Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007935.1 Hibiscus syriacus cultivar Beakdansim tig00110345_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: 1073174
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
File 5 of 6
Found at i:867000 original size:6 final size:6
Alignment explanation
Indices: 866989--867013 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
866979 AAATGGGTTT
866989 TCCCCG TCCCCG TCCCCG TCCCCG T
1 TCCCCG TCCCCG TCCCCG TCCCCG T
867014 TTATCATCCC
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:0.00, C:0.64, G:0.16, T:0.20
Consensus pattern (6 bp):
TCCCCG
Found at i:869889 original size:15 final size:15
Alignment explanation
Indices: 869869--869910 Score: 84
Period size: 15 Copynumber: 2.8 Consensus size: 15
869859 TTCGTACCTC
869869 TGACTGATTCAGCAA
1 TGACTGATTCAGCAA
869884 TGACTGATTCAGCAA
1 TGACTGATTCAGCAA
869899 TGACTGATTCAG
1 TGACTGATTCAG
869911 TAAAACAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (15 bp):
TGACTGATTCAGCAA
Found at i:870416 original size:3 final size:3
Alignment explanation
Indices: 870408--870463 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
870398 CTTGATTGAT
*
870408 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
870456 TCA TTA TT
1 TTA TTA TT
870464 TTGATATTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:870818 original size:20 final size:20
Alignment explanation
Indices: 870724--871092 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
870714 GATTTTCCAT
* ** *
870724 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
870744 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
870764 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
870784 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
870804 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
870824 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
870844 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
870864 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
870884 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
870904 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
870924 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
870944 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
870964 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
870984 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
871004 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
871024 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
871044 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
871064 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
871084 AATCACAAC
1 AATCGCAAC
871093 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:871805 original size:24 final size:24
Alignment explanation
Indices: 871766--871812 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
871756 AAATTTGGTC
871766 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
871790 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
871813 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:872004 original size:12 final size:12
Alignment explanation
Indices: 871987--872011 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
871977 ATATAATCCT
871987 GAAGAAGAAAAA
1 GAAGAAGAAAAA
871999 GAAGAAGAAAAA
1 GAAGAAGAAAAA
872011 G
1 G
872012 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:874338 original size:19 final size:19
Alignment explanation
Indices: 874316--874623 Score: 351
Period size: 19 Copynumber: 17.4 Consensus size: 19
874306 CGGAAAATAC
*
874316 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
874335 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
874349 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
874369 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
874383 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
874402 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
874421 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
874435 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
874454 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
874473 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
874487 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
874506 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
874525 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
874544 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
874563 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
874577 AATCGCAATGCGTAAATGAA
1 AATCGCAATGCG-AAATGAA
874597 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
874616 AATCGCAA
1 AATCGCAA
874624 CGAGATAATC
Statistics
Matches: 249, Mismatches: 13, Indels: 54
0.79 0.04 0.17
Matches are distributed among these distances:
14 45 0.18
15 4 0.02
16 13 0.05
17 17 0.07
18 6 0.02
19 139 0.56
20 25 0.10
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:874403 original size:33 final size:34
Alignment explanation
Indices: 874316--874645 Score: 267
Period size: 33 Copynumber: 9.5 Consensus size: 34
874306 CGGAAAATAC
* *
874316 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
874349 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
874383 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
874421 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
* *
874454 AATCGCAATGCGAAATGAAAATCG-AACCGA-CAT
1 AATCGCAATGCGAAATGAAAATCGCAA-CGATGAA
*
874487 AATCGCAATGCGAAATTAAAATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGC-A-ACG--ATGAA
874525 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
874563 AATCGCAA--CGAAA-G--AATCGCAATGCGTAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG---ATGAA
*
874597 AATCGCAATGCGAAATGAAAATCGCAACGA-GAT
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
874630 AATCGCAACGCGAAAT
1 AATCGCAATGCGAAAT
874646 TATAAACGCA
Statistics
Matches: 256, Mismatches: 15, Indels: 52
0.79 0.05 0.16
Matches are distributed among these distances:
33 108 0.42
34 47 0.18
35 9 0.04
36 16 0.06
37 9 0.04
38 59 0.23
39 8 0.03
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:874431 original size:52 final size:53
Alignment explanation
Indices: 874344--874623 Score: 351
Period size: 52 Copynumber: 5.2 Consensus size: 53
874334 AAATCCCAAC
*
874344 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
*
874397 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
* * *
874449 ATGAAAATCGCAATGCGAAATGAAAATCG-AACCGACATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
* *
874501 ATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAAAATCGCAATGCGAA
874558 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGTAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG---A-GAAAATCGCAATGCGAA
874611 ATGAAAATCGCAA
1 ATGAAAATCGCAA
874624 CGAGATAATC
Statistics
Matches: 212, Mismatches: 8, Indels: 14
0.91 0.03 0.06
Matches are distributed among these distances:
51 2 0.01
52 122 0.58
53 52 0.25
54 3 0.01
55 5 0.02
56 1 0.00
57 27 0.13
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (53 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
Found at i:874467 original size:71 final size:71
Alignment explanation
Indices: 874383--874623 Score: 348
Period size: 71 Copynumber: 3.4 Consensus size: 71
874373 GCAACGAGAG
*
874383 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
874448 AATGAA
66 AATGAA
* * *
874454 AATCGCAATGCGAAATGAAAATCG-AA-CCGACAT---AATCGCAATGCGAAATTAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG-AA--AGAATCGCAA
*
874514 TACGAAATGAA
61 TGCGAAATGAA
874525 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGT
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCG-
874590 AAATGAA
65 AAATGAA
874597 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
874624 CGAGATAATC
Statistics
Matches: 150, Mismatches: 9, Indels: 21
0.83 0.05 0.12
Matches are distributed among these distances:
66 8 0.05
68 2 0.01
69 6 0.04
70 2 0.01
71 79 0.53
72 36 0.24
73 7 0.05
74 2 0.01
76 8 0.05
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAA
Found at i:874696 original size:19 final size:19
Alignment explanation
Indices: 874652--874734 Score: 113
Period size: 20 Copynumber: 4.6 Consensus size: 19
874642 AAATTATAAA
874652 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
874671 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
874691 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
874707 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
874724 CGCATTGCGAT
1 CGCATTGCGAT
874735 AGGGTATTTC
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.11
16 7 0.12
17 7 0.12
19 17 0.30
20 19 0.34
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:874880 original size:14 final size:14
Alignment explanation
Indices: 874861--874897 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
874851 CATCAATTAC
874861 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
874875 ACAAATCATCTTTT
1 ACAAATCAACTTTT
874889 ACAAATCAA
1 ACAAATCAA
874898 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:874909 original size:12 final size:12
Alignment explanation
Indices: 874892--874964 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
874882 ATCTTTTACA
874892 AATCAATTAAAC
1 AATCAATTAAAC
*
874904 AATCAA--AAATTG
1 AATCAATTAAA--C
**
874916 AATCAACTTTTAC
1 AATCAA-TTAAAC
874929 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
874942 AATCAA-AAAAC
1 AATCAATTAAAC
874953 AATCAATTAAAC
1 AATCAATTAAAC
874965 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:874926 original size:38 final size:38
Alignment explanation
Indices: 874878--874950 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
874868 AACTTTTACA
*
874878 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
874916 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
874951 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:876837 original size:14 final size:14
Alignment explanation
Indices: 876818--876874 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
876808 GCGAAATGAA
*
876818 AATCGCAACGACAG
1 AATCGCAACGAAAG
876832 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
876849 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
876865 AATCGCAACG
1 AATCGCAACG
876875 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:876845 original size:33 final size:33
Alignment explanation
Indices: 876799--876891 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
876789 GCGAAACCAA
*
876799 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
876832 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
876865 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
