGCTCCGGGTTTAAT
1 TTGTAACTGGGCTTCGGGTTTAAT
*
2691672 TTGTAGCTGGGCTT
1 TTGTAACTGGGCTT
2691686 ACCTTGTAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.11, C:0.13, G:0.31, T:0.45
Consensus pattern (24 bp):
TTGTAACTGGGCTTCGGGTTTAAT
Found at i:2691727 original size:3 final size:3
Alignment explanation
Indices: 2691721--2691770 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
2691711 TATTATTTAT
* ** *
2691721 TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA GGA TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2691769 TA
1 TA
2691771 GATATATGGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:2691747 original size:21 final size:21
Alignment explanation
Indices: 2691721--2691770 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
2691711 TATTATTTAT
* *
2691721 TAATAATAATAATGATAATAA
1 TAATAATAATAAGGATAAAAA
2691742 TAATAATAATAAGGATAAAAA
1 TAATAATAATAAGGATAAAAA
2691763 TAATAATA
1 TAATAATA
2691771 GATATATGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (21 bp):
TAATAATAATAAGGATAAAAA
Found at i:2691786 original size:24 final size:24
Alignment explanation
Indices: 2691737--2691787 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
2691727 TAATAATGAT
*
2691737 AATAATAATAATAATAAGGATAAA
1 AATAATAATAATAATAAGGACAAA
* *
2691761 AATAATAATAGAT-ATATGGACGAA
1 AATAATAATA-ATAATAAGGACAAA
2691785 AAT
1 AAT
2691788 CACTGTCTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.25
Consensus pattern (24 bp):
AATAATAATAATAATAAGGACAAA
Found at i:2695627 original size:19 final size:19
Alignment explanation
Indices: 2695603--2695659 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
2695593 TGGGGTGTCA
2695603 CATTTGTGTTTGTGGATAG
1 CATTTGTGTTTGTGGATAG
*
2695622 CATTTG-G--GGT-G-TCA-
1 CATTTGTGTTTGTGGAT-AG
2695636 CATTTGTGTTTGTGGATAG
1 CATTTGTGTTTGTGGATAG
2695655 CATTT
1 CATTT
2695660 TCACATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 14
0.64 0.04 0.31
Matches are distributed among these distances:
14 7 0.24
15 3 0.10
16 2 0.07
17 2 0.07
18 3 0.10
19 12 0.41
ACGTcount: A:0.16, C:0.09, G:0.30, T:0.46
Consensus pattern (19 bp):
CATTTGTGTTTGTGGATAG
Found at i:2695633 original size:33 final size:33
Alignment explanation
Indices: 2695591--2695659 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
2695581 TAGGCCCAAT
2695591 TTTGGGGTGTCACATTTGTGTTTGTGGATAGCA
1 TTTGGGGTGTCACATTTGTGTTTGTGGATAGCA
2695624 TTTGGGGTGTCACATTTGTGTTTGTGGATAGCA
1 TTTGGGGTGTCACATTTGTGTTTGTGGATAGCA
2695657 TTT
1 TTT
2695660 TCACATCGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.14, C:0.09, G:0.32, T:0.45
Consensus pattern (33 bp):
TTTGGGGTGTCACATTTGTGTTTGTGGATAGCA
Found at i:2699417 original size:41 final size:41
Alignment explanation
Indices: 2699353--2699440 Score: 149
Period size: 41 Copynumber: 2.1 Consensus size: 41
2699343 ACGAACTAAG
**
2699353 TATATTATGTCTGTAGTAATGTGATTGAGTATCTTTATGTT
1 TATATTATGTCTACAGTAATGTGATTGAGTATCTTTATGTT
*
2699394 TATATTATGTCTACAGTAGTGTGATTGAGTATCTTTATGTT
1 TATATTATGTCTACAGTAATGTGATTGAGTATCTTTATGTT
2699435 TATATT
1 TATATT
2699441 TTTAGAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.25, C:0.06, G:0.18, T:0.51
Consensus pattern (41 bp):
TATATTATGTCTACAGTAATGTGATTGAGTATCTTTATGTT
Found at i:2699691 original size:13 final size:14
Alignment explanation
Indices: 2699673--2699710 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
2699663 ATATTACTAT
2699673 ATTAAGAAAATA-A
1 ATTAAGAAAATATA
*
2699686 ATTAAGACAATATA
1 ATTAAGAAAATATA
*
2699700 ATTAAAAAAAT
1 ATTAAGAAAAT
2699711 TCAATGGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (14 bp):
ATTAAGAAAATATA
Found at i:2703851 original size:63 final size:63
Alignment explanation
Indices: 2703784--2703903 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 63
2703774 TATTTGTTAC
* *
2703784 CTATTTAACTTTGAATATTAAAA-ATTACTATATCCTTTAT-AATATTTCAAATTAAAATAATAT
1 CTATTTAACTTTGAATAGTAAAAGATGACTATAT-CTTT-TGAATATTTCAAATTAAAATAATAT
* * * *
2703847 CTATTTAAGTTTGAATAGTAAAAGGTGAGTTTATCTTTTGAATATTTCAAATTAAAA
1 CTATTTAACTTTGAATAGTAAAAGATGACTATATCTTTTGAATATTTCAAATTAAAA
2703904 GATATTATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
62 1 0.02
63 42 0.86
64 6 0.12
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.43
Consensus pattern (63 bp):
CTATTTAACTTTGAATAGTAAAAGATGACTATATCTTTTGAATATTTCAAATTAAAATAATAT
Found at i:2703915 original size:34 final size:34
Alignment explanation
Indices: 2703877--2703943 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
2703867 AAAGGTGAGT
*
2703877 TTATCT-TTTGAATATTTCAA-ATTAAAAGATATTA
1 TTATCTGTTT-AA-ATTTCAATATCAAAAGATATTA
*
2703911 TTATCTGTTTAAATTTGAATATCAAAAGATATT
1 TTATCTGTTTAAATTTCAATATCAAAAGATATT
2703944 TAGTTGGAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 6 0.21
34 20 0.69
35 3 0.10
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.46
Consensus pattern (34 bp):
TTATCTGTTTAAATTTCAATATCAAAAGATATTA
Found at i:2712732 original size:20 final size:21
Alignment explanation
Indices: 2712697--2712738 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
2712687 TTTGCTATAA
2712697 TTATGAGATAAAGAAATTATT
1 TTATGAGATAAAGAAATTATT
2712718 TTATGAGAT-AAGAAATTATT
1 TTATGAGATAAAGAAATTATT
2712738 T
1 T
2712739 ACCATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.40
Consensus pattern (21 bp):
TTATGAGATAAAGAAATTATT
Found at i:2712800 original size:12 final size:12
Alignment explanation
Indices: 2712783--2712817 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
2712773 ACTCAAGAAT
2712783 AATATATATATA
1 AATATATATATA
*
2712795 AATATATATATT
1 AATATATATATA
2712807 AATA-ATATATA
1 AATATATATATA
2712818 TCTCAAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
AATATATATATA
Found at i:2713986 original size:59 final size:58
Alignment explanation
Indices: 2713901--2714363 Score: 432
Period size: 59 Copynumber: 7.9 Consensus size: 58
2713891 ACATTCCATA
* * * * * *
2713901 GGAAATTCATACAATTCA-TATAATTTCCTTATCATATTAGCACTCTCAGTGCTCTATCC
1 GGAAA-TCATACACTT-AGTATGATTTCCTTATCATTTTAGCACACTAAGTGCTCTATCT
* * * * *
2713960 GGAAGATCATACACTTTGTATGATTTCCCTCTCATTTTAGCACACGAAGTGCCCTATCT
1 GGAA-ATCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAGTGCTCTATCT
* * * * * * *
2714019 GAAAATCTATATAATTAGTATGATTT-TTCTATCATTTTAGCACACAAAGTGCCCTATTT
1 GGAAATC-ATACACTTAGTATGATTTCCT-TATCATTTTAGCACACTAAGTGCTCTATCT
* * *
2714078 GAAAATACATACCCTTAGTATGATTTCCTTATC-TTTGTAGCACA-TGAAGTGCCCTATCT
1 GGAAAT-CATACACTTAGTATGATTTCCTTATCATTT-TAGCACACT-AAGTGCTCTATCT
* * * *
