Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_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: 4568288
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 24
Found at i:3841004 original size:37 final size:37
Alignment explanation
Indices: 3840928--3841004 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
3840918 TTTTTATATT
*
3840928 TTTAATTTTGTAAAATAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAATAAATTATATAAATATTATCAA
* *
3840965 TTTAATTTTTTAAAGA-AAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-ATAAATTATATAAATATTAT-CAA
3841002 TTT
1 TTT
3841005 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 13 0.37
37 21 0.60
38 1 0.03
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (37 bp):
TTTAATTTTGTAAAATAAATTATATAAATATTATCAA
Found at i:3850479 original size:10 final size:10
Alignment explanation
Indices: 3850464--3850538 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
3850454 GGGTCTTCAA
3850464 CGTTTATGTT
1 CGTTTATGTT
3850474 CGTTTATGTT
1 CGTTTATGTT
3850484 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
3850495 ATGTTCGTGTT
1 -CGTTTATGTT
3850506 CGTTTATGTT
1 CGTTTATGTT
3850516 C----ATGTT
1 CGTTTATGTT
*
3850522 CATTTATGTT
1 CGTTTATGTT
3850532 CGTTTAT
1 CGTTTAT
3850539 TTATTAAATG
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
6 6 0.12
10 33 0.66
11 7 0.14
12 4 0.08
ACGTcount: A:0.12, C:0.12, G:0.19, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:3850495 original size:16 final size:16
Alignment explanation
Indices: 3850470--3850542 Score: 105
Period size: 16 Copynumber: 4.7 Consensus size: 16
3850460 TCAACGTTTA
*
3850470 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
3850486 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
* *
3850502 TGTTCGTTTATGTTCA
1 TGTTCATTTATGTTCG
3850518 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
3850534 T-TT-ATTTAT
1 TGTTCATTTAT
3850543 TAAATGAACG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
14 6 0.12
15 2 0.04
16 44 0.85
ACGTcount: A:0.12, C:0.11, G:0.18, T:0.59
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:3850506 original size:32 final size:32
Alignment explanation
Indices: 3850470--3850534 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
3850460 TCAACGTTTA
*
3850470 TGTTCGTTTATGTTCGTGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCATGTTCATTTATGTTCG
3850502 TGTTCGTTTATGTTCATGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCATGTTCATTTATGTTCG
3850534 T
1 T
3850535 TTATTTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.11, C:0.12, G:0.20, T:0.57
Consensus pattern (32 bp):
TGTTCGTTTATGTTCATGTTCATTTATGTTCG
Found at i:3850622 original size:16 final size:16
Alignment explanation
Indices: 3850601--3850641 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
3850591 ACAAAAAAAA
3850601 TATGTTCGTGTTCGTT
1 TATGTTCGTGTTCGTT
3850617 TATGTTCGTGTTCGTT
1 TATGTTCGTGTTCGTT
3850633 TATGTTCGT
1 TATGTTCGT
3850642 TTTTTTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.07, C:0.12, G:0.24, T:0.56
Consensus pattern (16 bp):
TATGTTCGTGTTCGTT
Found at i:3855782 original size:20 final size:20
Alignment explanation
Indices: 3855757--3855814 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
3855747 GAGAAAACAT
3855757 CCCTAAACGACTAGAAATCA
1 CCCTAAACGACTAGAAATCA
3855777 CCCTAAACGACTAGAAATCA
1 CCCTAAACGACTAGAAATCA
* * *
3855797 TCTTCAACGACTAGAAAT
1 CCCTAAACGACTAGAAAT