876892 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:876856 original size:19 final size:19
Alignment explanation
Indices: 876762--876896 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
876752 TAGTTTACTT
* *
876762 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
876782 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
876801 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
876820 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
876834 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
876853 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
876867 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
876886 TCGCAATGCGA
1 TCGCAACGCGA
876897 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:876914 original size:19 final size:19
Alignment explanation
Indices: 876892--877004 Score: 120
Period size: 19 Copynumber: 6.5 Consensus size: 19
876882 AAAATCGCAA
876892 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
876911 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
876925 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
876944 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
876958 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
876977 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
876996 TGCGATTTT
1 TGCGATTTT
877005 AAGTTCGTGT
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
14 22 0.29
15 1 0.01
16 2 0.03
17 2 0.03
18 2 0.03
19 48 0.62
ACGTcount: A:0.07, C:0.18, G:0.28, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:876934 original size:33 final size:33
Alignment explanation
Indices: 876892--876983 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
876882 AAAATCGCAA
876892 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
876925 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
876958 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
876984 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:877011 original size:19 final size:18
Alignment explanation
Indices: 876892--877019 Score: 92
Period size: 19 Copynumber: 7.3 Consensus size: 18
876882 AAAATCGCAA
*
876892 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTAG-TTCGCGT
*
876911 TGCGATCTT-G-T--CGT
1 TGCGATTTTAGTTCGCGT
*
876925 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTAG-TTCGCGT
*
876944 TGCGATTCT-G-T--CGT
1 TGCGATTTTAGTTCGCGT
*
876958 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-AGTTCGCGT
*
876977 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTAG-TTCGCGT
*
876996 TGCGATTTTAAGTTCGTGT
1 TGCGATTTT-AGTTCGCGT
877015 TGCGA
1 TGCGA
877020 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 9, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 58 0.66
20 1 0.01
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (18 bp):
TGCGATTTTAGTTCGCGT
Found at i:877222 original size:93 final size:93
Alignment explanation
Indices: 877063--877442 Score: 753
Period size: 93 Copynumber: 4.1 Consensus size: 93
877053 TTGAATGGAT
877063 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
877128 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
877156 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
877221 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
877249 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
877313 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
877341 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
877406 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
877434 AAATTTACT
1 AAATTTACT
877443 AAGCAATCTA
Statistics
Matches: 286, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 194 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:877376 original size:185 final size:186
Alignment explanation
Indices: 877063--877442 Score: 753
Period size: 185 Copynumber: 2.0 Consensus size: 186
877053 TTGAATGGAT
877063 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
877128 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
877193 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
877249 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
877313 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
877378 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
877434 AAATTTACT
1 AAATTTACT
877443 AAGCAATCTA
Statistics
Matches: 194, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
185 155 0.80
186 39 0.20
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:879167 original size:14 final size:14
Alignment explanation
Indices: 879148--879237 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
879138 TTGAAATGAA
879148 AATCGCAACGAGAG
1 AATCGCAACGAGAG
879162 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
879179 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
879195 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
879214 AATCGCAACGAGAG
1 AATCGCAACGAGAG
879228 AATCGCAACG
1 AATCGCAACG
879238 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:879185 original size:33 final size:33
Alignment explanation
Indices: 879140--879254 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
879130 TCTTTTGGTT
879140 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
879173 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
879206 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
879239 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
879255 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:879186 original size:19 final size:18
Alignment explanation
Indices: 879147--879259 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
879137 GTTGAAATGA
879147 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
879162 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
879179 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
879195 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
879212 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
879228 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
879245 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
879260 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:879290 original size:14 final size:14
Alignment explanation
Indices: 879271--879325 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
879261 TTTGGTTTCG
879271 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
879285 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
879304 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
879318 CGTTGCGA
1 CGTTGCGA
879326 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:879488 original size:33 final size:33
Alignment explanation
Indices: 879446--879516 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
879436 AATACTAACT
*
879446 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
879479 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
879512 TGAAA
1 TGAAA
879517 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:879750 original size:22 final size:22
Alignment explanation
Indices: 879698--879752 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
879688 TGGTTGTGAG
**
879698 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
879720 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
879742 GGATTTCTTCG
1 GGATTTCTTCG
879753 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:879923 original size:20 final size:20
Alignment explanation
Indices: 879898--880090 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
879888 CTTTAAATAT
879898 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
879918 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
879940 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
879959 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
879979 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
879999 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
880019 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
880039 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
880059 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
880079 CGCGTTGCGATT
1 CGCGTTGCGATT
880091 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:880085 original size:60 final size:60
Alignment explanation
Indices: 879898--880090 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
879888 CTTTAAATAT
**
879898 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
879959 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
880019 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
880079 CGCGTTGCGATT
1 CGCGTTGCGATT
880091 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:880171 original size:20 final size:20
Alignment explanation
Indices: 880146--880197 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
880136 AAGAATCGCG
*
880146 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
880166 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
880186 TTGCGATTCTGG
1 TTGCGATTCTGG
880198 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:882558 original size:3 final size:3
Alignment explanation
Indices: 882550--882603 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
882540 GGCCTGTTTG
**
882550 TAA TAA TAA TAA TTT TAA TAA TAA TAA TAA TAAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
*
882595 TAA CAA TAA
1 TAA TAA TAA
882604 ATAAAAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:882576 original size:21 final size:21
Alignment explanation
Indices: 882550--882609 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
882540 GGCCTGTTTG
* **
882550 TAATAATAATAATTTTAATAA
1 TAATAATAATAAATAAAATAA
882571 TAATAATAATAAATAAAATAA
1 TAATAATAATAAATAAAATAA
*
882592 TAATAACAATAAATAAAA
1 TAATAATAATAAATAAAA
882610 AAATGGGTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
TAATAATAATAAATAAAATAA
Found at i:882592 original size:24 final size:24
Alignment explanation
Indices: 882567--882613 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
882557 AATAATTTTA
*
882567 ATAATAATAAT-AATAAATAAAATA
1 ATAATAACAATAAATAAA-AAAATA
882591 ATAATAACAATAAATAAAAAAAT
1 ATAATAACAATAAATAAAAAAAT
882614 GGGTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (24 bp):
ATAATAACAATAAATAAAAAAATA
Found at i:883448 original size:227 final size:223
Alignment explanation
Indices: 883072--883482 Score: 660
Period size: 227 Copynumber: 1.8 Consensus size: 223
883062 TAGAGTCATG
883072 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCAT
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCAT
* *
883137 TATGAACTTTCTAGAAAAGTTGATCCATCGAGTGATGAATTCAAACAAAAAGTTGAACAAATTCT
66 TATGAACTTTCTAGAAAAGCTGATCCATCGAGTGATGAATTCAAACAAAAAGTTGAACAAACTCT
