Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_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: 10075380
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 33 of 42
Found at i:7319601 original size:21 final size:21
Alignment explanation
Indices: 7319571--7319622 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 21
7319561 GAAAAAACCA
*
7319571 GATCGGTTTTTATCCGATCCG
1 GATCGATTTTTATCCGATCCG
7319592 GATCGATTTTTATCCGATCCG
1 GATCGATTTTTATCCGATCCG
7319613 GATCGGATTT
1 GATC-GATTT
7319623 AAATCCGGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 24 0.83
22 5 0.17
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (21 bp):
GATCGATTTTTATCCGATCCG
Found at i:7328438 original size:19 final size:18
Alignment explanation
Indices: 7328414--7328503 Score: 76
Period size: 18 Copynumber: 4.8 Consensus size: 18
7328404 AATGACCAAC
7328414 AAAATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAA-A
* *
7328433 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGA--AAA
* *
7328453 AAAATCGCAACGTTG-AAG
1 AAAATCGCAACG-CGAAAA
7328471 AAAATCGCAACG-GTAAAA
1 AAAATCGCAACGCG-AAAA
*
7328489 GAAATCGCAACGCGA
1 AAAATCGCAACGCGA
7328504 TATTCCAAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
16 1 0.02
18 28 0.47
19 16 0.27
20 12 0.20
21 2 0.03
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (18 bp):
AAAATCGCAACGCGAAAA
Found at i:7328458 original size:20 final size:20
Alignment explanation
Indices: 7328414--7328677 Score: 219
Period size: 20 Copynumber: 13.2 Consensus size: 20
7328404 AATGACCAAC
*
7328414 AAAATCGCAACGCGA--AATA
1 AAAATCGCAACGCGATTAA-G
*
7328433 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTAAG
7328453 AAAATCGCAA--CG-TTGAAG
1 AAAATCGCAACGCGATT-AAG
*
7328471 AAAATCGCAACG-G--TAAA
1 AAAATCGCAACGCGATTAAG
***
7328488 AGAAATCGCAACGCGATATTCC
1 A-AAATCGCAACGCGAT-TAAG
*
7328510 AAGAATCGCAATGCGATTAAG
1 AA-AATCGCAACGCGATTAAG
* ***
7328531 AGAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TAAG
* *
7328552 AAGAATCGCAATGCGATTCAG
1 AA-AATCGCAACGCGATTAAG
7328573 AAAATCGCAACGCGATTCCAAG
1 AAAATCGCAACGCGATT--AAG
7328595 --AATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTAAG
7328613 AAAATCGCAACGCGATTCCAAG
1 AAAATCGCAACGCGATT--AAG
7328635 --AATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTAAG
*
7328653 AGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTAAG
7328673 AAAAT
1 AAAAT
7328678 GAGTAAATTC
Statistics
Matches: 200, Mismatches: 24, Indels: 41
0.75 0.09 0.15
Matches are distributed among these distances:
17 5 0.03
18 32 0.16
19 17 0.09
20 104 0.52
21 9 0.05
22 33 0.17
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATTAAG
Found at i:7328608 original size:40 final size:40
Alignment explanation
Indices: 7328414--7328669 Score: 287
Period size: 40 Copynumber: 6.4 Consensus size: 40
7328404 AATGACCAAC
* * *
7328414 AAAATCGCAACGCGAAAT--AAAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCG-ATTCCAAGAATCGCAACGCGATTAAG
* *
7328453 AAAATCGCAA--CG-TT-GAAGAAAATCGCAACG-G--TAAA
1 AAAATCGCAACGCGATTCCAAG--AATCGCAACGCGATTAAG
*
7328488 AGAAATCGCAACGCGATATTCCAAGAATCGCAATGCGATTAAG
1 A-AAATCGCAACGCG--ATTCCAAGAATCGCAACGCGATTAAG
* * *
7328531 AGAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTCAG
1 AAAATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTAAG
7328573 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAG
7328613 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAG
*
7328653 AGAATCGCAACGCGATT
1 AAAATCGCAACGCGATT
7328670 AAGAAAATGA
Statistics
Matches: 189, Mismatches: 13, Indels: 29
0.82 0.06 0.13
Matches are distributed among these distances:
35 4 0.02
36 11 0.06
37 3 0.02
38 12 0.06
39 10 0.05
40 89 0.47
41 3 0.02
42 53 0.28
43 4 0.02
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (40 bp):
AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAG
Found at i:7328644 original size:60 final size:60
Alignment explanation
Indices: 7328416--7328677 Score: 249
Period size: 60 Copynumber: 4.4 Consensus size: 60
7328406 TGACCAACAA
* * * *
7328416 AATCGCAACGCGA--AATAAAAATCGCAACGCGATT-TAGAAAATCGCAA--CG-TTGAAGAA
1 AATCGCAACGCGATTAA-GAAAATCGCAACGCGATTCCA-AGAATCGCAACGCGATT-AAGAG
* *
7328473 AATCGCAACG-G--TAAAAGAAATCGCAACGCGATATTCCAAGAATCGCAATGCGATTAAGAG
1 AATCGCAACGCGATTAAGA-AAATCGCAACGCG--ATTCCAAGAATCGCAACGCGATTAAGAG
*** * * *
7328533 AATCGCAACGCGATCTTCCAAGAATCGCAATGCGATT-CAGAAAATCGCAACGCGATTCCA-AG
1 AATCGCAACGCGAT-TAAGAA-AATCGCAACGCGATTCCA-AGAATCGCAACGCGATT-AAGAG
7328595 AATCGCAACGCGATTAAGAAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAGAG
1 AATCGCAACGCGATTAAGAAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAGAG
7328655 AATCGCAACGCGATTAAGAAAAT
1 AATCGCAACGCGATTAAGAAAAT
7328678 GAGTAAATTC
Statistics
Matches: 172, Mismatches: 16, Indels: 31
0.79 0.07 0.14
Matches are distributed among these distances:
55 2 0.01
56 16 0.09
57 10 0.06
58 12 0.07
59 2 0.01
60 71 0.41
61 10 0.06
62 34 0.20
63 2 0.01
64 13 0.08
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.16
Consensus pattern (60 bp):
AATCGCAACGCGATTAAGAAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAGAG
Found at i:7328777 original size:6 final size:6
Alignment explanation
Indices: 7328766--7328898 Score: 177
Period size: 6 Copynumber: 22.5 Consensus size: 6
7328756 GACACGTATT
7328766 ACCACG ACCACG ACCACG ACC-CG A-CA-G A-CACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
* * *
7328810 ACCACG ACCCGCG ACCCCG ACCCCG ACC-CG ACCACG ACCACG ACCACG
1 ACCACG A-CCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
7328858 ACACGACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 AC-C-ACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
7328899 CGAGACGAGA
Statistics
Matches: 118, Mismatches: 2, Indels: 14
0.88 0.01 0.10
Matches are distributed among these distances:
4 5 0.04
5 10 0.08
6 91 0.77
7 7 0.06
8 5 0.04
ACGTcount: A:0.31, C:0.51, G:0.18, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:7329401 original size:6 final size:6
Alignment explanation
Indices: 7329390--7329439 Score: 100
Period size: 6 Copynumber: 8.3 Consensus size: 6
7329380 CTCTCGGCGT
7329390 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG
1 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG
7329438 GT
1 GT
7329440 AATACGTGTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.00, C:0.16, G:0.50, T:0.34
Consensus pattern (6 bp):
GTCGTG
Found at i:7329565 original size:20 final size:20
Alignment explanation
Indices: 7329540--7329774 Score: 274
Period size: 20 Copynumber: 11.7 Consensus size: 20
7329530 TCATTTTCTG
7329540 ATCGCGTTGCGATTCTTGGA
1 ATCGCGTTGCGATTCTTGGA
7329560 ATCGCGTTGCGATTTTCTT--A
1 ATCGCGTTGCGA--TTCTTGGA
*
7329580 ATCGCGTTGCGATT-TTCTGA
1 ATCGCGTTGCGATTCTT-GGA
7329600 ATCGCGTTGCGATTCTTGGA
1 ATCGCGTTGCGATTCTTGGA
7329620 ATCGCGTTGCGATTCTTGGA
1 ATCGCGTTGCGATTCTTGGA
7329640 ATCGCGTTGCGATTTTCTT--A
1 ATCGCGTTGCGA--TTCTTGGA
7329660 ATCGCGTTGCGATTCTTGGA
1 ATCGCGTTGCGATTCTTGGA
7329680 ATCGCGTTGCGATT-TCT-GA
1 ATCGCGTTGCGATTCT-TGGA
*
7329699 ATCGC-ATGCGATTCTTGGAA
1 ATCGCGTTGCGATTCTTGG-A
7329719 GATCGCGTTGCGATTTCTT--A
1 -ATCGCGTTGCGA-TTCTTGGA
*
7329739 ATCGCATTGCGATTCTTGGAA
1 ATCGCGTTGCGATTCTTGG-A
7329760 TATCGCGTTGCGATT
1 -ATCGCGTTGCGATT
7329775 TTCTTTTGAC
Statistics
Matches: 189, Mismatches: 5, Indels: 40
0.81 0.02 0.17
Matches are distributed among these distances:
17 2 0.01
18 20 0.11
19 21 0.11
20 105 0.56
21 8 0.04
22 28 0.15
23 5 0.03
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (20 bp):
ATCGCGTTGCGATTCTTGGA
Found at i:7329586 original size:40 final size:40
Alignment explanation
Indices: 7329532--7329779 Score: 339
Period size: 40 Copynumber: 6.2 Consensus size: 40
7329522 GAATTTACTC
*
7329532 ATTTTC-TGATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
*
7329571 ATTTTCTTAATCGCGTTGCGATT-TTCTGAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTT-GGAATCGCGTTGCG
7329611 A--TTCTTGGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTT--AATCGCGTTGCGATTCTTGGAATCGCGTTGCG
7329651 ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
* *
7329691 A-TTTCTGAATCGC-ATGCGATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCG
*
7329731 A-TTTCTTAATCGCATTGCGATTCTTGGAATATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCG
7329772 ATTTTCTT
1 ATTTTCTT
7329780 TTGACCGTTG
Statistics
Matches: 190, Mismatches: 8, Indels: 19
0.88 0.04 0.09
Matches are distributed among these distances:
38 17 0.09
39 20 0.11
40 114 0.60
41 28 0.15
42 11 0.06
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (40 bp):
ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
Found at i:7329828 original size:20 final size:20
Alignment explanation
Indices: 7329532--7329836 Score: 251
Period size: 20 Copynumber: 15.2 Consensus size: 20
7329522 GAATTTACTC
7329532 ATTTTCTG-ATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
7329551 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCG
*
7329571 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
7329591 ATTTTCTGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
7329611 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCG
*
7329631 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCG
*
7329651 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