2714137 GGAAACCCATACACTTAGTATGATTTCCTTACCATTTTAGCACATTTAGTGCTCTATCT
1 GGAAA-TCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAGTGCTCTATCT
* * * *
2714196 GGAAATCCATACCCTCAGTATGATTTCCTTACCATTTTAGCACACTTAGTGCTCTATCT
1 GGAAAT-CATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAGTGCTCTATCT
* * * * * *
2714255 GGAAATCAATACGCTCAATATGATTTCCTTACCATTTTAGCACGCTTAGTGCTCTATCT
1 GGAAATC-ATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAGTGCTCTATCT
* * * *
2714314 GTAAATCCATACACTCAGTATGATTTCCTTATCCTTTTAACACAC-AAGTG
1 GGAAAT-CATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAGTG
2714364 TCATTTAGTA
Statistics
Matches: 343, Mismatches: 47, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
58 11 0.03
59 324 0.94
60 8 0.02
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (58 bp):
GGAAATCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAGTGCTCTATCT
Found at i:2722721 original size:12 final size:12
Alignment explanation
Indices: 2722704--2722728 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2722694 TAACCATTCA
2722704 TCTTTCTTCTCC
1 TCTTTCTTCTCC
2722716 TCTTTCTTCTCC
1 TCTTTCTTCTCC
2722728 T
1 T
2722729 ACGATTATTT
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:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (12 bp):
TCTTTCTTCTCC
Found at i:2723516 original size:22 final size:21
Alignment explanation
Indices: 2723491--2723545 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
2723481 AGTGATCATC
*
2723491 AAATTTTTATCTAAATGTTAT-A
1 AAATTTTTAT-TAAA-ATTATCA
*
2723513 AAATGTTTATTAAAATTATCA
1 AAATTTTTATTAAAATTATCA
2723534 AAATTTTATATT
1 AAATTTT-TATT
2723546 TATTATAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 4 0.14
21 11 0.39
22 13 0.46
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (21 bp):
AAATTTTTATTAAAATTATCA
Found at i:2729693 original size:21 final size:21
Alignment explanation
Indices: 2729633--2729713 Score: 94
Period size: 21 Copynumber: 4.0 Consensus size: 21
2729623 AAATAACCAA
**
2729633 CAAATTCGCAACGCGA-ACTC
1 CAAATTCGCAACGCGATTTTC
* ** *
2729653 CAATTTCGCAAC-ATAGTTTC
1 CAAATTCGCAACGCGATTTTC
2729673 CAAATTCGCAACGCGATTTTC
1 CAAATTCGCAACGCGATTTTC
2729694 CAAATTCGCAACGCGATTTT
1 CAAATTCGCAACGCGATTTT
2729714 TATTTTCAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
19 1 0.02
20 24 0.48
21 25 0.50
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (21 bp):
CAAATTCGCAACGCGATTTTC
Found at i:2729863 original size:22 final size:22
Alignment explanation
Indices: 2729838--2729913 Score: 116
Period size: 22 Copynumber: 3.5 Consensus size: 22
2729828 TCTCTCACTC
2729838 TCTACGGCGACATCCATCCCCA
1 TCTACGGCGACATCCATCCCCA
2729860 TCTACGGCGACATCCATCCCCA
1 TCTACGGCGACATCCATCCCCA
* *
2729882 TCTCCGGCGACATCCGTCCCCA
1 TCTACGGCGACATCCATCCCCA
* *
2729904 TTTCCGGCGA
1 TCTACGGCGA
2729914 TCCCCTCTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.18, C:0.45, G:0.17, T:0.20
Consensus pattern (22 bp):
TCTACGGCGACATCCATCCCCA
Found at i:2730286 original size:20 final size:20
Alignment explanation
Indices: 2730261--2730306 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
2730251 GAAACTTCAT
2730261 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
* *
2730281 TCGCAACGCGAGAATGAAAT
1 TCGCAACGCGAAAATGAAAA
2730301 TCGCAA
1 TCGCAA
2730307 TACGATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:2731788 original size:20 final size:20
Alignment explanation
Indices: 2731771--2731837 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
2731761 AAGAAAATTG
2731771 AATTCGCAACGCGAAAATCA
1 AATTCGCAACGCGAAAATCA
*
2731791 AATTCTCAACGC-AAAAGTCA
1 AATTCGCAACGCGAAAA-TCA
* *
2731811 AATTCGCAACGCGAAAGTTA
1 AATTCGCAACGCGAAAATCA
2731831 AATTCGC
1 AATTCGC
2731838 GTTGCGATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.10
20 34 0.83
21 3 0.07
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.19
Consensus pattern (20 bp):
AATTCGCAACGCGAAAATCA
Found at i:2732122 original size:18 final size:18
Alignment explanation
Indices: 2732099--2732134 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2732089 AAGCCGGTTG
2732099 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
2732117 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
2732135 CCTTTTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.06, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:2734461 original size:12 final size:12
Alignment explanation
Indices: 2734440--2734473 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2734430 GGTTGTGGGT
*
2734440 TTTGAGATTGTG
1 TTTGATATTGTG
2734452 TTTGATATTGTG
1 TTTGATATTGTG
*
2734464 TTTGGTATTG
1 TTTGATATTG
2734474 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:2735284 original size:20 final size:20
Alignment explanation
Indices: 2735240--2735367 Score: 88
Period size: 20 Copynumber: 6.5 Consensus size: 20
2735230 CAAAACATTT
* *
2735240 GTGTTGCGAAAATAAAA-AC
1 GTGTTGCGAAATTAAAATTC
2735259 -TGTTGCGAAATTAAAATTC
1 GTGTTGCGAAATTAAAATTC
*
2735278 GTGTTGCG-AATTCAAAAATC
1 GTGTTGCGAAATT-AAAATTC
* **
2735298 GAT-ATGCGAAAACAAAATTC
1 G-TGTTGCGAAATTAAAATTC
*
2735318 GTGTTGCG-AATTAGAAAATC
1 GTGTTGCGAAATTA-AAATTC
* * *
2735338 TTGTTGCGAAAATGAAACTT-
1 GTGTTGCG-AAATTAAAATTC
2735358 GTGTTGCGAA
1 GTGTTGCGAA
2735368 TTCAGAAATT
Statistics
Matches: 84, Mismatches: 16, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
18 15 0.18
19 11 0.13
20 48 0.57
21 6 0.07
22 4 0.05
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (20 bp):
GTGTTGCGAAATTAAAATTC
Found at i:2735317 original size:40 final size:39
Alignment explanation
Indices: 2735240--2735376 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 39
2735230 CAAAACATTT
* **
2735240 GTGTTGCGAAAAT-AAAAA-CTGTTGCGAAATTAAAATTC
1 GTGTTGCG-AATTCAAAAATCTGTTGCGAAAACAAAATTC
2735278 GTGTTGCGAATTCAAAAATC-GATATGCGAAAACAAAATTC
1 GTGTTGCGAATTCAAAAATCTG-T-TGCGAAAACAAAATTC
* *
2735318 GTGTTGCGAATT-AGAAAATCTTGTTGCGAAAATGAAACTT-
1 GTGTTGCGAATTCA-AAAATC-TGTTGCGAAAA-CAAAATTC
*
2735358 GTGTTGCGAATTCAGAAAT
1 GTGTTGCGAATTCAAAAAT
2735377 TGAGTTGCGA
Statistics
Matches: 84, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
37 3 0.04
38 14 0.17
39 3 0.04
40 56 0.67
41 7 0.08
42 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (39 bp):
GTGTTGCGAATTCAAAAATCTGTTGCGAAAACAAAATTC
Found at i:2735384 original size:40 final size:41
Alignment explanation
Indices: 2735260--2735387 Score: 133
Period size: 40 Copynumber: 3.2 Consensus size: 41
2735250 AATAAAAACT
* * *
