Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_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: 9158330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 35
Found at i:4861787 original size:16 final size:16
Alignment explanation
Indices: 4861763--4861800 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
4861753 AAAAACACAC
*
4861763 ATAGCAAAGGAAAGTG
1 ATAGAAAAGGAAAGTG
4861779 ATAGAAAAGGAAAGTG
1 ATAGAAAAGGAAAGTG
*
4861795 AAAGAA
1 ATAGAA
4861801 CTGAGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.58, C:0.03, G:0.29, T:0.11
Consensus pattern (16 bp):
ATAGAAAAGGAAAGTG
Found at i:4861918 original size:2 final size:2
Alignment explanation
Indices: 4861913--4861942 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4861903 AGAAACCCTA
4861913 AT 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 AT
4861943 TGACATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4862501 original size:21 final size:21
Alignment explanation
Indices: 4862471--4862547 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
4862461 AGTTTCCATT
*
4862471 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGAGATAGTTGAAAA
* * * ** **
4862492 TCGTGTTGCGAT-TTTCCATT
1 TCGCGTTGAGATAGTTGAAAA
4862512 TCGCGTTGAGATAGTTGAAAA
1 TCGCGTTGAGATAGTTGAAAA
4862533 TCGCGTTGAGATAGT
1 TCGCGTTGAGATAGT
4862548 CTACAATGTC
Statistics
Matches: 42, Mismatches: 13, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
20 13 0.31
21 29 0.69
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.35
Consensus pattern (21 bp):
TCGCGTTGAGATAGTTGAAAA
Found at i:4862512 original size:41 final size:41
Alignment explanation
Indices: 4862452--4862540 Score: 151
Period size: 41 Copynumber: 2.2 Consensus size: 41
4862442 CGTTGCATTG
*
4862452 CGCGTTGCGAGTTTCCATTTCGCGTTGCGATAGTTGAAAAT
1 CGCGTTGCGAGTTTCCATTTCGCGTTGAGATAGTTGAAAAT
* *
4862493 CGTGTTGCGATTTTCCATTTCGCGTTGAGATAGTTGAAAAT
1 CGCGTTGCGAGTTTCCATTTCGCGTTGAGATAGTTGAAAAT
4862534 CGCGTTG
1 CGCGTTG
4862541 AGATAGTCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (41 bp):
CGCGTTGCGAGTTTCCATTTCGCGTTGAGATAGTTGAAAAT
Found at i:4862560 original size:21 final size:21
Alignment explanation
Indices: 4862536--4862691 Score: 90
Period size: 22 Copynumber: 7.6 Consensus size: 21
4862526 TTGAAAATCG
*
4862536 CGTTGAGATAGTCTACAATGT
1 CGTTGCGATAGTCTACAATGT
** *
4862557 CGTTGCGATTTTCCA-AAT-T
1 CGTTGCGATAGTCTACAATGT
*
4862576 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACA-ATGT
** *
4862598 CGTTGCGATTTTCCA-AAT-T
1 CGTTGCGATAGTCTACAATGT
*
4862617 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACA-ATGT
* * * * *
4862639 TGTTGTGAAAATCTACAGTTGT
1 CGTTGCGATAGTCTACA-ATGT
** *
4862661 CGTTGCGATTTTCCA-AAT-T
1 CGTTGCGATAGTCTACAATGT
4862680 CGTTGCGATAGT
1 CGTTGCGATAGT
4862692 TAAAAAAAAA
Statistics
Matches: 100, Mismatches: 29, Indels: 14
0.70 0.20 0.10
Matches are distributed among these distances:
19 37 0.37
20 7 0.07
21 15 0.15
22 41 0.41
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (21 bp):
CGTTGCGATAGTCTACAATGT
Found at i:4862580 original size:19 final size:19
Alignment explanation
Indices: 4862556--4862625 Score: 77
Period size: 19 Copynumber: 3.5 Consensus size: 19
4862546 GTCTACAATG
4862556 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
* * **
4862575 TCGTTGCGATAGTCTACAGTT
1 TCGTTGCGAT--TTTCCAAAT
4862596 GTCGTTGCGATTTTCCAAAT
1 -TCGTTGCGATTTTCCAAAT
4862616 TCGTTGCGAT
1 TCGTTGCGAT
4862626 AGTCTACAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 20 0.50
20 5 0.12
21 5 0.12
22 10 0.25
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:4862603 original size:22 final size:22
Alignment explanation
Indices: 4862575--4862669 Score: 97
Period size: 22 Copynumber: 4.5 Consensus size: 22
4862565 TTTTCCAAAT
4862575 TCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
* * **
4862597 TCGTTGCGAT--TTTCCAAAT-
1 TCGTTGCGATAGTCTACAGTTG
4862616 TCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
* * * *
4862638 TTGTTGTGAAAATCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
4862660 TCGTTGCGAT
1 TCGTTGCGAT
4862670 TTTCCAAATT
Statistics
Matches: 55, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
19 10 0.18
20 5 0.09
21 5 0.09
22 35 0.64
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (22 bp):
TCGTTGCGATAGTCTACAGTTG
Found at i:4862610 original size:41 final size:41
Alignment explanation
Indices: 4862536--4862643 Score: 182
Period size: 41 Copynumber: 2.7 Consensus size: 41
4862526 TTGAAAATCG
* *
4862536 CGTTGAGATAGTCTACA-ATGTCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
4862576 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
*
4862617 CGTTGCGATAGTCTACAGTTGTTGTTG
1 CGTTGCGATAGTCTACAGTTGTCGTTG
4862644 TGAAAATCTA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
40 16 0.25
41 48 0.75
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
Found at i:4862640 original size:19 final size:20
Alignment explanation
Indices: 4862536--4862640 Score: 72
Period size: 19 Copynumber: 5.2 Consensus size: 20
4862526 TTGAAAATCG
* *
4862536 CGTTGAGATAGTCTACAATGT
1 CGTTGCGATAGTCTACAGT-T
** * *
4862557 CGTTGCGATTTTCCA-AATT
1 CGTTGCGATAGTCTACAGTT
4862576 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAG-T-T
** * *
4862598 CGTTGCGATTTTCCA-AATT
1 CGTTGCGATAGTCTACAGTT
4862617 CGTTGCGATAGTCTACAGTT
1 CGTTGCGATAGTCTACAGTT
4862637 -GTTG
1 CGTTG
4862641 TTGTGAAAAT
Statistics
Matches: 64, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
19 30 0.47
20 8 0.12
21 13 0.20
22 13 0.20
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCTACAGTT
Found at i:4862780 original size:6 final size:6
Alignment explanation
Indices: 4862769--4862810 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
4862759 GACACGTATT
4862769 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
4862811 CGAGACGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 15 0.42
6 21 0.58
ACGTcount: A:0.29, C:0.55, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:4862801 original size:5 final size:5
Alignment explanation
Indices: 4862773--4862813 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
4862763 CGTATTACCA
4862773 CGACC ACGACC ACGACC ACGACC CGACC CGACC CGACC CGA
1 CGACC -CGACC -CGACC -CGACC CGACC CGACC CGACC CGA
4862814 GACGAGACGG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.51
6 17 0.49
ACGTcount: A:0.27, C:0.54, G:0.20, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:4863340 original size:6 final size:6
Alignment explanation
Indices: 4863329--4863362 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
4863319 GGTCGGGACG
4863329 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
4863363 ATACGTGTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.18, G:0.50, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:4863503 original size:22 final size:22
Alignment explanation
Indices: 4863475--4863565 Score: 80
Period size: 22 Copynumber: 4.3 Consensus size: 22
4863465 AATTTGGAAA
4863475 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* *
4863497 ATCGCAACAACAATTGTAGACT
1 ATCGCAACGACAACTGTAGACT
** * * * **
4863519 ATCTTATCG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
4863538 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
4863560 ATCGCA
1 ATCGCA
4863566 TCGCGAACTG
Statistics
Matches: 49, Mismatches: 17, Indels: 6
0.68 0.24 0.08
Matches are distributed among these distances:
19 10 0.20
20 2 0.04
21 2 0.04
22 35 0.71
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.23
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:4863586 original size:42 final size:41
Alignment explanation
Indices: 4863497--4863588 Score: 114
Period size: 41 Copynumber: 2.2 Consensus size: 41
4863487 ACTGTAGACT
* * ** *
4863497 ATCGCAACAACAATTGTAGACTATCTTATCGAATTTGGAAA
1 ATCGCAACGACAACTGTAGACTATCGCATCGAATCTGGAAA
4863538 ATCGCAACGACAACTGTAGACTATCGCATCGCGAA-CTGGAAA
1 ATCGCAACGACAACTGTAGACTATCGCAT--CGAATCTGGAAA
4863580 ATCGCAACG
1 ATCGCAACG
4863589 CGATTTTCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
41 25 0.57
42 15 0.34
43 4 0.09
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (41 bp):
ATCGCAACGACAACTGTAGACTATCGCATCGAATCTGGAAA
Found at i:4863602 original size:41 final size:41
Alignment explanation
Indices: 4863557--4863694 Score: 131
Period size: 41 Copynumber: 3.4 Consensus size: 41
4863547 ACAACTGTAG
*
4863557 ACTATCGCATCGCGAACTGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAACTGGAAAATCGCAACGCGATTTTCA
* * * ** **
4863598 ACTATCGCAACGCGAAAT-G-CAA-CGCGAATTTGCGATAGTGG
1 ACTATCGCAACGCGAACTGGAAAATCGC-AA--CGCGATTTTCA
* *
4863639 A-GATCGCAATGCGAACTGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAACTGGAAAATCGCAACGCGATTTTCA
4863679 ACTATCGCAACGCGAA
1 ACTATCGCAACGCGAA
4863695 ATGCAACGCG
Statistics
Matches: 71, Mismatches: 19, Indels: 14
0.68 0.18 0.13
Matches are distributed among these distances:
38 3 0.04
39 4 0.06
40 21 0.30
41 36 0.51
42 4 0.06
43 3 0.04
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (41 bp):
ACTATCGCAACGCGAACTGGAAAATCGCAACGCGATTTTCA
Found at i:4863620 original size:21 final size:21
Alignment explanation
Indices: 4863557--4863620 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
4863547 ACAACTGTAG
* * *
4863557 ACTATCGCATCGCGAACTGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
4863578 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
4863598 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
4863619 AC
1 AC
4863621 GCGAATTTGC
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:4863620 original size:33 final size:34
Alignment explanation
Indices: 4863578--4863705 Score: 98
Period size: 33 Copynumber: 3.4 Consensus size: 34
4863568 GCGAACTGGA
4863578 AAATCGCAACGCGATTTTCAACTATCGCAACGCG
1 AAATCGCAACGCGATTTTCAACTATCGCAACGCG
* *
4863612 AAAT-GCAACGCGAATTTGCGATAGTGGAGATCGCAATGCGAACTGG
1 AAATCGCAACGCG-ATTTTC-A-ACT----ATCGCAA--CG--C--G
4863658 AAAATCGCAACGCGATTTTCAACTATCGCAACGCG
1 -AAATCGCAACGCGATTTTCAACTATCGCAACGCG
4863693 AAAT-GCAACGCGA
1 AAATCGCAACGCGA
4863706 ATTTGCAATA
Statistics
Matches: 75, Mismatches: 4, Indels: 31
0.68 0.04 0.28
Matches are distributed among these distances:
33 17 0.23
34 13 0.17
35 2 0.03
36 2 0.03
37 1 0.01
39 2 0.03
40 7 0.09
41 7 0.09
42 2 0.03
44 1 0.01
45 2 0.03
46 2 0.03
47 9 0.12
48 8 0.11
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (34 bp):
AAATCGCAACGCGATTTTCAACTATCGCAACGCG
Found at i:4863653 original size:40 final size:40