7329671 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCG
*
7329691 A-TTTCTGAATCGC-ATGCG
1 ATTTTCTGAATCGCGTTGCG
*
7329709 ATTCTT-GGAAGATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCG
* *
7329731 A-TTTCTTAATCGCATTGCG
1 ATTTTCTGAATCGCGTTGCG
*
7329750 ATTCTT-GGAATATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCG
7329772 ATTTTCTTTTG-A-C-CGTTGCG
1 ATTTTC---TGAATCGCGTTGCG
** *
7329792 ATTTTCT-TTTCAACGTTGCG
1 ATTTTCTGAATC-GCGTTGCG
*
7329812 ATTTTCTAAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
7329832 ATTTT
1 ATTTT
7329837 GTTGGTCATT
Statistics
Matches: 236, Mismatches: 24, Indels: 51
0.76 0.08 0.16
Matches are distributed among these distances:
17 1 0.00
18 8 0.03
19 29 0.12
20 160 0.68
21 18 0.08
22 19 0.08
25 1 0.00
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.40
Consensus pattern (20 bp):
ATTTTCTGAATCGCGTTGCG
Found at i:7332580 original size:59 final size:59
Alignment explanation
Indices: 7332515--7332634 Score: 204
Period size: 59 Copynumber: 2.0 Consensus size: 59
7332505 ATTTTCATAT
* * *
7332515 TAATTAAGGATAACTAAAACCAATATCAAGCAAATGCAACTCAAATAGAGAATGAATGA
1 TAATTAAGGATAACAAAAACCAACATCAAGCAAATGCAACACAAATAGAGAATGAATGA
*
7332574 TAATTAAGGATAACAAAAACCAACATCAAGCAAATGCAACACGAATAGAGAATGAATGA
1 TAATTAAGGATAACAAAAACCAACATCAAGCAAATGCAACACAAATAGAGAATGAATGA
7332633 TA
1 TA
7332635 TTTAGCTCTA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.53, C:0.14, G:0.14, T:0.18
Consensus pattern (59 bp):
TAATTAAGGATAACAAAAACCAACATCAAGCAAATGCAACACAAATAGAGAATGAATGA
Found at i:7333667 original size:14 final size:14
Alignment explanation
Indices: 7333648--7333742 Score: 55
Period size: 18 Copynumber: 5.8 Consensus size: 14
7333638 TAACAGACTT
7333648 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
7333662 GTCTGTTTTCCACAATACA
1 GTCTGTTTT---C--TACA
7333681 GTCTGTTTTATTTCTACA
1 GTCTG---T-TTTCTACA
*
7333699 ATCTGTTTTCTTTCTACA
1 GTCTG--TT-TT-CTACA
7333717 GTCTGTTTTCTACAA
1 GTCTGTTTTCTAC-A
7333732 GTCTGTTTTCT
1 GTCTGTTTTCT
7333743 TTCTACAGTT
Statistics
Matches: 67, Mismatches: 2, Indels: 23
0.73 0.02 0.25
Matches are distributed among these distances:
14 13 0.19
15 14 0.21
16 3 0.04
17 6 0.09
18 17 0.25
19 9 0.13
20 1 0.01
22 1 0.01
23 3 0.04
ACGTcount: A:0.17, C:0.21, G:0.12, T:0.51
Consensus pattern (14 bp):
GTCTGTTTTCTACA
Found at i:7333703 original size:18 final size:18
Alignment explanation
Indices: 7333677--7333760 Score: 86
Period size: 18 Copynumber: 4.8 Consensus size: 18
7333667 TTTTCCACAA
* *
7333677 TACAGTCTGTTTTATTTC
1 TACAATCTGTTTTCTTTC
7333695 TACAATCTGTTTTCTTTC
1 TACAATCTGTTTTCTTTC
*
7333713 TACAGTCTG---T-TTTC
1 TACAATCTGTTTTCTTTC
7333727 TACAAGTCTGTTTTCTTTC
1 TACAA-TCTGTTTTCTTTC
* *
7333746 TACAGTTTGTTTTCT
1 TACAATCTGTTTTCT
7333761 ACATGGAATC
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
14 8 0.15
15 5 0.09
18 34 0.62
19 8 0.15
ACGTcount: A:0.15, C:0.19, G:0.11, T:0.55
Consensus pattern (18 bp):
TACAATCTGTTTTCTTTC
Found at i:7333735 original size:51 final size:53
Alignment explanation
Indices: 7333654--7333760 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 53
7333644 ACTTGTCTGT
7333654 TTTCTACAGTCTGTTTTCCACAATACAGTCTGTTTTATTTCTACAATCTGTTTTC
1 TTTCTACAGTCTGTTTTCCAC-A-ACAGTCTGTTTTATTTCTACAATCTGTTTTC
* * * *
7333709 TTTCTACAGTCTGTTTTCTAC-A-AGTCTGTTTTCTTTCTACAGTTTGTTTTC
1 TTTCTACAGTCTGTTTTCCACAACAGTCTGTTTTATTTCTACAATCTGTTTTC
7333760 T
1 T
7333761 ACATGGAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
51 27 0.56
52 1 0.02
55 20 0.42
ACGTcount: A:0.17, C:0.21, G:0.10, T:0.52
Consensus pattern (53 bp):
TTTCTACAGTCTGTTTTCCACAACAGTCTGTTTTATTTCTACAATCTGTTTTC
Found at i:7333736 original size:15 final size:15
Alignment explanation
Indices: 7333691--7333742 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
7333681 GTCTGTTTTA
7333691 TTTCTACAA-TCTGT
1 TTTCTACAAGTCTGT
*
7333705 TTTCTTTCTACAGTCTGT
1 TTTC-TAC-A-AGTCTGT
7333723 TTTCTACAAGTCTGT
1 TTTCTACAAGTCTGT
7333738 TTTCT
1 TTTCT
7333743 TTCTACAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 4 0.12
15 14 0.44
16 2 0.06
17 3 0.09
18 9 0.28
ACGTcount: A:0.15, C:0.21, G:0.10, T:0.54
Consensus pattern (15 bp):
TTTCTACAAGTCTGT
Found at i:7333742 original size:33 final size:33
Alignment explanation
Indices: 7333648--7333763 Score: 130
Period size: 33 Copynumber: 3.4 Consensus size: 33
7333638 TAACAGACTT
**
7333648 GTCTGTTTTCTAC-AGTCTGTTTTC-CACAATACA
1 GTCTGTTTTCTACAAGTCTGTTTTCTTTC--TACA
7333681 GTCTGTTTTATTTCTACAA-TCTGTTTTCTTTCTACA
1 GTCTG---T-TTTCTACAAGTCTGTTTTCTTTCTACA
7333717 GTCTGTTTTCTACAAGTCTGTTTTCTTTCTACA
1 GTCTGTTTTCTACAAGTCTGTTTTCTTTCTACA
*
7333750 GTTTGTTTTCTACA
1 GTCTGTTTTCTACA
7333764 TGGAATCAGG
Statistics
Matches: 73, Mismatches: 3, Indels: 14
0.81 0.03 0.16
Matches are distributed among these distances:
32 9 0.12
33 36 0.49
36 10 0.14
37 16 0.22
38 2 0.03
ACGTcount: A:0.17, C:0.21, G:0.11, T:0.51
Consensus pattern (33 bp):
GTCTGTTTTCTACAAGTCTGTTTTCTTTCTACA
Found at i:7337827 original size:18 final size:18
Alignment explanation
Indices: 7337806--7337842 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
7337796 ACTTGTTTGT
*
7337806 TTTCTACAGTCTGTTTTC
1 TTTCTACAATCTGTTTTC
7337824 TTTCTACAATCTGTTTTC
1 TTTCTACAATCTGTTTTC
7337842 T
1 T
7337843 ACAGATACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.22, G:0.08, T:0.57
Consensus pattern (18 bp):
TTTCTACAATCTGTTTTC
Found at i:7342413 original size:42 final size:42
Alignment explanation
Indices: 7342367--7342450 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
7342357 TGCATACTTC
7342367 CAAACCCATTTCCAAAGGAAAACTCTATTAACCAAACTCAAG
1 CAAACCCATTTCCAAAGGAAAACTCTATTAACCAAACTCAAG
7342409 CAAACCCATTTCCAAAGGAAAACTCTATTAACCAAACTCAAG
1 CAAACCCATTTCCAAAGGAAAACTCTATTAACCAAACTCAAG
7342451 TCCAAGACTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.45, C:0.29, G:0.07, T:0.19
Consensus pattern (42 bp):
CAAACCCATTTCCAAAGGAAAACTCTATTAACCAAACTCAAG
Found at i:7359331 original size:19 final size:19
Alignment explanation
Indices: 7359307--7359343 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7359297 CTTAATAATT
*
7359307 ATTTTTATAATTATAATAA
1 ATTTTTATAATTAGAATAA
7359326 ATTTTTATAATTAGAATA
1 ATTTTTATAATTAGAATA
7359344 TTAATAAAAT
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:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
ATTTTTATAATTAGAATAA
Found at i:7366134 original size:21 final size:22
Alignment explanation
Indices: 7366088--7366134 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
7366078 TTATGTTTCT
*
7366088 TTGTTTAGGCAATCTTTTGTAA
1 TTGTTTAGGCAATCTTATGTAA
*
7366110 -TGTTT-GGTAATCTTATGTAA
1 TTGTTTAGGCAATCTTATGTAA
7366130 TTGTT
1 TTGTT
7366135 GGTTATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.21, C:0.06, G:0.19, T:0.53
Consensus pattern (22 bp):
TTGTTTAGGCAATCTTATGTAA
Found at i:7368879 original size:13 final size:13
Alignment explanation
Indices: 7368861--7368885 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7368851 TCGCTTTCTT
7368861 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
7368874 TTTTTCTTTTTT
1 TTTTTCTTTTTT
7368886 TGGCTAGCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:7374646 original size:6 final size:6
Alignment explanation
Indices: 7374637--7374666 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
7374627 TAACACCTTG
*
7374637 TGCATG TGCATT TGCATT TGCATT TGCATT
1 TGCATT TGCATT TGCATT TGCATT TGCATT
7374667 CTTATTAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.47
Consensus pattern (6 bp):
TGCATT
Found at i:7374763 original size:10 final size:10
Alignment explanation
Indices: 7374748--7374779 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
7374738 TGTTTCTATA
7374748 TTTTTTTTCT
1 TTTTTTTTCT
7374758 TTTTTTCTTCT
1 TTTTTT-TTCT
7374769 TTTTTTTTCT
1 TTTTTTTTCT
7374779 T
1 T
7374780 CTTTGTCCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:7374773 original size:13 final size:13
Alignment explanation
Indices: 7374757--7374783 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7374747 ATTTTTTTTC
7374757 TTTTTTTCTTCTT
1 TTTTTTTCTTCTT
7374770 TTTTTTTCTTCTT
1 TTTTTTTCTTCTT
7374783 T
1 T
7374784 GTCCGCATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTCTTCTT
Found at i:7381131 original size:214 final size:214
Alignment explanation
Indices: 7380733--7381134 Score: 669
Period size: 214 Copynumber: 1.9 Consensus size: 214
7380723 GTGAAGCAAA
* * *
7380733 CCATCCATAAGACCTTTGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAATAATGTTTTAA
1 CCATCCATAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACAATGTTTTAA
* * *
7380798 GAAGATGGAATTTTTGAAAACGAAGAATGCGGTTTTCAAAATTTCACAATTTATAAGTCCTTCGG
66 GAAGATGAAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
* *
7380863 GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCTTTCGGGTCATCTGTAAGCCTTTAGAGCA
131 GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCTTTAGGGTAATCTGTAAGCCTTTAGAGCA
7380928 AGATGATAAGTCCTTCGGG
196 AGATGATAAGTCCTTCGGG
* * * *
7380947 CCATCCGTAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATGAAAAACGATGTTTTGA
1 CCATCCATAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACAATGTTTTAA
* *
7381012 GAAGATGAAATTTTTGAAAACAAATAATGCGATTTTCAAAATTTCACAATTTTTAAGTCCTTCGG
66 GAAGATGAAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