2735260 GTTGCG-AAATTAAAATTCGTGTTGCGAATTCAAAAATCGA
1 GTTGCGAAAATCAAAATTCGTGTTGCGAATTCAGAAATTGA
*
2735300 -TATGCGAAAA-CAAAATTCGTGTTGCGAATT-AGAAAATCT-T
1 GT-TGCGAAAATCAAAATTCGTGTTGCGAATTCAG-AAAT-TGA
* *
2735340 GTTGCGAAAATGAAACTT-GTGTTGCGAATTCAGAAATTGA
1 GTTGCGAAAATCAAAATTCGTGTTGCGAATTCAGAAATTGA
2735380 GTTGCGAA
1 GTTGCGAA
2735388 TCTGAAATCG
Statistics
Matches: 73, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
39 3 0.04
40 59 0.81
41 11 0.15
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.30
Consensus pattern (41 bp):
GTTGCGAAAATCAAAATTCGTGTTGCGAATTCAGAAATTGA
Found at i:2735394 original size:40 final size:39
Alignment explanation
Indices: 2735240--2735417 Score: 118
Period size: 40 Copynumber: 4.5 Consensus size: 39
2735230 CAAAACATTT
* * *
2735240 GTGTTGCGAAAATA-AAAA-CT-GTTGCGAAATTAAAATTC
1 GTGTTGCG-AATTAGAAAATCTAGTTGCGAAAATGAAA-TC
* **
2735278 GTGTTGCGAATTCA-AAAATCGA-TATGCGAAAACAAAATTC
1 GTGTTGCGAATT-AGAAAATCTAGT-TGCGAAAATGAAA-TC
* *
2735318 GTGTTGCGAATTAGAAAATCTTGTTGCGAAAATGAAACTT
1 GTGTTGCGAATTAGAAAATCTAGTTGCGAAAATGAAA-TC
**
2735358 GTGTTGCGAATTCAG-AAAT-TGAGTTGCGAATCTGAAATC
1 GTGTTGCGAATT-AGAAAATCT-AGTTGCGAAAATGAAATC
* *
2735397 GCGTTGCGAATCTGGAAAATC
1 GTGTTGCGAAT-TAGAAAATC
2735418 GCATTGTGAA
Statistics
Matches: 113, Mismatches: 16, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
37 3 0.03
38 13 0.12
39 16 0.14
40 78 0.69
41 3 0.03
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.29
Consensus pattern (39 bp):
GTGTTGCGAATTAGAAAATCTAGTTGCGAAAATGAAATC
Found at i:2735402 original size:19 final size:19
Alignment explanation
Indices: 2735360--2735410 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
2735350 TGAAACTTGT
* *
2735360 GTTGCGAATTCAGAAATTGA
1 GTTGCGAA-TCTGAAATCGA
*
2735380 GTTGCGAATCTGAAATCGC
1 GTTGCGAATCTGAAATCGA
2735399 GTTGCGAATCTG
1 GTTGCGAATCTG
2735411 GAAAATCGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (19 bp):
GTTGCGAATCTGAAATCGA
Found at i:2738564 original size:60 final size:59
Alignment explanation
Indices: 2738482--2738635 Score: 184
Period size: 60 Copynumber: 2.5 Consensus size: 59
2738472 TTAAATTCCA
* * * *
2738482 TAAACTTTTAAATATTTTAATTTCATCCCTAAACTATTAT-TACCATTCTAAATTAGTCCT
1 TAAACTTTTAAACATTTCAATTTCATCCC-AAACTATGATCT-CCATTCTAAATTAGTCCC
* *
2738542 TAGACTTTTAAACATTTCAATTTCATCTCCAAACTATGATCTTCATTCTAAATTAGTCCC
1 TAAACTTTTAAACATTTCAATTTCATC-CCAAACTATGATCTCCATTCTAAATTAGTCCC
* *
2738602 TAAACATTTTAAACATTCCAGTTTCATCCTCAAA
1 TAAAC-TTTTAAACATTTCAATTTCATCC-CAAA
2738636 TTCATCCAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
60 54 0.67
61 27 0.33
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.41
Consensus pattern (59 bp):
TAAACTTTTAAACATTTCAATTTCATCCCAAACTATGATCTCCATTCTAAATTAGTCCC
Found at i:2739014 original size:227 final size:228
Alignment explanation
Indices: 2738582--2739034 Score: 890
Period size: 227 Copynumber: 2.0 Consensus size: 228
2738572 AAACTATGAT
2738582 CTTCATTCTAAATTAGTCCCTAAACATTTTAAACATTCCAGTTTCATCCTCAAATTCATCCAAAT
1 CTTCATTCTAAATTAGTCCCTAAACATTTTAAACATTCCAGTTTCATCCTCAAATTCATCCAAAT
2738647 ATGTAATTAGTTTCAACCACAATTTAACCTAAATTTTATTTTTTCAAACATATAATAATATAACA
66 ATGTAATTAGTTTCAACCACAATTTAACCTAAATTTTATTTTTTCAAACATATAATAATATAACA
2738712 TGGTCTAATGATTTTATTAACAATGGATGTGATTTATATATACATATAGTTTGAGATGAAAATGA
131 TGGTCTAATGATTTTATTAACAATGGATGTGATTTATATATACATATAGTTTGAGATGAAAATGA
2738777 AAATATTCAAAAAGTTTGGGGACCAATTTAGAC
196 AAATATTCAAAAAGTTTGGGGACCAATTTAGAC
2738810 CTTCATTCTAAATTAGTCCCTAAACATTTTAAACATTCCAGTTTCATCCTCAAATTCATCCAAAT
1 CTTCATTCTAAATTAGTCCCTAAACATTTTAAACATTCCAGTTTCATCCTCAAATTCATCCAAAT
2738875 ATGTAATTAGTTTCAACCACAATTTAACCTAAATTTT-TTTTTTCAAACATATAATAATATAACA
66 ATGTAATTAGTTTCAACCACAATTTAACCTAAATTTTATTTTTTCAAACATATAATAATATAACA
*
2738939 TGGTCTAATGATTTTATTAACAATGGATGTGATTTATATATACATATAGTTTGAGATGAAACTGA
131 TGGTCTAATGATTTTATTAACAATGGATGTGATTTATATATACATATAGTTTGAGATGAAAATGA
2739004 AAATATTCAAAAAGTTTGGGGACCAATTTAG
196 AAATATTCAAAAAGTTTGGGGACCAATTTAG
2739035 GTTAAAGGTC
Statistics
Matches: 224, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
227 122 0.54
228 102 0.46
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (228 bp):
CTTCATTCTAAATTAGTCCCTAAACATTTTAAACATTCCAGTTTCATCCTCAAATTCATCCAAAT
ATGTAATTAGTTTCAACCACAATTTAACCTAAATTTTATTTTTTCAAACATATAATAATATAACA
TGGTCTAATGATTTTATTAACAATGGATGTGATTTATATATACATATAGTTTGAGATGAAAATGA
AAATATTCAAAAAGTTTGGGGACCAATTTAGAC
Found at i:2739117 original size:60 final size:60
Alignment explanation
Indices: 2739053--2739176 Score: 153
Period size: 60 Copynumber: 2.1 Consensus size: 60
2739043 TCATAGTTTG
* ** *
2739053 GGGATGAAATT-GAA-ATGTACAAAAGTTTAAGGACTAATTTAAAATATTAGTTATAATGTA
1 GGGATGAAATTAGAACAT-TACAAAA-TTTAAGGACCAATTTAAAATAAAAGTCATAATGTA
** *
2739113 GGGATGAAATTAGAACATTTGAAAATTTAAGGACCAATTTAAAATAAAAGTCATAATTTA
1 GGGATGAAATTAGAACATTACAAAATTTAAGGACCAATTTAAAATAAAAGTCATAATGTA
2739173 GGGA
1 GGGA
2739177 CATGTGATGC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 45 0.82
61 8 0.15
62 2 0.04
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.31
Consensus pattern (60 bp):
GGGATGAAATTAGAACATTACAAAATTTAAGGACCAATTTAAAATAAAAGTCATAATGTA
Found at i:2740794 original size:49 final size:49
Alignment explanation
Indices: 2740733--2740983 Score: 333
Period size: 49 Copynumber: 5.1 Consensus size: 49
2740723 CATAAGTAAT
* * * * *
2740733 GTCAGACGTGCTAAATCATCATTAATAGTAGCATCACTGTAAAAAAGAT
1 GTCAGACGTGCTAAATCATCATTAATAGTAGCACCACCGTCACAAAGAC
* * *
2740782 GTGATACATGCTAAATCATCATTAATAGTAGCACCACCGTCACAAAGAC
1 GTCAGACGTGCTAAATCATCATTAATAGTAGCACCACCGTCACAAAGAC
* * * * *
2740831 GTCAGACGTGCTAAATCATCATTAATATTAGTAACACCATCACAAAGAT
1 GTCAGACGTGCTAAATCATCATTAATAGTAGCACCACCGTCACAAAGAC
* *
2740880 GTCAGACGTGATAAATCAACATTAATAGTAGCACCACCGTCACAAAGAC
1 GTCAGACGTGCTAAATCATCATTAATAGTAGCACCACCGTCACAAAGAC
* *
2740929 GTCATA-TTGCTAAATCATCATTAATAGTAGCACCACCGTCACAAAGAC
1 GTCAGACGTGCTAAATCATCATTAATAGTAGCACCACCGTCACAAAGAC
*
2740977 ATCAGAC
1 GTCAGAC
2740984 TTATTAAATG
Statistics
Matches: 172, Mismatches: 29, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
48 43 0.25
49 129 0.75
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.24
Consensus pattern (49 bp):
GTCAGACGTGCTAAATCATCATTAATAGTAGCACCACCGTCACAAAGAC
Found at i:2742319 original size:125 final size:126
Alignment explanation
Indices: 2742179--2742420 Score: 319
Period size: 125 Copynumber: 1.9 Consensus size: 126
2742169 TAAATATTGC
*
2742179 TTCGATTAATTAAATTGAAACCTCGAGAAAAAACGACT-ATCAAATTAAGAATTCACCTAATTAA