*
883202 TCTCATTATGAATTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCATTATGAACTCTACCTGGCAA
131 TCTCATTATGAACTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCATTATGAACTCTACCTGGCAA
883267 TGCTGATCCATCAAATGATTAATTCAAA
196 TGCTGATCCATCAAATGATTAATTCAAA
*
883295 CAAAAGGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 CAAAA-GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTC
* * * ** * * *
883360 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCTAGTGATGGATTTGAGCAAAAGGTTGAACAAG
64 ATTATGAAC-TT-TCTAGAAAAGCTGATCCATCGAGTGATGAATTCAAACAAAAAGTTGAACAAA
* *
883425 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACT
127 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCATTATGAACT
883483 TTCTCTAGAA
Statistics
Matches: 170, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
223 5 0.03
224 38 0.22
225 28 0.16
226 2 0.01
227 97 0.57
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.37
Consensus pattern (223 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCAT
TATGAACTTTCTAGAAAAGCTGATCCATCGAGTGATGAATTCAAACAAAAAGTTGAACAAACTCT
TCTCATTATGAACTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCATTATGAACTCTACCTGGCAA
TGCTGATCCATCAAATGATTAATTCAAA
Found at i:883520 original size:113 final size:113
Alignment explanation
Indices: 883072--883513 Score: 631
Period size: 113 Copynumber: 3.9 Consensus size: 113
883062 TAGAGTCATG
*
883072 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
883136 TTATGAAC-TT-TCTAGAAAAGTTGATCCATCGAGTGATGAATTCAAA
66 TTATGAACTTTCTCTAGAAAAGCTGATCCATCAAGTGATGAATTCAAA
* * *
883182 CAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * * *
883247 TTATGAACTCTAC-CTGGCAATGCTGATCCATCAAATGATTAATTCAAA
66 TTATGAACT-TTCTCTAGAAAAGCTGATCCATCAAGTGATGAATTCAAA
883295 CAAAAGGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 CAAAA-GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * ** *
883360 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCTAGTGATGGATTTGAG
65 ATTATGAACTTTCTCTAGAAAAGCTGATCCATCAAGTGATGAATTCAAA
** *
883409 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
883474 TTATGAACTTTCTCTAGAAAAGCTGATCCATTAAGGGATG
66 TTATGAACTTTCTCTAGAAAAGCTGATCCATCAAGTGATG
883514 GATTTGAATC
Statistics
Matches: 294, Mismatches: 32, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
110 41 0.14
111 27 0.09
113 129 0.44
114 97 0.33
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTAGAAAAGCTGATCCATCAAGTGATGAATTCAAA
Found at i:889080 original size:2 final size:2
Alignment explanation
Indices: 889075--889100 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
889065 ACCAAAAAAG
889075 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
889101 TTAAAAGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:890761 original size:14 final size:14
Alignment explanation
Indices: 890742--890776 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
890732 AAATGTAATT
* *
890742 ATGCAAAGATGCAA
1 ATGCAAAAATGAAA
890756 ATGCAAAAATGAAA
1 ATGCAAAAATGAAA
890770 ATGCAAA
1 ATGCAAA
890777 TACAAACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.17, T:0.14
Consensus pattern (14 bp):
ATGCAAAAATGAAA
Found at i:890775 original size:20 final size:20
Alignment explanation
Indices: 890750--890792 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
890740 TTATGCAAAG
* *
890750 ATGCAAATGCAAAAATGAAA
1 ATGCAAATACAAAAATAAAA
*
890770 ATGCAAATACAAACATAAAA
1 ATGCAAATACAAAAATAAAA
890790 ATG
1 ATG
890793 AAAAAAATGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.16
Consensus pattern (20 bp):
ATGCAAATACAAAAATAAAA
Found at i:895257 original size:3 final size:3
Alignment explanation
Indices: 895249--895287 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
895239 GTCCTGTTTG
*
895249 TAA TAA TAA TAA TAA TAAA TAA -AA TAA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
895288 ATAAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:895276 original size:21 final size:21
Alignment explanation
Indices: 895250--895293 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
895240 TCCTGTTTGT
*
895250 AATAATAATAATAATAAATAA
1 AATAATAATAACAATAAATAA
895271 AATAATAATAACAATAAATAA
1 AATAATAATAACAATAAATAA
895292 AA
1 AA
895294 AAAATGGGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (21 bp):
AATAATAATAACAATAAATAA
Found at i:897036 original size:22 final size:21
Alignment explanation
Indices: 897011--897085 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 21
897001 GTTATTAAAA
897011 TATTAATAAAGTAAATTTGAGT
1 TATTAATAAA-TAAATTTGAGT
* **
897033 TATTAATAGATACAATGTTGTAAAA
1 TATTAATAAATA-AAT-TTG--AGT
*
897058 AATTAATAAAATAAATTTGAGT
1 TATTAAT-AAATAAATTTGAGT
897080 TATTAA
1 TATTAA
897086 AATAAGAACA
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
21 2 0.05
22 18 0.45
23 3 0.08
24 3 0.08
25 10 0.25
26 4 0.10
ACGTcount: A:0.49, C:0.01, G:0.11, T:0.39
Consensus pattern (21 bp):
TATTAATAAATAAATTTGAGT
Found at i:897530 original size:18 final size:21
Alignment explanation
Indices: 897507--897546 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
897497 TTATTTTATT
897507 ATAAA-TAT-AATATT-TTTA
1 ATAAATTATCAATATTATTTA
897525 ATAAATTATCAATATTATTTA
1 ATAAATTATCAATATTATTTA
897546 A
1 A
897547 ATTAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 3 0.16
20 6 0.32
21 5 0.26
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAATTATCAATATTATTTA
Found at i:897663 original size:32 final size:32
Alignment explanation
Indices: 897605--897716 Score: 109
Period size: 32 Copynumber: 3.5 Consensus size: 32
897595 ATTTTAATAT
* * * * *
897605 GTTCAGATTACTTTAAGGTCGAGTTAAATTCT
1 GTTCAGTTTACTTTCAGATCGGGTTAAATTCA
*
897637 GTTGAGTTTACTTTCAGATCGGGTTAAAATTCA
1 GTTCAGTTTACTTTCAGATCGGGTT-AAATTCA
* * * *
897670 GTTCAGGTTT-CTTTCGGTTCGGGTTGATTTCA
1 GTTCA-GTTTACTTTCAGATCGGGTTAAATTCA
897702 GTTCAGTTTACTTTC
1 GTTCAGTTTACTTTC
897717 GGTTTGGGTT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
31 4 0.06
32 35 0.53
33 23 0.35
34 4 0.06
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.44
Consensus pattern (32 bp):
GTTCAGTTTACTTTCAGATCGGGTTAAATTCA
Found at i:897717 original size:32 final size:32
Alignment explanation
Indices: 897641--897731 Score: 112
Period size: 32 Copynumber: 2.8 Consensus size: 32
897631 AATTCTGTTG
* * * *
897641 AGTTTACTTTCAGATCGGGTTAAAATTCAGTTC
1 AGTTTACTTTCGGTTCGGGTT-GATTTCAGTTC
897674 AGGTTT-CTTTCGGTTCGGGTTGATTTCAGTTC
1 A-GTTTACTTTCGGTTCGGGTTGATTTCAGTTC
*
897706 AGTTTACTTTCGGTTTGGGTTGATTT
1 AGTTTACTTTCGGTTCGGGTTGATTT
897732 TGGAATAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
31 4 0.08
32 29 0.57
33 14 0.27
34 4 0.08
ACGTcount: A:0.16, C:0.13, G:0.24, T:0.46
Consensus pattern (32 bp):
AGTTTACTTTCGGTTCGGGTTGATTTCAGTTC
Found at i:897768 original size:21 final size:21
Alignment explanation
Indices: 897731--897982 Score: 121
Period size: 21 Copynumber: 11.9 Consensus size: 21
897721 TGGGTTGATT
*
897731 TTGGAATAAATTGCAACGCGAAC
1 TTGGAAT-AATCGCAA-GCGAAC
* * *
897754 TTGGACT-ATCGCAA-CAAAT
1 TTGGAATAATCGCAAGCGAAC
*
897773 TTGGAATAAATCGCAA-CGAAT
1 TTGGAAT-AATCGCAAGCGAAC
897794 TTGGAATAAATCGCAACGCGAAC
1 TTGGAAT-AATCGCAA-GCGAAC
* * *
897817 TTCGACT-ATCACAA-CGAAC
1 TTGGAATAATCGCAAGCGAAC
*
897836 TTAGAATAAATCGCAACGCGAAC
1 TTGGAAT-AATCGCAA-GCGAAC
* * *
897859 TTGGACT-ATCGCAA-CGGAT
1 TTGGAATAATCGCAAGCGAAC
*
897878 TTGGAATAAATCGCAA-CGAAT
1 TTGGAAT-AATCGCAAGCGAAC
* * *
897899 TTGGAATAAATTG-AAACGAAT
1 TTGGAAT-AATCGCAAGCGAAC
*
897920 TTGGAATAAATAGCAATGCGAAC
1 TTGGAAT-AATCGCAA-GCGAAC
* * *
897943 TTCGACT-ATTGCAACGCGAAC
1 TTGGAATAATCGCAA-GCGAAC
*
897964 TTGGACT-ATCGCAATGCGA
1 TTGGAATAATCGCAA-GCGA
897983 TAGTCGAAGT
Statistics
Matches: 186, Mismatches: 30, Indels: 28
0.76 0.12 0.11
Matches are distributed among these distances:
19 28 0.15
20 2 0.01
21 120 0.65
22 2 0.01
23 34 0.18
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (21 bp):
TTGGAATAATCGCAAGCGAAC
Found at i:897807 original size:42 final size:43
Alignment explanation
Indices: 897730--897935 Score: 176
Period size: 42 Copynumber: 4.9 Consensus size: 43
897720 TTGGGTTGAT
* * * *
897730 TTTGGAATAAATTGCAACGCGAACTTGGACT--ATCGCAA-CAAA
1 TTTGGAATAAATCGCAA--CGAATTTGGAATAAATCGCAACCGAA
897772 TTTGGAATAAATCGCAACGAATTTGGAATAAATCGCAACGCGAA
1 TTTGGAATAAATCGCAACGAATTTGGAATAAATCGCAAC-CGAA
* * * * * *
897816 CTTCGACT--ATCACAACGAACTTAGAATAAATCGCAACGCGAA
1 TTTGGAATAAATCGCAACGAATTTGGAATAAATCGCAAC-CGAA
* * *
897858 CTTGGACT--ATCGCAACGGATTTGGAATAAATCGCAA-CGAA
1 TTTGGAATAAATCGCAACGAATTTGGAATAAATCGCAACCGAA
* * *
897898 TTTGGAATAAATTGAAACGAATTTGGAATAAATAGCAA
1 TTTGGAATAAATCGCAACGAATTTGGAATAAATCGCAA
897936 TGCGAACTTC
Statistics
Matches: 137, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
40 20 0.15
42 109 0.80
44 8 0.06
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (43 bp):
TTTGGAATAAATCGCAACGAATTTGGAATAAATCGCAACCGAA
Found at i:897843 original size:63 final size:63
Alignment explanation
Indices: 897730--897958 Score: 250
Period size: 63 Copynumber: 3.6 Consensus size: 63
897720 TTGGGTTGAT
* * *
897730 TTTGGAATAAATTGCAACGCGAACTTGGACTATCGCAACAAATTTGGAATAAATCGCAACGAA
1 TTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGAA
* * *
897793 TTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACGAACTTAGAATAAATCGCAACGCGAA
1 TTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAA--CGAA
* * * * * * *
897858 CTTGGACT--ATCGCAACG-G-ATTTGGAATAAATCGCAACGAATTTGGAATAAATTGAAACGAA
1 TTTGGAATAAATCGCAACGCGAACTTCGACT--ATCGCAACGAATTTGGAATAAATCGCAACGAA
* * *
897919 TTTGGAATAAATAGCAATGCGAACTTCGACTATTGCAACG
1 TTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACG
897959 CGAACTTGGA
Statistics
Matches: 134, Mismatches: 24, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
61 16 0.12
62 1 0.01
63 100 0.75
64 1 0.01
65 16 0.12
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (63 bp):
TTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGAA
Found at i:897917 original size:84 final size:83
Alignment explanation
Indices: 897782--897958 Score: 205
Period size: 84 Copynumber: 2.1 Consensus size: 83
897772 TTTGGAATAA
*
897782 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACGAACTTAGAATAAAT
1 ATCGCAACGAATTTGGAATAAATCGCAAC-CGAACTTCGAATATCACAACGAACTTAGAATAAAT
* *
897847 CGCAACGCGAACTTGGACT
65 AGCAACGCGAACTTCGACT
* * * * * *
897866 ATCGCAACGGATTTGGAATAAATCGCAA-CGAATTTGGAATAAATTGA-AACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAAATCGCAACCGAACTTCGAAT--A-TCACAACGAACTTAGAATAA
*
897929 ATAGCAATGCGAACTTCGACT
63 ATAGCAACGCGAACTTCGACT
*
897950 ATTGCAACG
1 ATCGCAACG
897959 CGAACTTGGA