Alignment explanation
Indices: 4863601--4863734 Score: 112
Period size: 40 Copynumber: 3.3 Consensus size: 40
4863591 ATTTTCAACT
4863601 ATCGCAACGCGAAATGCAACGCGAATTTGCGATAGTGGAG
1 ATCGCAACGCGAAATGCAACGCGAATTTGCGATAGTGGAG
* * * * ** ** *
4863641 ATCGCAATGCGAACTGGAAAATCGC-AA--CGCGATTTTCAACT
1 ATCGCAACGCGAAAT-G-CAA-CGCGAATTTGCGATAGTGGA-G
*
4863682 ATCGCAACGCGAAATGCAACGCGAATTTGCAATAGTGGAG
1 ATCGCAACGCGAAATGCAACGCGAATTTGCGATAGTGGAG
*
4863722 ATCGCAATGCGAA
1 ATCGCAACGCGAA
4863735 TTAAAGATCG
Statistics
Matches: 67, Mismatches: 20, Indels: 14
0.66 0.20 0.14
Matches are distributed among these distances:
38 3 0.04
39 4 0.06
40 33 0.49
41 20 0.30
42 4 0.06
43 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (40 bp):
ATCGCAACGCGAAATGCAACGCGAATTTGCGATAGTGGAG
Found at i:4863653 original size:81 final size:81
Alignment explanation
Indices: 4863560--4863734 Score: 325
Period size: 81 Copynumber: 2.2 Consensus size: 81
4863550 ACTGTAGACT
4863560 ATCGC-ATCGCGAACTGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGCAACGCG
1 ATCGCAAT-GCGAACTGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGCAACGCG
*
4863624 AATTTGCGATAGTGGAG
65 AATTTGCAATAGTGGAG
4863641 ATCGCAATGCGAACTGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGCAACGCGA
1 ATCGCAATGCGAACTGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGCAACGCGA
4863706 ATTTGCAATAGTGGAG
66 ATTTGCAATAGTGGAG
4863722 ATCGCAATGCGAA
1 ATCGCAATGCGAA
4863735 TTAAAGATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
81 90 0.98
82 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (81 bp):
ATCGCAATGCGAACTGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGCAACGCGA
ATTTGCAATAGTGGAG
Found at i:4863701 original size:21 final size:21
Alignment explanation
Indices: 4863661--4863701 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4863651 GAACTGGAAA
** *
4863661 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
4863682 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
4863702 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:4864355 original size:49 final size:49
Alignment explanation
Indices: 4864299--4864396 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
4864289 TCAATATATT
4864299 AGTTATATTAATAATATGTTAAATATAAAATGTTAATATTGATTTTATA
1 AGTTATATTAATAATATGTTAAATATAAAATGTTAATATTGATTTTATA
*
4864348 AGTTATATTAATAATATGTTAAATATACAATGTTAATATTGATTTTATA
1 AGTTATATTAATAATATGTTAAATATAAAATGTTAATATTGATTTTATA
4864397 CTATTTTGAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.47
Consensus pattern (49 bp):
AGTTATATTAATAATATGTTAAATATAAAATGTTAATATTGATTTTATA
Found at i:4864622 original size:2 final size:2
Alignment explanation
Indices: 4864615--4864649 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4864605 TGAAAAAGAT
4864615 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 T
4864650 TAATGTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4865767 original size:3 final size:3
Alignment explanation
Indices: 4865759--4865812 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
4865749 ATAAACCGAG
*
4865759 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4865807 TAA TAA
1 TAA TAA
4865813 GGCTTAAACA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:4866114 original size:15 final size:15
Alignment explanation
Indices: 4866091--4866125 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4866081 ATCCGTTTCT
* *
4866091 TTCCTCTTCCCTCTC
1 TTCCCCTTCACTCTC
4866106 TTCCCCTTCACTCTC
1 TTCCCCTTCACTCTC
4866121 TTCCC
1 TTCCC
4866126 ATGCAATCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.03, C:0.54, G:0.00, T:0.43
Consensus pattern (15 bp):
TTCCCCTTCACTCTC
Found at i:4867217 original size:21 final size:21
Alignment explanation
Indices: 4867191--4867231 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4867181 CAGAGTGACG
**
4867191 GGGAAGAGAGTGAAGGGGAAA
1 GGGAAGAGAAAGAAGGGGAAA
4867212 GGGAAGAGAAAGAAGGGGAA
1 GGGAAGAGAAAGAAGGGGAA
4867232 GAGAGGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.51, T:0.02
Consensus pattern (21 bp):
GGGAAGAGAAAGAAGGGGAAA
Found at i:4871083 original size:16 final size:18
Alignment explanation
Indices: 4871062--4871100 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
4871052 GGCTTTGGGT
4871062 TTTTAGAA-ATGGAAA-C
1 TTTTAGAATATGGAAAGC
*
4871078 TTTTAGAATTTGGAAAGC
1 TTTTAGAATATGGAAAGC
4871096 TTTTA
1 TTTTA
4871101 AACTGAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 6 0.30
18 6 0.30
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (18 bp):
TTTTAGAATATGGAAAGC
Found at i:4878985 original size:61 final size:61
Alignment explanation
Indices: 4878883--4879000 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 61
4878873 CAGTAGGTGC
* * *
4878883 AGGTGGTGGGTACAACCTTGTGTGTCATATCTGGATCAGCACTAGAGTGTAAACTTATTGT
1 AGGTGGTGGGCACAACCTTATGTGTCATATCCGGATCAGCACTAGAGTGTAAACTTATTGT
* * * *
4878944 AGGTGGTGGGCATAACCTTATGTGTCATATCCGGATTAGCACTATAGTGTAAGCTTA
1 AGGTGGTGGGCACAACCTTATGTGTCATATCCGGATCAGCACTAGAGTGTAAACTTA
4879001 GAGCAAGTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.32
Consensus pattern (61 bp):
AGGTGGTGGGCACAACCTTATGTGTCATATCCGGATCAGCACTAGAGTGTAAACTTATTGT
Found at i:4880136 original size:23 final size:23
Alignment explanation
Indices: 4880106--4880153 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
4880096 TTTTTTGAAA
* *
4880106 AAAGTCAATGGCGGTCAACAGTC
1 AAAGTCAACGGCGATCAACAGTC
*
4880129 AAAGTCAACGTCGATCAACAGTC
1 AAAGTCAACGGCGATCAACAGTC
4880152 AA
1 AA
4880154 CGATAAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.17
Consensus pattern (23 bp):
AAAGTCAACGGCGATCAACAGTC
Found at i:4886847 original size:20 final size:20
Alignment explanation
Indices: 4886799--4886841 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
4886789 AATTGAATTT
*
4886799 ATTCAAAATTTTCAAAAATA
1 ATTCAAAGTTTTCAAAAATA
4886819 ATTCAAAGTTTTCAAAAATA
1 ATTCAAAGTTTTCAAAAATA
4886839 ATT
1 ATT
4886842 TGAAGTCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.37
Consensus pattern (20 bp):
ATTCAAAGTTTTCAAAAATA
Found at i:4888124 original size:159 final size:161
Alignment explanation
Indices: 4887814--4888133 Score: 626
Period size: 159 Copynumber: 2.0 Consensus size: 161
4887804 CAATTCACCA
4887814 CAATTTTTTCTGTGAAATTTCTTCTTAATACGATTAAATTTCATTCTTTTTCTTTGAAATTTCTT
1 CAATTTTTTCTGTGAAATTTCTTCTTAATACGATTAAATTTCATTCTTTTTCTTTGAAATTTCTT
4887879 TTTAATATGATGAAGAAGGGAGTCGCAAGTATAAGGGAATTGGCTGCTTCTGGTGTTGGAGGTTT
66 TTTAATATGATGAAGAAGGGAGTCGCAAGTATAAGGGAATTGGCTGCTTCTGGTGTTGGAGGTTT
4887944 GTAAGATAAGTCAGAACAAGGCCGAGATTCT
131 GTAAGATAAGTCAGAACAAGGCCGAGATTCT
4887975 CAATTTTTTCTGTGAAA-TT-TTCTTAATACGATTAAATTTCATTCTTTTTCTTTGAAATTTCTT
1 CAATTTTTTCTGTGAAATTTCTTCTTAATACGATTAAATTTCATTCTTTTTCTTTGAAATTTCTT
4888038 TTTAATATGATGAAGAAGGGAGTCGCAAGTATAAGGGAATTGGCTGCTTCTGGTGTTGGAGGTTT
66 TTTAATATGATGAAGAAGGGAGTCGCAAGTATAAGGGAATTGGCTGCTTCTGGTGTTGGAGGTTT
4888103 GTAAGATAAGTCAGAACAAGGCCGAGATTCT
131 GTAAGATAAGTCAGAACAAGGCCGAGATTCT
4888134 ATTGGAGAGT
Statistics
Matches: 159, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
159 140 0.88
160 2 0.01
161 17 0.11
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (161 bp):
CAATTTTTTCTGTGAAATTTCTTCTTAATACGATTAAATTTCATTCTTTTTCTTTGAAATTTCTT
TTTAATATGATGAAGAAGGGAGTCGCAAGTATAAGGGAATTGGCTGCTTCTGGTGTTGGAGGTTT
GTAAGATAAGTCAGAACAAGGCCGAGATTCT
Found at i:4897399 original size:2 final size:2
Alignment explanation
Indices: 4897392--4897421 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4897382 AATTAATTGA
4897392 AT 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 AT
4897422 TAAATACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4898542 original size:15 final size:15
Alignment explanation
Indices: 4898522--4898552 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4898512 TCCTTTTAAT
4898522 TCTAATCACAATTTC
1 TCTAATCACAATTTC
*
4898537 TCTAATCACCATTTC
1 TCTAATCACAATTTC
4898552 T
1 T
4898553 TCTTCTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (15 bp):
TCTAATCACAATTTC
Found at i:4899452 original size:20 final size:19
Alignment explanation
Indices: 4899405--4899459 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
4899395 AATCTTTGAA
*
4899405 GAAACTTTCAAAACTTTTGT
1 GAAAGTTTCAAAAC-TTTGT
*
4899425 TAAAGTTTCAAAACTTTGAT
1 GAAAGTTTCAAAACTTTG-T
* *
4899445 GAATGTTTCGAAACT
1 GAAAGTTTCAAAACT
4899460 CTTTCTTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (19 bp):
GAAAGTTTCAAAACTTTGT
Found at i:4903659 original size:23 final size:22
Alignment explanation
Indices: 4903621--4903673 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
4903611 ATAAGGTAAT
*
4903621 TTTTTAATTTTATTTTAATATA
1 TTTTTAATTTAATTTTAATATA
* *
4903643 TTTTTAATTTAATTTTTTATTTA
1 TTTTTAATTTAA-TTTTAATATA
4903666 TTTTTAAT
1 TTTTTAAT
4903674 CGTTTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTTAATTTAATTTTAATATA
Found at i:4903671 original size:34 final size:34
Alignment explanation
Indices: 4903617--4903696 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 34
4903607 AACTATAAGG
4903617 TAATTTTTTAATTTTATTTTAAT-ATATTTTTAATT
1 TAATTTTTT-ATTTTATTTTAATCAT-TTTTTAATT
*
4903652 TAATTTTTTA-TTTATTTTTAATCGTTTTTTAATT
1 TAATTTTTTATTTTA-TTTTAATCATTTTTTAATT
*
4903686 TTATATTTTTA
1 TAAT-TTTTTA
4903697 GATGGTACCA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
33 4 0.10
34 20 0.50
35 16 0.40
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (34 bp):
TAATTTTTTATTTTATTTTAATCATTTTTTAATT
Found at i:4903673 original size:18 final size:17
Alignment explanation
Indices: 4903617--4903695 Score: 61
Period size: 17 Copynumber: 4.5 Consensus size: 17
4903607 AACTATAAGG
*
4903617 TAATTTTTTAATTTTATTT
1 TAATTTTTT--TTTAATTT
* *
4903636 TAATATATTTTTAA-TT
1 TAATTTTTTTTTAATTT
*
4903652 TAATTTTTTATTTATTTT
1 TAATTTTTT-TTTAATTT
**
4903670 TAATCGTTTTTTAATTT
1 TAATTTTTTTTTAATTT
4903687 TATATTTTT
1 TA-ATTTTT
4903696 AGATGGTACC
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
16 9 0.20
17 17 0.37
18 13 0.28
19 7 0.15
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (17 bp):
TAATTTTTTTTTAATTT
Found at i:4906602 original size:33 final size:35
Alignment explanation
Indices: 4906565--4906669 Score: 97
Period size: 40 Copynumber: 2.9 Consensus size: 35
4906555 ATATTTCCAA
*
4906565 AAAAAT-CTTTC-AAACCCATATATTATATATGTT
1 AAAAATACTTTCAAAAACCATATATTATATATGTT
* *
4906598 AAAAATATTTTCAAAAACTATATATTATATATATGTTTTT
1 AAAAATACTTTCAAAAACCATATA-T-TATATATG---TT
* * *
4906638 CAAAATATTTTCAAAAACTATATATTATATAT
1 AAAAATACTTTCAAAAACCATATATTATATAT