1 TTCGAATAATTAAATTGAAACCTCGAGAAAAAACGA-TGATCAAATTAAGAATTCACCTAATTAA
*
2742243 AGG-CTAAATGTGAAATCAAGCCTAAGA-TGGAGGCTCTAATATTAATCTTAATTAATTATGA
65 AGGACTAAATGTGAAATCAAGCCTAA-ACTGGAGGCTCTAATATTAATCCTAATTAATTATGA
* * * * ** * *
2742304 TTCGAATAATTAAATTGGAACCTCGGGGAAAAGCGATGATCAAATTAAGAATTCTTCTAATTTAT
1 TTCGAATAATTAAATTGAAACCTCGAGAAAAAACGATGATCAAATTAAGAATTCACCTAATTAAA
* ***
2742369 GGATTAAATGTGAAATTTGGCCTAAACTGGAGGCTCTAATATTAATCCTAAT
66 GGACTAAATGTGAAATCAAGCCTAAACTGGAGGCTCTAATATTAATCCTAAT
2742421 CAACTTTTAA
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
124 1 0.01
125 57 0.57
126 42 0.42
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (126 bp):
TTCGAATAATTAAATTGAAACCTCGAGAAAAAACGATGATCAAATTAAGAATTCACCTAATTAAA
GGACTAAATGTGAAATCAAGCCTAAACTGGAGGCTCTAATATTAATCCTAATTAATTATGA
Found at i:2742836 original size:23 final size:24
Alignment explanation
Indices: 2742810--2742858 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
2742800 ATTACATAGA
*
2742810 TATTCAAATATATATAT-TATTTT
1 TATTAAAATATATATATGTATTTT
*
2742833 TATTAAAATATATGTATGTATTTT
1 TATTAAAATATATATATGTATTTT
2742857 TA
1 TA
2742859 AAATCATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (24 bp):
TATTAAAATATATATATGTATTTT
Found at i:2743822 original size:19 final size:21
Alignment explanation
Indices: 2743784--2743822 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2743774 TGAAAACCCG
2743784 CACGAAAAGAATAGACAGCAA
1 CACGAAAAGAATAGACAGCAA
2743805 CACGAAAAGAA-A-ACAGCA
1 CACGAAAAGAATAGACAGCA
2743823 GTAGCCATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 11 0.61
ACGTcount: A:0.59, C:0.21, G:0.18, T:0.03
Consensus pattern (21 bp):
CACGAAAAGAATAGACAGCAA
Found at i:2744210 original size:133 final size:134
Alignment explanation
Indices: 2743958--2744221 Score: 431
Period size: 133 Copynumber: 2.0 Consensus size: 134
2743948 GGAAAAAAAA
*
2743958 GAGGGTGGTTTTGGTTTTAGGGTGTTTCGATCTACGATTTGAGGTATTTTTATATTTTTCGGCCA
1 GAGGGTGGTTTTGATTTTAGGGTGTTTCGATCTACGATTTGAGGTATTTTTATATTTTTCGGCCA
* * * *
2744023 CCGTGAATAGTGACTGGTGGTCGGAATAGTAACCGGAATAGCAACCGGCGGTGACCGGAATAGTG
66 CCGTGAATAGTGACTGGTGGCCGGAATAGTAACCAGAATAGCAACCGGCAGTGACCAGAATAGTG
2744088 CAAG
131 CAAG
2744092 GAGGGTGG-TTTGATTTTAGGGTGTTTCGATCTACGATTTGAGGTATTTTTATATTTTTCGGCCA
1 GAGGGTGGTTTTGATTTTAGGGTGTTTCGATCTACGATTTGAGGTATTTTTATATTTTTCGGCCA
* * * * *
2744156 CTGTGAATAGTGACTGGTGGCCGGAATAGTTACCATAATAGTAACCGGCAGTGACCATAATAGTG
66 CCGTGAATAGTGACTGGTGGCCGGAATAGTAACCAGAATAGCAACCGGCAGTGACCAGAATAGTG
2744221 C
131 C
2744222 CCGGCGGTAA
Statistics
Matches: 120, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
133 112 0.93
134 8 0.07
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.33
Consensus pattern (134 bp):
GAGGGTGGTTTTGATTTTAGGGTGTTTCGATCTACGATTTGAGGTATTTTTATATTTTTCGGCCA
CCGTGAATAGTGACTGGTGGCCGGAATAGTAACCAGAATAGCAACCGGCAGTGACCAGAATAGTG
CAAG
Found at i:2744234 original size:22 final size:22
Alignment explanation
Indices: 2744187--2744234 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
2744177 CGGAATAGTT
*
2744187 ACCATAATAGTAACCGGCAGTG
1 ACCATAATAGTAACCGGCAGTA
** *
2744209 ACCATAATAGTGCCCGGCGGTA
1 ACCATAATAGTAACCGGCAGTA
2744231 ACCA
1 ACCA
2744235 GGTGGTGACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.27, G:0.23, T:0.17
Consensus pattern (22 bp):
ACCATAATAGTAACCGGCAGTA
Found at i:2744306 original size:30 final size:30
Alignment explanation
Indices: 2744270--2744338 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
2744260 GAGGGAGTTT
*
2744270 AGAGAGAAGAGAGAGCTTCTCTCTCCTTAG
1 AGAGAGAAGAGAGAGCTTCTCTCCCCTTAG
2744300 AGAGAGAAGAGAGAGCTTCTCTCCCCTTAG
1 AGAGAGAAGAGAGAGCTTCTCTCCCCTTAG
2744330 AGAGAGAAG
1 AGAGAGAAG
2744339 CAAAAATGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (30 bp):
AGAGAGAAGAGAGAGCTTCTCTCCCCTTAG
Found at i:2748925 original size:20 final size:20
Alignment explanation
Indices: 2748900--2748938 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2748890 TTTTCAAAGG
*
2748900 CATGCACCGATGCATCAATC
1 CATGCACCGATGCACCAATC
*
2748920 CATGCATCGATGCACCAAT
1 CATGCACCGATGCACCAAT
2748939 GAATAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:2749083 original size:64 final size:63
Alignment explanation
Indices: 2748949--2749107 Score: 196
Period size: 64 Copynumber: 2.5 Consensus size: 63
2748939 GAATAAATTG
* * * *
2748949 AACATCGAATGCGTTTCATGCACCGATGCACTATTCTGCATCGATGCACTCAGATTTTATGAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGTCTGCATCGATGCACTCAGATTTTATGAA
* * * *
2749012 AACATCGAATGCATTTGATGCATCGATGCACAAGTCATGCATCGATTCACTCAGGCTATTT-T-C
1 AACATCGAATGCATTTCATGCATCGATGCACAAGTC-TGCATCGATGCACTCA-GAT-TTTATGA
2749075 A
63 A
*
2749076 AACATCGAATGCATTTTATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
2749108 CTTGGTGCAC
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
63 31 0.37
64 47 0.56
65 3 0.04
66 3 0.04
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (63 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGTCTGCATCGATGCACTCAGATTTTATGAA
Found at i:2756485 original size:21 final size:21
Alignment explanation
Indices: 2756459--2756502 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2756449 ACTCCGGGAG
*
2756459 CTAGTTCTTCTCGAGCTGCTC
1 CTAGTTCTTCTCGAGCTCCTC
*
2756480 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCTCGAGCTCCTC
2756501 CT
1 CT
2756503 CCTCCTCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.07, C:0.36, G:0.16, T:0.41
Consensus pattern (21 bp):
CTAGTTCTTCTCGAGCTCCTC
Found at i:2757515 original size:20 final size:20
Alignment explanation
Indices: 2757490--2757528 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2757480 TTTTCAAAGG
*
2757490 CATGCACCGATGCATCAATC
1 CATGCACCGATGCACCAATC
*
2757510 CATGCATCGATGCACCAAT
1 CATGCACCGATGCACCAAT
2757529 GAATAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:2757577 original size:19 final size:19
Alignment explanation
Indices: 2757553--2757589 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2757543 TCGAATGTGT
2757553 TTCATGCACCGATGCACTA
1 TTCATGCACCGATGCACTA
*
2757572 TTCATGCATCGATGCACT
1 TTCATGCACCGATGCACT
2757590 CGGATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (19 bp):
TTCATGCACCGATGCACTA
Found at i:2757607 original size:64 final size:64
Alignment explanation
Indices: 2757539--2757698 Score: 198
Period size: 64 Copynumber: 2.5 Consensus size: 64
2757529 GAATAAATTG
** * * *
2757539 AACATCGAATGTGTTTCATGCACCGATGCACTATTCATGCATCGATGCACTC-GGAT-TTTATGA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGTCATGCATCGATGCACTCTGGATATTT-T-A