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
82 9 0.11
84 68 0.86
85 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (83 bp):
ATCGCAACGAATTTGGAATAAATCGCAACCGAACTTCGAATATCACAACGAACTTAGAATAAATA
GCAACGCGAACTTCGACT
Found at i:898832 original size:2 final size:2
Alignment explanation
Indices: 898820--898883 Score: 85
Period size: 2 Copynumber: 32.0 Consensus size: 2
898810 AAATAAACAA
* * *
898820 AT AT AT TT AT AT AT -T TT AT AT AT CAT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
898862 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
898884 CGTATAAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
1 1 0.02
2 52 0.95
3 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:899958 original size:15 final size:16
Alignment explanation
Indices: 899938--899971 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
899928 TATTTCTCTT
899938 TTTTTACTAT-TTTTA
1 TTTTTACTATATTTTA
*
899953 TTTTTATTATATTTTA
1 TTTTTACTATATTTTA
899969 TTT
1 TTT
899972 CATTATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTACTATATTTTA
Found at i:900118 original size:2 final size:2
Alignment explanation
Indices: 900113--900172 Score: 93
Period size: 2 Copynumber: 30.0 Consensus size: 2
900103 TTTTATTTTA
900113 AT AT AT AT AT AT 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 AT AT AT AT AT AT
** *
900155 AT AT GC AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT
900173 TTTACCTTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:900275 original size:14 final size:14
Alignment explanation
Indices: 900245--900278 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
900235 GTTATATTCC
900245 TTTTTATTTATATT
1 TTTTTATTTATATT
*
900259 TTTTTCATTTCTATT
1 TTTTT-ATTTATATT
900274 TTTTT
1 TTTTT
900279 TACCCTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTATTTATATT
Found at i:904264 original size:95 final size:95
Alignment explanation
Indices: 904154--904335 Score: 285
Period size: 95 Copynumber: 1.9 Consensus size: 95
904144 ATATTATTTA
* *
904154 TATACAATAAAGCTTGAGTTGTCCAT-TTAGAGAAATTGGTTAAACGTCCTGGCTTTATGGATAA
1 TATACAATAAAGCTTGAGTTGTCCATCTAAG-GAAATTGGTTAAACGCCCTGGCTTTATGGATAA
* *
904218 TACTCAGCTAGCCTGATAAAGGTGATTATAC
65 GACTCAGCTAACCTGATAAAGGTGATTATAC
*
904249 TATACAATAAAGCTTGAGTTGTCCCTCTAAGGAAATTGGTTAAACGCCCTGGCTTTATGGATAAG
1 TATACAATAAAGCTTGAGTTGTCCATCTAAGGAAATTGGTTAAACGCCCTGGCTTTATGGATAAG
* *
904314 ATTCAGCTAACTTGATAAAGGT
66 ACTCAGCTAACCTGATAAAGGT
904336 ATTTACATAT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 76 0.96
96 3 0.04
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (95 bp):
TATACAATAAAGCTTGAGTTGTCCATCTAAGGAAATTGGTTAAACGCCCTGGCTTTATGGATAAG
ACTCAGCTAACCTGATAAAGGTGATTATAC
Found at i:905734 original size:36 final size:37
Alignment explanation
Indices: 905681--905754 Score: 114
Period size: 36 Copynumber: 2.0 Consensus size: 37
905671 GCTCGAGACT
* *
905681 AACAAAGTTTTTTCTCTCTTGAGATAGTTTCTCTTAA
1 AACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAA
*
905718 AACAAA-TTTTGTCTCTCTTGAGACATTTTCTCTTAA
1 AACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAA
905754 A
1 A
905755 TTTTTTTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 28 0.82
37 6 0.18
ACGTcount: A:0.28, C:0.18, G:0.09, T:0.45
Consensus pattern (37 bp):
AACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAA
Found at i:905770 original size:35 final size:36
Alignment explanation
Indices: 905688--905792 Score: 106
Period size: 35 Copynumber: 3.0 Consensus size: 36
905678 ACTAACAAAG
*
905688 TTTTT-TCTCTCTTGAGATAGTTTCTCTTAAAACAA
1 TTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAA
* * ***
905723 ATTTTGTCTCTCTTGAGACATTTTCTCTT-AAATTT
1 TTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAA
* * * *
905758 TTTTTGTCTCTCTTGAGGCGGTTTCCCTTGAAACA
1 TTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACA
905793 TAAACTTTGA
Statistics
Matches: 55, Mismatches: 13, Indels: 3
0.77 0.18 0.04
Matches are distributed among these distances:
35 31 0.56
36 24 0.44
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.49
Consensus pattern (36 bp):
TTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAA
Found at i:905867 original size:36 final size:37
Alignment explanation
Indices: 905809--906077 Score: 327
Period size: 36 Copynumber: 7.4 Consensus size: 37
905799 TTGAATTTGT
*
905809 TTTC-CTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTAAAACAAAGTTTTGTCTCTCTTGAGACAG
* *
905845 TTTCTCTTAAAACAAA-TTTTGTCTTTCTTGAGACAT
1 TTTCTCTTAAAACAAAGTTTTGTCTCTCTTGAGACAG
*
905881 TTTCTCTTAAAACAAA-TTTTGTCTCTCTAGAGA-AG
1 TTTCTCTTAAAACAAAGTTTTGTCTCTCTTGAGACAG
* * *
905916 ATTTCCCTTGAAATAAAGTTTTGTCTCTCTTGAGACAG
1 -TTTCTCTTAAAACAAAGTTTTGTCTCTCTTGAGACAG
* * *
905954 TTTCTCTTAAAACACA-TTTTGTCTCTCTTAAGACAT
1 TTTCTCTTAAAACAAAGTTTTGTCTCTCTTGAGACAG
* * *
905990 TTTATCTTAAAACAAA-TTTTGTCTCTCTTGACACAT
1 TTTCTCTTAAAACAAAGTTTTGTCTCTCTTGAGACAG
* *
906026 TTTCTCTTAAAACAAA-TTTTGTCTCTTTTGAGACAA
1 TTTCTCTTAAAACAAAGTTTTGTCTCTCTTGAGACAG
* *
906062 TTTCCCTTGAAACAAA
1 TTTCTCTTAAAACAAA
906078 ATCTCTGAAT
Statistics
Matches: 203, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
35 1 0.00
36 162 0.80
37 38 0.19
38 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (37 bp):
TTTCTCTTAAAACAAAGTTTTGTCTCTCTTGAGACAG
Found at i:905905 original size:19 final size:19
Alignment explanation
Indices: 905847--905906 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
905837 TGAGACAGTT
905847 TCTCTTAAAACAAATTTTG
1 TCTCTTAAAACAAATTTTG
* *
905866 TCTTTCTTGAGAC--A-TTT-
1 TC--TCTTAAAACAAATTTTG
905883 TCTCTTAAAACAAATTTTG
1 TCTCTTAAAACAAATTTTG
905902 TCTCT
1 TCTCT
905907 CTAGAGAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
15 7 0.23
17 3 0.10
18 6 0.19
19 8 0.26
21 7 0.23
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (19 bp):
TCTCTTAAAACAAATTTTG
Found at i:905941 original size:109 final size:109
Alignment explanation
Indices: 905812--906077 Score: 383
Period size: 109 Copynumber: 2.4 Consensus size: 109
905802 AATTTGTTTT
* *
905812 CCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTTTCTTGAG
1 CCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTAAG
* *
905877 ACATTTTCTCTTAAAACAAATTTTGTCTCTCTAGAGA-AGATTTC
66 ACATTTTATCTTAAAACAAATTTTGTCTCTCTAGACACA-ATTTC
* *
905921 CCTTGAAATAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACACATTTTGTCTCTCTTAAG
1 CCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTAAG
* *
905986 ACATTTTATCTTAAAACAAATTTTGTCTCTCTTGACACATTTTC
66 ACATTTTATCTTAAAACAAATTTTGTCTCTCTAGACACAATTTC
* * * * * *
906030 TCTTAAAACAAA-TTTTGTCTCTTTTGAGACAATTTCCCTTGAAACAAA
1 CCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAA
906078 ATCTCTGAAT
Statistics
Matches: 140, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
108 31 0.22
109 108 0.77
110 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.41
Consensus pattern (109 bp):
CCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTAAG
ACATTTTATCTTAAAACAAATTTTGTCTCTCTAGACACAATTTC
Found at i:906037 original size:72 final size:72
Alignment explanation
Indices: 905808--906178 Score: 345
Period size: 72 Copynumber: 5.2 Consensus size: 72
905798 TTTGAATTTG
* * * *
905808 TTTTC-CTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTTTC
1 TTTTCTCTTAAAACAAA-TTTTGTCTCTCTTAAGACAATTTCTCTTAAAACAAATTTTGTCTCTC
905872 TTGAGACA
65 TTGAGACA
* * *
905880 TTTTCTCTTAAAACAAATTTTGTCTCTC-TAGAGA-AGATTTCCCTTGAAATAAAGTTTTGTCTC
1 TTTTCTCTTAAAACAAATTTTGTCTCTCTTA-AGACA-ATTTCTCTTAAAACAAA-TTTTGTCTC
905943 TCTTGAGACA
63 TCTTGAGACA
* * * *
905953 GTTTCTCTTAAAACACATTTTGTCTCTCTTAAGACATTTTATCTTAAAACAAATTTTGTCTCTCT
1 TTTTCTCTTAAAACAAATTTTGTCTCTCTTAAGACAATTTCTCTTAAAACAAATTTTGTCTCTCT
*
906018 TGACACA
66 TGAGACA
* * * * *
906025 TTTTCTCTTAAAACAAATTTTGTCTCTTTTGAGACAATTTCCCTTGAAACAAA------ATCTC-
1 TTTTCTCTTAAAACAAATTTTGTCTCTCTTAAGACAATTTCTCTTAAAACAAATTTTGTCTCTCT
906083 TGA-ATC-
66 TGAGA-CA
* * * * * * *
906089 TATTCTCCTTAAAACAAATTTCGTCTC-CGTTGAGACAGTTTCTTTTAAAATAATTTTTGTCTCT
1 TTTTCT-CTTAAAACAAATTTTGTCTCTC-TTAAGACAATTTCTCTTAAAACAAATTTTGTCTCT
*
906153 CTTGAGACG
64 CTTGAGACA
* *
906162 GTTTCTCTTGAAACAAA
1 TTTTCTCTTAAAACAAA
906179 ATCTCTGAAT
Statistics
Matches: 244, Mismatches: 37, Indels: 36
0.77 0.12 0.11
Matches are distributed among these distances:
64 6 0.02
65 42 0.17
66 4 0.02
71 6 0.02
72 109 0.45
73 74 0.30
74 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.42
Consensus pattern (72 bp):
TTTTCTCTTAAAACAAATTTTGTCTCTCTTAAGACAATTTCTCTTAAAACAAATTTTGTCTCTCT
TGAGACA
Found at i:906052 original size:19 final size:19
Alignment explanation
Indices: 905956--906052 Score: 64
Period size: 19 Copynumber: 5.3 Consensus size: 19
905946 TGAGACAGTT
*
905956 TCTCTTAAAACACATTTTG
1 TCTCTTAAAACAAATTTTG
*
905975 TCTCTCTTAAGAC--A-TTT-
1 --TCTCTTAAAACAAATTTTG
*
905992 TATCTTAAAACAAATTTTG
1 TCTCTTAAAACAAATTTTG
** *
906011 TCTCTCT-TGACACA-TTT-
1 TCTCT-TAAAACAAATTTTG
906028 TCTCTTAAAACAAATTTTG
1 TCTCTTAAAACAAATTTTG
906047 TCTCTT
1 TCTCTT
906053 TTGAGACAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
15 9 0.16
16 1 0.02
17 10 0.17
18 12 0.21
19 15 0.26
20 1 0.02
21 10 0.17
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (19 bp):
TCTCTTAAAACAAATTTTG
Found at i:906151 original size:36 final size:36
Alignment explanation
Indices: 906097--906268 Score: 121
Period size: 36 Copynumber: 4.9 Consensus size: 36
906087 TCTATTCTCC
906097 TTAAAACAAATTTCGTCTC-CGTTGAGACAGTTTCTT
1 TTAAAACAAATTTCGTCTCTC-TTGAGACAGTTTCTT
* * * * *
906133 TTAAAATAATTTTTGTCTCTCTTGAGACGGTTTCTC
1 TTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCTT
* * *
906169 TTGAAACAAA------ATCTC-TGA-ATCTGTTTTCTT
1 TTAAAACAAATTTCGTCTCTCTTGAGA-CAG-TTTCTT
*
906199 TT-AAACAAATTTCGTCTCCCTTGAGACAGTTTCTT
1 TTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCTT
* ** *
906234 ATGGAACTAAATTTTGTCTCTCTTGAGACAGTTTC
1 TTAAAAC-AAATTTCGTCTCTCTTGAGACAGTTTC
906269 CCTTGAAACA
Statistics
Matches: 105, Mismatches: 18, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
28 1 0.01
29 12 0.11
30 11 0.10
35 10 0.10
36 44 0.42
37 27 0.26
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (36 bp):
TTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCTT
Found at i:906281 original size:102 final size:101
Alignment explanation
Indices: 905999--906336 Score: 428
Period size: 101 Copynumber: 3.3 Consensus size: 101
905989 TTTTATCTTA
* * * * * *
905999 AAACAAATTTTGTCTCTCTTGACACATTTTCTCTTAAAAC-AAATTTTGTCTCTTTTGAGACAAT
1 AAACAAATTTCGTCTCCCTTGAGACAGTTTCT-TTAAAACTAAATTTTGTCTCTCTTGAGACAGT
* * *
906063 TTCCCTTGAAACAAAATCTCTGAATCTATTCTCCTTA
65 TTCCCTTGAAACAAAATCTCTGAATCTGTTTTCCTTT