*
7381077 GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCTTTAGGGTAATTTGTAAGCCTT
131 GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCTTTAGGGTAATCTGTAAGCCTT
7381135 CACGGAAGAG
Statistics
Matches: 173, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
214 173 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.33
Consensus pattern (214 bp):
CCATCCATAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACAATGTTTTAA
GAAGATGAAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCTTTAGGGTAATCTGTAAGCCTTTAGAGCA
AGATGATAAGTCCTTCGGG
Found at i:7381210 original size:22 final size:21
Alignment explanation
Indices: 7381178--7381252 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
7381168 GTGTCATCAG
*
7381178 TAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGAGCATGATGA
* *
7381199 TGAAGTCCTTCGGGCCATCA-G-
1 T-AAGTCCTTCGAG-CATGATGA
*
7381220 TAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGAGCATGATGA
*
7381241 TTAAGTTCTTCG
1 -TAAGTCCTTCG
7381253 GGTAATTTGT
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
19 4 0.10
20 11 0.27
21 2 0.05
22 20 0.49
23 4 0.10
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (21 bp):
TAAGTCCTTCGAGCATGATGA
Found at i:7381230 original size:20 final size:19
Alignment explanation
Indices: 7381172--7381235 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
7381162 AAGTAAGTGT
7381172 CATCAGTAAGTCTTTCGAG
1 CATCAGTAAGTCTTTCGAG
* * *
7381191 CATGATGATGAAGTCCTTCGGG
1 CATCA-G-T-AAGTCTTTCGAG
7381213 CCATCAGTAAGTCTTTCGAG
1 -CATCAGTAAGTCTTTCGAG
7381233 CAT
1 CAT
7381236 GATGATTAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 7 0.20
20 11 0.31
21 2 0.06
22 11 0.31
23 4 0.11
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (19 bp):
CATCAGTAAGTCTTTCGAG
Found at i:7381231 original size:42 final size:42
Alignment explanation
Indices: 7381172--7381254 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
7381162 AAGTAAGTGT
7381172 CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGC
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGC
* *
7381214 CATCAGTAAGTCTTTCGAGCATGATGATTAAGTTCTTCGGG
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGG
7381255 TAATTTGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGC
Found at i:7381307 original size:80 final size:80
Alignment explanation
Indices: 7381213--7381426 Score: 338
Period size: 80 Copynumber: 2.7 Consensus size: 80
7381203 GTCCTTCGGG
* * *
7381213 CCATCAGTAAGTCTTTCGAGCATGATGATTAAGTTCTTCGGGTAATTTGTAAGCCTTCGCCAAAG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCAAAG
7381278 AGTAGTGAAGCAAAT
66 AGTAGTGAAGCAAAT
* *
7381293 CCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCAAAG
7381358 AGTAGTGAAGCAAAT
66 AGTAGTGAAGCAAAT
* * * *
7381373 TCACCAGTAAGTCTTTCGAGCATGATGATGAAAATCCTTCGGGTCATTTGTAAG
1 CCATCAGTAAGTCTTTCGAGCATGATGAT-TAAATCCTTCGGGTAATTTGTAAG
7381427 TCTTTCGAGC
Statistics
Matches: 123, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 101 0.82
81 22 0.18
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (80 bp):
CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCAAAG
AGTAGTGAAGCAAAT
Found at i:7381440 original size:43 final size:43
Alignment explanation
Indices: 7381379--7381513 Score: 199
Period size: 42 Copynumber: 3.2 Consensus size: 43
7381369 AAATTCACCA
7381379 GTAAGTCTTTCGAGCATGATGATGAAAATCCTTCGGGTCATTT
1 GTAAGTCTTTCGAGCATGATGATGAAAATCCTTCGGGTCATTT
7381422 GTAAGTCTTTCGAGCATGATGATG-AAATCCTTCGGGTCATTT
1 GTAAGTCTTTCGAGCATGATGATGAAAATCCTTCGGGTCATTT
* *
7381464 GTAAGTCTTTCGAG--TGA-GATGATAAGTCCTTCGGGCCATTT
1 GTAAGTCTTTCGAGCATGATGATGA-AAATCCTTCGGGTCATTT
*
7381505 -TAAGCCTTT
1 GTAAGTCTTT
7381514 TCGGAAGAGT
Statistics
Matches: 87, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
39 4 0.05
40 11 0.13
41 16 0.18
42 32 0.37
43 24 0.28
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (43 bp):
GTAAGTCTTTCGAGCATGATGATGAAAATCCTTCGGGTCATTT
Found at i:7381961 original size:53 final size:53
Alignment explanation
Indices: 7381894--7382131 Score: 307
Period size: 53 Copynumber: 4.5 Consensus size: 53
7381884 AGATTGTTCG
7381894 CTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGATTGTTCGAGTT
1 CTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGATTGTTCGAGTT
* * * *
7381947 TTACTCCCTAAAGCAATAGGGAGCGAACCCGTAGGCAGAAAATTGTTCGAGTT
1 CTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGATTGTTCGAGTT
* *
7382000 CTACTCCCTGAAGCAAGAGGGAGCGAACTCGTAAGCAGAAGATTGTTCGAGTT
1 CTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGATTGTTCGAGTT
* * * * **** *
7382053 CTACTTCCTGAAGAAATAGGGAGCGAACTCGTTTTTAGAAGATTGTTCAAGTT
1 CTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGATTGTTCGAGTT
*
7382106 CCTTAATCCCTGAA-CAAGAGGGAGCG
1 -C-TACTCCCTGAAGCAAGAGGGAGCG
7382132 GACACATCAT
Statistics
Matches: 161, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
53 141 0.88
54 11 0.07
55 9 0.06
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (53 bp):
CTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGATTGTTCGAGTT
Found at i:7386089 original size:16 final size:16
Alignment explanation
Indices: 7386068--7386098 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7386058 TGTCCTGCTC
7386068 GGACTTGTTGATGAGA
1 GGACTTGTTGATGAGA
*
7386084 GGACTTGTTTATGAG
1 GGACTTGTTGATGAG
7386099 CATGAATCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.06, G:0.35, T:0.35
Consensus pattern (16 bp):
GGACTTGTTGATGAGA
Found at i:7386404 original size:15 final size:15
Alignment explanation
Indices: 7386384--7386434 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
7386374 TTCCATAAAA
7386384 TGAATTACTGAAATT
1 TGAATTACTGAAATT
*
7386399 TGAATTACTGGAAA-A
1 TGAATTACT-GAAATT
*
7386414 TGAATTACTGGAATT
1 TGAATTACTGAAATT
7386429 TGAATT
1 TGAATT
7386435 CTGGAAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 3 0.10
15 24 0.77
16 4 0.13
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (15 bp):
TGAATTACTGAAATT
Found at i:7386448 original size:29 final size:30
Alignment explanation
Indices: 7386380--7386450 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
7386370 GGTTTTCCAT
7386380 AAAATGAATTACTGAAATTTGAATTACTGG
1 AAAATGAATTACTGAAATTTGAATTACTGG
*
7386410 AAAATGAATTACTGGAATTTGAATT-CTGG
1 AAAATGAATTACTGAAATTTGAATTACTGG
7386439 AAAATGAATTAC
1 AAAATGAATTAC
7386451 ATTTCTGTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 16 0.40
30 24 0.60
ACGTcount: A:0.44, C:0.07, G:0.17, T:0.32
Consensus pattern (30 bp):
AAAATGAATTACTGAAATTTGAATTACTGG
Found at i:7386456 original size:20 final size:20
Alignment explanation
Indices: 7386433--7386502 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
7386423 GGAATTTGAA
7386433 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
7386453 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
7386473 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
7386493 TTTTGGAAAA
1 TTCTGGAAAA
7386503 CATCTGGAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:7386725 original size:30 final size:29
Alignment explanation
Indices: 7386668--7386769 Score: 97
Period size: 29 Copynumber: 3.4 Consensus size: 29
7386658 CTTTACTAAA
*
7386668 ATATTATTGAAATATAT-AAATAATATTAT
1 ATATTATT-AAATATATAAAAAAATATTAT
7386697 -TCATTATTAAATATATAAAAAAATTATTAT
1 AT-ATTATTAAATATATAAAAAAA-TATTAT
7386727 ATATTATTAAA-ATA-AAAATATAATATCT-T
1 ATATTATTAAATATATAAAA-A-AATAT-TAT
7386756 ATATTATTATAATA
1 ATATTATTA-AATA
7386770 GAATTGATTA
Statistics
Matches: 63, Mismatches: 1, Indels: 16
0.79 0.01 0.20
Matches are distributed among these distances:
28 13 0.21
29 28 0.44
30 20 0.32
31 2 0.03
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (29 bp):
ATATTATTAAATATATAAAAAAATATTAT
Found at i:7386807 original size:28 final size:28
Alignment explanation
Indices: 7386776--7386829 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
7386766 AATAGAATTG
* *
7386776 ATTATTTTATATATATTAAAAATATAAT
1 ATTATATTATAAATATTAAAAATATAAT
*
7386804 ATTATATTATAAATATTAATAATATA
1 ATTATATTATAAATATTAAAAATATA
7386830 TTTTAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTATATTATAAATATTAAAAATATAAT
Found at i:7386811 original size:19 final size:20
Alignment explanation
Indices: 7386786--7386831 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
7386776 ATTATTTTAT
7386786 ATATATTAAAAATA-TAATA
1 ATATATTAAAAATATTAATA
* *
7386805 TTATATTATAAATATTAATA
1 ATATATTAAAAATATTAATA
7386825 ATATATT
1 ATATATT
7386832 TTAAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATATTAAAAATATTAATA
Found at i:7386829 original size:20 final size:20
Alignment explanation
Indices: 7386786--7386840 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
7386776 ATTATTTTAT
*
7386786 ATATATTAAAAATA-TAATA
1 ATATATTATAAATATTAATA
*
7386805 TTATATTATAAATATTAATA
1 ATATATTATAAATATTAATA
*
7386825 ATATATTTTAAATATT
1 ATATATTATAAATATT
7386841 TTAATAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 12 0.39
20 19 0.61
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATATTATAAATATTAATA
Found at i:7387088 original size:42 final size:42
Alignment explanation
Indices: 7387029--7387148 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
7387019 ATGAATTACA
*
7387029 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
7387071 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* *