2757602 A
64 A
** * *
2757603 AACATCGAATGCATTTGGTGCATCGATGCACAAGTCATGCATCGATGCACTCTGGCTATTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGTCATGCATCGATGCACTCTGGATATTTTAA
*
2757667 AACATCGAATGCATTTTATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
2757699 CTTGGTGCAC
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
64 76 0.92
65 4 0.05
66 3 0.04
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGTCATGCATCGATGCACTCTGGATATTTTAA
Found at i:2774496 original size:13 final size:13
Alignment explanation
Indices: 2774478--2774507 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2774468 AATGACACGC
*
2774478 AATGTAAGTCGTA
1 AATGTAAGTCATA
2774491 AATGTAAGTCATA
1 AATGTAAGTCATA
2774504 AATG
1 AATG
2774508 CGTGTCATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (13 bp):
AATGTAAGTCATA
Found at i:2774614 original size:85 final size:86
Alignment explanation
Indices: 2774498--2774656 Score: 212
Period size: 85 Copynumber: 1.9 Consensus size: 86
2774488 GTAAATGTAA
* * * * *
2774498 GTCATAAATGCGTGTCATAAATTTATAACACACAAATGTGTGTCGTCT-TCATTTATGACGGGGG
1 GTCATAAATACGTGTCATAAACTTATAACACACAAATGCGTGTCATCTGACATTTATGACGGGGG
2774562 CGTCAATGACGCGCAATGCGC
66 CGTCAATGACGCGCAATGCGC
* * * * *
2774583 GTCATAAATACGTGTCATATACTTATGACACACAATTGCGTGTCATCTGAGATTTATGACGGTGG
1 GTCATAAATACGTGTCATAAACTTATAACACACAAATGCGTGTCATCTGACATTTATGACGGGGG
*
2774648 CTTCAATGA
66 CGTCAATGA
2774657 AGCTCATTTG
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
85 41 0.66
86 21 0.34
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (86 bp):
GTCATAAATACGTGTCATAAACTTATAACACACAAATGCGTGTCATCTGACATTTATGACGGGGG
CGTCAATGACGCGCAATGCGC
Found at i:2775498 original size:136 final size:136
Alignment explanation
Indices: 2775214--2775991 Score: 1101
Period size: 136 Copynumber: 5.7 Consensus size: 136
2775204 GGAAACAAAA
* *
2775214 ATCCTTAGATAACCACATGTCCTCATCACGAAGGAACCATGTTATCTCAAATATTTTAAAGATGG
1 ATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATTTTAAAGATGG
* * * *
2775279 CCAAATGTCC-CGTCACGAAGGAACAATGTCATCTACCAATCAAAACTCCTTATCACGAAGGAGC
66 CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGAAGGAGC
*
2775343 TGTGTC
131 CGTGTC
* * * *
2775349 ATCCTTAGATAACCAGATGTCCTTATCACGAAGGAACCATTTTATCTTAAATATTTTAAAGATGG
1 ATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATTTTAAAGATGG
2775414 CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGAAGGAGC
66 CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGAAGGAGC
*
2775479 CATGTC
131 CGTGTC
* **
2775485 ATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACTGTGTTATCTCAAATATTTTAAAGATGG
1 ATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATTTTAAAGATGG
* *
2775550 CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCATAATCACGAAGGAGC
66 CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGAAGGAGC
* **
2775615 TGCATC
131 CGTGTC
* *
2775621 ATCCTTAGATAACTAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATTTTAAAGATGG
1 ATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATTTTAAAGATGG
** * *
2775686 CCAGAACTCCTCATCACGAAGGAACAATGTCATCTACCAATCA-AACTTCTCATCACGAAGGAGT
66 CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGAAGGAGC
*
2775750 CGCGTC
131 CGTGTC
* * * ** *
2775756 ATCCTTAGATAACCATACGTCCTCATCATGAATGAACCATGTTATCTCAAACGTCTTAAAGATGG
1 ATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATTTTAAAGATGG
* * *
2775821 CCAGATGTCCTCATCAAGAAGGAACAATGTCATCTACCAATCAGAACTACTCATCACGAAGGAGT
66 CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGAAGGAGC
*
2775886 CGCGTC
131 CGTGTC
* * * ** * *
2775892 ATCCTTAGATAACCAGGCGTCCTCATCACGAAGGAACCGTGTTATCACCATTTATCTCTAAACAT
1 ATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCATGTTATC-TCAAATAT-TTTAAAGAT
* * *
2775957 GACCAAATGTCCTCATCAAGAAGGAACAATGTCAT
64 GGCCAGATGTCCTCATCACGAAGGAACAATGTCAT
2775992 ACATCATTTT
Statistics
Matches: 580, Mismatches: 59, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
135 188 0.32
136 350 0.60
137 3 0.01
138 39 0.07
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (136 bp):
ATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATTTTAAAGATGG
CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGAAGGAGC
CGTGTC
Found at i:2775516 original size:43 final size:40
Alignment explanation
Indices: 2775414--2775521 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 40
2775404 TTAAAGATGG
*
2775414 CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAA
1 CCAGATGTCCTCATCACGAAGGAACAATGTCATCTAACAA
* ** * * *
2775454 TCAGAACTCCTCATCACGAAGGAGCCATGTCATCCTTAGATAA
1 CCAGATGTCCTCATCACGAAGGAACAATGTCAT-C-TA-ACAA
2775497 CCAGATGTCCTCATCACGAAGGAAC
1 CCAGATGTCCTCATCACGAAGGAAC
2775522 TGTGTTATCT
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
40 28 0.52
41 1 0.02
42 2 0.04
43 23 0.43
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (40 bp):
CCAGATGTCCTCATCACGAAGGAACAATGTCATCTAACAA
Found at i:2775759 original size:271 final size:272
Alignment explanation
Indices: 2775214--2775991 Score: 1125
Period size: 271 Copynumber: 2.9 Consensus size: 272
2775204 GGAAACAAAA
2775214 ATCCTTAGATAACCACATGTCCTCATCACGAAGGAACCATGTTATCTCAAATATTTTAAAGATGG
1 ATCCTTAGATAACCACATGTCCTCATCACGAAGGAACCATGTTATCTCAAATATTTTAAAGATGG
* * * * *
2775279 CCAAATGTCC-CGTCACGAAGGAACAATGTCATCTACCAATCAAAACTCCTTATCACGAAGGAGC
66 CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCATAATCACGAAGGAGC
* * * * * *
2775343 TGTGTCATCCTTAGATAACCAGATGTCCTTATCACGAAGGAACCATTTTATCTTAAATATTTTAA
131 TGCGTCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATTTTAA
*
2775408 AGATGGCCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGA
196 AGATGGCCAGAAGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGA
*
2775473 AGGAGCCATGTC
261 AGGAGCCACGTC
* **
2775485 ATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACTGTGTTATCTCAAATATTTTAAAGATGG
1 ATCCTTAGATAACCACATGTCCTCATCACGAAGGAACCATGTTATCTCAAATATTTTAAAGATGG
2775550 CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCATAATCACGAAGGAGC
66 CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCATAATCACGAAGGAGC
* *
2775615 TGCATCATCCTTAGATAACTAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATTTTAA
131 TGCGTCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATTTTAA
* *
2775680 AGATGGCCAGAACTCCTCATCACGAAGGAACAATGTCATCTACCAATCA-AACTTCTCATCACGA
196 AGATGGCCAGAAGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGA
* *
2775744 AGGAGTCGCGTC
261 AGGAGCCACGTC
* * * * ** *