4906670 ATTTTCAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
33 6 0.10
34 4 0.07
35 9 0.15
36 1 0.02
37 8 0.13
38 7 0.11
39 1 0.02
40 25 0.41
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.43
Consensus pattern (35 bp):
AAAAATACTTTCAAAAACCATATATTATATATGTT
Found at i:4906648 original size:11 final size:11
Alignment explanation
Indices: 4906634--4906695 Score: 54
Period size: 11 Copynumber: 5.2 Consensus size: 11
4906624 ATATATATGT
4906634 TTTTCAAAATA
1 TTTTCAAAATA
4906645 TTTTCAAAAACTA
1 TTTTC-AAAA-TA
*
4906658 TATATT-ATATATA
1 T-T-TTCA-AAATA
4906671 TTTTCAAAATA
1 TTTTCAAAATA
4906682 TTTTCAAAAATA
1 TTTTC-AAAATA
4906694 TT
1 TT
4906696 ATATATATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
11 16 0.38
12 14 0.33
13 7 0.17
14 3 0.07
15 2 0.05
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (11 bp):
TTTTCAAAATA
Found at i:4906669 original size:38 final size:37
Alignment explanation
Indices: 4906537--4906890 Score: 268
Period size: 36 Copynumber: 9.5 Consensus size: 37
4906527 TGAAAAGAAA
* * *
4906537 CAAAAAATA-ATATTATATATATTTCCAAAAAAATCTTT
1 CAAAAACTATATATTATATATATTTTC-AAAATAT-TTT
* * * *
4906575 C-AAACCCATATA-T-TATATATGTTAAAAATATTTT
1 CAAAAACTATATATTATATATATTTTCAAAATATTTT
4906609 CAAAAACTATATATTATATATATGTTTTTCAAAATATTTT
1 CAAAAACTATATATTATATATA---TTTTCAAAATATTTT
4906649 CAAAAACTATATATTATATATATTTTCAAAATATTTT
1 CAAAAACTATATATTATATATATTTTCAAAATATTTT
* * *
4906686 CAAAAA-TAT-TATATATATATATATTCGAAATGTTTT
1 CAAAAACTATATAT-TATATATATTTTCAAAATATTTT
* * * *
4906722 TAAAAAC--T-TATTATATATATATTCGAAATGTTTT
1 CAAAAACTATATATTATATATATTTTCAAAATATTTT
* *
4906756 C-AAAACTGTATATTATATATATTTTTTCAAAATCGTTTT
1 CAAAAACTATATATTATATATA--TTTTCAAAAT-ATTTT
* * *
4906795 C-AAAACTATATAATATATACATTTTCAAAAACCGATTTT
1 CAAAAACTATATATTATATATATTTTC-AAAA--TATTTT
* * *
4906834 -AATAAAATATATA-T-TATATGTTTTCAAAAATCGTTTT
1 CAA-AAACTATATATTATATATATTTTC-AAAAT-ATTTT
4906871 CTAAAAACTATATATTATAT
1 C-AAAAACTATATATTATAT
4906891 TTTTCACAAA
Statistics
Matches: 262, Mismatches: 29, Indels: 48
0.77 0.09 0.14
Matches are distributed among these distances:
33 5 0.02
34 27 0.10
35 23 0.09
36 48 0.18
37 41 0.16
38 39 0.15
39 32 0.12
40 47 0.18
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (37 bp):
CAAAAACTATATATTATATATATTTTCAAAATATTTT
Found at i:4906727 original size:36 final size:36
Alignment explanation
Indices: 4906582--4906824 Score: 188
Period size: 37 Copynumber: 6.6 Consensus size: 36
4906572 TTTCAAACCC
* *
4906582 ATATATTATATATGTTAAAAATATTTTCAAAAACTATAT
1 ATATA-TATATATATTCAAAATATTTTCAAAAA-TAT-T
* *
4906621 ATTATATATATGTTTTTCAAAATATTTTCAAAAACTA-T
1 A-TATATATAT-ATATTCAAAATATTTTCAAAAA-TATT
*
4906659 ATATTATATATATTTTCAAAATATTTTCAAAAATATT
1 ATA-TATATATATATTCAAAATATTTTCAAAAATATT
* * * *
4906696 ATATATATATATATTCGAAATGTTTTTAAAAA-CTT
1 ATATATATATATATTCAAAATATTTTCAAAAATATT
* * * *
4906731 AT-TATATATATATTCGAAATGTTTTCAAAACTGTAT
1 ATATATATATATATTCAAAATATTTTCAAAAATAT-T
* * * *
4906767 ATTATATATATTTTTTCAAAATCGTTTTCAAAACTA-T
1 A-TATATATATATATTCAAAAT-ATTTTCAAAAATATT
* *
4906804 ATAATATATACATTTTCAAAA
1 AT-ATATATATATATTCAAAA
4906825 ACCGATTTTA
Statistics
Matches: 176, Mismatches: 18, Indels: 22
0.81 0.08 0.10
Matches are distributed among these distances:
34 27 0.15
35 5 0.03
36 30 0.17
37 46 0.26
38 24 0.14
39 18 0.10
40 26 0.15
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (36 bp):
ATATATATATATATTCAAAATATTTTCAAAAATATT
Found at i:4906737 original size:34 final size:34
Alignment explanation
Indices: 4906660--4906778 Score: 134
Period size: 34 Copynumber: 3.4 Consensus size: 34
4906650 AAAAACTATA
* * * * *
4906660 TATTATATATATTTTCAAAATATTTTCAAAAATAT
1 TATTATATATATATTCGAAATGTTTTTAAAAA-CT
4906695 TATATATATATATATTCGAAATGTTTTTAAAAACT
1 TAT-TATATATATATTCGAAATGTTTTTAAAAACT
*
4906730 TATTATATATATATTCGAAATG-TTTTCAAAACT
1 TATTATATATATATTCGAAATGTTTTTAAAAACT
4906763 GTA-TATTATATATATT
1 -TATTA-TATATATATT
4906779 TTTTCAAAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
33 12 0.16
34 31 0.41
35 7 0.09
36 25 0.33
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (34 bp):
TATTATATATATATTCGAAATGTTTTTAAAAACT
Found at i:4906852 original size:40 final size:38
Alignment explanation
Indices: 4906796--4906901 Score: 108
Period size: 38 Copynumber: 2.8 Consensus size: 38
4906786 AATCGTTTTC
* *
4906796 AAAACTATATAATATATACATTTTCAAAAACCGATTT-TA
1 AAAAATATAT-AT-TATATATTTTCAAAAACCGATTTCTA
* * *
4906835 ATAAAATATATATTATATGTTTTCAAAAATCGTTTTCTA
1 A-AAAATATATATTATATATTTTCAAAAACCGATTTCTA
* *
4906874 AAAACTATATATTATAT-TTTTCACAAAC
1 AAAAATATATATTATATATTTTCAAAAAC
4906902 TATACTATAT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
37 9 0.16
38 34 0.60
39 6 0.11
40 8 0.14
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.41
Consensus pattern (38 bp):
AAAAATATATATTATATATTTTCAAAAACCGATTTCTA
Found at i:4907819 original size:158 final size:157
Alignment explanation
Indices: 4907531--4907850 Score: 631
Period size: 158 Copynumber: 2.0 Consensus size: 157
4907521 GATTGAACTT
4907531 CAACCGGAAATTATTTTCTCGCTACTACCATGTGGTTGATATGTCATCGAGTTGAATGGAATCAA
1 CAACCGGAAATTATTTTCTCGCTACTACCATGTGGTTGATATGTCATCGAGTTGAATGGAATCAA
4907596 ACTCAAAAATTTTCGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTAACTGGGA
66 ACTCAAAAATTTTCGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTAACTGGGA
4907661 TATAGTTCCTTGTTGCTAAATCGCAGCC
131 TATAGTTCCTTGTTGCTAAATCGCAG-C
4907689 CAACCGGAAATTATTTTCTCGCTACTACCATGTGGTTGATATGTCATCGAGTTGAATGGAATCAA
1 CAACCGGAAATTATTTTCTCGCTACTACCATGTGGTTGATATGTCATCGAGTTGAATGGAATCAA
4907754 ACTCAAAAATTTTCGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTAACTGGGA
66 ACTCAAAAATTTTCGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTAACTGGGA
4907819 TATAGTTCCTTGTTGCTAAATCGCAGC
131 TATAGTTCCTTGTTGCTAAATCGCAGC
4907846 CAACC
1 CAACC
4907851 CTGGTCTTCT
Statistics
Matches: 162, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
157 6 0.04
158 156 0.96
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (157 bp):
CAACCGGAAATTATTTTCTCGCTACTACCATGTGGTTGATATGTCATCGAGTTGAATGGAATCAA
ACTCAAAAATTTTCGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTAACTGGGA
TATAGTTCCTTGTTGCTAAATCGCAGC
Found at i:4908867 original size:20 final size:20
Alignment explanation
Indices: 4908831--4908868 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4908821 ATCCTATTCC
**
4908831 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
4908851 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
4908869 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:4909899 original size:99 final size:99
Alignment explanation
Indices: 4909720--4909910 Score: 267
Period size: 99 Copynumber: 1.9 Consensus size: 99
4909710 ATTGTAATTT
* * * * * * *
4909720 GCCTTTATCAGGCTAGGTGAATCTTATCTATAAAGTCATGGTGTTTAACCAATTGATCTAGAGGG
1 GCCTTTATCAGGCTAGCTGAATCTTATCCATAAAGTCAGGGCGATTAACCAATTGACCTAAAGGG
* *
4909785 ACAACACAATCTTTATTGTATATATATTATAATC
66 ACAACAAAATCTTTATTGTATACATATTATAATC
* *
4909819 GCCTTTATCAGGCTAGCTGAATCTTATCCATAAAGTCGGGGCGATTAACCAATTGCCCTAAAGGG
1 GCCTTTATCAGGCTAGCTGAATCTTATCCATAAAGTCAGGGCGATTAACCAATTGACCTAAAGGG
4909884 ACAACTAAAAT-TTTATTGTATACATAT
66 ACAAC-AAAATCTTTATTGTATACATAT
4909911 AATATTATAA
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 76 0.95
100 4 0.05
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (99 bp):
GCCTTTATCAGGCTAGCTGAATCTTATCCATAAAGTCAGGGCGATTAACCAATTGACCTAAAGGG
ACAACAAAATCTTTATTGTATACATATTATAATC
Found at i:4911326 original size:17 final size:17
Alignment explanation
Indices: 4911304--4911342 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
4911294 ATAGAAAGGG
4911304 TTGTAACACCATTATTT
1 TTGTAACACCATTATTT
4911321 TTGTAACACCATTATTT
1 TTGTAACACCATTATTT
4911338 TTGTA
1 TTGTA
4911343 GGTGTTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (17 bp):
TTGTAACACCATTATTT
Found at i:4915983 original size:20 final size:20
Alignment explanation
Indices: 4915926--4915983 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 20
4915916 CCTAAAACAG
4915926 AAAAA-AAATAACAAAATAA-
1 AAAAATAAATAA-AAAATAAT
* * *
4915945 CAAAATGAAT-AAATA-AAT
1 AAAAATAAATAAAAAATAAT
4915963 AAAAATAAATAAAAAATAAT
1 AAAAATAAATAAAAAATAAT
4915983 A
1 A
4915984 TTATATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 7
0.69 0.14 0.17
Matches are distributed among these distances:
17 2 0.07
18 11 0.38
19 9 0.31
20 7 0.24
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (20 bp):
AAAAATAAATAAAAAATAAT
Found at i:4916026 original size:39 final size:39
Alignment explanation
Indices: 4915973--4916296 Score: 307
Period size: 39 Copynumber: 8.5 Consensus size: 39
4915963 AAAAATAAAT
* **
4915973 AAAAAATA-ATATTATATATATTTTCGAAAAAATACTTTC
1 AAAAACTATATATTATATATATTTTC-AAAAAATGTTTTC
* *
4916012 -AAAACCATATA-T-TATATATGTTC-AAAAATGTTTTC
1 AAAAACTATATATTATATATATTTTCAAAAAATGTTTTC
*** *
4916047 AAAAACTATATATTATATATATTTTTTCAAAATGTTTTT
1 AAAAACTATATATTATATATATTTTCAAAAAATGTTTTC
4916086 AAAAACTATATATTATATATATATTTTC--AAAATGTTTTC
1 AAAAACTATATA-T-TATATATATTTTCAAAAAATGTTTTC
*
4916125 AAAAACTATATATTATATATA--TTC--GAAATGTTTTC
1 AAAAACTATATATTATATATATTTTCAAAAAATGTTTTC
* *
4916160 AAAAATTATATATTATATATATTTTCAAAAATTGTTTT-
1 AAAAACTATATATTATATATATTTTCAAAAAATGTTTTC
* * *
4916198 TAAAACTATATAATATATATATTTTCAAAAACTGATTTTC
1 AAAAACTATATATTATATATATTTTCAAAAAATG-TTTTC
* **
4916238 TAAAAA-AAGTATA-TATTATATATTTTCAAAAACCGTTTTC
1 -AAAAACTA-TATATTA-TATATATTTTCAAAAAATGTTTTC
*
4916278 TAAAAGCTATATATTATAT
1 -AAAAACTATATATTATAT
4916297 TTTTCAAAAA
Statistics
Matches: 242, Mismatches: 25, Indels: 35
0.80 0.08 0.12
Matches are distributed among these distances:
35 43 0.18
36 10 0.04
37 22 0.09
38 46 0.19
39 59 0.24
40 21 0.09
41 41 0.17
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.44
Consensus pattern (39 bp):
AAAAACTATATATTATATATATTTTCAAAAAATGTTTTC
Found at i:4916301 original size:37 final size:38
Alignment explanation
Indices: 4915987--4916308 Score: 280
Period size: 38 Copynumber: 8.5 Consensus size: 38
4915977 AATAATATTA
* ** *
4915987 TATATATTTTCGAAAAAATACTTTC--AAAACCATATAT
1 TATATATTTTC-AAAAACTGTTTTCTAAAAACTATATAT
*
4916024 TATATATGTTCAAAAA-TGTTTTC-AAAAACTATATATT
1 TATATATTTTCAAAAACTGTTTTCTAAAAACTATATA-T
4916061 ATATATATTTTTTC-AAAA-TGTTTT-TAAAAACTATATATTAT
1 -TATATA--TTTTCAAAAACTGTTTTCTAAAAAC--TATA-TAT
4916102 ATATATATTTTC-AAAA-TGTTTTC-AAAAACTATATAT
1 -TATATATTTTCAAAAACTGTTTTCTAAAAACTATATAT
* * *
4916138 TATATATATTC-GAAA-TGTTTTC-AAAAATTATATATT