7387113 TTCCGGGAAATGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
7387149 TTCGGGGAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:7387576 original size:23 final size:24
Alignment explanation
Indices: 7387535--7387581 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
7387525 TTTTATCCGT
*
7387535 TTTAGAAATTAAATTTTAAATTTA
1 TTTAGAAATTAAATATTAAATTTA
* *
7387559 TTTA-AAATTATATATTAAGTTTA
1 TTTAGAAATTAAATATTAAATTTA
7387582 ATTTTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (24 bp):
TTTAGAAATTAAATATTAAATTTA
Found at i:7387618 original size:20 final size:19
Alignment explanation
Indices: 7387582--7387623 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7387572 ATTAAGTTTA
* *
7387582 ATTTTTATTTCATTTTAAT
1 ATTTTTATTTAAATTTAAT
7387601 ATTTTTATTTAAAATTTAAT
1 ATTTTTATTT-AAATTTAAT
7387621 ATT
1 ATT
7387624 AAATTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTTATTTAAATTTAAT
Found at i:7387625 original size:13 final size:13
Alignment explanation
Indices: 7387609--7387660 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
7387599 ATATTTTTAT
7387609 TTAAAATTTAATA
1 TTAAAATTTAATA
* *
7387622 TTAAATTTTAAAAAA
1 TTAAAATTT--AATA
*
7387637 TAAAAATTTAATA
1 TTAAAATTTAATA
*
7387650 TTAAATTTTAA
1 TTAAAATTTAA
7387661 AAAAATAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
13 20 0.67
15 10 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAAATTTAATA
Found at i:7387643 original size:28 final size:29
Alignment explanation
Indices: 7387611--7387684 Score: 123
Period size: 28 Copynumber: 2.6 Consensus size: 29
7387601 ATTTTTATTT
7387611 AAAATTTAATATTAAATTTT-AAAAAATA
1 AAAATTTAATATTAAATTTTAAAAAAATA
7387639 AAAATTTAATATTAAATTTTAAAAAAATA
1 AAAATTTAATATTAAATTTTAAAAAAATA
*
7387668 AAAATTTATTTATTAAA
1 AAAATTTA-ATATTAAA
7387685 ATACACCAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
28 20 0.47
29 16 0.37
30 7 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
AAAATTTAATATTAAATTTTAAAAAAATA
Found at i:7390089 original size:14 final size:13
Alignment explanation
Indices: 7390051--7390089 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
7390041 ACAAATTAAA
*
7390051 ATAATTTTTGTGTT
1 ATAATTTTT-TTTT
7390065 ATAATTTTTTTTT
1 ATAATTTTTTTTT
7390078 ATCAATTTTTTT
1 AT-AATTTTTTT
7390090 ATTTATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (13 bp):
ATAATTTTTTTTT
Found at i:7392271 original size:25 final size:23
Alignment explanation
Indices: 7392213--7392271 Score: 55
Period size: 26 Copynumber: 2.4 Consensus size: 23
7392203 GTCAATTGTT
* *
7392213 ATCTGATTTTAATTTTTTATATA
1 ATCTAATTTTAATTTTTAATATA
*
7392236 ATTTTATATTTTATATTTTTAATGATA
1 A-TCTA-ATTTTA-ATTTTTAAT-ATA
7392263 ATCTAATTT
1 ATCTAATTT
7392272 CGTCCTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
23 1 0.04
24 2 0.07
25 10 0.36
26 11 0.39
27 4 0.14
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (23 bp):
ATCTAATTTTAATTTTTAATATA
Found at i:7394640 original size:149 final size:149
Alignment explanation
Indices: 7394350--7394649 Score: 469
Period size: 149 Copynumber: 2.0 Consensus size: 149
7394340 AAACTGCACT
* ** *
7394350 AACAGTAATGTTAGGACTAAGGGAGAAGAGTGGTTCCCTCTTCTAACTGGTTACTCGAACATGCT
1 AACAGGAATGTTAGGACTAAGGGAGAAGAGTAATTCCCTCTTCTAACTGGTTAATCGAACATGCT
* *
7394415 CCTTCCAAAGAATCATATCATCCATTTACAAATTATTCATTTTCTTCCAATTTTAAAGGAACTTA
66 CCTTCCAAAGAATCATATCATCCATTCACAAATTATTCATTTTCTTCCAATTTTAAAAGAACTTA
7394480 AGACATCACCATTGCAAGC
131 AGACATCACCATTGCAAGC
* * * *
7394499 AACAGGAATGTTAGGAGTAAGGGAGAAGAGTAATTCCCTCTT-TTACTGGTTAGAT-GTATATGC
1 AACAGGAATGTTAGGACTAAGGGAGAAGAGTAATTCCCTCTTCTAACTGGTTA-ATCGAACATGC
*
7394562 TCCTTCCAAAGAATCATATCATCCATTCGCAAATTATTCATTTTCTTCCAATTTTTAAAAGAACT
65 TCCTTCCAAAGAATCATATCATCCATTCACAAATTATTCATTTTCTTCCAA-TTTTAAAAGAACT
7394627 TAAGACATCACCATTGCAAGC
129 TAAGACATCACCATTGCAAGC
7394648 AA
1 AA
7394650 AAACTCTTAC
Statistics
Matches: 138, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
148 64 0.46
149 74 0.54
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (149 bp):
AACAGGAATGTTAGGACTAAGGGAGAAGAGTAATTCCCTCTTCTAACTGGTTAATCGAACATGCT
CCTTCCAAAGAATCATATCATCCATTCACAAATTATTCATTTTCTTCCAATTTTAAAAGAACTTA
AGACATCACCATTGCAAGC
Found at i:7402358 original size:3 final size:3
Alignment explanation
Indices: 7402350--7402382 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7402340 TTTGGCCCAA
7402350 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7402383 TGTTGTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7402526 original size:26 final size:26
Alignment explanation
Indices: 7402497--7402552 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
7402487 TTTAAAAGAA
* * *
7402497 TAAAATATTAAT-TTTTAGATAATATT
1 TAAAAT-TTAATATTATAAATAATAAT
7402523 TAAAATTTAATATTATAAATAATAAT
1 TAAAATTTAATATTATAAATAATAAT
7402549 TAAA
1 TAAA
7402553 TTAAATTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
TAAAATTTAATATTATAAATAATAAT
Found at i:7402640 original size:54 final size:55
Alignment explanation
Indices: 7402577--7402694 Score: 184
Period size: 55 Copynumber: 2.2 Consensus size: 55
7402567 TTATAGAAAT
* *
7402577 TCTTATAATATTTTA-TTTAGTATTATAAAGAAAATAATTAAATTATAATGATGG
1 TCTTATAATATTTTATTTTAGTATTATAAAGAAAATAATTAAAGTAGAATGATGG
* *
7402631 TCTTATAATATTTTATTTTAGTATTATAAATAAAATAATTAAAGTAGAATGATTG
1 TCTTATAATATTTTATTTTAGTATTATAAAGAAAATAATTAAAGTAGAATGATGG
*
7402686 TCTCATAAT
1 TCTTATAAT
7402695 GAATTCATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
54 15 0.26
55 43 0.74
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.45
Consensus pattern (55 bp):
TCTTATAATATTTTATTTTAGTATTATAAAGAAAATAATTAAAGTAGAATGATGG
Found at i:7405839 original size:18 final size:18
Alignment explanation
Indices: 7405806--7405840 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7405796 CCAAAAATCA
* *
7405806 AAAGAAAATGACTAAAAT
1 AAAGAAAAAGAATAAAAT
7405824 AAAGAAAAAGAATAAAA
1 AAAGAAAAAGAATAAAA
7405841 CATACCTTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAGAAAAAGAATAAAAT
Found at i:7406465 original size:342 final size:344
Alignment explanation
Indices: 7405837--7406513 Score: 977
Period size: 342 Copynumber: 2.0 Consensus size: 344
7405827 GAAAAAGAAT
* ** *
7405837 AAAACATACCTTACCTTTCTTTCAATATAACTCATGGCAATTTAAAGAGAAAGAGGGCCAATTTT
1 AAAACATACCTTACATTTCTTTCAATATAACTCACAGCAATTTAAAGAGAAAGAGGGCCAATTTC
* *
7405902 TAGATTTTTCTTGAGAATGATCTCATGTACAATTGTTAAATAATCATTTAGATGAATATAAAATT
66 TAGATTTTTCATGAGAATGATCTCATGTACAATTGTTAAATAATCATTTAAATGAATATAAAATT
* * *
7405967 CATTTAATGCAAAAGATTTCAGTTTGTCCTTTAAAAATCATGATAATTTCTAAATTACCATGCCA
131 CATTTAATGCAAAAGATTTCAGTTTGCCCTTTAAAAACCATGATAATTTCCAAATTACCATGCCA
* * * * *
7406032 CTTGTTCATATCATATTTCTTTTATCATTTTTAAAGGCAAACATGAACAAACTATTTCACATTTT
196 CTTGTCCATATCATATTCCTTTTAGCATTTTCAAAGGCAAACATGAACAAACTATTTCACACTTT
* *
7406097 CCCAATTTACCCTTGATATTTTCAAAAATTACAAATTAATCACCACAATTAAAAATATCAGTTTA
261 CCCAATTTACCCTTGAAATTTTCAAAAATTACAAACTAATCACCACAATTAAAAATATCAGTTTA
7406162 ATATAGGAAAAGGACTAAAA
326 ATATA-GAAAAGGACTAAAA
* * * * **
7406182 AAAACATACCTTACATTTCTTTCAGTGTAACTCACATCAATTT-AA-AGAAAG-GTGCTGATTTC
1 AAAACATACCTTACATTTCTTTCAATATAACTCACAGCAATTTAAAGAGAAAGAGGGCCAATTTC
* * *
7406244 TAGATTTTTCATGAGAATTATCTCATGTACACTTGTTAAATAATCATTTAAATGACTATAAAATT
66 TAGATTTTTCATGAGAATGATCTCATGTACAATTGTTAAATAATCATTTAAATGAATATAAAATT
* *
7406309 CATTTAATGCAAAA-TTTATCATTTTGCCCTTTAAAAACCATGATAATTTCCAAATTACCATGCC
131 CATTTAATGCAAAAGATT-TCAGTTTGCCCTTTAAAAACCATGATAATTTCCAAATTACCATGCC
* * * * *
7406373 ACTTGTCCATATCATCTTCCTTTTAGCATTTTCAAAGTCAAACATGAACACAGTATCTT-ATACT
195 ACTTGTCCATATCATATTCCTTTTAGCATTTTCAAAGGCAAACATGAACAAACTAT-TTCACACT
* * *
7406437 TTCCCAATTTACCCTTTAAATTTTCAAAAATTACAAACTAATCACCATAATTAAAAATTTCAGTT
259 TTCCCAATTTACCCTTGAAATTTTCAAAAATTACAAACTAATCACCACAATTAAAAATATCAGTT
7406502 TAATATAGAAAA
324 TAATATAGAAAA
7406514 TTTCACTATT
Statistics
Matches: 295, Mismatches: 35, Indels: 8
0.87 0.10 0.02
Matches are distributed among these distances:
341 7 0.02
342 241 0.82
343 8 0.03
344 2 0.01
345 37 0.13
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.36
Consensus pattern (344 bp):
AAAACATACCTTACATTTCTTTCAATATAACTCACAGCAATTTAAAGAGAAAGAGGGCCAATTTC
TAGATTTTTCATGAGAATGATCTCATGTACAATTGTTAAATAATCATTTAAATGAATATAAAATT
CATTTAATGCAAAAGATTTCAGTTTGCCCTTTAAAAACCATGATAATTTCCAAATTACCATGCCA
CTTGTCCATATCATATTCCTTTTAGCATTTTCAAAGGCAAACATGAACAAACTATTTCACACTTT
CCCAATTTACCCTTGAAATTTTCAAAAATTACAAACTAATCACCACAATTAAAAATATCAGTTTA
ATATAGAAAAGGACTAAAA
Found at i:7409968 original size:65 final size:65
Alignment explanation
Indices: 7409827--7409987 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 65
7409817 AATTTTATTG
* * *
7409827 AACATCGAATGCTTTTGATATACCGATGCACATACCATGCATCGATGCACTACAGGTTTTTATGA
1 AACATCGAATGTTTTTGATGTACCGATGCACATACCATGCATCGATGCACTACAGGTCTTTATGA
* * *
7409892 AACATCGAATGTTTTTGATGTACCGATGCACATATCATGCATCGATGCACTCCTGGCTCTTT-TG
1 AACATCGAATGTTTTTGATGTACCGATGCACATACCATGCATCGATGCACTACAGG-TCTTTATG
7409956 A
65 A
**
7409957 AACATCGAATGTAATT-AGTGTACCGATGCAC
1 AACATCGAATGTTTTTGA-TGTACCGATGCAC
7409988 CCCAAGTGCA
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
64 1 0.01
65 81 0.94
66 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (65 bp):
AACATCGAATGTTTTTGATGTACCGATGCACATACCATGCATCGATGCACTACAGGTCTTTATGA