3855815 GACCACAACC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (20 bp):
CCCTAAACGACTAGAAATCA
Found at i:3858916 original size:2 final size:2
Alignment explanation
Indices: 3858909--3858975 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
3858899 CAATTGAGTT
3858909 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
3858951 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
3858976 TTCAGCATTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3863705 original size:19 final size:20
Alignment explanation
Indices: 3863681--3863731 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
3863671 AATGACCAAT
3863681 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
3863700 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
3863720 AAAATCGCAACG
1 AAAATCGCAACG
3863732 TAAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:3863725 original size:20 final size:20
Alignment explanation
Indices: 3863681--3863874 Score: 79
Period size: 20 Copynumber: 9.3 Consensus size: 20
3863671 AATGACCAAT
* *
3863681 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
3863700 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
3863720 AAAATCGCAACGTAAAAAAG
1 AAAATCGCAACGCGATTTAG
**
3863740 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
3863760 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
** *
3863781 AAGTTCGCAACGTGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* *
3863804 AAAATCGCAATGCGATTGATTTAT
1 AAAATCGCAA--CG--CGATTTAG
* * *
3863828 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
3863848 AGAGTCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
3863868 AAAATCG
1 AAAATCG
3863875 TTTGTTTCTT
Statistics
Matches: 129, Mismatches: 33, Indels: 25
0.69 0.18 0.13
Matches are distributed among these distances:
19 17 0.13
20 72 0.56
21 13 0.10
22 1 0.01
23 8 0.06
24 10 0.08
25 2 0.02
27 6 0.05
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:3863970 original size:10 final size:11
Alignment explanation
Indices: 3863939--3863972 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
3863929 GATACGTATT
3863939 ACCACGACCACG
1 ACCACGACC-CG
3863951 ACCACGACCCG
1 ACCACGACCCG
3863962 ACC-CGACCCG
1 ACCACGACCCG
3863972 A
1 A
3863973 GACGAGACGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.36
11 5 0.23
12 9 0.41
ACGTcount: A:0.29, C:0.53, G:0.18, T:0.00
Consensus pattern (11 bp):
ACCACGACCCG
Found at i:3864670 original size:6 final size:6
Alignment explanation
Indices: 3864649--3864692 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
3864639 CGCCGTCTCG
3864649 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
3864693 ATACGTGTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.26
6 28 0.74
ACGTcount: A:0.00, C:0.18, G:0.52, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:3864794 original size:20 final size:20
Alignment explanation
Indices: 3864769--3864812 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
3864759 TTTTTAACTA
*
3864769 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
*
3864789 TTCTTTTTAACGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
3864809 TTCT
1 TTCT
3864813 AAATCGCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (20 bp):
TTCTTTTGAACGTTGCGATT
Found at i:3864822 original size:20 final size:20
Alignment explanation
Indices: 3864801--3865116 Score: 197
Period size: 20 Copynumber: 15.5 Consensus size: 20
3864791 CTTTTTAACG
*
3864801 TTGCGATTTTCTAAATCGCG
1 TTGCGATTTTCTAAATCGCA
* *