1 TATATATTTTCAAAAACTGTTTTCTAAAAACTATATA-T
*
4916174 ATATATATTTTCAAAAATTGTTTT-T-AAAACTATATAAT
1 -TATATATTTTCAAAAACTGTTTTCTAAAAACTATAT-AT
*
4916212 ATATATATTTTCAAAAACTGATTTTCTAAAAAAAGTATATAT
1 -TATATATTTTCAAAAACTG-TTTTCT--AAAAACTATATAT
* *
4916254 TATATATTTTCAAAAACCGTTTTCTAAAAGCTATATAT
1 TATATATTTTCAAAAACTGTTTTCTAAAAACTATATAT
4916292 TATAT-TTTTCAAAAACT
1 TATATATTTTCAAAAACT
4916309 ATACTATATT
Statistics
Matches: 247, Mismatches: 17, Indels: 42
0.81 0.06 0.14
Matches are distributed among these distances:
35 36 0.15
36 19 0.08
37 36 0.15
38 54 0.22
39 48 0.19
40 11 0.04
41 30 0.12
42 4 0.02
43 9 0.04
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.44
Consensus pattern (38 bp):
TATATATTTTCAAAAACTGTTTTCTAAAAACTATATAT
Found at i:4919026 original size:27 final size:24
Alignment explanation
Indices: 4918996--4919046 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
4918986 AAATATTTTA
4918996 AAATTAATTACTAAATTATAATCTAAT
1 AAATTAA-TACTAAATT-TAAT-TAAT
*
4919023 AAATTAATACTTAATTTAATTAAT
1 AAATTAATACTAAATTTAATTAAT
4919047 TATTTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 4 0.17
26 8 0.35
27 7 0.30
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (24 bp):
AAATTAATACTAAATTTAATTAAT
Found at i:4920323 original size:3 final size:3
Alignment explanation
Indices: 4920317--4920365 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
4920307 TTATTTTTTT
*
4920317 TAA TAA TAA TAA TAA TAA TAA TAA TTA TAA T-A TAA TAA T-A TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
4920361 TAA TA
1 TAA TA
4920366 TTTAAATGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.10
3 35 0.85
4 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:4920743 original size:35 final size:36
Alignment explanation
Indices: 4920685--4920760 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
4920675 AATCTATCTG
*
4920685 CTTCTGTGATACACTTATGCAAAGGTTGAACAAGC-
1 CTTCTGTGATACACTCATGCAAAGGTTGAACAAGCT
* * * *
4920720 CTTCTGTGATAGAGTCATTCAAAGGTTGAATAAGCT
1 CTTCTGTGATACACTCATGCAAAGGTTGAACAAGCT
4920756 CTTCT
1 CTTCT
4920761 CATTATGAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
35 30 0.86
36 5 0.14
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (36 bp):
CTTCTGTGATACACTCATGCAAAGGTTGAACAAGCT
Found at i:4920853 original size:159 final size:155
Alignment explanation
Indices: 4920563--4920865 Score: 554
Period size: 159 Copynumber: 1.9 Consensus size: 155
4920553 TTGACATATT
4920563 CCTTCTGTGATAGAGTCATTCAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTTCCCT
1 CCTTCTGTGATAGAGTCATTCAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTTCCCT
4920628 CAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATCTATCTGCTTCTGTG
66 CAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATCTATCTGCTTCTGTG
4920693 ATACACTTATGCAAAGGTTGAACAAG
131 ATACACTTAT-CAAAGGTTGAACAAG
4920719 CCTTCTGTGATAGAGTCATTCAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTTCTTTCTC
1 CCTTCTGTGATAGAGTCATTCAAAGGTTGAATAAGCTCTTCTCATTATGAACTTC-TTCTTTC-C
4920784 CTTCAGATGAGTTTCTTCTCATTA-GAACTTTCTCTGGAAAGGTTGATGCTAATCTATCTGCTTC
64 C-TCAGATGAG-TTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATCTATCTGCTTC
4920848 TGTGATACACTTATCAAA
127 TGTGATACACTTATCAAA
4920866 AGAACAAGCT
Statistics
Matches: 143, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
156 55 0.38
157 7 0.05
158 6 0.04
159 63 0.44
160 12 0.08
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (155 bp):
CCTTCTGTGATAGAGTCATTCAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTTCCCT
CAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATCTATCTGCTTCTGTG
ATACACTTATCAAAGGTTGAACAAG
Found at i:4920918 original size:159 final size:156
Alignment explanation
Indices: 4920563--4920971 Score: 508
Period size: 159 Copynumber: 2.6 Consensus size: 156
4920553 TTGACATATT
* ** *
4920563 CCTTCTGTGATAGAGTCATTCAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTTC-CC
1 CCTTCTGTGATAGACTCATTCAAACCTTCAATAAGCTCTTCTCATTATGAACTTCTTCTTTCTCC
4920627 -TCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATCTATCTGCTTCTG
66 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATCTATCTGCTTCTG
*
4920691 TGATACACTTATGCAAAGGTTGAACAAG
131 TGATACACTTATGCAAA-G-AGAACAAG
* ** *
4920719 CCTTCTGTGATAGAGTCATTCAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTTCTTTCTC
1 CCTTCTGTGATAGACTCATTCAAACCTTCAATAAGCTCTTCTCATTATGAACTTC-TTCTTTCTC
4920784 CTTCAGATGAGTTTCTTCTCATTA-GAACTTTCTCTGGAAAGGTTGATGCTAATCTATCTGCTTC
65 CTTCAGATGAG-TTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATCTATCTGCTTC
4920848 TGTGATACACTTAT-CAAA-AGAACAAG
129 TGTGATACACTTATGCAAAGAGAACAAG
* * *** * *
4920874 CTCTTCTCATTG-T-GAACTTACTTCTTCCCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCT
1 C-CTTCT--GTGATAG-ACTCA-TTCAAACCTTCA-ATAAGCTCTTCTCATTATGAACTTCTTCT
* * *
4920937 TCCTTCTTTAGATGAGTTCTTCTCATTATGAACTT
60 TTCTCCTTCAGATGAGTTCTTCTCATTATGAACTT
4920972 CTTCTTCTTC
Statistics
Matches: 227, Mismatches: 15, Indels: 20
0.87 0.06 0.08
Matches are distributed among these distances:
155 8 0.04
156 61 0.27
157 23 0.10
158 37 0.16
159 86 0.38
160 12 0.05
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (156 bp):
CCTTCTGTGATAGACTCATTCAAACCTTCAATAAGCTCTTCTCATTATGAACTTCTTCTTTCTCC
TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATCTATCTGCTTCTG
TGATACACTTATGCAAAGAGAACAAG
Found at i:4920938 original size:20 final size:20
Alignment explanation
Indices: 4920913--4920979 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
4920903 TTCAGATGAG
4920913 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
* **
4920933 TTCTTCCTTCTTTA-G-A-TGAG
1 TTCTT-C-TCATTATGAACT-TC
4920953 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
4920973 TTCTTCT
1 TTCTTCT
4920980 TCAGATGAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 5 0.14
19 3 0.09
20 19 0.54
21 3 0.09
22 5 0.14
ACGTcount: A:0.16, C:0.24, G:0.07, T:0.52
Consensus pattern (20 bp):
TTCTTCTCATTATGAACTTC
Found at i:4920961 original size:40 final size:39
Alignment explanation
Indices: 4920875--4921007 Score: 195
Period size: 40 Copynumber: 3.5 Consensus size: 39
4920865 AAGAACAAGC
*
4920875 TCTTCTCATTGTGAACTTACTTCTTCC--CTTCAGATGAGT
1 TCTTCTCATTATGAACTT-CTTCTTCCTTCTT-AGATGAGT
4920914 TCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCCTTC-TTAGATGAGT
4920954 TCTTCTCATTATGAACTTCTTCTT-CTTC--AGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTAGATGAGT
4920990 TCTTCTCATTATGAACTT
1 TCTTCTCATTATGAACTT
4921008 TCTCTGGAAA
Statistics
Matches: 90, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
36 26 0.29
38 8 0.09
39 21 0.23
40 33 0.37
41 2 0.02
ACGTcount: A:0.19, C:0.23, G:0.11, T:0.47
Consensus pattern (39 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTAGATGAGT
Found at i:4920967 original size:16 final size:16
Alignment explanation
Indices: 4920948--4921003 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 16
4920938 CCTTCTTTAG
4920948 ATGAGTTCTTCTCATT
1 ATGAGTTCTTCTCATT
*
4920964 ATGAACTTCTTCTTC-TT
1 ATG-AGTTCTTC-TCATT
4920981 CAGATGAGTTCTTCTCATT
1 ---ATGAGTTCTTCTCATT
4921000 ATGA
1 ATGA
4921004 ACTTTCTCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 7 0.22
17 9 0.28
18 4 0.12
19 9 0.28
20 3 0.09
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.46
Consensus pattern (16 bp):
ATGAGTTCTTCTCATT
Found at i:4921247 original size:113 final size:110
Alignment explanation
Indices: 4920951--4921293 Score: 555
Period size: 112 Copynumber: 3.1 Consensus size: 110
4920941 TCTTTAGATG
****
4920951 AGTTCTTCTCATTATGAA-CTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 AGTTCTTCTCATTATGAATCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
* *
4921015 AAAAGTTGATCCACCGAGTGATGAATTTAAGCAAAAGGTTGAACA
66 AAATGTTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACA
*
4921060 AATTCTTCTCATTATGAAT-TTCTTCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCGAAC
1 AGTTCTTCTCATTATGAATCTTCTTCTTCTTC--A-GATGAGTTCTTCTCATTATGAACTCGAAC
4921124 TGGAAATGTTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACA
63 TGGAAATGTTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACA
4921172 AGTTCTTCTCATTATGAACTCCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
1 AGTTCTTCTCATTATGAA-T-CTTCTTC-TTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
4921237 TGGAAATGTTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACA
63 TGGAAATGTTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACA
4921285 AGTTCTTCT
1 AGTTCTTCT
4921294 TTCTTCAGAT
Statistics
Matches: 218, Mismatches: 8, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
109 29 0.13
111 1 0.00
112 88 0.40
113 87 0.40
114 1 0.00
115 6 0.03
116 6 0.03
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.36
Consensus pattern (110 bp):
AGTTCTTCTCATTATGAATCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
AAATGTTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACA
Found at i:4921313 original size:113 final size:110
Alignment explanation
Indices: 4920951--4921293 Score: 489
Period size: 113 Copynumber: 3.1 Consensus size: 110
4920941 TCTTTAGATG
****
4920951 AGTTCTTCTCATT--ATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 AGTTCTTCTCATTAGATG-ACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
* *
4921014 GAAAAGTTGATCCACCGAGTGATGAATTTAAGCAAAAGGTTGAACA
65 GAAATGTTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACA
* *
4921060 AATTCTTCTCATT--ATGAATTTCTTCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCGAA
1 AGTTCTTCTCATTAGATG-ACTTCTTCTTCTTC--A-GATGAGTTCTTCTCATTATGAACTCGAA
4921123 CTGGAAATGTTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACA
62 CTGGAAATGTTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACA
*
4921172 AGTTCTTCTCATTATGAACT-CCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
1 AGTTCTTCTCATTA-G-A-TGACTTCTTC-TTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
4921236 CTGGAAATGTTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACA
62 CTGGAAATGTTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACA
4921285 AGTTCTTCT
1 AGTTCTTCT
4921294 TTCTTCAGAT
Statistics
Matches: 214, Mismatches: 11, Indels: 14
0.90 0.05 0.06
Matches are distributed among these distances:
109 29 0.14
111 1 0.00
112 83 0.39
113 86 0.40
114 1 0.00
115 6 0.03
116 7 0.03
117 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.36
Consensus pattern (110 bp):
AGTTCTTCTCATTAGATGACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
AAATGTTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACA
Found at i:4921439 original size:93 final size:93
Alignment explanation
Indices: 4921194--4921453 Score: 475
Period size: 93 Copynumber: 2.8 Consensus size: 93
4921184 TATGAACTCC
*
4921194 TTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAGT
1 TTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCATCGAGT
4921259 GATGAATTTAAGCAAAAAGTTGAACAAG
66 GATGAATTTAAGCAAAAAGTTGAACAAG
*
4921287 TTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTTGAAATGTTGATCCATCGAGT
1 TTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCATCGAGT
4921352 GATGAATTTAAGCAAAAAGTTGAACAAG
66 GATGAATTTAAGCAAAAAGTTGAACAAG
* *
4921380 TTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCATTGAAT
1 TTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCATCGAGT
*
4921445 GATGGATTT
66 GATGAATTT
4921454 TAATCTTTAC
Statistics
Matches: 161, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 161 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (93 bp):
TTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCATCGAGT
GATGAATTTAAGCAAAAAGTTGAACAAG
Found at i:4922273 original size:114 final size:114
Alignment explanation
Indices: 4922142--4922364 Score: 338
Period size: 114 Copynumber: 2.0 Consensus size: 114
4922132 GATCATGCAG
* * * * *
4922142 TTCATCTTTCAATTCCAATGATTGGTTTTATGGTTCTTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* * *
4922207 ACACTTCCAGAAGATGCTATTGGGTTTTCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATACTATTGAGTCTTCTTATTTCTACTATGAGCAAA
* *
4922256 TTCATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
4922321 ACACTTTCAGAAGATATTATTGAGTCTTCTTATTTCTACTATGA
66 ACACTTCCAGAAGATACTATTGAGTCTTCTTATTTCTACTATGA
4922365 TAACATAGTA
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 97 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.36
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGATTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATACTATTGAGTCTTCTTATTTCTACTATGAGCAAA
Found at i:4922682 original size:19 final size:19
Alignment explanation
Indices: 4922658--4922706 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 19
4922648 AAAATAAAAG
4922658 AATAAATTGAATTTTCTCA
1 AATAAATTGAATTTTCTCA
4922677 AATAAATTGAA---TCTCA
1 AATAAATTGAATTTTCTCA
4922693 AATAAATTGAATTT
1 AATAAATTGAATTT
4922707 AAAGAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 16 0.59
19 11 0.41
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (19 bp):
AATAAATTGAATTTTCTCA
Found at i:4924168 original size:181 final size:185
Alignment explanation
Indices: 4923854--4924220 Score: 697
Period size: 181 Copynumber: 2.0 Consensus size: 185
4923844 AACCCATTTG
4923854 GTAAAATAATCAATTGCCACAAGGATGAAGCAATGTCCATTCGATGCTTTTGGTGTGATTGCCCC
1 GTAAAATAATCAATTGCCACAAGGATGAAGCAATGTCCATTCGATGCTTTTGGTGTGATTGCCCC
4923919 AATGACATCTATTCCCCACATAGAAAATGGCCAGGGTGCTGTCATTACATGTAAAGGAGATGGGG
66 AATGACATCTATTCCCCACATAGAAAATGGCCAGGGTGCTGTCATTACATGTAAAGGAGATGGGG
4923984 GTACATGAATCTTGTCTGCATATA-TGACATTTATGACATTTCCTTGCATAATCA
131 GTACATGAATCTTGTCTGCATATACTGACATTTATGACATTTCCTTGCATAATCA
4924038 GTAAAAT-ATCAATTGCCACAAGGATGAAGC-ATGTCCATTCGATGC-TTTGGTGTGATTGCCCC
1 GTAAAATAATCAATTGCCACAAGGATGAAGCAATGTCCATTCGATGCTTTTGGTGTGATTGCCCC
4924100 AATGACATCTATTCCCCACATAGAAAATGGCCAGGGTGCTGTCATTACATGTAAAGGAGATGGGG
66 AATGACATCTATTCCCCACATAGAAAATGGCCAGGGTGCTGTCATTACATGTAAAGGAGATGGGG
4924165 GTACATGAATCTTGTCTGCATATATCTGACATTTATGACATTTCCTTGCATAATCA
131 GTACATGAATCTTGTCTGCATATA-CTGACATTTATGACATTTCCTTGCATAATCA
4924221 ATGCAATCTG
Statistics
Matches: 181, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
181 106 0.59
182 15 0.08
183 53 0.29
184 7 0.04
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (185 bp):
GTAAAATAATCAATTGCCACAAGGATGAAGCAATGTCCATTCGATGCTTTTGGTGTGATTGCCCC
AATGACATCTATTCCCCACATAGAAAATGGCCAGGGTGCTGTCATTACATGTAAAGGAGATGGGG
GTACATGAATCTTGTCTGCATATACTGACATTTATGACATTTCCTTGCATAATCA
Found at i:4935688 original size:3 final size:3
Alignment explanation
Indices: 4935682--4935718 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
4935672 ATTATTTTTT
4935682 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4935719 TAAATATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:4946405 original size:2 final size:2
Alignment explanation
Indices: 4946398--4946437 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
4946388 TGGATAAAAC
* * *
4946398 AT AT AT AT AT AT AT AT AT AT AT AT AC GT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4946438 TAGTTCGTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4948685 original size:105 final size:105
Alignment explanation
Indices: 4947843--4948682 Score: 1403
Period size: 105 Copynumber: 8.0 Consensus size: 105
4947833 AATCCGATGT
* *
4947843 TGAAATTG-GTAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGAGAAGTTGAACTTGCGTTG
1 TGAAATTGAG-AAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* *
4947907 TCTCGAGTCCAATATCCTTCGTTGTGAAGCGGAAATTGGCTC
64 TCTGGAGTCCAATATCCTTCGTTGTGAAGCTGAAATTGGCTC
* ** *
4947949 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTAAGTTGCC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
* *
4948014 CGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGCTGAAATTGGCTC
* *
4948054 TGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
*
4948119 TGGAGTCCAATATCCTTCGTTGTGAAGCAGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGCTGAAATTGGCTC
*
4948159 TGAAATTGAGAAATGCTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
* * *
4948224 TGGAGTCTAATGTCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGCTGAAATTGGCTC
* * *
4948264 TGCAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTA
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
*
4948329 TGGAGTCCAATATCCTTCGTTGTGAAGCAGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGCTGAAATTGGCTC
* *
4948369 TGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
*
4948434 TGGAGTCCAATATCCTTCGTTGTGAAGCAGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGCTGAAATTGGCTC
*
4948474 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
* *
4948539 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTT
66 TGGAGTCCAATATCCTTCGTTGTGAAGCTGAAATTGGCTC
4948579 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
*
4948644 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 TGGAGTCCAATATCCTTCGTTGTGAAGCTGAAATTGGCT
4948683 TTGGGTAAAA
Statistics
Matches: 690, Mismatches: 43, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
105 678 0.98
106 11 0.02
107 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (105 bp):
TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
TGGAGTCCAATATCCTTCGTTGTGAAGCTGAAATTGGCTC
Found at i:4949431 original size:8 final size:7
Alignment explanation
Indices: 4949418--4949479 Score: 60
Period size: 6 Copynumber: 9.3 Consensus size: 7
4949408 TTATTTTCTC
4949418 TTCTTTT
1 TTCTTTT
4949425 GTTCTTTT
1 -TTCTTTT
*
4949433 TCCTTTT
1 TTCTTTT
*
4949440 TTCCTTT
1 TTCTTTT
*
4949447 TT-TTCT
1 TTCTTTT
4949453 TT-TTTT
1 TTCTTTT
4949459 TTC-TTT
1 TTCTTTT
4949465 TTC-TTT
1 TTCTTTT
4949471 TTCTTTT
1 TTCTTTT
4949478 TT
1 TT
4949480 TTTGTCAACT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
6 21 0.46
7 18 0.39
8 7 0.15
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (7 bp):
TTCTTTT
Found at i:4949440 original size:26 final size:26
Alignment explanation
Indices: 4949411--4949477 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
4949401 ACCCGTCTTA
*
4949411 TTTTCTCTTCTTTTGTTCTTTTTCCT
1 TTTTCTCTTCTTTTCTTCTTTTTCCT
* * *
4949437 TTTT-TCCTTTTTTTCTTTTTTTTTCT
1 TTTTCT-CTTCTTTTCTTCTTTTTCCT
*
4949463 TTTTCTTTTTCTTTT
1 TTTTC-TCTTCTTTT
4949478 TTTTTGTCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
25 1 0.03
26 24 0.75
27 6 0.19
28 1 0.03
ACGTcount: A:0.00, C:0.18, G:0.01, T:0.81
Consensus pattern (26 bp):
TTTTCTCTTCTTTTCTTCTTTTTCCT
Found at i:4949441 original size:9 final size:9
Alignment explanation
Indices: 4949429--4949466 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
4949419 TCTTTTGTTC
4949429 TTTTTCC-T
1 TTTTTCCTT
4949437 TTTTTCCTT
1 TTTTTCCTT
*
4949446 TTTTTCTTT
1 TTTTTCCTT
*
4949455 TTTTTTCTT
1 TTTTTCCTT
4949464 TTT
1 TTT
4949467 CTTTTTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTCCTT
Found at i:4949471 original size:23 final size:22
Alignment explanation
Indices: 4949418--4949482 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
4949408 TTATTTTCTC
**
4949418 TTCTTTTGTTCTTTTTCCTTTTT
1 TTCTTTT-TTCTTTTTTTTTTTT
*
4949441 TCCTTTTTTTCTTTTTTTTTCTTT
1 TTC-TTTTTTCTTTTTTTTT-TTT
4949465 TTC-TTTTTCTTTTTTTTT
1 TTCTTTTTTCTTTTTTTTT
4949483 GTCAACTTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 15 0.42
23 12 0.33
24 9 0.25
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (22 bp):
TTCTTTTTTCTTTTTTTTTTTT
Found at i:4949480 original size:8 final size:8
Alignment explanation
Indices: 4949418--4949482 Score: 64
Period size: 8 Copynumber: 8.2 Consensus size: 8
4949408 TTATTTTCTC
*
4949418 TTCTTTTG
1 TTCTTTTT
4949426 TTC-TTTT
1 TTCTTTTT
*
4949433 TCCTTTTT
1 TTCTTTTT
*
4949441 TCCTTTTT
1 TTCTTTTT
4949449 TTCTTTTT
1 TTCTTTTT
4949457 TT-TTCTTT
1 TTCTT-TTT
4949465 TTCTTTTT
1 TTCTTTTT
4949473 CTT-TTTTT
1 -TTCTTTTT
4949481 TT
1 TT
4949483 GTCAACTTAG
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
7 9 0.18
8 37 0.74
9 4 0.08
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (8 bp):
TTCTTTTT
Found at i:4949482 original size:33 final size:34
Alignment explanation
Indices: 4949411--4949481 Score: 94
Period size: 31 Copynumber: 2.2 Consensus size: 34
4949401 ACCCGTCTTA
*
4949411 TTTTCTCTTCTTTTGTTCTTTTTCCTTTTTTCCT
1 TTTTTTCTTCTTTTGTTCTTTTTCCTTTTTTCCT
* *
4949445 TTTTTTCTT-TTTTTTTCTTTTT-C-TTTTTCTT
1 TTTTTTCTTCTTTTGTTCTTTTTCCTTTTTTCCT
4949476 TTTTTT
1 TTTTTT
4949482 TGTCAACTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 13 0.38
32 1 0.03
33 12 0.35
34 8 0.24
ACGTcount: A:0.00, C:0.17, G:0.01, T:0.82
Consensus pattern (34 bp):
TTTTTTCTTCTTTTGTTCTTTTTCCTTTTTTCCT
Found at i:4956685 original size:10 final size:10
Alignment explanation
Indices: 4956672--4956700 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
4956662 TAAAATAGAG
4956672 ATAAATAAAA
1 ATAAATAAAA
4956682 ATAAATAAAA
1 ATAAATAAAA
4956692 ATAAATAAA
1 ATAAATAAA
4956701 TGGTAAAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
ATAAATAAAA
Found at i:4957988 original size:2 final size:2
Alignment explanation
Indices: 4957981--4958012 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4957971 ACATATGTGA