2775756 ATCCTTAGATAACCATACGTCCTCATCATGAATGAACCATGTTATCTCAAACGTCTTAAAGATGG
1 ATCCTTAGATAACCACATGTCCTCATCACGAAGGAACCATGTTATCTCAAATATTTTAAAGATGG
* *
2775821 CCAGATGTCCTCATCAAGAAGGAACAATGTCATCTACCAATCAGAACT-ACTCATCACGAAGGAG
66 CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCA-TAATCACGAAGGAG
* * **
2775885 -TCGCGTCATCCTTAGATAACCAGGCGTCCTCATCACGAAGGAACCGTGTTATCACCATTTATCT
130 CT-GCGTCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATC-TCAAATAT-T
* * * *
2775949 CTAAACATGACCA-AATGTCCTCATCAAGAAGGAACAATGTCAT
192 TTAAAGATGGCCAGAA-GTCCTCATCACGAAGGAACAATGTCAT
2775992 ACATCATTTT
Statistics
Matches: 457, Mismatches: 44, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
270 2 0.00
271 258 0.56
272 161 0.35
273 36 0.08
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (272 bp):
ATCCTTAGATAACCACATGTCCTCATCACGAAGGAACCATGTTATCTCAAATATTTTAAAGATGG
CCAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCATAATCACGAAGGAGC
TGCGTCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATTTTAA
AGATGGCCAGAAGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGA
AGGAGCCACGTC
Found at i:2779782 original size:136 final size:136
Alignment explanation
Indices: 2779580--2780619 Score: 1431
Period size: 136 Copynumber: 7.6 Consensus size: 136
2779570 GAATCTAGCA
* *
2779580 ATAGGTCGAACAAGTTCTTCTCATTATGAATTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
1 ATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
** ** * * * * * *
2779645 ATGAACTCTCCATCAGAAATGGCAATCCCTCAAGTGAGACGTTGA-TGATTCAAAGTGTTGTGAA
66 ATGAACTCTCCATTTGAAATGTTAATCCCTCAAGCGAGGC-ATCACTGATTCAAAATGTCGTGAA
**
2779709 TCGAGCA
130 TCGAGTG
* * *
2779716 ATAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGATTTCTTCTCATT
1 ATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
* * *
2779781 ATGAACTCTCCATTTGAAATGTTAATCCCTCAAGTGATGCATCACTGATTCAAAATGAT-GTGAG
66 ATGAACTCTCCATTTGAAATGTTAATCCCTCAAGCGAGGCATCACTGATTCAAAATG-TCGTGAA
2779845 TCGAGTG
130 TCGAGTG
* *
2779852 ATAGGTCGAACAAGCTCTTCTTATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATT
1 ATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
* * **
2779917 GTAAACTCTCCATTTGAAATGTTAATCCCTCAAGCGAGGCATCACTGATTTGAAATGTCGTGAAT
66 ATGAACTCTCCATTTGAAATGTTAATCCCTCAAGCGAGGCATCACTGATTCAAAATGTCGTGAAT
2779982 CGAGTG
131 CGAGTG
* *
2779988 ATAGGTCGAACAAACTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGACGAGTTCTTCTCATT
1 ATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
*
2780053 ATGAACTCTCCATTTGAAATGTTAATCCCTCAAGCGAGGCATCACTGATTTAAAAT-TACGTGAA
66 ATGAACTCTCCATTTGAAATGTTAATCCCTCAAGCGAGGCATCACTGATTCAAAATGT-CGTGAA
2780117 TCGAGTG
130 TCGAGTG
*
2780124 ATAGGTCGAACAAGCTCTTCTCATTATGAACTTGTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
1 ATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
*
2780189 ATGAACTCTCCATTTGAAATGTTAATCCCTCAAGCGAGGCATCACTGATTCAAAATATCGTGAAT
66 ATGAACTCTCCATTTGAAATGTTAATCCCTCAAGCGAGGCATCACTGATTCAAAATGTCGTGAAT
2780254 CGAGTG
131 CGAGTG
** * * * *
2780260 ATATCTCGAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCTATCGAATGAGTTCTTCCCATT
1 ATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
* * * *
2780325 ATGAACTGTCCATTTGAAATGTTAATCTCTCAAGCGAGGCGTCATTGATTCAAAAT-TCCGTGAA
66 ATGAACTCTCCATTTGAAATGTTAATCCCTCAAGCGAGGCATCACTGATTCAAAATGT-CGTGAA
2780389 TCGAGTG
130 TCGAGTG
* * * *
2780396 ATAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTTTTGGACGAGTTCTTCTCATT
1 ATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
** ** **** * * * **
2780461 ATGAACTCTCCATCGGAAATGTTAATTTCTCAAATTTGTCGTCACTTATTTGAAATGTCGTGAAT
66 ATGAACTCTCCATTTGAAATGTTAATCCCTCAAGCGAGGCATCACTGATTCAAAATGTCGTGAAT
*
2780526 CGAGCG
131 CGAGTG
* * *
2780532 ATAGGTCGAACAAGCTATTCTCATTATGAACTTCCTCTCCCTCTGTTGGATGAGTTCTTCTCATT
1 ATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
* * *
2780597 ATGAAATCTCTATTGGAAATGTT
66 ATGAACTCTCCATTTGAAATGTT
2780620 GATTGGTTTA
Statistics
Matches: 818, Mismatches: 79, Indels: 14
0.90 0.09 0.02
Matches are distributed among these distances:
135 5 0.01
136 810 0.99
137 3 0.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (136 bp):
ATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
ATGAACTCTCCATTTGAAATGTTAATCCCTCAAGCGAGGCATCACTGATTCAAAATGTCGTGAAT
CGAGTG
Found at i:2783713 original size:13 final size:14
Alignment explanation
Indices: 2783680--2783713 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2783670 AGTGTTTAAA
*
2783680 AATTTTAGAAAACT
1 AATTTTTGAAAACT
2783694 AATTTTTGAAAACT
1 AATTTTTGAAAACT
2783708 -ATTTTT
1 AATTTTT
2783714 CACTATCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (14 bp):
AATTTTTGAAAACT
Found at i:2784026 original size:9 final size:9
Alignment explanation
Indices: 2784012--2784095 Score: 51
Period size: 10 Copynumber: 8.6 Consensus size: 9
2784002 TTTTCTTTCC
2784012 CTTTTTTTT
1 CTTTTTTTT
2784021 CTTTTTTTTT
1 C-TTTTTTTT
2784031 CTTTTTTTGTTT
1 C--TTTTT-TTT
2784043 CTTTATTTTCT
1 CTTT-TTTT-T
*
2784054 CTCTTTTTT
1 CTTTTTTTT
*
2784063 ATGTTTTTTT
1 CT-TTTTTTT
* * * *
2784073 GTTATATCT
1 CTTTTTTTT
2784082 CTTTTTTTT
1 CTTTTTTTT
2784091 CTTTT
1 CTTTT
2784096 CTCGTATTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
9 17 0.29
10 25 0.43
11 12 0.21
12 4 0.07
ACGTcount: A:0.05, C:0.12, G:0.04, T:0.80
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:2784061 original size:26 final size:24
Alignment explanation
Indices: 2784013--2784090 Score: 74
Period size: 26 Copynumber: 3.2 Consensus size: 24
2784003 TTTCTTTCCC
2784013 TTTTT-TTTCTTTTTTTT-TC-TT
1 TTTTTGTTTCTTTTTTTTCTCTTT
2784034 TTTTTGTTTCTTTATTTTCTCTCTTT
1 TTTTTGTTTCTTT-TTTT-TCTCTTT
*
2784060 TTTATGTTT-TTTTGTTATATCTCTTT
1 TTTTTGTTTCTTTT-TT-T-TCTCTTT
2784086 TTTTT
1 TTTTT
2784091 CTTTTCTCGT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
21 5 0.11
22 7 0.15
23 4 0.09
24 2 0.04
25 7 0.15
26 22 0.47
ACGTcount: A:0.05, C:0.10, G:0.04, T:0.81
Consensus pattern (24 bp):
TTTTTGTTTCTTTTTTTTCTCTTT
Found at i:2784070 original size:34 final size:31
Alignment explanation
Indices: 2784012--2784075 Score: 83
Period size: 34 Copynumber: 2.0 Consensus size: 31
2784002 TTTTCTTTCC
*
2784012 CTTTTTTTTCTTTTTTTTTCTTTTTTTGTTT
1 CTTTTTTTTCTTTTTTTATCTTTTTTTGTTT
*
2784043 CTTTATTTTCTCTCTTTTTTATGTTTTTTTGTT
1 CTTT-TTTT-TCT-TTTTTTATCTTTTTTTGTT
2784076 ATATCTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 4 0.14
32 4 0.14
33 3 0.11
34 17 0.61
ACGTcount: A:0.03, C:0.11, G:0.05, T:0.81
Consensus pattern (31 bp):
CTTTTTTTTCTTTTTTTATCTTTTTTTGTTT