* * *
906100 AAACAAATTTCGTCTCCGTTGAGACAGTTTCTTTTAAAA-TAATTTTTGTCTCTCTTGAGACGGT
1 AAACAAATTTCGTCTCCCTTGAGACAGTTTC-TTTAAAACTAAATTTTGTCTCTCTTGAGACAGT
* *
906164 TTCTCTTGAAACAAAATCTCTGAATCTGTTTTCTTTT
65 TTCCCTTGAAACAAAATCTCTGAATCTGTTTTCCTTT
**
906201 AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTATGGAACTAAATTTTGTCTCTCTTGAGACAGT
1 AAACAAATTTCGTCTCCCTTGAGACAGTTTCTT-TAAAACTAAATTTTGTCTCTCTTGAGACAGT
* * *
906266 TTCCCTTGAAACAAAATCTTTGAATATGTTTTCCATT
65 TTCCCTTGAAACAAAATCTCTGAATCTGTTTTCCTTT
* ** *
906303 AAACAAATTTCGTCTCACTCAAGACAATTTCTTT
1 AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTT
906337 TGAGACAGTT
Statistics
Matches: 205, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
100 2 0.01
101 118 0.58
102 85 0.41
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (101 bp):
AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTAAAACTAAATTTTGTCTCTCTTGAGACAGTT
TCCCTTGAAACAAAATCTCTGAATCTGTTTTCCTTT
Found at i:908233 original size:2 final size:2
Alignment explanation
Indices: 908228--908257 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
908218 TTTTATTTTA
908228 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
908258 GTGTGTGTGT
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:908262 original size:2 final size:2
Alignment explanation
Indices: 908257--908299 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
908247 TATATATATA
908257 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
908299 T
1 T
908300 ATGTATATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:908929 original size:17 final size:18
Alignment explanation
Indices: 908907--908942 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
908897 AAAATTTAAA
908907 AATTATTTTATAT-TTTT
1 AATTATTTTATATCTTTT
908924 AATTATTTTATATCTTTT
1 AATTATTTTATATCTTTT
908942 A
1 A
908943 TTAAAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
AATTATTTTATATCTTTT
Found at i:909250 original size:18 final size:17
Alignment explanation
Indices: 909227--909260 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
909217 CCGGTTTCGG
909227 TTTTAAAAAAACCGGTTT
1 TTTTAAAAAAA-CGGTTT
909245 TTTTAAAAAAACGGTT
1 TTTTAAAAAAACGGTT
909261 ATAAAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (17 bp):
TTTTAAAAAAACGGTTT
Found at i:909252 original size:17 final size:17
Alignment explanation
Indices: 909227--909260 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
909217 CCGGTTTCGG
*
909227 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAAACGGTT
*
909244 TTTTTAAAAAAACGGTT
1 TTTTAAAAAAAACGGTT
909261 ATAAAAAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (17 bp):
TTTTAAAAAAAACGGTT
Found at i:909474 original size:21 final size:21
Alignment explanation
Indices: 909450--909502 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
909440 ACACTTAGGG
909450 AACCGATTCCCTATGAGAGGA
1 AACCGATTCCCTATGAGAGGA
*
909471 AACCGATTCCCTATGAGAGGG
1 AACCGATTCCCTATGAGAGGA
*
909492 TACCGATTCCC
1 AACCGATTCCC
909503 CCACGCTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (21 bp):
AACCGATTCCCTATGAGAGGA
Found at i:909719 original size:13 final size:13
Alignment explanation
Indices: 909698--909752 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
909688 AAGTTCGATA
*
909698 AATTCAAATACTT
1 AATTGAAATACTT
909711 AATTGAAATACTT
1 AATTGAAATACTT
* *
909724 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
909738 AATTGAAATACTT
1 AATTGAAATACTT
909751 AA
1 AA
909753 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:909834 original size:32 final size:33
Alignment explanation
Indices: 909743--909838 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 33
909733 AACATAATTG
* * *
909743 AAATACTTAAATACTTCCAAGTTTGATAAATTC
1 AAATACTTAAAAACTTCCAAGTTCGATAATTTC
909776 AAATACTTAAAAACTTCCAAGTTCGATAATTTC
1 AAATACTTAAAAACTTCCAAGTTCGATAATTTC
909809 AAATACTTAAAAACTT-CAAGTTCGATAATT
1 AAATACTTAAAAACTTCCAAGTTCGATAATT
909839 GAAACAAAGT
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 14 0.23
33 46 0.77
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (33 bp):
AAATACTTAAAAACTTCCAAGTTCGATAATTTC
Found at i:914321 original size:20 final size:20
Alignment explanation
Indices: 914296--914338 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
914286 TTTATTATTA
914296 CAAAATACCCAAACCAAACC
1 CAAAATACCCAAACCAAACC
*
914316 CAAAATACCTAAACCAAACC
1 CAAAATACCCAAACCAAACC
914336 CAA
1 CAA
914339 GTCCATTACC
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:0.56, C:0.37, G:0.00, T:0.07
Consensus pattern (20 bp):
CAAAATACCCAAACCAAACC
Found at i:915819 original size:57 final size:57
Alignment explanation
Indices: 915703--916529 Score: 1245
Period size: 57 Copynumber: 14.6 Consensus size: 57
915693 CCACATGAAG
* * **
915703 ATTCATACAATTAGTATGAATCTCTTAACCATTTGCACAAAAAGTGCCCAATACGAAA
1 ATTCATACACTTAGTATGAATTTCTTAA-CATTTGCACACGAAGTGCCCAATACGAAA
* *
915761 ATTCATACACTTAGTATGAATTTCTTAACTTTTGCACATGAAGTGCCCAATACGAAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAA
* * *
915818 ATTCATACACTTAGTATGAATTTTCTTAACTTTTGCACATGAAGTGTCCAATACGAAA
1 ATTCATACACTTAGTATGAA-TTTCTTAACATTTGCACACGAAGTGCCCAATACGAAA
*
915876 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATAGGAAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAA
915933 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAA
* * *
915990 ATTCATACTCTCAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAA
* *
916047 ATTCATACACTTATTATGAATTTCTT-A-A-TTGCACACGAAGTGCCCAATGC-AGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGA-AA
* *
916101 ATTCATACACTTAGTATGAATTTGTTAACATTTGCACACGAAGTGCCCAATACGTAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAA
* * * *
916158 ATTTATACACTTAGTATGAATTTTTTAACATTTGAACACGAAGTGCCCAATACGGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAA
* * *
916215 ATTCATACACTTAGTATGAATTTCTTAATATTTGCACACGAAGTGCCTAATACAAAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAA
* * *
916272 ATTCATACTCTCAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAA
* * *
916329 ATTCATACACTTATTATGAATTTCTT-A-A-TTGCACACGAAGTGCCCAATGCGGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAA
* *
916383 ATTCATACACTTAGTATGAATTTGTTAACATTTGCACACGAAGTGCCCAATACAAAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAA
* * * *
916440 ATTTATACACTTTGTATGAATTTCTTAACATTTGCACACGAAGTACCCAATACGGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAA
*
916497 ATTCATACACTTGGTATGAATTTCTTAACATTT
1 ATTCATACACTTAGTATGAATTTCTTAACATTT
916530 TTGCACACTT
Statistics
Matches: 703, Mismatches: 57, Indels: 19
0.90 0.07 0.02
Matches are distributed among these distances:
54 96 0.14
55 4 0.01
56 4 0.01
57 517 0.74
58 82 0.12
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (57 bp):
ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAA
Found at i:916219 original size:282 final size:281
Alignment explanation
Indices: 915715--916529 Score: 1344
Period size: 282 Copynumber: 2.9 Consensus size: 281
915705 TCATACAATT
* ** * *
915715 AGTATGAATCTCTTAACCATTTGCACAAAAAGTGCCCAATACGAAAATTCATACACTTAGTATGA
1 AGTATGAATTTCTTAA-CATTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTATTATGA
* * *
915780 ATTTCTTAACTTTTGCACATGAAGTGCCCAATACGAAAATTCATACACTTAGTATGAATTTTCTT
65 ATTTCTTAA---TTGCACACGAAGTGCCCAATGCG-AAATTCATACACTTAGTATGAA-TTTGTT
* * * *
915845 AACTTTTGCACATGAAGTGTCCAATACGAAAATTCATACACTTAGTATGAATTTCTTAACATTTG
125 AACATTTGCACACGAAGTGCCCAATACGAAAATTTATACACTTAGTATGAATTTCTTAACATTTG
915910 CACACGAAGTGCCCAATA-GGAAAATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGA
190 CACACGAAGTGCCCAATACGG-AAATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGA
*
915974 AGTGCCCAATACGAAAATTCATACTCTC
254 AGTGCCCAATACAAAAATTCATACTCTC
916002 AGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTATTATGAA
1 AGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTATTATGAA
916067 TTTCTTAATTGCACACGAAGTGCCCAATGCAGAAATTCATACACTTAGTATGAATTTGTTAACAT
66 TTTCTTAATTGCACACGAAGTGCCCAATGC-GAAATTCATACACTTAGTATGAATTTGTTAACAT
* * *
916132 TTGCACACGAAGTGCCCAATACGTAAATTTATACACTTAGTATGAATTTTTTAACATTTGAACAC
130 TTGCACACGAAGTGCCCAATACGAAAATTTATACACTTAGTATGAATTTCTTAACATTTGCACAC
*
916197 GAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAATATTTGCACACGAAGTGCC
195 GAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCC
*
916262 TAATACAAAAATTCATACTCTC
260 CAATACAAAAATTCATACTCTC
916284 AGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTATTATGAA
1 AGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTATTATGAA
916349 TTTCTTAATTGCACACGAAGTGCCCAATGCGGAAATTCATACACTTAGTATGAATTTGTTAACAT
66 TTTCTTAATTGCACACGAAGTGCCCAATGC-GAAATTCATACACTTAGTATGAATTTGTTAACAT
* *
916414 TTGCACACGAAGTGCCCAATACAAAAATTTATACACTTTGTATGAATTTCTTAACATTTGCACAC
130 TTGCACACGAAGTGCCCAATACGAAAATTTATACACTTAGTATGAATTTCTTAACATTTGCACAC
* *
916479 GAAGTACCCAATACGGAAATTCATACACTTGGTATGAATTTCTTAACATTT
195 GAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTT
916530 TTGCACACTT
Statistics
Matches: 499, Mismatches: 27, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
282 386 0.77
283 44 0.09
284 1 0.00
286 53 0.11
287 15 0.03
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.32
Consensus pattern (281 bp):
AGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTATTATGAA
TTTCTTAATTGCACACGAAGTGCCCAATGCGAAATTCATACACTTAGTATGAATTTGTTAACATT
TGCACACGAAGTGCCCAATACGAAAATTTATACACTTAGTATGAATTTCTTAACATTTGCACACG
AAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCC
AATACAAAAATTCATACTCTC
Found at i:916525 original size:225 final size:228
Alignment explanation
Indices: 915703--916529 Score: 1245
Period size: 225 Copynumber: 3.6 Consensus size: 228
915693 CCACATGAAG
* * **
915703 ATTCATACAATTAGTATGAATCTCTTAACCATTTGCACAAAAAGTGCCCAATACGAAAATTCATA
1 ATTCATACACTTAGTATGAATTTCTTAA-CATTTGCACACGAAGTGCCCAATACGAAAATTCATA
* *
915768 CACTTAGTATGAATTTCTTAACTTTTGCACATGAAGTGCCCAATACGAAAATTCATACACTTAGT
65 CACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAAATTCATACACTTAGT
* * * *
915833 ATGAATTTTCTTAACTTTTGCACATGAAGTGTCCAATACGAAAATTCATACACTTAGTATGAATT
130 ATGAA-TTTCTTAACATTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATT
915898 TCTTAACATTTGCACACGAAGTGCCCAATAG-GAAA
194 TCTTAACATTTGCACACGAAGTGCCCAAT-GCGAAA
915933 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAAATTCATAC
1 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAAATTCATAC
* * * *
915998 TCTCAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTATTA
66 ACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAAATTCATACACTTAGTA
* * *
916063 TGAATTTCTT-A-A-TTGCACACGAAGTGCCCAATGCAGAAATTCATACACTTAGTATGAATTTG