4957981 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4958013 ACAAATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4963334 original size:73 final size:73
Alignment explanation
Indices: 4963231--4963712 Score: 282
Period size: 71 Copynumber: 6.7 Consensus size: 73
4963221 GTGTTACATG
* * ** *
4963231 AGACAAGTTTCCCTCGAAATAC-AAATTTTTTCTCACTTGAGGTATTTTTTTCTTAAAACAA-AA
1 AGAC-AGTTTCTCTC-AAA-ACAAAATTTTATCTCACTTGA-G-ATAGTTTTCCTAAAA-AACAA
4963294 TTC-GTCTCACTCA
60 TTCAGTCTCACTCA
**
4963307 AGACAGTTTCTCTTGAAACAAAATTTTTATCTCACTTGAGATAGTTTTCCTAAAAAACAATTCAT
1 AGACAGTTTCTCTCAAAACAAAA-TTTTATCTCACTTGAGATAGTTTTCCTAAAAAACAATTCA-
*
4963372 GTCTCACTCG
64 GTCTCACTCA
* * * * * *
4963382 AGATAGTTTCTCTCAAAACAAAATTTTATATCAATTAAGATAGTTTTCCTCAAAAAAAAAATCA-
1 AGACAGTTTCTCTCAAAACAAAATTTTATCTCACTTGAGATAGTTTTCCT-AAAAAACAATTCAG
*
4963446 TCTCACTTA
65 TCTCACTCA
* * ** * * * ** * *
4963455 AGACAATCTC-CTTGAAACAATAATTGTATCTCACTCGAGCTA-TTTTCCCT-TGAAATATTTC-
1 AGACAGTTTCTCTCAAAACAA-AATTTTATCTCACTTGAGATAGTTTT-CCTAAAAAACAATTCA
**
4963516 GTCTCACTTG
64 GTCTCACTCA
* * * * * * *
4963526 ATACAATTTTTCTCGAAACAAAATTTCATCTCACTTGAGATA-TTTTCCCT--TAAA-AATT-TG
1 AGACAGTTTCTCTCAAAACAAAATTTTATCTCACTTGAGATAGTTTT-CCTAAAAAACAATTCAG
*
4963586 TCTCACTCG
65 TCTCACTCA
* * * * ** **
4963595 AGATAGTTTCTCTCAGAACAAAATTTCATTTCACTTGAGATA-TTTTCCTTTGAAAA-TTTTC-G
1 AGACAGTTTCTCTCAAAACAAAATTTTATCTCACTTGAGATAGTTTTCC-TAAAAAACAATTCAG
4963657 TCTCACTCA
65 TCTCACTCA
* *
4963666 ATA-ATGTTTCTCTCAAAGA-AAAATTTCATCTCACTTGAGATA-TTTTC
1 AGACA-GTTTCTCTCAAA-ACAAAATTTTATCTCACTTGAGATAGTTTTC
4963713 TCTTGAAATT
Statistics
Matches: 329, Mismatches: 60, Indels: 39
0.77 0.14 0.09
Matches are distributed among these distances:
68 2 0.01
69 52 0.16
70 4 0.01
71 100 0.30
72 24 0.07
73 51 0.16
74 30 0.09
75 62 0.19
76 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (73 bp):
AGACAGTTTCTCTCAAAACAAAATTTTATCTCACTTGAGATAGTTTTCCTAAAAAACAATTCAGT
CTCACTCA
Found at i:4963532 original size:71 final size:69
Alignment explanation
Indices: 4963446--4963742 Score: 203
Period size: 71 Copynumber: 4.2 Consensus size: 69
4963436 AAAAAAATCA
* *
4963446 TCTCACTTAAGACAA-TCTCCTTGAAACAATAATTGT-ATCTCACTCGAGCTATTTTCCCTTGAA
1 TCTCACTTAAGACAATTCTCCTCGAAACAA-AATT-TCATCTCACTCGAGATATTTTCCCTT-AA
*
4963509 ATATTTCG
63 AAATTT-G
* * * * *
4963517 TCTCACTTGATACAATTTTTCTCGAAACAAAATTTCATCTCACTTGAGATATTTTCCCTTAAAAA
1 TCTCACTTAAGACAATTCTCCTCGAAACAAAATTTCATCTCACTCGAGATATTTTCCCTTAAAAA
4963582 TTTG
66 TTTG
** * * * * *
4963586 TCTCACTCGAGATAGTT-TCTCTC-AGAACAAAATTTCATTTCACTTGAGATATTTTCCTTTGAA
1 TCTCACTTAAGACAATTCTC-CTCGA-AACAAAATTTCATCTCACTCGAGATATTTTCCCTT-AA
*
4963649 AATTTTCG
63 AAATTT-G
* * * * * *
4963657 TCTCAC-TCA-ATAATGTTTCTCTC-AAAGAAAAATTTCATCTCACTTGAGATATTTTCTCTTGA
1 TCTCACTTAAGACAAT-TCTC-CTCGAAA-CAAAATTTCATCTCACTCGAGATATTTTCCCTT-A
**
4963719 AATTTTTTG
62 AA-AATTTG
*
4963728 TCTCACTCAAGACAA
1 TCTCACTTAAGACAA
4963743 CATGACTTAA
Statistics
Matches: 187, Mismatches: 27, Indels: 22
0.79 0.11 0.09
Matches are distributed among these distances:
68 2 0.01
69 54 0.29
70 19 0.10
71 93 0.50
72 16 0.09
73 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.39
Consensus pattern (69 bp):
TCTCACTTAAGACAATTCTCCTCGAAACAAAATTTCATCTCACTCGAGATATTTTCCCTTAAAAA
TTTG
Found at i:4963635 original size:37 final size:35
Alignment explanation
Indices: 4963534--4963639 Score: 103
Period size: 32 Copynumber: 3.1 Consensus size: 35
4963524 TGATACAATT
*
4963534 TTTCTCGA-AACAAAATTTCATCTCACTTGAGATA
1 TTTCTCCAGAACAAAATTTCATCTCACTTGAGATA
*** * *
4963568 TTT-TCCCTTA-AAAATTT-GTCTCACTCGAGATA
1 TTTCTCCAGAACAAAATTTCATCTCACTTGAGATA
*
4963600 GTTTCTCTCAGAACAAAATTTCATTTCACTTGAGATA
1 -TTTCTC-CAGAACAAAATTTCATCTCACTTGAGATA
4963637 TTT
1 TTT
4963640 TCCTTTGAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
32 13 0.24
33 12 0.22
34 6 0.11
35 2 0.04
36 10 0.18
37 12 0.22
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (35 bp):
TTTCTCCAGAACAAAATTTCATCTCACTTGAGATA
Found at i:4963715 original size:37 final size:35
Alignment explanation
Indices: 4963326--4963712 Score: 182
Period size: 37 Copynumber: 10.8 Consensus size: 35
4963316 CTCTTGAAAC
* *
4963326 AAAATTTTTATCTCACTTGAGATAGTTTTCCT-AAA
1 AAAAATTTCATCTCACTTGAGATA-TTTTCCTCAAA
* *
4963361 AAACAA-TTCATGTCTCACTCGAGATAGTTTCTCTCAAA
1 AAA-AATTTCA--TCTCACTTGAGATATTTTC-CTCAAA
* * * *
4963399 ACAAAATTTTATATCAATTAAGATAGTTTTCCTCAAA
1 A-AAAATTTCATCTCACTTGAGATA-TTTTCCTCAAA
** * * * * *
4963436 AAAAAAATCATCTCACTTAAGACAATCTCCTTGAAA
1 AAAAATTTCATCTCACTTGAGATATTTTCC-TCAAA
* * * ***
4963472 CAATAATTGT-ATCTCACTCGAGCTATTTTCC-CTTG
1 -AAAAATT-TCATCTCACTTGAGATATTTTCCTCAAA
* * * * *
4963507 AAATATTTCGTCTCACTTGATACAATTTTTCTCGAAA
1 AAAAATTTCATCTCACTTGAGA-TATTTTCCTC-AAA
* **
4963544 CAAAATTTCATCTCACTTGAGATATTTTCC-C-TT
1 AAAAATTTCATCTCACTTGAGATATTTTCCTCAAA
* * *
4963577 AAAAATTT-GTCTCACTCGAGATAGTTTCTCTCAGAA
1 AAAAATTTCATCTCACTTGAGATATTTTC-CTCA-AA
* * ***
4963613 CAAAATTTCATTTCACTTGAGATATTTTCCT-TTG
1 AAAAATTTCATCTCACTTGAGATATTTTCCTCAAA
* * *
4963647 AAAATTTTCGTCTCAC-TCA-ATAATGTTTCTCTCAAA
1 AAAAATTTCATCTCACTTGAGAT-AT-TTTC-CTCAAA
4963683 GAAAAATTTCATCTCACTTGAGATATTTTC
1 -AAAAATTTCATCTCACTTGAGATATTTTC
4963713 TCTTGAAATT
Statistics
Matches: 249, Mismatches: 76, Indels: 52
0.66 0.20 0.14
Matches are distributed among these distances:
32 19 0.08
33 13 0.05
34 31 0.12
35 19 0.08
36 42 0.17
37 103 0.41
38 15 0.06
39 7 0.03
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.38
Consensus pattern (35 bp):
AAAAATTTCATCTCACTTGAGATATTTTCCTCAAA
Found at i:4967690 original size:93 final size:92
Alignment explanation
Indices: 4967541--4967711 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 92
4967531 ACTTATAATT
* * *
4967541 TATTTTTCTTAAAAAGAACAATTATAATTTATTAACGGTTAACCGTTGGTTTATCATTTGTCAAA
1 TATTTTTCTTAAAAAGAACAATTATAATTTATTAACGGTTAACCATTGGTTAATCATTTGACAAA
*
4967606 ATTCGTAACCATAATTGTAACCATTAA
66 ATTCATAACCATAATTGTAACCATTAA
* * * *
4967633 TATTTTTCTTAAAAAGATATAATTATAATTTATTGACGGTTAA-CATATTGTTAATCATTTGACG
1 TATTTTTCTTAAAAAGA-ACAATTATAATTTATTAACGGTTAACCAT-TGGTTAATCATTTGACA
4967697 AAATTCATAACCATA
64 AAATTCATAACCATA
4967712 TAACCATTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
92 19 0.28
93 50 0.72
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (92 bp):
TATTTTTCTTAAAAAGAACAATTATAATTTATTAACGGTTAACCATTGGTTAATCATTTGACAAA
ATTCATAACCATAATTGTAACCATTAA
Found at i:4969064 original size:21 final size:21
Alignment explanation
Indices: 4969040--4969081 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4969030 ATATATATAT
* *
4969040 TTATAAAGGTTTAAAATTAAA
1 TTATAAAAGTTTAAAACTAAA
*
4969061 TTATAAAATTTTAAAACTAAA
1 TTATAAAAGTTTAAAACTAAA
4969082 ATAGAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (21 bp):
TTATAAAAGTTTAAAACTAAA
Found at i:4973409 original size:41 final size:41
Alignment explanation
Indices: 4973321--4973561 Score: 160
Period size: 41 Copynumber: 6.0 Consensus size: 41
4973311 CAAAATGATA
* * * * * * * *
4973321 ACTTTAGCGGTGTTTTTATAAAAACGTCGCGATAGAGTAGT
1 ACTTTAGTGGAGTTTTTTTACAAACGCCGCTATAGACTCGT
* * * *
4973362 AATTTAGTGGAGTTTTTGTACAAACTCCGCTATAGACTCAT
1 ACTTTAGTGGAGTTTTTTTACAAACGCCGCTATAGACTCGT
4973403 ACTTTAGTGGTA-TTTATGTTTACAAACGCCG--AT--ACTCGT
1 ACTTTAGTGG-AGTTT-T-TTTACAAACGCCGCTATAGACTCGT
* *
4973442 ACTTTAGT-G-G---TGTTACAAACGCCGCTATAGACTTGT
1 ACTTTAGTGGAGTTTTTTTACAAACGCCGCTATAGACTCGT
* * * * *
4973478 ACTTTAGTGGCGTTTTTATACAAACGCCACTATAAACTTGT
1 ACTTTAGTGGAGTTTTTTTACAAACGCCGCTATAGACTCGT
* * * *
4973519 ACTTTAGGGGCGTTTGTGTTTACAAACGCCGCTAAAAACTCGT
1 ACTTTAGTGGAGTTT-T-TTTACAAACGCCGCTATAGACTCGT
4973562 GTTTATATAC
Statistics
Matches: 159, Mismatches: 26, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
32 12 0.08
33 1 0.01
34 2 0.01
36 13 0.08
37 1 0.01
38 2 0.01
39 13 0.08
41 80 0.50
42 3 0.02
43 32 0.20
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (41 bp):
ACTTTAGTGGAGTTTTTTTACAAACGCCGCTATAGACTCGT
Found at i:4976529 original size:42 final size:42
Alignment explanation
Indices: 4976455--4976680 Score: 213
Period size: 42 Copynumber: 5.3 Consensus size: 42
4976445 ATCATGAGCT
*
4976455 CTTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGAC
1 CTTTTGCGGCGTTTGT-TTCAAAAACGCCGCTATAGATCTGAC
* * * * *
4976498 ATTTTACGGCATTTGTTTCAAAAATGTCGCTATAGATCTGAC
1 CTTTTGCGGCGTTTGTTTCAAAAACGCCGCTATAGATCTGAC
* * * * * *
4976540 CTTTTGTGGCGTTT-TTTTAAAAATGTCACTATAGATATCGAC
1 CTTTTGCGGCGTTTGTTTCAAAAACGCCGCTATAGATCT-GAC
* * * *
4976582 CTTTTGCGGCGGTTCTTCCGAAAACGCCGCTATAGATCTGAC
1 CTTTTGCGGCGTTTGTTTCAAAAACGCCGCTATAGATCTGAC
* * * *
4976624 CTTTTACGACGTTTGTTTCAAAAACACCAG-GATAGATCTTGAC
1 CTTTTGCGGCGTTTGTTTCAAAAACGCC-GCTATAGATC-TGAC
*
4976667 CTATTGCGGCGTTT
1 CTTTTGCGGCGTTT
4976681 TTTGTTCTCA
Statistics
Matches: 146, Mismatches: 33, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
41 21 0.14
42 79 0.54
43 46 0.32
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (42 bp):
CTTTTGCGGCGTTTGTTTCAAAAACGCCGCTATAGATCTGAC
Found at i:4976682 original size:126 final size:127
Alignment explanation
Indices: 4976455--4976683 Score: 318
Period size: 126 Copynumber: 1.8 Consensus size: 127
4976445 ATCATGAGCT
* * *
4976455 CTTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACATTTTACGGCATTTGTTTCAAA
1 CTTTTGCGGCGGTTCTATCCAAAAACGCCGCTATAGATCTGACATTTTACGACATTTGTTTCAAA
*** * * *
4976520 AATGTCGCTATAGATCTGACCTTTTGTGGCGTTTTTTTAAAAATGTCACTATAGATATCGAC
66 AACACCGCGATAGATCTGACCTATTGCGGCGTTTTTTTAAAAATGTCACTATAGATATCGAC
* * *
4976582 CTTTTGCGGCGGTTCT-TCCGAAAACGCCGCTATAGATCTGACCTTTTACGACGTTTGTTTCAAA
1 CTTTTGCGGCGGTTCTATCCAAAAACGCCGCTATAGATCTGACATTTTACGACATTTGTTTCAAA
4976646 AACACCAG-GATAGATCTTGACCTATTGCGGCGTTTTTT
66 AACACC-GCGATAGATC-TGACCTATTGCGGCGTTTTTT
4976684 GTTCTCAAAC
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
126 54 0.61
127 34 0.39
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (127 bp):
CTTTTGCGGCGGTTCTATCCAAAAACGCCGCTATAGATCTGACATTTTACGACATTTGTTTCAAA
AACACCGCGATAGATCTGACCTATTGCGGCGTTTTTTTAAAAATGTCACTATAGATATCGAC
Found at i:4978632 original size:20 final size:21
Alignment explanation
Indices: 4978593--4978634 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
4978583 GGCACTTCAA
**
4978593 TTATTAATGAATTTATTTATT
1 TTATTAATGAATGCATTTATT
4978614 TTATTAAT-AATGCATTTATT
1 TTATTAATGAATGCATTTATT
4978634 T
1 T
4978635 AATAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (21 bp):
TTATTAATGAATGCATTTATT
Found at i:4979417 original size:22 final size:21