Found at i:2785996 original size:20 final size:20
Alignment explanation
Indices: 2785955--2786003 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
2785945 TCGATTTAGT
2785955 TGAAATGATTAGCCAAAGAAA
1 TGAAAT-ATTAGCCAAAGAAA
*
2785976 TGTAATATTAG-CAAAGAAAA
1 TGAAATATTAGCCAAAG-AAA
2785996 TGAAATAT
1 TGAAATAT
2786004 AACTCAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.20
20 15 0.60
21 5 0.20
ACGTcount: A:0.53, C:0.06, G:0.16, T:0.24
Consensus pattern (20 bp):
TGAAATATTAGCCAAAGAAA
Found at i:2787704 original size:126 final size:126
Alignment explanation
Indices: 2787494--2787732 Score: 334
Period size: 126 Copynumber: 1.9 Consensus size: 126
2787484 TATTACTTCG
* *
2787494 AATAATTAAATTGGAACCTCGAGAAAAAGCAAGGATCAAATTAATAATTCACCTAATTAAAGGAC
1 AATAATTAAATTGGAACCTCGAGAAAAAGCAAGGACCAAATTAAGAATTCACCTAATTAAAGGAC
* * * *
2787559 TAAATTTGAAATCAAGCCTAATACGGAGGCTCTAATATTAATCTTAATTAATTATGATTCA
66 TAAATGTGAAATCAAGCCTAAAACAGAGGCTCTAATATTAATCCTAATTAATTATGATTCA
* * * * * * *
2787620 AATAATTAAATTGGAACCTTGAGGAAAAGCGATGACCAAATTAAGAATTCTCCTAATTTAAGGAT
1 AATAATTAAATTGGAACCTCGAGAAAAAGCAAGGACCAAATTAAGAATTCACCTAATTAAAGGAC
* * *
2787685 TAAATGTGAAATTAGGCCTAAAATAGAGGCTCTAATATTAATCCTAAT
66 TAAATGTGAAATCAAGCCTAAAACAGAGGCTCTAATATTAATCCTAAT
2787733 CAAATTTTAA
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
126 97 1.00
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (126 bp):
AATAATTAAATTGGAACCTCGAGAAAAAGCAAGGACCAAATTAAGAATTCACCTAATTAAAGGAC
TAAATGTGAAATCAAGCCTAAAACAGAGGCTCTAATATTAATCCTAATTAATTATGATTCA
Found at i:2788211 original size:2 final size:2
Alignment explanation
Indices: 2788156--2788194 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2788146 GATATTCAAG
2788156 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2788195 TTTTTATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2791648 original size:31 final size:31
Alignment explanation
Indices: 2791495--2791644 Score: 230
Period size: 31 Copynumber: 4.8 Consensus size: 31
2791485 CCCGCATGAC
*
2791495 CAGTCCATATGTTTCGAAGAACATAGGTAAT
1 CAGTCCATATGTCTCGAAGAACATAGGTAAT
*
2791526 CAGTCCATATGTCCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCTCGAAGAACATAGGTAAT
* *
2791557 CAGTCTATATGTCCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCTCGAAGAACATAGGTAAT
* *
2791588 CAGTCCATATAT-TCTGAAGAACATAGATAAT
1 CAGTCCATATGTCTC-GAAGAACATAGGTAAT
2791619 CAGTCCATATGTCTCGAAGAACATAG
1 CAGTCCATATGTCTCGAAGAACATAG
2791645 ATAACCCTCG
Statistics
Matches: 109, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
30 1 0.01
31 106 0.97
32 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (31 bp):
CAGTCCATATGTCTCGAAGAACATAGGTAAT
Found at i:2791902 original size:29 final size:29
Alignment explanation
Indices: 2791847--2791909 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
2791837 ATCATTCTTG
* * *
2791847 TCATATAACCCATATCACATAGGTTCATA
1 TCATGTAACACATATCACATAGATTCATA
2791876 TCATGTAACACATATCACAT-GTATTCATA
1 TCATGTAACACATATCACATAG-ATTCATA
2791905 T-ATGT
1 TCATGT
2791910 TCATATATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 5 0.17
29 25 0.83
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.35
Consensus pattern (29 bp):
TCATGTAACACATATCACATAGATTCATA
Found at i:2795749 original size:31 final size:31
Alignment explanation
Indices: 2795711--2795860 Score: 246
Period size: 31 Copynumber: 4.8 Consensus size: 31
2795701 CCCGCATGAC
**
2795711 CAGTCCATATGTTTCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAT
2795742 CAGTCCATATGTCCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAT
*
2795773 CAGTCTATATGTCCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAT
* *
2795804 CAGTCCATATATTCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAT
*
2795835 CAGTCCATATGTCTCGAAGAACATAG
1 CAGTCCATATGTCCCGAAGAACATAG
2795861 ATAACCCTCG
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAT
Found at i:2797129 original size:30 final size:31
Alignment explanation
Indices: 2797071--2797137 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
2797061 AATCATTCAC
* *
2797071 AACTTTCCTAAAATTACTGAATTGGTCCCCT
1 AACTTTTCAAAAATTACTGAATTGGTCCCCT
*
2797102 AACTTTTCAAAAATTA-TAGAA-TGGTCCCTT
1 AACTTTTCAAAAATTACT-GAATTGGTCCCCT
2797132 AA-TTTT
1 AACTTTT
2797138 ATAAAGCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 4 0.12
30 11 0.34
31 17 0.53
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (31 bp):
AACTTTTCAAAAATTACTGAATTGGTCCCCT
Found at i:2800085 original size:31 final size:31
Alignment explanation
Indices: 2799932--2800081 Score: 230
Period size: 31 Copynumber: 4.8 Consensus size: 31
2799922 CCCGCATGAC
*
2799932 CAGTCCATATGTTTCGAAGAACATAGGTAAT
1 CAGTCCATATGTCTCGAAGAACATAGGTAAT
*
2799963 CAGTCCATATGTCCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCTCGAAGAACATAGGTAAT
* *
2799994 CAGTCTATATGTCCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCTCGAAGAACATAGGTAAT
* *
2800025 CAGTCCATATAT-TCTGAAGAACATAGATAAT
1 CAGTCCATATGTCTC-GAAGAACATAGGTAAT
2800056 CAGTCCATATGTCTCGAAGAACATAG
1 CAGTCCATATGTCTCGAAGAACATAG
2800082 ATAACCCTCG
Statistics
Matches: 109, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
30 1 0.01
31 106 0.97
32 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (31 bp):
CAGTCCATATGTCTCGAAGAACATAGGTAAT
Found at i:2800340 original size:29 final size:29
Alignment explanation
Indices: 2800282--2800344 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
2800272 ATCATTCTTG
* * * *
2800282 TCATATAACCCATATCACATAGGTTCATA
1 TCATGTAACACATATCACATAGATTAATA
2800311 TCATGTAACACATATCACAT-GTATTAATA
1 TCATGTAACACATATCACATAG-ATTAATA
2800340 T-ATGT
1 TCATGT
2800345 TCATATATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (29 bp):
TCATGTAACACATATCACATAGATTAATA
Found at i:2805443 original size:29 final size:30
Alignment explanation
Indices: 2805383--2805692 Score: 168
Period size: 30 Copynumber: 10.6 Consensus size: 30
2805373 CTAAATTTGC
*
2805383 ATCTTAAAATTAAAAATATATTTTATTC-TT
1 ATCTT-AACTTAAAAATATATTTTATTCTTT
* *
2805413 ATTTTAACTT-AAAATATATTTTAGTCTTT
1 ATCTTAACTTAAAAATATATTTTATTCTTT
2805442 ATCTTAACTTAAAAAATATATTTTATTC-TT
1 ATCTTAACTT-AAAAATATATTTTATTCTTT
* * * * *
2805472 ATCTTAAGTTATTACATAAATTATATTC-TT
1 ATCTTAACTTA-AAAATATATTTTATTCTTT
* * *
2805502 AACTTAA-ATAATTAAATATATTCTATTC-TT
1 ATCTTAACTTAA--AAATATATTTTATTCTTT
* * * * *
2805532 ACCTTAAATTATTAAATATA-ATTAAT-TTT
1 ATCTTAACTTA-AAAATATATTTTATTCTTT
* *
2805561 ATTTTAACTTAAAACATATCTTTTATTC-TT
1 ATCTTAACTTAAAA-ATATATTTTATTCTTT
* **