Found at i:7411548 original size:31 final size:31
Alignment explanation
Indices: 7411510--7411583 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
7411500 CATGTGTAAC
*
7411510 GTGTCCAAAGTGATGACATAACATATTTCAT
1 GTGTCCAAAGTGATGACATAACATATATCAT
* * **
7411541 GTGTCCAAAATGATGATATGTCATATATCAT
1 GTGTCCAAAGTGATGACATAACATATATCAT
**
7411572 GAATCCAAAGTG
1 GTGTCCAAAGTG
7411584 TTAACATGCC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (31 bp):
GTGTCCAAAGTGATGACATAACATATATCAT
Found at i:7411739 original size:31 final size:31
Alignment explanation
Indices: 7411704--7411762 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
7411694 TAATGTCACA
*
7411704 CATGTCACATGTCTAAAAGTGTTGATGTTGT
1 CATGTCACATGTCTAAAAGTGATGATGTTGT
* * *
7411735 CATGTCATATGTGTATAAGTGATGATGT
1 CATGTCACATGTCTAAAAGTGATGATGT
7411763 GACATATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (31 bp):
CATGTCACATGTCTAAAAGTGATGATGTTGT
Found at i:7438133 original size:23 final size:23
Alignment explanation
Indices: 7438107--7438151 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7438097 CACCACAGCT
*
7438107 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
7438130 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
7438152 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:7440568 original size:43 final size:42
Alignment explanation
Indices: 7440488--7440570 Score: 103
Period size: 43 Copynumber: 2.0 Consensus size: 42
7440478 ATAAAAGCAC
* * * *
7440488 AGTTTTGCCCCTACAAATTTAGAATTTTAGTGGAAATGATAA
1 AGTTTTACCCCTACAAATTTAAAATTTTAATGAAAATGATAA
* *
7440530 AGTTTTACTCCTACAAAATTTAAAATTTTAATTAAAATGAT
1 AGTTTTACCCCTAC-AAATTTAAAATTTTAATGAAAATGAT
7440571 GGTTTTTCCG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 12 0.35
43 22 0.65
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.39
Consensus pattern (42 bp):
AGTTTTACCCCTACAAATTTAAAATTTTAATGAAAATGATAA
Found at i:7457548 original size:21 final size:20
Alignment explanation
Indices: 7457462--7457619 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
7457452 AAATGGCCAA
**
7457462 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
7457481 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
7457501 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
7457521 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
7457542 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* * **
7457563 CAAATTCGTATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
7457583 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
7457604 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
7457620 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 41 0.40
21 45 0.44
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:7457648 original size:20 final size:20
Alignment explanation
Indices: 7457586--7457875 Score: 257
Period size: 20 Copynumber: 14.5 Consensus size: 20
7457576 CGATTTTCCA
* ** *
7457586 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
7457606 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
7457626 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
7457646 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
7457666 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
7457686 AAATCGTAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
7457706 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
7457726 AAATCGTAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
7457746 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
7457766 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
*
7457786 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * * *
7457806 AAATCACAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
7457826 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
7457846 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
7457866 AAATCACAAC
1 AAATCGCAAC
7457876 ACTGAAATTT
Statistics
Matches: 224, Mismatches: 38, Indels: 16
0.81 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 220 0.98
21 2 0.01
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:7457672 original size:60 final size:60
Alignment explanation
Indices: 7457606--7457875 Score: 294
Period size: 60 Copynumber: 4.5 Consensus size: 60
7457596 GCGAATATGA
* * * * *
7457606 AAATCGCAACGCGAA-CACATAAATCGCAACGCGTATCCGTAAATCGCAACG-TGTATCCGT
1 AAATCGCAACGAGAATC-CGTAAATCGCAACGAGAATCCGTAAATCGCAACGAT-AATCCGT
* * * * * * * * *
7457666 ATATCGCAACGCGTATCCGTAAATCGTAATGCGTATCCGTATATCGCAACGCGT-ATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACG-ATAATCCGT
* * *
7457726 AAATCGTAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* * *
7457786 AAATCGCAACGATAATCCGTAAATCACAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
7457846 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCCGTAAATCGCAAC
7457876 ACTGAAATTT
Statistics
Matches: 184, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
59 1 0.01
60 181 0.98
61 1 0.01
62 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (60 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
Found at i:7458597 original size:24 final size:24
Alignment explanation
Indices: 7458558--7458604 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
7458548 AAATTTGGTC
7458558 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
7458582 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
7458605 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:7460984 original size:19 final size:18
Alignment explanation
Indices: 7460940--7460991 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
7460930 CAGTTGAATT
7460940 AATGAAAATCGCAA-CGA
1 AATGAAAATCGCAAGCGA
7460957 AA-G--AATCGCAACGCGA
1 AATGAAAATCGCAA-GCGA
7460973 AATGAAAATCGCAATGCGA
1 AATGAAAATCGCAA-GCGA
7460992 TTTTGGTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 8 0.28
16 6 0.21
17 3 0.10
19 12 0.41
ACGTcount: A:0.48, C:0.19, G:0.21, T:0.12
Consensus pattern (18 bp):
AATGAAAATCGCAAGCGA
Found at i:7461009 original size:19 final size:19
Alignment explanation
Indices: 7460987--7461115 Score: 98
Period size: 19 Copynumber: 7.3 Consensus size: 19
7460977 AAAATCGCAA
7460987 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
7461006 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
* *
7461020 TTCGATTTTGGTTTCGTGT
1 TGCGATTTTGGTTTCGCGT
*
7461039 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
7461053 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
7461072 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* * *
7461091 TACGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
7461111 TGCGA
1 TGCGA
7461116 AAGTAAACTA
Statistics
Matches: 84, Mismatches: 15, Indels: 21
0.70 0.12 0.17
Matches are distributed among these distances:
14 20 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 45 0.54
20 12 0.14
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:7461031 original size:33 final size:33
Alignment explanation
Indices: 7460987--7461078 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 33
7460977 AAAATCGCAA
7460987 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
* *
7461020 TTCGATTTTGGTTTCGTGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
7461053 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
7461079 TTGGTTTCGC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 50 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.17, G:0.27, T:0.48
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:7461282 original size:93 final size:93
Alignment explanation
Indices: 7461163--7461532 Score: 655
Period size: 93 Copynumber: 4.1 Consensus size: 93
7461153 ATGGATTGCA
7461163 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
7461227 TAGCAGAATTTGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
7461255 TTACTTTCAACCAAAAGACAAAACAAAGACAAATATTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
7461320 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
7461348 TTACTTTCAACTAAAAG-----ACAAA-ACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
7461407 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
7461435 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
7461500 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
7461528 TTACT
1 TTACT
7461533 AAGCAATCTA
Statistics
Matches: 265, Mismatches: 6, Indels: 13
0.93 0.02 0.05
Matches are distributed among these distances:
87 80 0.30
88 5 0.02
92 9 0.03
93 171 0.65
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:7461492 original size:180 final size:181
Alignment explanation
Indices: 7461184--7461532 Score: 664
Period size: 180 Copynumber: 1.9 Consensus size: 181
7461174 AAAAGACAAA
*
7461184 ACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTTGCAGCAACCGA
1 ACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGA
*
7461249 ACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATTATTTCACAGTGTTAAAGAATAC
66 ACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATAC
7461314 ACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACTAAAAG
131 ACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACTAAAAG
7461365 ACAAA-ACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGA
1 ACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGA
7461429 ACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATAC
66 ACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATAC
*
7461494 ACAGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
131 ACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
7461533 AAGCAATCTA
Statistics
Matches: 165, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
180 160 0.97
181 5 0.03
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.23
Consensus pattern (181 bp):
ACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGA
ACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATAC
ACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACTAAAAG
Found at i:7463256 original size:14 final size:14
Alignment explanation
Indices: 7463237--7463326 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
7463227 TTGAAATGAA
7463237 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
7463251 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
7463270 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
7463284 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
7463303 AATCGCAACGAGAG
1 AATCGCAACGAGAG
7463317 AATCGCAACG
1 AATCGCAACG
7463327 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:7463274 original size:33 final size:33
Alignment explanation
Indices: 7463229--7463343 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
7463219 TCTTTTGGTT
7463229 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
7463262 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
7463295 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
7463328 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
7463344 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:7463275 original size:19 final size:19
Alignment explanation
Indices: 7463251--7463348 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
7463241 GCAACGAGAG
*
7463251 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
7463270 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
7463284 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
7463303 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
7463317 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
7463336 AATCGCAATGCGA
1 AATCGCAACGCGA
7463349 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.50
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:7463366 original size:19 final size:19
Alignment explanation
Indices: 7463344--7463448 Score: 94
Period size: 19 Copynumber: 5.7 Consensus size: 19
7463334 AAAATCGCAA
**
7463344 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
7463363 TGCGA--TTC-TCTCG--T
1 TGCGATTTTCATTTCGCGT
7463377 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
7463396 TGCGATTGTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*** *
7463415 TGCGACAGTCATTCTCTCGT
1 TGCGATTTTCATT-TCGCGT
7463435 TGCGATTTTCATTT
1 TGCGATTTTCATTT
7463449 ATCTCGTTGC
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 6 0.09
19 36 0.51
20 15 0.21
ACGTcount: A:0.10, C:0.22, G:0.23, T:0.45
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:7463582 original size:33 final size:33
Alignment explanation
Indices: 7463540--7463610 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
7463530 AATACTAACT
* *
7463540 TGAAAATCGCAACGAGAGAATAGCAATGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
7463573 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
7463606 TGAAA
1 TGAAA
7463611 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.23, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:7463844 original size:22 final size:22
Alignment explanation
Indices: 7463792--7463846 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
7463782 TGGTTGTGAG
**
7463792 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
7463814 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
7463836 GGATTTCTTCG
1 GGATTTCTTCG
7463847 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:7464018 original size:20 final size:20
Alignment explanation
Indices: 7463993--7464127 Score: 121
Period size: 20 Copynumber: 6.7 Consensus size: 20
7463983 CTTTAAATAT
7463993 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
7464013 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
7464035 TCG-TTTGCGATTTACGGATA
1 -CGCGTTGCGATTTACGGATA
*
7464055 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
7464075 CACGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
7464095 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
7464115 CGCGTTGCGATTT
1 CGCGTTGCGATTT
7464128 TGGAAAATCG
Statistics
Matches: 93, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
19 2 0.02
20 68 0.73
21 13 0.14
22 8 0.09
23 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.39
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:7464144 original size:21 final size:21
Alignment explanation
Indices: 7464114--7464196 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
7464104 ATTTTCATAT
*
7464114 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
7464135 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
7464156 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
7464177 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
7464197 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:7464187 original size:42 final size:43
Alignment explanation
Indices: 7464094--7464192 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
7464084 ATTTATGTGT
* *
7464094 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
7464135 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
7464177 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
7464193 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:7468507 original size:24 final size:25
Alignment explanation
Indices: 7468453--7468507 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
7468443 TGAACTCAAA
7468453 AAAAAATTAGAAGCTCGATTGAAGC
1 AAAAAATTAGAAGCTCGATTGAAGC
** * * *
7468478 CTAAAATTCG-AGCTTGATTGAAGT
1 AAAAAATTAGAAGCTCGATTGAAGC
7468502 AAAAAA
1 AAAAAA
7468508 ATAGTTCACT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (25 bp):
AAAAAATTAGAAGCTCGATTGAAGC
Found at i:7469339 original size:21 final size:21
Alignment explanation
Indices: 7469310--7469362 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
7469300 ATTCTGACTA
7469310 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
7469331 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
7469352 TCGCAATGCGA
1 TCGCATTGCGA
7469363 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:7469377 original size:20 final size:20
Alignment explanation
Indices: 7469352--7469445 Score: 125
Period size: 20 Copynumber: 4.7 Consensus size: 20
7469342 TTTTCCTAAT
7469352 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
** ** *
7469372 TCGCAACACGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
7469393 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
7469413 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
7469433 TCGCAATGCGAAT
1 TCGCAATGCGAAT
7469446 CTGACTATCG
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:7469398 original size:41 final size:40
Alignment explanation
Indices: 7469352--7469445 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 40
7469342 TTTTCCTAAT
**
7469352 TCGCAATGCGAATACGTAAATCGCAACACGAATTTGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAACACGAA-TACGAAAA
* ** *
7469393 TCGCAATGCGATTACGTAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAACACGAATACGAAAA
7469433 TCGCAATGCGAAT
1 TCGCAATGCGAAT
7469446 CTGACTATCG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 17 0.37
41 29 0.63
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.21
Consensus pattern (40 bp):
TCGCAATGCGAATACGTAAATCGCAACACGAATACGAAAA
Found at i:7469425 original size:61 final size:60
Alignment explanation
Indices: 7469352--7469465 Score: 174
Period size: 61 Copynumber: 1.9 Consensus size: 60
7469342 TTTTCCTAAT
*
7469352 TCGCAATGCGAATACGTAAATCGCAACACGAATTTGGAAAATCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAACACGAATCT-GAAAATCGCAATGCGATTACGTAAA
** **
7469413 TCGCAATGCGAATACGTAAATCGCAATGCGAATCTGACTATCGCAATGCGATT
1 TCGCAATGCGAATACGTAAATCGCAACACGAATCTGAAAATCGCAATGCGATT
7469466 TACATAGCGT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
60 16 0.33
61 32 0.67
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (60 bp):
TCGCAATGCGAATACGTAAATCGCAACACGAATCTGAAAATCGCAATGCGATTACGTAAA
Found at i:7471977 original size:20 final size:20
Alignment explanation
Indices: 7471952--7472001 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
7471942 AGAATAGTTT
7471952 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
7471972 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
7471992 ACTATCGCAA
1 ACTATCGCAA
7472002 CGAAAGAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:7472076 original size:20 final size:20
Alignment explanation
Indices: 7472048--7472094 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
7472038 GATTCTCTCG
*
7472048 TTGCAATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
7472068 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
7472088 TTGCGAT
1 TTGCGAT
7472095 TTTGTTGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:7472106 original size:34 final size:34
Alignment explanation
Indices: 7472068--7472161 Score: 109
Period size: 33 Copynumber: 2.8 Consensus size: 34
7472058 CAAATTCGCA