3864821 TTGCGATTCTATAAATCGCA
1 TTGCGATTTTCTAAATCGCA
* * *
3864841 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTTTCTAAATCGCA
* * *
3864861 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTTTCTAAATCGCA
* * *
3864881 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTTTCTAAATCGCA
3864901 TTGCGATTTTCTTCTAAATCGCA
1 TTGCGA--TT-TTCTAAATCGCA
* *
3864924 TTGCGATTCTCTCAATCGCA
1 TTGCGATTTTCTAAATCGCA
* *
3864944 TTGCGATTCTATAAATCGCA
1 TTGCGATTTTCTAAATCGCA
* * *
3864964 TTGCGATTCTATCAATCGCA
1 TTGCGATTTTCTAAATCGCA
*
3864984 TTGCGATTTTCTTCTAAATCGCG
1 TTGCGA--TT-TTCTAAATCGCA
** ** *
3865007 TTGCGAACTTGAAAACTCGCG
1 TTGCGATTTTCTAAA-TCGCA
* * *
3865028 TTGCGATTTTCT--TTTGACCG
1 TTGCGATTTTCTAAATCG--CA
*** **
3865048 TTGCGATTTTCTTTTTAACA
1 TTGCGATTTTCTAAATCGCA
*
3865068 TTGCGATTTTCTAAATCGCG
1 TTGCGATTTTCTAAATCGCA
* * *
3865088 TTGCGATTTT-GATATCGCG
1 TTGCGATTTTCTAAATCGCA
3865107 TTGCGATTTT
1 TTGCGATTTT
3865117 ATTGGTCATT
Statistics
Matches: 246, Mismatches: 39, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
18 2 0.01
19 17 0.07
20 177 0.72
21 15 0.06
22 6 0.02
23 29 0.12
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (20 bp):
TTGCGATTTTCTAAATCGCA
Found at i:3864845 original size:40 final size:40
Alignment explanation
Indices: 3864801--3864991 Score: 265
Period size: 40 Copynumber: 4.7 Consensus size: 40
3864791 CTTTTTAACG
* * *
3864801 TTGCGATTTTCTAAATCGCGTTGCGATTCTATAAATCGCA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCA
* * * *
3864841 TTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCA
* *
3864881 TTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTAAATCGCA
1 TTGCGATTCTCTCAATCGCATTGCGA--TTC-TATAAATCGCA
3864924 TTGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCA
*
3864964 TTGCGATTCTATCAATCGCATTGCGATT
1 TTGCGATTCTCTCAATCGCATTGCGATT
3864992 TTCTTCTAAA
Statistics
Matches: 136, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
40 96 0.71
41 3 0.02
42 3 0.02
43 34 0.25
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (40 bp):
TTGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCA
Found at i:3864943 original size:83 final size:83
Alignment explanation
Indices: 3864832--3865012 Score: 299
Period size: 83 Copynumber: 2.2 Consensus size: 83
3864822 TGCGATTCTA
* * * * * *
3864832 TAAATCGCATTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGT
1 TAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATCAAT
3864897 CGCATTGCGATTTTCTTC
66 CGCATTGCGATTTTCTTC
3864915 TAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATCAAT
1 TAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATCAAT
3864980 CGCATTGCGATTTTCTTC
66 CGCATTGCGATTTTCTTC
*
3864998 TAAATCGCGTTGCGA
1 TAAATCGCATTGCGA
3865013 ACTTGAAAAC
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 91 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.36
Consensus pattern (83 bp):
TAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATCAAT
CGCATTGCGATTTTCTTC
Found at i:3865106 original size:19 final size:20
Alignment explanation
Indices: 3865068--3865116 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
3865058 CTTTTTAACA
*
3865068 TTGCGATTTTCTAAATCGCG
1 TTGCGATTTTCGAAATCGCG
*
3865088 TTGCGATTTT-GATATCGCG
1 TTGCGATTTTCGAAATCGCG
3865107 TTGCGATTTT
1 TTGCGATTTT
3865117 ATTGGTCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.16, C:0.16, G:0.22, T:0.45
Consensus pattern (20 bp):
TTGCGATTTTCGAAATCGCG