131 TGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTC
* *
916125 TTAACATTTGCACACGAAGTGCCCAATACGTAA
196 TTAACATTTGCACACGAAGTGCCCAATGCGAAA
* * * *
916158 ATTTATACACTTAGTATGAATTTTTTAACATTTGAACACGAAGTGCCCAATACGGAAATTCATAC
1 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAAATTCATAC
* * * * *
916223 ACTTAGTATGAATTTCTTAATATTTGCACACGAAGTGCCTAATACAAAAATTCATACTCTCAGTA
66 ACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAAATTCATACACTTAGTA
*
916288 TGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTATTATGAATTTC
131 TGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTC
*
916353 TT-A-A-TTGCACACGAAGTGCCCAATGCGGAA
196 TTAACATTTGCACACGAAGTGCCCAATGCGAAA
* * *
916383 ATTCATACACTTAGTATGAATTTGTTAACATTTGCACACGAAGTGCCCAATACAAAAATTTATAC
1 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAAATTCATAC
* * * *
916448 ACTTTGTATGAATTTCTTAACATTTGCACACGAAGTACCCAATACGGAAATTCATACACTTGGTA
66 ACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAAATTCATACACTTAGTA
916513 TGAATTTCTTAACATTT
131 TGAATTTCTTAACATTT
916530 TTGCACACTT
Statistics
Matches: 540, Mismatches: 53, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
225 357 0.66
226 2 0.00
227 3 0.01
228 54 0.10
229 98 0.18
230 26 0.05
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (228 bp):
ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAAATTCATAC
ACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGAAAATTCATACACTTAGTA
TGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTC
TTAACATTTGCACACGAAGTGCCCAATGCGAAA
Found at i:917002 original size:19 final size:20
Alignment explanation
Indices: 916962--917011 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
916952 GATGTTACCT
*
916962 GTATCGATACCCTTACTATG
1 GTATCGATACCCTCACTATG
916982 GTATCGATACCCTCA-TATG
1 GTATCGATACCCTCACTATG
917001 GTATCGATACC
1 GTATCGATACC
917012 ATTTTTGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (20 bp):
GTATCGATACCCTCACTATG
Found at i:923438 original size:57 final size:57
Alignment explanation
Indices: 923310--923587 Score: 376
Period size: 57 Copynumber: 4.8 Consensus size: 57
923300 CCATATGGAG
* * *
923310 ATTCATACACTTAGTATGAATCTCTTAACCATTTGCACACAAAGTGCCCAATACGAAA
1 ATTCATACACTTAGTATGAATTTCTTAA-CATTTGCACACGAAGTGCCCAATACGGAA
* * * * * *
923368 ATTTATACACTTAGTATGATTTTCTTAACTTTTGTACACGGAGTGCCCAATATGGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGGAA
* * * **
923425 ATTCATAAACTTAGTATGAATTTTTTAACATTTGCACACGAAGTTCCCAATACAAAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGGAA
*
923482 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACATGAAGTGCCCAATACGGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGGAA
* *
923539 ATTAATACACTTAGTATGAATTTCTTAACATTTTTGCACACTAAGTGCC
1 ATTCATACACTTAGTATGAATTTCTTAACA--TTTGCACACGAAGTGCC
923588 ATTTGGTAAT
Statistics
Matches: 189, Mismatches: 29, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
57 149 0.79
58 25 0.13
59 15 0.08
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (57 bp):
ATTCATACACTTAGTATGAATTTCTTAACATTTGCACACGAAGTGCCCAATACGGAA
Found at i:926001 original size:5 final size:5
Alignment explanation
Indices: 925991--926020 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
925981 TATTCTGTTA
925991 ATTTT ATTTT ATTTT ATTTT AATTTT ATTT
1 ATTTT ATTTT ATTTT ATTTT -ATTTT ATTT
926021 CCTCTTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:926006 original size:10 final size:11
Alignment explanation
Indices: 925988--926020 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
925978 CTATATTCTG
925988 TTAATTTTATT
1 TTAATTTTATT
925999 TT-ATTTTATT
1 TTAATTTTATT
926009 TTAATTTTATT
1 TTAATTTTATT
926020 T
1 T
926021 CCTCTTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTAATTTTATT
Found at i:929455 original size:2 final size:2
Alignment explanation
Indices: 929448--929472 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
929438 ATGAAATCTT
929448 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 T
929473 TGAGACCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:943175 original size:54 final size:54
Alignment explanation
Indices: 943026--943183 Score: 189
Period size: 53 Copynumber: 3.0 Consensus size: 54
943016 TGATAATTTC
* *
943026 TTCAAATG-ATTTTGAAAGAAGCTAAGCCTGATTTTCAGGGGATTCTTGATGTT
1 TTCAAATGAATTTTTAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTT
* * * *
943079 TTCAAATGAA-TTCTAAAGGACCTAAGCCTGATTTTCATGGGTTTCTTGATGTT
1 TTCAAATGAATTTTTAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTT
* * *
943132 TTCCAAT-AACTTTTTAAAGAAGATAAGCCTAAATTTT-AGGGGTTTCTTGATG
1 TTCAAATGAA-TTTTTAAAGAAGCTAAGCCT-GATTTTCAGGGGTTTCTTGATG
943184 ATAACTATAA
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
52 2 0.02
53 51 0.58
54 30 0.34
55 5 0.06
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.39
Consensus pattern (54 bp):
TTCAAATGAATTTTTAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTT
Found at i:943400 original size:94 final size:94
Alignment explanation
Indices: 943239--943419 Score: 301
Period size: 94 Copynumber: 1.9 Consensus size: 94
943229 TTTCTTGATG
*
943239 AGTAAGTCCTTTGGGCCATCCATAAGACCTTCGAGCAGGATGTTTTCACATGATTTTAGAAAAAT
1 AGTAAGTCCTTAGGGCCATCCATAAGACCTTCGAGCAGGATGTTTTCACATGATTTTAGAAAAAT
943304 GAGAAAACGATTTCCAAAGTTTTTTACTT
66 GAGAAAACGATTTCCAAAGTTTTTTACTT
* *
943333 AGTAAGTCCTTAGGGCCATCCATAAGACCTTCGGGCATGATGTTTTCACATGATTTTCA-AAAAA
1 AGTAAGTCCTTAGGGCCATCCATAAGACCTTCGAGCAGGATGTTTTCACATGATTTT-AGAAAAA
**
943397 TGAGAAAGTGATTTCCAAAGTTT
65 TGAGAAAACGATTTCCAAAGTTT
943420 ATCATTTATA
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 80 0.99
95 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (94 bp):
AGTAAGTCCTTAGGGCCATCCATAAGACCTTCGAGCAGGATGTTTTCACATGATTTTAGAAAAAT
GAGAAAACGATTTCCAAAGTTTTTTACTT
Found at i:943789 original size:240 final size:238
Alignment explanation
Indices: 943335--944100 Score: 1009
Period size: 240 Copynumber: 3.2 Consensus size: 238
943325 TTTTACTTAG
* * * *
943335 TAAGTCCTTAGGGCCATCCATAAGACCTTCGGGCATGATGTTTTCACATGA-TTTTCAAAAAATG
1 TAAGTCCTT-CGGTCATCCATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTTGAAAAAA-G
* * * * * *
943399 AGAAAGTGATTTCCAAAGTTTATCATTTATATCTTTTTTGAAAATTGA-ATTTTTGAAAAGTAAG
64 AGAAAGCGATTTCCAAAGTTTCTCATTTAAATATTTTCTGAAAATTGATTTTTTTGAAAAGTAAG
* ** * * *
943463 AAAACGATTCCCTAAGTTTCTTACTTAGTAAGTCCCATGGGCCATCAGTAAGTCTTTCAAGAATA
129 AAAATGATTTTCAAAGTTTCTTACTTAGTAAGTCCCTTGGGCCATCAGTAAGTCTTTC-AGCATA
* *
943528 ATGCCTAAATCCTTCGAGTCATCTCTAAACCTTTCGAGCAAGATGA
193 ATGCCTAAATCCTTCGAGTCATCTATAAGCCTTTCGAGCAAGATGA
* *
943574 TAAGTCCTTCAGGTCATCCATAAGACCTTCGGACATGATGTTTTCACATGATTTTTGAAAAAAGA
1 TAAGTCCTTC-GGTCATCCATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTTGAAAAAAGA
* * *
943639 GAAAACGATTTCCAAAGCTTCTCATTTAAATATTTTCTGAAAATTGATTTTTTTGAAAAATAAGA
65 GAAAGCGATTTCCAAAGTTTCTCATTTAAATATTTTCTGAAAATTGATTTTTTTGAAAAGTAAGA
* *
943704 AAATGATTTTCAAAGTTTCTTACTTAGTAAGTCCCTTGGACCATCAGTAAGTGTTTCGAGCATAA
130 AAATGATTTTCAAAGTTTCTTACTTAGTAAGTCCCTTGGGCCATCAGTAAGTCTTTC-AGCATAA
*
943769 TGCTTAAATCCTTCGAGTCATCTATAAGCCTTTCGAGCAAGATGA
194 TGCCTAAATCCTTCGAGTCATCTATAAGCCTTTCGAGCAAGATGA
* * * * *
943814 TAAGTCCTTCGAGTCATCCATGAGACCTTTGGGCAGGATGTTTTAACATGATTTTCGAAAAATGA
1 TAAGTCCTTCG-GTCATCCATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTTGAAAAAAGA
* *
943879 GAAAGCGATTTCCAAAGTTTCTCATTTAAATTTTTTCTGAAAATTGATTTTTTTTAAAAGTAAGA
65 GAAAGCGATTTCCAAAGTTTCTCATTTAAATATTTTCTGAAAATTGATTTTTTTGAAAAGTAAGA
* *
943944 AAATG-GTTTCTAAAGTTTCTTACTTAGTAAGT-CCTTCGGGCCATCTGTAAGTCTTTTCAGCAT
130 AAATGATTTTC-AAAGTTTCTTACTTAGTAAGTCCCTT-GGGCCATCAGTAAGTC-TTTCAGCAT
* * * * *
944007 GATGCCTAAATCCTTCGGGTCATCTATAAGCTTTTTGAACAAGATGA
192 AATGCCTAAATCCTTCGAGTCATCTATAAGCCTTTCGAGCAAGATGA
* * ** *
944054 TAAGTTCTTCGGGCTATCTGTAAGACCTTCGGGTAGGATGTTTTCAC
1 TAAGTCCTTCGGTC-ATCCATAAGACCTTCGGGCAGGATGTTTTCAC
944101 GTGGTGTTCA
Statistics
Matches: 464, Mismatches: 55, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
239 100 0.22
240 360 0.78
241 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (238 bp):
TAAGTCCTTCGGTCATCCATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTTGAAAAAAGAG
AAAGCGATTTCCAAAGTTTCTCATTTAAATATTTTCTGAAAATTGATTTTTTTGAAAAGTAAGAA
AATGATTTTCAAAGTTTCTTACTTAGTAAGTCCCTTGGGCCATCAGTAAGTCTTTCAGCATAATG
CCTAAATCCTTCGAGTCATCTATAAGCCTTTCGAGCAAGATGA
Found at i:946657 original size:2 final size:2
Alignment explanation
Indices: 946650--946686 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
946640 TCAACTACAT
946650 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
946687 AAATATTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:946737 original size:20 final size:20
Alignment explanation
Indices: 946712--946752 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
946702 TTTATTATTA
946712 CAAAATACCCAAACCAAACC
1 CAAAATACCCAAACCAAACC
* *
946732 CAAAATACCTAATCCAAACC
1 CAAAATACCCAAACCAAACC
946752 C
1 C
946753 CAAGCCCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.39, G:0.00, T:0.10
Consensus pattern (20 bp):
CAAAATACCCAAACCAAACC
Found at i:947570 original size:20 final size:20
Alignment explanation
Indices: 947542--947609 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
947532 TATTGTTCAT
* * *
947542 TACTGTTCACATAGTATCGG
1 TACTATTCACACAGTATCGA
947562 TACTATTCACACAGTATCGA
1 TACTATTCACACAGTATCGA
* * *
947582 TACTATTCATACATTA-CAA
1 TACTATTCACACAGTATCGA
947601 TACTATTCA
1 TACTATTCA
947610 TAAAAACATT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 11 0.26
20 31 0.74
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (20 bp):
TACTATTCACACAGTATCGA
Found at i:947861 original size:18 final size:19
Alignment explanation
Indices: 947814--947870 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 19
947804 ATGTTTAATG
947814 AAAAAGATATCAATTGTTA
1 AAAAAGATATCAATTGTTA
947833 ACAAAAGGATATCAATTGTT-
1 A-AAAA-GATATCAATTGTTA
*
947853 AAAAAGATACCAATTGTT
1 AAAAAGATATCAATTGTT
947871 GGAAAATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 12 0.34
19 5 0.14
20 5 0.14
21 13 0.37
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (19 bp):
AAAAAGATATCAATTGTTA
Found at i:954200 original size:109 final size:109
Alignment explanation
Indices: 953942--954340 Score: 461
Period size: 109 Copynumber: 3.7 Consensus size: 109
953932 CTAAGTGTAC
* * * *
953942 TACAGGCACTATGTGTGCAAAACCATGGAATTCATCATGAGTTTATGAATAGCCGTATAGGCACT
1 TACAGGCACTATGTGT-CAAAACCACGGAATTCATCATGAGTTGATGAATAGCCGTACAAGCACT
*
954007 ATGTGTGTAAAAT-CACGAAATTCAT--TGAGTTGATGAATAGCCG
65 ATGTGTG-AAATTCCACGAAATTCATCATGAGTTGATGAATAGCCG
* * * * *
954050 TACAGGCACTATGTGTGCAAAACCACGAAATTCATCATGAGTTGTTGAATAGCCGTACATGTAAT