Alignment explanation
Indices: 4979392--4979449 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
4979382 TGTATAATGG
*
4979392 TATAAAAATATAAATATCTAAC
1 TATAAAAA-ATAAATACCTAAC
*
4979414 TATAAAAAAATTAAATACCTAAT
1 TAT-AAAAAA-TAAATACCTAAC
*
4979437 TACAAAAAATAAA
1 TATAAAAAATAAA
4979450 ATTAAATACG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 4 0.13
22 10 0.32
23 17 0.55
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.28
Consensus pattern (21 bp):
TATAAAAAATAAATACCTAAC
Found at i:4979428 original size:23 final size:24
Alignment explanation
Indices: 4979395--4979445 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
4979385 ATAATGGTAT
* *
4979395 AAAAATATAAATATCTAACTATAA
1 AAAAATATAAATACCTAACTACAA
*
4979419 AAAAAT-TAAATACCTAATTACAA
1 AAAAATATAAATACCTAACTACAA
4979442 AAAA
1 AAAA
4979446 TAAAATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (24 bp):
AAAAATATAAATACCTAACTACAA
Found at i:4979451 original size:22 final size:23
Alignment explanation
Indices: 4979395--4979451 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
4979385 ATAATGGTAT
*
4979395 AAAAATATAAATATCTAACTATAA
1 AAAAATA-AAATACCTAACTATAA
*
4979419 AAAAATTAAATACCTAA-T-TACA
1 AAAAATAAAATACCTAACTATA-A
4979441 AAAAATAAAAT
1 AAAAATAAAAT
4979452 TAAATACGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 2 0.07
22 12 0.41
23 9 0.31
24 6 0.21
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (23 bp):
AAAAATAAAATACCTAACTATAA
Found at i:4981272 original size:19 final size:20
Alignment explanation
Indices: 4981238--4981275 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4981228 TCAGGACTTC
4981238 GAAAAAAATATCACTTTTTT
1 GAAAAAAATATCACTTTTTT
*
4981258 GAAAAAAAT-TGACTTTTT
1 GAAAAAAATATCACTTTTT
4981276 GGGTCAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (20 bp):
GAAAAAAATATCACTTTTTT
Found at i:4985437 original size:14 final size:14
Alignment explanation
Indices: 4985418--4985449 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
4985408 AGCCATATTA
4985418 TCATGTTTTCCTTT
1 TCATGTTTTCCTTT
4985432 TCATGTTTTCCTTT
1 TCATGTTTTCCTTT
4985446 TCAT
1 TCAT
4985450 TGCGACTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.09, C:0.22, G:0.06, T:0.62
Consensus pattern (14 bp):
TCATGTTTTCCTTT
Found at i:4991506 original size:20 final size:20
Alignment explanation
Indices: 4991481--4991520 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4991471 TGACTTTTCA
4991481 GGTCAAAGTCAACGGTTAAC
1 GGTCAAAGTCAACGGTTAAC
* *
4991501 GGTCAAATTCAATGGTTAAC
1 GGTCAAAGTCAACGGTTAAC
4991521 TCTGGGCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (20 bp):
GGTCAAAGTCAACGGTTAAC
Found at i:4991535 original size:23 final size:20
Alignment explanation
Indices: 4991484--4991538 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
4991474 CTTTTCAGGT
* *
4991484 CAAAGTCAACGGTTAACGGT
1 CAAAGTCAATGGTTAACGGG
*
4991504 CAAATTCAATGGTTAACTCTGGG
1 CAAAGTCAATGGTTAA--C-GGG
4991527 CAAAGTCAATGG
1 CAAAGTCAATGG
4991539 GCCAGGTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 14 0.50
22 1 0.04
23 13 0.46
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (20 bp):
CAAAGTCAATGGTTAACGGG
Found at i:4991551 original size:19 final size:19
Alignment explanation
Indices: 4991527--4991595 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
4991517 TAACTCTGGG
*
4991527 CAAAGTCAATGGGCCAGGT
1 CAAAGTCAATGGGTCAGGT
*
4991546 CAAAGTCAATAGGTCAGGT
1 CAAAGTCAATGGGTCAGGT
*
4991565 C-AAGTCAATGGGTCGGGT
1 CAAAGTCAATGGGTCAGGT
*
4991583 CAAATTCAA-GGGT
1 CAAAGTCAATGGGT
4991596 TAGACTGCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
18 20 0.45
19 24 0.55
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.20
Consensus pattern (19 bp):
CAAAGTCAATGGGTCAGGT
Found at i:4991571 original size:18 final size:18
Alignment explanation
Indices: 4991529--4991585 Score: 78
Period size: 18 Copynumber: 3.1 Consensus size: 18
4991519 ACTCTGGGCA
*
4991529 AAGTCAATGGGCCAGGTC
1 AAGTCAATGGGTCAGGTC
*
4991547 AAAGTCAATAGGTCAGGTC
1 -AAGTCAATGGGTCAGGTC
*
4991566 AAGTCAATGGGTCGGGTC
1 AAGTCAATGGGTCAGGTC
4991584 AA
1 AA
4991586 ATTCAAGGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 18 0.53
19 16 0.47
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.19
Consensus pattern (18 bp):
AAGTCAATGGGTCAGGTC
Found at i:5009604 original size:22 final size:22
Alignment explanation
Indices: 5009574--5009615 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
5009564 TCAGCTGTTA
* *
5009574 TAACTCCTGAAATTATATCATG
1 TAACCCCTGAAATTAAATCATG
*
5009596 TAACCCCTGGAATTAAATCA
1 TAACCCCTGAAATTAAATCA
5009616 AATAACTCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (22 bp):
TAACCCCTGAAATTAAATCATG
Found at i:5009621 original size:22 final size:22
Alignment explanation
Indices: 5009573--5009621 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
5009563 TTCAGCTGTT
* * *
5009573 ATAACTCCTGAAATTATATCAT
1 ATAACCCCTGAAATTAAATCAA
* *
5009595 GTAACCCCTGGAATTAAATCAA
1 ATAACCCCTGAAATTAAATCAA
5009617 ATAAC
1 ATAAC
5009622 TCATGTAACT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (22 bp):
ATAACCCCTGAAATTAAATCAA
Found at i:5011678 original size:22 final size:22
Alignment explanation
Indices: 5011648--5011689 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
5011638 TCAGCTGTTA
* *
5011648 TAACTCCTGAAATTATATCATG
1 TAACCCCTGAAATTAAATCATG
*
5011670 TAACCCCTGGAATTAAATCA
1 TAACCCCTGAAATTAAATCA
5011690 AATAACTCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (22 bp):
TAACCCCTGAAATTAAATCATG
Found at i:5011695 original size:22 final size:22
Alignment explanation
Indices: 5011647--5011695 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
5011637 TTCAGCTGTT
* * *
5011647 ATAACTCCTGAAATTATATCAT
1 ATAACCCCTGAAATTAAATCAA
* *
5011669 GTAACCCCTGGAATTAAATCAA
1 ATAACCCCTGAAATTAAATCAA
5011691 ATAAC
1 ATAAC
5011696 TCATGTAACT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (22 bp):
ATAACCCCTGAAATTAAATCAA
Found at i:5011987 original size:6 final size:6
Alignment explanation
Indices: 5011976--5012000 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5011966 GACACGTATT
5011976 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
5012001 GCCGAGCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:5014869 original size:14 final size:14
Alignment explanation
Indices: 5014850--5014883 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5014840 TTATACAAAT
*
5014850 CCTAAATCCTAAAA
1 CCTAAACCCTAAAA
5014864 CCTAAACCCTAAAA
1 CCTAAACCCTAAAA
*
5014878 TCTAAA
1 CCTAAA
5014884 AACAAAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
CCTAAACCCTAAAA
Found at i:5019775 original size:51 final size:52
Alignment explanation
Indices: 5019711--5019833 Score: 185
Period size: 51 Copynumber: 2.4 Consensus size: 52
5019701 ACAAAAGACT
*
5019711 ATCTCTTCGATGCTCTTATATTGCCAAAACATGTTTTACCAAAA-CCCATGCA
1 ATCTC-TCGATGCTCTTATATTGCCAAAACATGTTTTACCAAAACCCCAGGCA
* * *
5019763 ATCTCTCGATGCTCTTATATTTCCAAGACATGTTTTACCAAAACCCCAGGCG
1 ATCTCTCGATGCTCTTATATTGCCAAAACATGTTTTACCAAAACCCCAGGCA
*
5019815 ATCTCTCGATGCTGTTATA
1 ATCTCTCGATGCTCTTATA
5019834 GCGCAAGGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 36 0.55
52 29 0.45
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (52 bp):
ATCTCTCGATGCTCTTATATTGCCAAAACATGTTTTACCAAAACCCCAGGCA
Found at i:5027519 original size:12 final size:12
Alignment explanation
Indices: 5027502--5027527 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5027492 TTCAACACTT
5027502 TCAGCTCGATTC
1 TCAGCTCGATTC
5027514 TCAGCTCGATTC
1 TCAGCTCGATTC
5027526 TC
1 TC
5027528 TGGTTGTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.35, G:0.15, T:0.35
Consensus pattern (12 bp):
TCAGCTCGATTC
Found at i:5031676 original size:3 final size:3
Alignment explanation
Indices: 5031668--5031716 Score: 89
Period size: 3 Copynumber: 16.0 Consensus size: 3
5031658 TATATATTTT
5031668 TAA TAA TAA TAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
5031714 TAA
1 TAA
5031717 ATAAATAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5031685 original size:25 final size:25
Alignment explanation
Indices: 5031668--5031716 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
5031658 TATATATTTT
5031668 TAATAATAATAATAATATATAATAA
1 TAATAATAATAATAATATATAATAA
5031693 TAATAATAATAATAATA-ATAATAA
1 TAATAATAATAATAATATATAATAA
5031717 ATAAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
TAATAATAATAATAATATATAATAA
Found at i:5032173 original size:112 final size:111
Alignment explanation
Indices: 5031957--5032187 Score: 261
Period size: 112 Copynumber: 2.1 Consensus size: 111
5031947 TAGAGTCATT
* * * *
5031957 CAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTTTTCTTTCTTTTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAACTCTTCTCATTATGAA--TTTTCTTTCTTCTTAAGATGAGTTCTTCTCA
* * * * * *
5032022 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
64 TTATGAACTTACTCTGGAAAAGCTAATCCATCAAATGATGAATTTAAA
*
5032070 CAAAAGGTTGAACAAATTCTTCTCATTATGAA-TTTC-TTCTTCTTAAGATTACGAGTTCTTCTC
1 CAAAAGGTTGAACAAACTCTTCTCATTATGAATTTTCTTTCTTCTTAAGA-T--GAGTTCTTCTC
* * *
5032133 ATTATGAACTCTAC-CTGGCAATGTTAATCCATCAAATGATGAATTTAAA
63 ATTATGAACT-TACTCTGGAAAAGCTAATCCATCAAATGATGAATTTAAA
5032182 CAAAAG
1 CAAAAG
5032188 TGTCGCAACT
Statistics
Matches: 100, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
109 10 0.10
110 5 0.05
112 54 0.54
113 31 0.31
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (111 bp):
CAAAAGGTTGAACAAACTCTTCTCATTATGAATTTTCTTTCTTCTTAAGATGAGTTCTTCTCATT
ATGAACTTACTCTGGAAAAGCTAATCCATCAAATGATGAATTTAAA
Found at i:5032745 original size:16 final size:18
Alignment explanation
Indices: 5032715--5032749 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
5032705 ATATAAAAAA
5032715 ATAAAATATAGGATAAAT
1 ATAAAATATAGGATAAAT
5032733 ATAAAA-ATA-GATAAAT
1 ATAAAATATAGGATAAAT
5032749 A
1 A
5032750 AATGAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
ATAAAATATAGGATAAAT
Found at i:5032774 original size:17 final size:17
Alignment explanation
Indices: 5032683--5032777 Score: 50
Period size: 19 Copynumber: 5.2 Consensus size: 17
5032673 TAATGCAAAT
5032683 AAATA-ATAAAACAAGTA
1 AAATATATAAAA-AAGTA
* *
5032700 AAAGAATATAAAAAAATA
1 AAA-TATATAAAAAAGTA
* *
5032718 AAATATAGGATAAATA-TAA
1 AAATATA-TA-AAAAAGT-A
*
5032737 AAATAGATAAATAAATGAGTA
1 AAATATAT-AA-AAA--AGTA
5032758 AAATATATAAAAAAGTA
1 AAATATATAAAAAAGTA
5032775 AAA
1 AAA
5032778 GCATATATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 20