2805591 ATCTTAACTTAAAAGTATATTGCCA-T-TTT
1 ATCTTAACTTAAAAATATATT-TTATTCTTT
* *
2805620 AAC-T-AC--AAAAATATATGTTATT-TTT
1 ATCTTAACTTAAAAATATATTTTATTCTTT
* * *
2805645 ATCTTAAATACAAAAATATATTATATT-TTT
1 ATCTTAACT-TAAAAATATATTTTATTCTTT
* *
2805675 ATCTTAAATTTAAAATAT
1 ATCTTAACTTAAAAATAT
2805693 TATCAGAATA
Statistics
Matches: 215, Mismatches: 45, Indels: 41
0.71 0.15 0.14
Matches are distributed among these distances:
24 1 0.00
25 15 0.07
26 1 0.00
27 3 0.01
28 18 0.08
29 52 0.24
30 108 0.50
31 17 0.08
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.49
Consensus pattern (30 bp):
ATCTTAACTTAAAAATATATTTTATTCTTT
Found at i:2805476 original size:30 final size:30
Alignment explanation
Indices: 2805394--2805604 Score: 187
Period size: 30 Copynumber: 7.1 Consensus size: 30
2805384 TCTTAAAATT
*
2805394 AAAAATATATTTTATTCTTATTTTAACTT-
1 AAAAATATATTTTATTCTTATCTTAACTTA
*
2805423 -AAAATATATTTTAGTCTTTATCTTAACTTA
1 AAAAATATATTTTATTC-TTATCTTAACTTA
*
2805453 AAAAATATATTTTATTCTTATCTTAAGTTA
1 AAAAATATATTTTATTCTTATCTTAACTTA
** * * * * *
2805483 TTACATAAATTATATTCTTAACTTAA-ATA
1 AAAAATATATTTTATTCTTATCTTAACTTA
* * * *
2805512 ATTAAATATATTCTATTCTTACCTTAAATTA
1 A-AAAATATATTTTATTCTTATCTTAACTTA
** * * *
2805543 TTAAATATAATTAATT-TTATTTTAACTTA
1 AAAAATATATTTTATTCTTATCTTAACTTA
* *
2805572 AAACATATCTTTTATTCTTATCTTAACTTA
1 AAAAATATATTTTATTCTTATCTTAACTTA
2805602 AAA
1 AAA
2805605 GTATATTGCC
Statistics
Matches: 145, Mismatches: 31, Indels: 11
0.78 0.17 0.06
Matches are distributed among these distances:
28 15 0.10
29 33 0.23
30 80 0.55
31 17 0.12
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.50
Consensus pattern (30 bp):
AAAAATATATTTTATTCTTATCTTAACTTA
Found at i:2805732 original size:31 final size:30
Alignment explanation
Indices: 2805697--2805852 Score: 131
Period size: 30 Copynumber: 5.2 Consensus size: 30
2805687 AAATATTATC
*
2805697 AGAATAAAATATAAATATTTAAGTTAAGAAA
1 AGAATAAAATAT-AATTTTTAAGTTAAGAAA
* * * *
2805728 AGAATAAATTATATTTTTTAATTTAAGATA
1 AGAATAAAATATAATTTTTAAGTTAAGAAA
* * * *
2805758 AGATTTAAATATATTTTTTAAATTAA-AATA
1 AGAATAAAATATAATTTTTAAGTTAAGAA-A
* *
2805788 AGAATAAAATAT-ATTTTTAGGTTACGAAA
1 AGAATAAAATATAATTTTTAAGTTAAGAAA
* *
2805817 AGAATATAATAT-ATTTAATAAGTTAAGATAA
1 AGAATAAAATATAATTT-TTAAGTTAAGA-AA
2805848 A-AATA
1 AGAATA
2805853 TTTTTTATTG
Statistics
Matches: 101, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
29 26 0.26
30 61 0.60
31 14 0.14
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.38
Consensus pattern (30 bp):
AGAATAAAATATAATTTTTAAGTTAAGAAA
Found at i:2806298 original size:21 final size:23
Alignment explanation
Indices: 2806273--2806324 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
2806263 GGTCACTAAT
2806273 ATAATTTACCCTT-TA-TTTTAA
1 ATAATTTACCCTTATATTTTTAA
* *
2806294 ATAATTCACCTTTATATTTTTAA
1 ATAATTTACCCTTATATTTTTAA
*
2806317 CTAATTTA
1 ATAATTTA
2806325 TAATTATACT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 11 0.44
22 2 0.08
23 12 0.48
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (23 bp):
ATAATTTACCCTTATATTTTTAA
Found at i:2806326 original size:17 final size:19
Alignment explanation
Indices: 2806304--2806353 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
2806294 ATAATTCACC
2806304 TTTATATT-T-TTAACTAA
1 TTTATATTATATTAACTAA
2806321 TTTATAATTATACTTAACTAA
1 TTTAT-ATTATA-TTAACTAA
2806342 TTTATAATTATA
1 TTTAT-ATTATA
2806354 CGTTAAATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.17
18 3 0.10
19 1 0.03
21 20 0.69
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTATATTATATTAACTAA
Found at i:2806339 original size:21 final size:22
Alignment explanation
Indices: 2806313--2806359 Score: 87
Period size: 21 Copynumber: 2.2 Consensus size: 22
2806303 CTTTATATTT
2806313 TTAACTAATTTATAATTATAC-
1 TTAACTAATTTATAATTATACG
2806334 TTAACTAATTTATAATTATACG
1 TTAACTAATTTATAATTATACG
2806356 TTAA
1 TTAA
2806360 ATCTTTTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.47
Consensus pattern (22 bp):
TTAACTAATTTATAATTATACG
Found at i:2814800 original size:22 final size:23
Alignment explanation
Indices: 2814775--2814817 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
2814765 ATATTTAAGA
2814775 ATATATATACA-TATATAAAACG
1 ATATATATACATTATATAAAACG
*
2814797 ATATATATATATTATATAAAA
1 ATATATATACATTATATAAAA
2814818 AAAAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (23 bp):
ATATATATACATTATATAAAACG
Found at i:2814825 original size:23 final size:24
Alignment explanation
Indices: 2814774--2814831 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
2814764 AATATTTAAG
**
2814774 AATATATATACATATATAAAACGA
1 AATATATATACATATATAAAAAAA
* *
2814798 TATATATATA-TTATATAAAAAAA
1 AATATATATACATATATAAAAAAA
2814821 AATATATATAC
1 AATATATATAC
2814832 GATAATACGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (24 bp):
AATATATATACATATATAAAAAAA
Found at i:2816580 original size:106 final size:106
Alignment explanation
Indices: 2816447--2816689 Score: 380
Period size: 106 Copynumber: 2.3 Consensus size: 106
2816437 AATATCCGCC
* * *
2816447 GTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTATTTATTGACAACCAGTCATTCCTTCGTTGT
1 GTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTATTTATTGACAACCAGCCATCCCTTCGTTGT
*
2816512 GAAGTTGAACTTGTTTTGTCTCG-AGTCCAATACCCTTCGCT
66 GAAGTTGAACTTGTGTTGTCT-GAAGTCCAATACCCTTCGCT
* * * *
2816553 GTGAAGTTGAAATTGGCTTTGAAACTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGT
1 GTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTATTTATTGACAACCAGCCATCCCTTCGTTGT
* *
2816618 GAAGTTGAACTTGTGTTGTCTGAAGTCCAATATCCTTTGCT
66 GAAGTTGAACTTGTGTTGTCTGAAGTCCAATACCCTTCGCT
2816659 GTGAAGTTGAAATTGGCTCTGAAACTGGGAA
1 GTGAAGTTGAAATTGGCTCTGAAACTGGGAA
2816690 GTCCCTTCGT
Statistics
Matches: 125, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
105 1 0.01
106 124 0.99
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (106 bp):
GTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTATTTATTGACAACCAGCCATCCCTTCGTTGT
GAAGTTGAACTTGTGTTGTCTGAAGTCCAATACCCTTCGCT
Found at i:2817761 original size:7 final size:7
Alignment explanation
Indices: 2817743--2817783 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
2817733 ACCCACCTTA
*
2817743 TTTTTGT
1 TTTTTCT
2817750 TTTTTCT
1 TTTTTCT
2817757 CTTTTTCT
1 -TTTTTCT
2817765 TTTGTTCT
1 TTT-TTCT
2817773 TTTTTCT
1 TTTTTCT
2817780 TTTT
1 TTTT
2817784 CAATTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 17 0.55
8 14 0.45
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Done.