1 TACAGGCACTATGTGT-CAAAACCACGGAATTCATCATGAGTTGATGAATAGCCGTACAAGCACT
* * *
954115 ATGTGTGCAATTCCACAAAATTCATCATGAGTCGATGAATAGCC-
65 ATGTGTGAAATTCCACGAAATTCATCATGAGTTGATGAATAGCCG
954159 TACAGGCACTATGTGT-AAAATTCCACGGAATTCAT-ATTGAGTTGATGAATAGCCGTACAAGCA
1 TACAGGCACTATGTGTCAAAA--CCACGGAATTCATCA-TGAGTTGATGAATAGCCGTACAAGCA
* * * * *
954222 CTATGTGTGTAATTCCATGGAATTCATCATGAGTTGATGAGTAACCG
63 CTATGTGTGAAATTCCACGAAATTCATCATGAGTTGATGAATAGCCG
* * * * *
954269 TATATGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATTA-CCGTATAAGGAC
1 TACAGGCACTATGTGT-CAAAACCACGGAATTCATCATGAGTTGATGAA-TAGCCGTACAAGCAC
*
954333 TATTTGTG
64 TATGTGTG
954341 CATTCTAATA
Statistics
Matches: 250, Mismatches: 30, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
107 7 0.03
108 76 0.30
109 89 0.36
110 71 0.28
111 3 0.01
112 4 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (109 bp):
TACAGGCACTATGTGTCAAAACCACGGAATTCATCATGAGTTGATGAATAGCCGTACAAGCACTA
TGTGTGAAATTCCACGAAATTCATCATGAGTTGATGAATAGCCG
Found at i:954229 original size:164 final size:162
Alignment explanation
Indices: 953942--954318 Score: 479
Period size: 164 Copynumber: 2.3 Consensus size: 162
953932 CTAAGTGTAC
* * *** * *
953942 TACAGGCACTATGTGTGCAAAACCATGGAATTCATCATGAGTTTATGAATAGCCGTATAGGCACT
1 TACATGCAATATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAGCCGTACAGGCACT
*
954007 ATGTGTGTAAAATCACGAAATTCATTGAGTTGATGAATAGCCGTACAGGCACTATGTGTGCAAAA
66 A-GTGTGTAAAATCACGAAATTCATTGAGTTGATGAATAGCCGTACAAGCACTATGTGTGCAAAA
* *
954072 CCACGAAATTCATCATGAGTTGTTGAATAGCCG
130 CCACGAAATTCATCATGAGTTGATGAATAACCG
* ** *
954105 TACATGTAATATGTGTGCAATTCCACAAAATTCATCATGAGTCGATGAATAGCC-TACAGGCACT
1 TACATGCAATATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAGCCGTACAGGCACT
* *
954169 A-TGTGTAAAATTCCACGGAATTCATATTGAGTTGATGAATAGCCGTACAAGCACTATGTGTGTA
66 AGTGTGTAAAA-T-CACGAAATTC--ATTGAGTTGATGAATAGCCGTACAAGCACTATGTGTGCA
** * * *
954233 ATTCCATGGAATTCATCATGAGTTGATGAGTAACCG
127 AAACCACGAAATTCATCATGAGTTGATGAATAACCG
* * *
954269 TATATGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAAT
1 TACATGCAATATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAAT
954319 TACCGTATAA
Statistics
Matches: 182, Mismatches: 28, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
160 9 0.05
161 1 0.01
162 19 0.10
163 44 0.24
164 109 0.60
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (162 bp):
TACATGCAATATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAGCCGTACAGGCACT
AGTGTGTAAAATCACGAAATTCATTGAGTTGATGAATAGCCGTACAAGCACTATGTGTGCAAAAC
CACGAAATTCATCATGAGTTGATGAATAACCG
Found at i:954327 original size:55 final size:55
Alignment explanation
Indices: 953942--954318 Score: 451
Period size: 55 Copynumber: 6.9 Consensus size: 55
953932 CTAAGTGTAC
* *
953942 TACAGGCACTATGTGTGCAAAACCATGGAATTCATCATGAGTTTATGAATAGCCG
1 TACAGGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGCCG
* * * *
953997 TATAGGCACTATGTGTGTAAAATCACGAAATTCAT--TGAGTTGATGAATAGCCG
1 TACAGGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGCCG
* *
954050 TACAGGCACTATGTGTGCAAAACCACGAAATTCATCATGAGTTGTTGAATAGCCG
1 TACAGGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGCCG
* * * ** ** *
954105 TACATGTAATATGTGTGCAATTCCACAAAATTCATCATGAGTCGATGAATAGCC-
1 TACAGGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGCCG
954159 TACAGGCACTATGTGT--AAAATTCCACGGAATTCAT-ATTGAGTTGATGAATAGCCG
1 TACAGGCACTATGTGTGCAAAA--CCACGGAATTCATCA-TGAGTTGATGAATAGCCG
* * ** * * *
954214 TACAAGCACTATGTGTGTAATTCCATGGAATTCATCATGAGTTGATGAGTAACCG
1 TACAGGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGCCG
* * *
954269 TATATGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAAT
1 TACAGGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAAT
954319 TACCGTATAA
Statistics
Matches: 273, Mismatches: 40, Indels: 18
0.82 0.12 0.05
Matches are distributed among these distances:
52 2 0.01
53 50 0.18
54 40 0.15
55 178 0.65
56 1 0.00
57 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (55 bp):
TACAGGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGCCG
Found at i:962744 original size:20 final size:20
Alignment explanation
Indices: 962704--962742 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
962694 CATTGCAAGA
962704 ATTTATGGCCTCAACAAAAG
1 ATTTATGGCCTCAACAAAAG
*
962724 ATTTCATGGCTTCAACAAA
1 ATTT-ATGGCCTCAACAAA
962743 GACCTTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAG
Found at i:970813 original size:23 final size:23
Alignment explanation
Indices: 970780--970835 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
970770 CGATGATATT
*
970780 TGAATGACTTTTTGATAGCACCA
1 TGAATGTCTTTTTGATAGCACCA
970803 TGAATGTCTTTTTGATAGCACCA
1 TGAATGTCTTTTTGATAGCACCA
970826 TGAATGTCTT
1 TGAATGTCTT
970836 ACTTGGTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (23 bp):
TGAATGTCTTTTTGATAGCACCA
Found at i:972371 original size:2 final size:2
Alignment explanation
Indices: 972364--972412 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
972354 TGATGTACAT
972364 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
972406 TA TA TA T
1 TA TA TA T
972413 CTTCCTTTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:973258 original size:28 final size:27
Alignment explanation
Indices: 973194--973261 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
973184 AATCCGATCC
* *
973194 AAACCCAACCCGAATATCACACTTAAA
1 AAACCCGACCCGAATATCAAACTTAAA
973221 AAACCCGACCCGAATATCAAACTTAAA
1 AAACCCGACCCGAATATCAAACTTAAA
973248 AAACCCCGACCCGA
1 AAA-CCCGACCCGA
973262 TCCCGAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 28 0.74
28 10 0.26
ACGTcount: A:0.46, C:0.35, G:0.07, T:0.12
Consensus pattern (27 bp):
AAACCCGACCCGAATATCAAACTTAAA
Found at i:973595 original size:81 final size:81
Alignment explanation
Indices: 973460--973620 Score: 225
Period size: 81 Copynumber: 2.0 Consensus size: 81
973450 GCCACCTTAG
* * * *
973460 TCTTTTACCAAAAGGGATTTAGCCTTTCATCTAACTTGCATAATTGACATCTTTCTGTCAAATGA
1 TCTTTTACCAAAAGGGATTTAACCTTTCATATAACTGGCATAATTGACACCTTTCTGTCAAATGA
* *
973525 ATAGCTAGGCCATTAT
66 ACAACTAGGCCATTAT
* *
973541 TCTTTTACTC-AAAGGTATTTAACCTTTCTTATAACTGGCATAATTGACACCTTTCTGTCAAATG
1 TCTTTTAC-CAAAAGGGATTTAACCTTTCATATAACTGGCATAATTGACACCTTTCTGTCAAATG
*
973605 CACAACTAGGCCATTA
65 AACAACTAGGCCATTA
973621 ATATTTTGTT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
81 69 0.99
82 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (81 bp):
TCTTTTACCAAAAGGGATTTAACCTTTCATATAACTGGCATAATTGACACCTTTCTGTCAAATGA
ACAACTAGGCCATTAT
Found at i:974014 original size:47 final size:47
Alignment explanation
Indices: 973957--974530 Score: 873
Period size: 47 Copynumber: 12.2 Consensus size: 47
973947 TATTCATTAA
* * *
973957 TTTTATTTATGGCATCCTTTTATGCCTTAATACATCCGTTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCAT
* * *
974004 TTTTAGTTATGGTATCTTTTCATACCTTAATGCATCCGTTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCAT
*
974051 TTTTAGTTATGGCATCCTTTCACGCCTTAATGCATCCGTTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCAT
* *
974098 TTTTAGTTATGGCAT-CTTTCATGCCTTAATACATCTGTTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCAT
*
974144 TTTTAGTTATGGCATCCTTTCATGCCTTAATGTATCCGTTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCAT
*
974191 TTTTAGTTATGG-ATTCCTTTCATGCCTTAAGGCATCCGTTCATGCAT
1 TTTTAGTTATGGCA-TCCTTTCATGCCTTAATGCATCCGTTCATGCAT
*
974238 TTTTAGTTATGGAATCCTTTCATGCCTTAATGCATCCGTTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCAT
* *
974285 TTTTAGTTATGGAATCATTTCATGCCTTAATGCATCCGTTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCAT
* *
974332 TTTTAATTATGGCATCATTTCATGCCTTAATGCATCCGTTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCAT
*
974379 ATTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCAT
* * * * *
974426 TTCTAATTATGGCACCCTTTCACGCCTTAATGCATCCATTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCAT
* * * * * *
974473 TTTTAGTTATGGCATCATTTCATTCCTTAATGAATCTGTTCAAGCAA
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCAT
974520 TTTTAGTTATG
1 TTTTAGTTATG
974531 TAATCGGTTT
Statistics
Matches: 482, Mismatches: 42, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
46 44 0.09
47 437 0.91
48 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (47 bp):
TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCAT
Found at i:974328 original size:20 final size:20
Alignment explanation
Indices: 974303--974423 Score: 71
Period size: 20 Copynumber: 5.3 Consensus size: 20
974293 ATGGAATCAT
974303 TTCATGCCTTAATGCATCCG
1 TTCATGCCTTAATGCATCCG
* **
974323 TTCATGCATTTTTAATTATGGCATCAT
1 TTCATGC---CTT-A--AT-GCATCCG
974350 TTCATGCCTTAATGCATCCG
1 TTCATGCCTTAATGCATCCG
* *
974370 TTCATGCATATTTAGTTATGGCATCCT
1 TTCATGC---CTTA---AT-GCATCCG
974397 TTCATGCCTTAATGCATCCG
1 TTCATGCCTTAATGCATCCG
974417 TTCATGC
1 TTCATGC
974424 ATTTCTAATT
Statistics
Matches: 77, Mismatches: 10, Indels: 28
0.67 0.09 0.24
Matches are distributed among these distances:
20 32 0.42
21 4 0.05
23 6 0.08
24 6 0.08
26 4 0.05
27 25 0.32
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (20 bp):
TTCATGCCTTAATGCATCCG
Found at i:976581 original size:55 final size:55
Alignment explanation
Indices: 976494--976756 Score: 319
Period size: 55 Copynumber: 4.8 Consensus size: 55
976484 TACTATAGGT
* * ** *
976494 ACTATGTGTGCAAAAGCATGGAATTCATCATGAGTTGATGAATAGTTGTAGAGGC
1 ACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGCCGTACAGGC
* * * * * *
976549 ACCATGTGTGCAAAACCACGAAATTCATCATGAGTTAATGAATAGTCATACATGC
1 ACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGCCGTACAGGC
** * *
976604 ACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
1 ACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGCCGTACAGGC
** * * *
976659 ACTATGTGTGCAATTCCACGGAATTCATCATGAGTTGATGAGTAGCCGTATAGGA
1 ACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGCCGTACAGGC
** *
976714 ACTATGTGTGCAAAACCACATAATTCATTATGAGTTGATGAAT
1 ACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAAT
976757 TACCATATAG
Statistics
Matches: 180, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 180 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (55 bp):
ACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGCCGTACAGGC
Found at i:984073 original size:18 final size:18
Alignment explanation
Indices: 984001--984073 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
983991 ACTGAATATT
* *
984001 TGTCCCGAAGGACTACTA
1 TGTCCCAAAGGACCACTA
**
984019 TGTCCCAAAATACCACTGA
1 TGTCCCAAAGGACCACT-A
** *
984038 TTGTTTCAAAGAACCACTA
1 -TGTCCCAAAGGACCACTA
*
984057 TGTCCCGAAGGACCACT
1 TGTCCCAAAGGACCACT
984074 GATAATCCCT