* * *
7472068 TTGCGATAGTCATTTTCGCGTTGCGATTTTGTTG
1 TTGCGATAGTCATTTTCGCGTTGCGATTCTCTCG
** * *
7472102 TTGCGATTTTCA-TTTCGCATTACGATTCTCTCG
1 TTGCGATAGTCATTTTCGCGTTGCGATTCTCTCG
*
7472135 TTGCTATAGTCATTTTCGCGTTGCGAT
1 TTGCGATAGTCATTTTCGCGTTGCGAT
7472162 AGTCATTTTC
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
33 25 0.53
34 22 0.47
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.46
Consensus pattern (34 bp):
TTGCGATAGTCATTTTCGCGTTGCGATTCTCTCG
Found at i:7472158 original size:20 final size:20
Alignment explanation
Indices: 7472133--7472181 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
7472123 ACGATTCTCT
*
7472133 CGTTGCTATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
7472153 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
7472173 CGTTGCGAT
1 CGTTGCGAT
7472182 TTTAAGTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.14, C:0.20, G:0.24, T:0.41
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:7472191 original size:20 final size:20
Alignment explanation
Indices: 7472133--7472191 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
7472123 ACGATTCTCT
* * *
7472133 CGTTGCTATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
* *
7472153 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
**
7472173 CGTTGCGATTTTAAGTTTC
1 CGTTGCGATAGTAAGTTTC
7472192 AGATTCTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATAGTAAGTTTCG
Found at i:7472706 original size:18 final size:19
Alignment explanation
Indices: 7472667--7472708 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
7472657 CTCACCTGTC
7472667 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
7472688 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
7472706 ATC
1 ATC
7472709 ATCCATCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:7474146 original size:14 final size:14
Alignment explanation
Indices: 7474127--7474162 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
7474117 ATTGTTTAAT
7474127 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
7474141 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
7474155 TGATTTGT
1 TGATTTGT
7474163 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:7474314 original size:33 final size:34
Alignment explanation
Indices: 7474264--7474327 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
7474254 AAAATAGACT
**
7474264 ATCGCAACGCAGAAATGACTATCGCAACGAGAGA
1 ATCGCAACGCAGAAATGAAAATCGCAACGAGAGA
*
7474298 ATCGCAATGC-GAAATGAAAATCGCAACGAG
1 ATCGCAACGCAGAAATGAAAATCGCAACGAG
7474328 CTAATTTCGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 18 0.67
34 9 0.33
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.12
Consensus pattern (34 bp):
ATCGCAACGCAGAAATGAAAATCGCAACGAGAGA
Found at i:7474397 original size:19 final size:19
Alignment explanation
Indices: 7474331--7474418 Score: 96
Period size: 19 Copynumber: 4.8 Consensus size: 19
7474321 CAACGAGCTA
*
7474331 ATTTCGCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
*
7474350 ATTTTCGCATTGTGA--TTC
1 A-TTTCGCATTGCGATTTTC
*
7474368 A-CTCG--TTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
7474384 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
*
7474403 ATTTCGCACTGCGATT
1 ATTTCGCATTGCGATT
7474419 CTCTCGTTGC
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
14 5 0.09
16 7 0.12
17 3 0.05
18 4 0.07
19 27 0.47
20 11 0.19
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:7474430 original size:52 final size:53
Alignment explanation
Indices: 7474331--7474451 Score: 172
Period size: 52 Copynumber: 2.3 Consensus size: 53
7474321 CAACGAGCTA
* * **
7474331 ATTTCGCGTTGCGATTTTCATTTTCGCATTGTGATTCACTCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTCATTTTCGCACTGCGATTCACTCGTTGCGATAGTC
* *
7474384 ATTTCGCATTGCGATTTTCA-TTTCGCACTGCGATTCTCTCGTTGCGATAGTC
1 ATTTCGCGTTGCGATTTTCATTTTCGCACTGCGATTCACTCGTTGCGATAGTC
7474436 ATTTCCGCGTTGCGAT
1 ATTT-CGCGTTGCGAT
7474452 AGTCAATTCC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 31 0.52
53 29 0.48
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (53 bp):
ATTTCGCGTTGCGATTTTCATTTTCGCACTGCGATTCACTCGTTGCGATAGTC
Found at i:7474448 original size:20 final size:20
Alignment explanation
Indices: 7474423--7474511 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
7474413 GCGATTCTCT
7474423 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
7474443 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
**
7474463 TATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
7474483 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
7474503 CGTTGCGAT
1 CGTTGCGAT
7474512 TTCCGCGTTG
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
20 60 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:7476975 original size:24 final size:24
Alignment explanation
Indices: 7476941--7476994 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
7476931 CTGAAAAATC
7476941 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
7476965 ATCAAAGTCCGGGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
7476989 ATCAAA
1 ATCAAA
7476995 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:7477878 original size:20 final size:20
Alignment explanation
Indices: 7477855--7477921 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
7477845 CAGAATCTCG
7477855 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
* ** *
7477875 TTGCGATTTTTCAAATTCGCG
1 TTGCGA-TTTACGTATTCGCA
*
7477896 TTGTGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
7477916 TTGCGA
1 TTGCGA
7477922 ATTAGGAAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 21 0.58
21 15 0.42
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:7477941 original size:21 final size:21
Alignment explanation
Indices: 7477911--7477963 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
7477901 ATTTACGTAT
*
7477911 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* *
7477932 TCGCAATGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
7477953 TCGCAATGCGA
1 TCGCAATGCGA
7477964 TAATCAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:7480059 original size:11 final size:11
Alignment explanation
Indices: 7480043--7480072 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
7480033 CTAATGTGTA
7480043 TGTGCAGATTC
1 TGTGCAGATTC
7480054 TGTGCAGATTC
1 TGTGCAGATTC
7480065 TGTGCAGA
1 TGTGCAGA
7480073 CATTGAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (11 bp):
TGTGCAGATTC
Found at i:7480294 original size:18 final size:17
Alignment explanation
Indices: 7480262--7480295 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7480252 TGGTATTTAC
*
7480262 CAGTTTTTATTGAATAG
1 CAGTTTTTATAGAATAG
7480279 CAGTTTTTATCAGAATA
1 CAGTTTTTAT-AGAATA
7480296 TGAACTGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (17 bp):
CAGTTTTTATAGAATAG
Found at i:7494212 original size:6 final size:6
Alignment explanation
Indices: 7494193--7494228 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
7494183 TTAACATCTA
*
7494193 TAAATT TAATTT TAAATT TAAATT TAAATTT TAAAT
1 TAAATT TAAATT TAAATT TAAATT TAAA-TT TAAAT
7494229 GTTTCCTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TAAATT
Found at i:7495258 original size:4 final size:4
Alignment explanation
Indices: 7495249--7495288 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
7495239 GAAGAGTAAA
* *
7495249 TATT TATT TAAT TATT AATAT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TAT-T TATT TATT TATT TATT TAT
7495289 GTGTGTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 28 0.90
5 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (4 bp):
TATT
Found at i:7495274 original size:17 final size:18
Alignment explanation
Indices: 7495247--7495281 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7495237 AAGAAGAGTA
7495247 AATATTTATTTAATTATT
1 AATATTTATTTAATTATT
*
7495265 AATA-TTATTTATTTATT
1 AATATTTATTTAATTATT
7495282 TATTTATGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
AATATTTATTTAATTATT
Found at i:7496701 original size:66 final size:66
Alignment explanation
Indices: 7496595--7496759 Score: 321
Period size: 66 Copynumber: 2.5 Consensus size: 66
7496585 CTATAATTTA
7496595 ACATTCTTACATAGTTAGCTTCGACTTTGACTTTAACTTGGGTGCATCATCATCTTCGATGCCAA
1 ACATTCTTACATAGTTAGCTTCGACTTTGACTTTAACTTGGGTGCATCATCATCTTCGATGCCAA
7496660 C
66 C
7496661 ACATTCTTACATAGTTAGCTTCGACTTTGACTTTAACTTGGGTGCATCATCATCTTCGATGCCAA
1 ACATTCTTACATAGTTAGCTTCGACTTTGACTTTAACTTGGGTGCATCATCATCTTCGATGCCAA
7496726 C
66 C
*
7496727 GCATTCTTACATAGTTAGCTTCGACTTTGACTT
1 ACATTCTTACATAGTTAGCTTCGACTTTGACTT
7496760 GAACCTAGCA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 98 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (66 bp):
ACATTCTTACATAGTTAGCTTCGACTTTGACTTTAACTTGGGTGCATCATCATCTTCGATGCCAA
C
Found at i:7500545 original size:21 final size:22
Alignment explanation
Indices: 7500500--7500552 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
7500490 ATAAATAATA
* * *
7500500 AAAAAACTATAATTTTTAAAGT
1 AAAAAATTATAATATTTAAACT
7500522 AAAAAATTATAATATTT-AACT
1 AAAAAATTATAATATTTAAACT
*
7500543 AAATAATTAT
1 AAAAAATTAT
7500553 TTTATTTCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAAAATTATAATATTTAAACT
Found at i:7509848 original size:3 final size:3
Alignment explanation
Indices: 7509842--7509910 Score: 131
Period size: 3 Copynumber: 23.3 Consensus size: 3