0.67 0.10 0.23
Matches are distributed among these distances:
17 13 0.22
18 11 0.19
19 23 0.39
20 2 0.03
21 9 0.15
22 1 0.02
ACGTcount: A:0.69, C:0.01, G:0.08, T:0.21
Consensus pattern (17 bp):
AAATATATAAAAAAGTA
Found at i:5032785 original size:20 final size:20
Alignment explanation
Indices: 5032760--5032797 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5032750 AATGAGTAAA
5032760 ATATATAAAAAAGTAAAAGC
1 ATATATAAAAAAGTAAAAGC
* *
5032780 ATATATATATAAGTAAAA
1 ATATATAAAAAAGTAAAA
5032798 TAATAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
ATATATAAAAAAGTAAAAGC
Found at i:5032814 original size:75 final size:72
Alignment explanation
Indices: 5032683--5032821 Score: 158
Period size: 75 Copynumber: 1.9 Consensus size: 72
5032673 TAATGCAAAT
*
5032683 AAATAATAAAACAAGTAAAAGAATATAAAAAAATAAAATATAGGATAAATATAAAAATAGATAAA
1 AAATAATAAAACAAGTAAAAGAATATAAAAAAATAAAATATA-GATAAATA-AAAAAAAGA-AAA
5032748 TAAATGAGTA
63 TAAATGAGTA
* * *
5032758 AAATATATAAAA-AAGTAAAAGCATATATATATAAGTAAAATAATA-AT-AATAAAAAAAAGAAA
1 AAATA-ATAAAACAAGTAAAAG-A-ATATAAAAAAATAAAAT-ATAGATAAATAAAAAAAAGAAA
5032820 AT
62 AT
5032822 CAAAAGTAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
73 4 0.07
74 8 0.14
75 18 0.32
76 9 0.16
77 14 0.25
78 3 0.05
ACGTcount: A:0.68, C:0.01, G:0.08, T:0.22
Consensus pattern (72 bp):
AAATAATAAAACAAGTAAAAGAATATAAAAAAATAAAATATAGATAAATAAAAAAAAGAAAATAA
ATGAGTA
Found at i:5032925 original size:33 final size:32
Alignment explanation
Indices: 5032866--5032959 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 32
5032856 GGAAATATAT
* *
5032866 ATATATATATATATAATAACACTAATAAAAAAC
1 ATATATACATATATAATAA-AATAATAAAAAAC
* **
5032899 ATATATACATATATAATAAAATTAATAGAAAGT
1 ATATATACATATATAATAAAA-TAATAAAAAAC
* *
5032932 A-ATATGCATATATAACAAGAATAATAAA
1 ATATATACATATATAATAA-AATAATAAA
5032960 GTAGGAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
32 22 0.43
33 29 0.57
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (32 bp):
ATATATACATATATAATAAAATAATAAAAAAC
Found at i:5033382 original size:34 final size:34
Alignment explanation
Indices: 5033339--5033408 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
5033329 TGAATCCTAG
5033339 TAAAATTCTATCATATCTTTAGGAGTTTGAATCC
1 TAAAATTCTATCATATCTTTAGGAGTTTGAATCC
* *
5033373 TAAAATTCTATCCTATTTTTAGGAGTTTGAATCC
1 TAAAATTCTATCATATCTTTAGGAGTTTGAATCC
5033407 TA
1 TA
5033409 GTAGGACGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (34 bp):
TAAAATTCTATCATATCTTTAGGAGTTTGAATCC
Found at i:5034247 original size:105 final size:105
Alignment explanation
Indices: 5033940--5034771 Score: 1314
Period size: 105 Copynumber: 8.0 Consensus size: 105
5033930 CATTGTTCCA
* * * ** * * *
5033940 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * * * *
5034005 CAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
**
5034046 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
5034106 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
5034146 AGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
5034211 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
5034251 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
5034316 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
5034356 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
5034421 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
5034461 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* * *
5034526 AGCGGTCCCTTCGTCGTGAAGTTGAATTTGCATTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
5034566 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
5034631 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
5034671 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * *
5034736 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
5034772 CCTCGAGTGC
Statistics
Matches: 680, Mismatches: 40, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
100 82 0.12
101 1 0.00
102 4 0.01
103 4 0.01
104 3 0.00
105 509 0.75
106 77 0.11
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:5035504 original size:68 final size:65
Alignment explanation
Indices: 5035414--5035571 Score: 217
Period size: 68 Copynumber: 2.4 Consensus size: 65
5035404 AAGATATCTG
* * **
5035414 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGA-
5035479 TT
64 TT
* * *
5035481 TGTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
5035546 T
65 T
*
5035547 TTGTTTCAAGGGAAACTGTCTCAAG
1 TTGTTTCAAGAGAAACTGTCTCAAG
5035572 ATAGACGAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
65 22 0.27
66 3 0.04
67 24 0.30
68 32 0.40
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.32
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:5035547 original size:67 final size:67
Alignment explanation
Indices: 5035401--5035597 Score: 220
Period size: 65 Copynumber: 2.9 Consensus size: 67
5035391 GGAAACGATC
* * * *
5035401 TCAAAGATATCTGTTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAA
1 TCAAAGAT-TTTG-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT-TGTTTTAAGGGAAA
5035466 TAAAT
63 TAAAT
** * *
5035471 TTGAAGATTTTGTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAA
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAA
5035536 AT
66 AT
* ** * *
5035538 TCAAAGA-TTT-TGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAA
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAAATTTGTTTTAAGGGAAA
5035598 CTGTCTCAAG
Statistics
Matches: 109, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
65 38 0.35
66 7 0.06
67 23 0.21
68 32 0.29
69 3 0.03
70 6 0.06
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (67 bp):
TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAA
AT
Found at i:5035598 original size:36 final size:36
Alignment explanation
Indices: 5035547--5035806 Score: 141
Period size: 36 Copynumber: 7.4 Consensus size: 36
5035537 TTCAAAGATT
* *
5035547 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA-
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAAC
5035583 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
* * * * *** *
5035619 TTAGTTCCAAAAGAAA-TGTCTCAAGGGAAACGGTAT
1 TT-GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
* * **
5035655 TTGTTTCAA-AGAAAACATAT-TC-----A-A-ATATT
1 TTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAAC
* * *
5035684 TTGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
* * *
5035720 TTATTTCAAGGGAAATTGTCTCAAGAGAGACAAAA-
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
* * * * *
5035755 TT-TTTCTAGTGAAAACGGTCTCAAGCGAGACAAATC
1 TTGTTTCAAGAG-AAACTGTCTCAAGAGAGACAAAAC
* *
5035791 TTGTTTTAAGAAAAAC
1 TTGTTTCAAGAGAAAC
5035807 AATCATGAGT
Statistics
Matches: 173, Mismatches: 34, Indels: 34
0.72 0.14 0.14
Matches are distributed among these distances:
28 2 0.01
29 15 0.09
30 2 0.01
31 1 0.01
34 10 0.06
35 35 0.20
36 90 0.52
37 18 0.10
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.27
Consensus pattern (36 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
Found at i:5035645 original size:137 final size:137
Alignment explanation
Indices: 5035498--5035754 Score: 354
Period size: 137 Copynumber: 1.9 Consensus size: 137
5035488 CAAGAGTAAC
* * ** * * *
5035498 TGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAGGGAAAC
1 TGTCTCAAGGGAAACAAAATTTGTTTCAAAGAAAACAAATTCAAAGATTTTGTTTAAAGGGAAAC
* *
5035563 TGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCC
66 TGTCTCAAGAGAGAC-AAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCC
5035627 AAAAGAAA
130 AAAAGAAA
*** * *
5035635 TGTCTCAAGGGAAACGGTATTTGTTTCAAAGAAAACATATTCAAATATTTTGTTTAAAGGGAAAC
1 TGTCTCAAGGGAAACAAAATTTGTTTCAAAGAAAACAAATTCAAAGATTTTGTTTAAAGGGAAAC
* *
5035700 TGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAATTGTCTCAAGAGAGACAAAA
66 TGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
5035755 TTTTTCTAGT
Statistics
Matches: 103, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
136 4 0.04
137 99 0.96
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (137 bp):
TGTCTCAAGGGAAACAAAATTTGTTTCAAAGAAAACAAATTCAAAGATTTTGTTTAAAGGGAAAC
TGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCA
AAAGAAA
Found at i:5036261 original size:18 final size:18
Alignment explanation
Indices: 5036234--5036269 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
5036224 TGTTGAATCC
* *
5036234 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
5036252 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
5036270 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:5036711 original size:22 final size:22
Alignment explanation
Indices: 5036685--5036733 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
5036675 TTGTGTTTGG
* *
5036685 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTGGATGC
5036707 TCAAAGGTTTGACATTGGATGC
1 TCAAAGGTTTGACATTGGATGC
5036729 TCAAA
1 TCAAA
5036734 AGATTGATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (22 bp):
TCAAAGGTTTGACATTGGATGC
Found at i:5036740 original size:22 final size:22
Alignment explanation
Indices: 5036697--5036740 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5036687 AAAGGTTTGG
* * *
5036697 CATTTGATGCTCAAAGGTTTGA
1 CATTGGATGCTCAAAAGATTGA
5036719 CATTGGATGCTCAAAAGATTGA
1 CATTGGATGCTCAAAAGATTGA
5036741 TGGGGTAGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (22 bp):
CATTGGATGCTCAAAAGATTGA
Found at i:5037403 original size:8 final size:8
Alignment explanation
Indices: 5037392--5037459 Score: 52
Period size: 8 Copynumber: 8.8 Consensus size: 8
5037382 ATTTTTGCTT
5037392 TTTTTTTC
1 TTTTTTTC
*
5037400 TTTTGTTC
1 TTTTTTTC
*
5037408 -TTGTTTC
1 TTTTTTTC
*
5037415 TCTTTTTC
1 TTTTTTTC
5037423 TTTGTTTT-
1 TTT-TTTTC
*
5037431 TTTTTGT-
1 TTTTTTTC
*
5037438 TTTTTTGC
1 TTTTTTTC
*
5037446 TTCTTTTC
1 TTTTTTTC
5037454 TTTTTT
1 TTTTTT
5037460 GTTCTTGATT
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
7 13 0.29
8 28 0.62
9 4 0.09
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.81
Consensus pattern (8 bp):
TTTTTTTC
Found at i:5037404 original size:23 final size:23
Alignment explanation
Indices: 5037369--5037425 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 23
5037359 CTTTTTGTCC
*
5037369 CTTTTTCTTTTTGATTTTTGCTTT-T
1 CTTTTTC-TTTTG-TTCTTG-TTTCT
5037394 -TTTTTCTTTTGTTCTTGTTTCT
1 CTTTTTCTTTTGTTCTTGTTTCT
5037416 CTTTTTCTTT
1 CTTTTTCTTT
5037426 GTTTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 3 0.10
22 6 0.21
23 14 0.48
24 6 0.21
ACGTcount: A:0.02, C:0.14, G:0.07, T:0.77
Consensus pattern (23 bp):
CTTTTTCTTTTGTTCTTGTTTCT
Done.