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
18 26 0.63
19 2 0.05
20 13 0.32
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (18 bp):
TGTCCCAAAGGACCACTA
Found at i:984333 original size:2 final size:2
Alignment explanation
Indices: 984326--984351 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
984316 TAATACATAC
984326 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
984352 GCATGTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:987717 original size:15 final size:16
Alignment explanation
Indices: 987689--987725 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
987679 TGCATGCTTC
987689 CCCTTTTTCTCTTTTT
1 CCCTTTTTCTCTTTTT
987705 CCCTTTTTC-CTTTTT
1 CCCTTTTTCTCTTTTT
987720 -CCTTTT
1 CCCTTTT
987726 GTCCAAAACG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.29
15 6 0.29
16 9 0.43
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (16 bp):
CCCTTTTTCTCTTTTT
Found at i:987725 original size:6 final size:7
Alignment explanation
Indices: 987690--987725 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
987680 GCATGCTTCC
987690 CCTTTTT
1 CCTTTTT
987697 CTCTTTTT
1 C-CTTTTT
987705 CCCTTTTT
1 -CCTTTTT
987713 CCTTTTT
1 CCTTTTT
987720 CCTTTT
1 CCTTTT
987726 GTCCAAAACG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 14 0.52
8 12 0.44
9 1 0.04
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (7 bp):
CCTTTTT
Found at i:993026 original size:13 final size:13
Alignment explanation
Indices: 993005--993106 Score: 132
Period size: 13 Copynumber: 7.8 Consensus size: 13
992995 CGCGCGATGA
993005 GCGTCATAAATGC
1 GCGTCATAAATGC
* *
993018 ACATCATAAATGC
1 GCGTCATAAATGC
*
993031 GTGTCATAAATGC
1 GCGTCATAAATGC
*
993044 GTGTCATAAATGC
1 GCGTCATAAATGC
*
993057 GTGTCATAAATGC
1 GCGTCATAAATGC
*
993070 GCGTCATAAATTC
1 GCGTCATAAATGC
* *
993083 GCATCATAAATAC
1 GCGTCATAAATGC
993096 GCGTCATAAAT
1 GCGTCATAAAT
993107 TTATGACGCA
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 79 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (13 bp):
GCGTCATAAATGC
Found at i:1000387 original size:19 final size:19
Alignment explanation
Indices: 1000363--1000403 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
1000353 TCTTTAGCGC
1000363 TTCAAAACTCTCTTGGCAT
1 TTCAAAACTCTCTTGGCAT
1000382 TTCAAAACTCTCTTGGCAT
1 TTCAAAACTCTCTTGGCAT
1000401 TTC
1 TTC
1000404 TCTATCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.39
Consensus pattern (19 bp):
TTCAAAACTCTCTTGGCAT
Found at i:1010158 original size:22 final size:22
Alignment explanation
Indices: 1010133--1010212 Score: 94
Period size: 22 Copynumber: 3.7 Consensus size: 22
1010123 ATAGGGCAGA
*
1010133 GGAATTGATACCCCCTTGAAGG
1 GGAATCGATACCCCCTTGAAGG
*
1010155 GGAATCGATTCCCCCTTTGAAGG
1 GGAATCGATACCCCC-TTGAAGG
*
1010178 GGAACCGATTACCCCC-T--AGG
1 GGAATCGA-TACCCCCTTGAAGG
1010198 GGAATCGATACCCCC
1 GGAATCGATACCCCC
1010213 CTGGGGTTCT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
19 7 0.14
20 10 0.20
22 14 0.27
23 14 0.27
24 6 0.12
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (22 bp):
GGAATCGATACCCCCTTGAAGG
Found at i:1010174 original size:23 final size:23
Alignment explanation
Indices: 1010133--1010194 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
1010123 ATAGGGCAGA
* *
1010133 GGAATTGATACCCCC-TTGAAGG
1 GGAATCGATTCCCCCTTTGAAGG
1010155 GGAATCGATTCCCCCTTTGAAGG
1 GGAATCGATTCCCCCTTTGAAGG
*
1010178 GGAACCGATTACCCCCT
1 GGAATCGATT-CCCCCT
1010195 AGGGGAATCG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 13 0.37
23 16 0.46
24 6 0.17
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (23 bp):
GGAATCGATTCCCCCTTTGAAGG
Found at i:1010218 original size:19 final size:20
Alignment explanation
Indices: 1010175--1010212 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1010165 CCCCCTTTGA
1010175 AGGGGAACCGATTACCCCCT
1 AGGGGAACCGATTACCCCCT
*
1010195 AGGGGAATCGA-TACCCCC
1 AGGGGAACCGATTACCCCC
1010213 CTGGGGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.13
Consensus pattern (20 bp):
AGGGGAACCGATTACCCCCT
Found at i:1013957 original size:15 final size:15
Alignment explanation
Indices: 1013934--1013984 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
1013924 ATCACCTAAC
1013934 ATGCAACTATATAAT
1 ATGCAACTATATAAT
* *
1013949 ATGCTACTATGTAAT
1 ATGCAACTATATAAT
*
1013964 AT-AAACTATATAAT
1 ATGCAACTATATAAT
1013978 ATGCAAC
1 ATGCAAC
1013985 ATGTAACACA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (15 bp):
ATGCAACTATATAAT
Found at i:1015018 original size:20 final size:19
Alignment explanation
Indices: 1014953--1015025 Score: 76
Period size: 18 Copynumber: 3.7 Consensus size: 19
1014943 ATGCTCGGAT
*
1014953 GGTACCGATACCCCCA-TA
1 GGTACCGATACCCCCAGCA
*
1014971 GGTATCGATACCCCCATGCA
1 GGTACCGATACCCCCA-GCA
*
1014991 TTGGTACCGATACCCCTCAGGA
1 --GGTACCGATACCCC-CAGCA
1015013 GGTACCGATACCC
1 GGTACCGATACCC
1015026 TAAGGCATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 15 0.33
20 14 0.30
22 15 0.33
23 2 0.04
ACGTcount: A:0.25, C:0.36, G:0.21, T:0.19
Consensus pattern (19 bp):
GGTACCGATACCCCCAGCA
Found at i:1018857 original size:18 final size:18
Alignment explanation
Indices: 1018834--1018876 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
1018824 CCATTGAAGA
1018834 AAGGGAAGTCTCTTACCC
1 AAGGGAAGTCTCTTACCC
1018852 AAGGGAAGTCTCTTACCC
1 AAGGGAAGTCTCTTACCC
1018870 AAGGGAA
1 AAGGGAA
1018877 TACAACTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.19
Consensus pattern (18 bp):
AAGGGAAGTCTCTTACCC
Found at i:1020810 original size:23 final size:23
Alignment explanation
Indices: 1020777--1020859 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 23
1020767 CCCTAAGACC
1020777 GGTATCGATACCCCCTTTGAATA
1 GGTATCGATACCCCCTTTGAATA
*
1020800 GGTATCAATA-CCCC--TGCAATA
1 GGTATCGATACCCCCTTTG-AATA
**
1020821 GGTATCGATACCATCTTTGAATA
1 GGTATCGATACCCCCTTTGAATA
1020844 GGTATCGATACCCCCT
1 GGTATCGATACCCCCT
1020860 GATGGTACTG
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
20 2 0.04
21 13 0.26
22 6 0.12
23 27 0.54
24 2 0.04
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (23 bp):
GGTATCGATACCCCCTTTGAATA
Found at i:1020825 original size:44 final size:43
Alignment explanation
Indices: 1020752--1020857 Score: 133
Period size: 44 Copynumber: 2.4 Consensus size: 43
1020742 ATTTTTGTGC
*
1020752 ATAGAGTATCAATACCCCTAAGACCGGTATCGATACCCCCTTTGA
1 ATAG-GTATCAATACCCCTAAGA-CGGTATCGATACCACCTTTGA
* *
1020797 ATAGGTATCAATACCCCTGCAATA-GGTATCGATACCATCTTTGA
1 ATAGGTATCAATACCCCT--AAGACGGTATCGATACCACCTTTGA
*
1020841 ATAGGTATCGATACCCC
1 ATAGGTATCAATACCCC
1020858 CTGATGGTAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
44 48 0.87
45 4 0.07
46 3 0.05
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
ATAGGTATCAATACCCCTAAGACGGTATCGATACCACCTTTGA
Found at i:1024969 original size:11 final size:11
Alignment explanation
Indices: 1024955--1024983 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1024945 TTTCTTTTAT
1024955 TTTTCTTTCTC
1 TTTTCTTTCTC
1024966 TTTTCTTTCTC
1 TTTTCTTTCTC
1024977 -TTTCTTT
1 TTTTCTTT
1024984 TTTTCCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTCTTTCTC
Found at i:1024969 original size:17 final size:17
Alignment explanation
Indices: 1024947--1024985 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1024937 TTGGTTTTTT
*
1024947 TCTTTTATTTTTCTTTC
1 TCTTTTATTTCTCTTTC
*
1024964 TCTTTTCTTTCTCTTTC
1 TCTTTTATTTCTCTTTC
1024981 T-TTTT
1 TCTTTT
1024986 TTCCTTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.77
Consensus pattern (17 bp):
TCTTTTATTTCTCTTTC
Found at i:1024986 original size:17 final size:15
Alignment explanation
Indices: 1024941--1024987 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 15
1024931 TTCACTTTGG
*
1024941 TTTT-TTTCTTTTAT
1 TTTTCTTTCTTTTTT
1024955 TTTTCTTTCTCTTTTCT
1 TTTTCTTTCT-TTTT-T
*
1024972 TTCTCTTTCTTTTTT
1 TTTTCTTTCTTTTTT
1024987 T
1 T
1024988 CCTTTTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 4 0.14
15 7 0.25
16 7 0.25
17 10 0.36
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTCTTTCTTTTTT
Found at i:1024995 original size:15 final size:14
Alignment explanation
Indices: 1024954--1024997 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
1024944 TTTTCTTTTA
*
1024954 TTTTTCTTTCTCTT
1 TTTTTCTTTTTCTT
*
1024968 TTCTTTCTCTTTCTT
1 TT-TTTCTTTTTCTT
1024983 TTTTTCCTTTTTCTT
1 TTTTT-CTTTTTCTT
1024998 CATTAGCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTCTTTTTCTT
Found at i:1025689 original size:5 final size:5
Alignment explanation
Indices: 1025667--1025754 Score: 58
Period size: 5 Copynumber: 17.6 Consensus size: 5
1025657 TGAACCCCCT
* * *
1025667 TTTTA TTTTC -TTTA TTTTC TTTT- TCTT- TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
** *
1025714 TTTT- TCTCCC TTTCCC TTTTTC TTTTC TTTTC TTCTTC TTT
1 TTTTC T-TTTC TTT-TC -TTTTC TTTTC TTTTC TT-TTC TTT
1025755 CAAGCGTAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
4 10 0.15
5 45 0.67
6 9 0.13
7 3 0.04
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:1025700 original size:22 final size:22
Alignment explanation
Indices: 1025672--1025718 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
1025662 CCCCTTTTTA
1025672 TTTTC-TTTATTTTCTTTTTCTT
1 TTTTCTTTTATTTTC-TTTTCTT
*
1025694 TTTTCTTTTCTTTTCTTTTCTT
1 TTTTCTTTTATTTTCTTTTCTT
1025716 TTT
1 TTT
1025719 CTCCCTTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTCTTTTATTTTCTTTTCTT
Found at i:1025739 original size:6 final size:6
Alignment explanation
Indices: 1025681--1025720 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
1025671 ATTTTCTTTA
1025681 TTTTCT TTTTCT TTTT-T CTTTTC- TTTTC- TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT -TTTTCT TTTTCT TTTTCT TTTTCT
1025721 CCCTTTCCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 11 0.35
6 20 0.65
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:1044153 original size:44 final size:44
Alignment explanation
Indices: 1044004--1044156 Score: 166
Period size: 44 Copynumber: 3.5 Consensus size: 44
1043994 CTTTCTTCTA
* * * *
1044004 TGATGGAATCGAAAAAAAGGGTGATGCTGATCCAACTCCTTATG
1 TGATGGAATCGAACAAAATGTTGATGTTGATCCAACTCCTTATG
** * * *
1044048 TGATATAATTGAGA-AAAATATTGATGTTGATCCAACTCCTTATA
1 TGATGGAATCGA-ACAAAATGTTGATGTTGATCCAACTCCTTATG
* *
1044092 TGATGGAATC-AAGCGAAATGTTGATGTTGATCCAACTCCCTATG
1 TGATGGAATCGAA-CAAAATGTTGATGTTGATCCAACTCCTTATG
*
1044136 TGATGGAATCGAACGAAATGT
1 TGATGGAATCGAACAAAATGT
1044157 AATTCTCAAG
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 85 0.94
45 3 0.03
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (44 bp):
TGATGGAATCGAACAAAATGTTGATGTTGATCCAACTCCTTATG
Done.