7509832 ATCATCATCG
7509842 TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7509889 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
7509911 CTCTACACGC
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 63 0.97
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7511221 original size:38 final size:38
Alignment explanation
Indices: 7511170--7511250 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 38
7511160 CATCTAATTC
* *
7511170 ATTTGTCGGTTCGTTATTTTTCTTAGGTTTGGGTTTTT
1 ATTTGTCGGTTCGTTATTTTTCTTAGATTTGGATTTTT
* *
7511208 ATTTGTCTGTTCGTTGTTTTTCTTAGATTTGGATTTTT
1 ATTTGTCGGTTCGTTATTTTTCTTAGATTTGGATTTTT
7511246 ATTTG
1 ATTTG
7511251 GCGGGATGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.10, C:0.07, G:0.21, T:0.62
Consensus pattern (38 bp):
ATTTGTCGGTTCGTTATTTTTCTTAGATTTGGATTTTT
Found at i:7512260 original size:16 final size:17
Alignment explanation
Indices: 7512239--7512272 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
7512229 AAATCTAAAT
7512239 TTATATTATAAT-ATAA
1 TTATATTATAATAATAA
7512255 TTATATTATAATAATAA
1 TTATATTATAATAATAA
7512272 T
1 T
7512273 ACTTTACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATATTATAATAATAA
Found at i:7515009 original size:14 final size:15
Alignment explanation
Indices: 7514973--7515009 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
7514963 ATTTATTTTA
7514973 ATTAAAAACTAAAAT
1 ATTAAAAACTAAAAT
*
7514988 ATTGAAAA-TAAAAT
1 ATTAAAAACTAAAAT
7515002 ATTAAAAA
1 ATTAAAAA
7515010 ATATACTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (15 bp):
ATTAAAAACTAAAAT
Found at i:7521330 original size:2 final size:2
Alignment explanation
Indices: 7521323--7521350 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7521313 TTTACCTCTC
7521323 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7521351 GAAAAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7530816 original size:22 final size:21
Alignment explanation
Indices: 7530778--7530818 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7530768 CAAAAAAAGT
7530778 AAACAAAAAGCAAAGGCAACA
1 AAACAAAAAGCAAAGGCAACA
* *
7530799 AAACTAAAAGGAATAGGCAA
1 AAACAAAAAGCAA-AGGCAA
7530819 GTGACCTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.63, C:0.15, G:0.17, T:0.05
Consensus pattern (21 bp):
AAACAAAAAGCAAAGGCAACA
Found at i:7559722 original size:31 final size:31
Alignment explanation
Indices: 7559687--7559764 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
7559677 CAGTTACTTT
*
7559687 GGGGACCATATTGCAAACAGACTAAATGTTG
1 GGGGACCATATTGCAAACAGACTAAATATTG
* *
7559718 GGGGATCATATTGCATACAGACTAAATATTG
1 GGGGACCATATTGCAAACAGACTAAATATTG
**
7559749 GGGGACTGTATTGCAA
1 GGGGACCATATTGCAA
7559765 GTTTTAAAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (31 bp):
GGGGACCATATTGCAAACAGACTAAATATTG
Found at i:7562183 original size:23 final size:23
Alignment explanation
Indices: 7562157--7562225 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
7562147 CACCACAACT
* *
7562157 CGTATAATTACACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
7562180 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
7562203 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
7562226 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:7563809 original size:22 final size:22
Alignment explanation
Indices: 7563784--7563826 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7563774 TTTTCCTTTA
*
7563784 GGGGGAATCGGTTCCCTCATGT
1 GGGGGAATCGGTTCCCCCATGT
*
7563806 GGGGGTATCGGTTCCCCCATG
1 GGGGGAATCGGTTCCCCCATG
7563827 ACATTCTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.26, G:0.37, T:0.26
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCCCATGT
Found at i:7565258 original size:75 final size:76
Alignment explanation
Indices: 7565173--7565368 Score: 263
Period size: 75 Copynumber: 2.6 Consensus size: 76
7565163 CGTTGAACAA
* * *
7565173 GGGGGAATCGGTACC-CTCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAAC
1 GGGGGAATCGGTTCCTC-CTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAAC
** *
7565236 AAAACTGTTTAG
65 AAAACCATTCAG
* * * *
7565248 GGGGGAATCGGTTCCTCCTAT-GGGGGAATTGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCC
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACA
7565312 AAACCATTCAG
66 AAACCATTCAG
*
7565323 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCA
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCA
7565369 ATCTAGAATT
Statistics
Matches: 106, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
75 82 0.77
76 24 0.23
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (76 bp):
GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACA
AAACCATTCAG
Found at i:7566005 original size:17 final size:17
Alignment explanation
Indices: 7565983--7566026 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
7565973 TTCATAAATC
7565983 CAAAATCCAACAATCCA
1 CAAAATCCAACAATCCA
*
7566000 CAAAATCAAACAATCCA
1 CAAAATCCAACAATCCA
7566017 -AAATATCCAA
1 CAAA-ATCCAA
7566027 AATGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCCAACAATCCA
Found at i:7566018 original size:9 final size:8
Alignment explanation
Indices: 7565978--7566028 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
7565968 CACCATTCAT
7565978 AAATCC-A
1 AAATCCAA
7565985 AAATCCAA
1 AAATCCAA
*
7565993 CAATCCACA
1 AAATCCA-A
7566002 AAAT-CAA
1 AAATCCAA
7566009 ACAATCCAA
1 A-AATCCAA
7566018 AATATCCAA
1 AA-ATCCAA
7566027 AA
1 AA
7566029 TGTTGAAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 8 0.22
8 13 0.35
9 16 0.43
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (8 bp):
AAATCCAA
Found at i:7567997 original size:21 final size:21
Alignment explanation
Indices: 7567971--7568010 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7567961 CAGAACCCCA
*
7567971 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
7567992 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
7568011 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:7568046 original size:21 final size:21
Alignment explanation
Indices: 7567992--7568054 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
7567982 ATTCCCCTGT
7567992 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTT-CCC-TCAA
* *
7568015 AGGGGGAATCGGTTCCCTCAG
1 GGGGGGAATCGGTTCCCTCAA
* *
7568036 GGGGGGGATCGATTCCCTC
1 GGGGGGAATCGGTTCCCTC
7568055 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 19 0.54
22 3 0.09
23 13 0.37
ACGTcount: A:0.16, C:0.25, G:0.38, T:0.21
Consensus pattern (21 bp):
GGGGGGAATCGGTTCCCTCAA
Found at i:7573344 original size:75 final size:75
Alignment explanation
Indices: 7573175--7573370 Score: 263
Period size: 74 Copynumber: 2.6 Consensus size: 75
7573165 CCGTTGAACA
* * *
7573175 AGGGGGAATCGGTACC-CTCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAA
1 AGGGGGAATCGGTTCCTC-CTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAA
** *
7573238 CAAAACTGTTT
65 CAAAACCATTC
* *
7573249 AGGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGC
1 AGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAAC
*
7573313 CAAACCATTC
66 AAAACCATTC
*
7573323 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCA
1 A-GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCA
7573371 ATCTAGAATT
Statistics
Matches: 108, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
74 62 0.57
75 23 0.21
76 23 0.21
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.23
Consensus pattern (75 bp):
AGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAAC
AAAACCATTC
Found at i:7576590 original size:23 final size:23
Alignment explanation
Indices: 7576564--7576632 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
7576554 CACTACAGCT
*
7576564 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
** * *
7576587 CGTAGAATTATACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
7576610 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
7576633 TATAATAATG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:7579187 original size:22 final size:22
Alignment explanation
Indices: 7579143--7579223 Score: 135
Period size: 22 Copynumber: 3.6 Consensus size: 22
7579133 CTCGTATAAA
7579143 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
*
7579166 TGCACCGAAGTGCCTGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
7579188 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
7579210 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
7579224 ATATAATGAT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
22 43 0.78
23 12 0.22
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.20
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:7579887 original size:2 final size:2
Alignment explanation
Indices: 7579874--7579907 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
7579864 TCTCTTAAAC
*
7579874 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7579908 CACATGTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7580945 original size:21 final size:21
Alignment explanation
Indices: 7580921--7580965 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7580911 TCTTGTTCGT
* *
7580921 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
7580942 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
7580963 TTG
1 TTG
7580966 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Done.