Found at i:3870337 original size:17 final size:18
Alignment explanation
Indices: 3870296--3870339 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
3870286 GCAAATATAA
*
3870296 AATATAATAAAAAATATT
1 AATATTATAAAAAATATT
*
3870314 ATTTATTATAAAAAA-ATT
1 A-ATATTATAAAAAATATT
3870332 AATATTAT
1 AATATTAT
3870340 TATTTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 6 0.27
18 5 0.23
19 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AATATTATAAAAAATATT
Found at i:3870339 original size:20 final size:19
Alignment explanation
Indices: 3870302--3870342 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
3870292 ATAAAATATA
3870302 ATAAAAAATATTATTTATT
1 ATAAAAAATATTATTTATT
3870321 ATAAAAAA-ATTAATATTATT
1 ATAAAAAATATT-AT-TTATT
3870341 AT
1 AT
3870343 TTTAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 3 0.15
19 10 0.50
20 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAAAAAATATTATTTATT
Found at i:3870582 original size:23 final size:22
Alignment explanation
Indices: 3870543--3870591 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
3870533 GTATTCACTA
* *
3870543 TTAAAAATTCAATAATATTATT
1 TTAAAAATTCAATAATAATACT
3870565 TTAAGAAATT-AATAAATAATACT
1 TTAA-AAATTCAAT-AATAATACT
3870588 TTAA
1 TTAA
3870592 TTAATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (22 bp):
TTAAAAATTCAATAATAATACT
Found at i:3870702 original size:11 final size:12
Alignment explanation
Indices: 3870669--3870721 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 12
3870659 TTATTGTAAT
3870669 AATACTATTATTA
1 AATA-TATTATTA
*
3870682 TATTATATTATTA
1 -AATATATTATTA
*
3870695 AA-ATATTAATA
1 AATATATTATTA
3870706 AATATATT-TTA
1 AATATATTATTA
3870717 AATAT
1 AATAT
3870722 GTTAATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
11 17 0.50
12 6 0.18
13 8 0.24
14 3 0.09
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (12 bp):
AATATATTATTA
Found at i:3870726 original size:23 final size:22
Alignment explanation
Indices: 3870685--3870739 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
3870675 ATTATTATAT
3870685 TATATTATTAAAATATTAATAAA
1 TATATT-TTAAAATATTAATAAA
* *
3870708 TATATTTTAAATATGTTAATAAT
1 TATATTTTAAA-ATATTAATAAA
3870731 TAATATTTT
1 T-ATATTTT
3870740 TATTAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 5 0.18
23 16 0.57
24 7 0.25
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TATATTTTAAAATATTAATAAA
Found at i:3873916 original size:158 final size:151
Alignment explanation
Indices: 3873604--3873988 Score: 469
Period size: 158 Copynumber: 2.5 Consensus size: 151
3873594 ATTCTCAACA
* * * *
3873604 TTGTCTTTTGTTTGTCCACCTTCAGAATCCAATTGCTTCTTCTCCTTCTTAGATTCATCCGACTC
1 TTGTC-TTTGTCTGTCCACCTTCAGAATCCAATTGCTTCTTATCCTTCTTAGACTCATCCGACTT
* * *
3873669 ACTTTCTTCAGTTTCTGGTATGTTGCCAGTACCACCATCTTTAACCCCACTGGCATCCTTGGGTA
65 ACTCTCTTCAGTTTCTGGTAAGTTGCCAGTACCACCATCTTTAACCCCACTAGCATCCTTGGGTA
*
3873734 AATTCTCACCACTGTTGTTGTTGTTGT
130 AATTCTCACCAC-----TTATTGTTGT
*
3873761 TTGTCACTTTGTCTGTCCACCTTCAGAATCCAATTGCTTCTTATCCTTCTTAGACTCATCTGACT
1 TTGT--CTTTGTCTGTCCACCTTCAGAATCCAATTGCTTCTTATCCTTCTTAGACTCATCCGACT
*
3873826 TACTCTCTTCAGTTTCTGGTGTGTTTAAGTTGCCAGTACCACCATCTTTAGCCCCACTAGCATCC
64 TACTCTCTTCAGTTTC---TG-G--TAAGTTGCCAGTACCACCATCTTTAACCCCACTAGCATCC
3873891 TTGGGTAAATTCTCACCAC-TATTGTTGT
123 TTGGGTAAATTCTCACCACTTATTGTTGT
* * * *
3873919 TTGTC-----C-GTCCAACTTCAGAATCCATTTGCTTCTTATTCTTCTCAGACTCATCCGACTTA
1 TTGTCTTTGTCTGTCCACCTTCAGAATCCAATTGCTTCTTATCCTTCTTAGACTCATCCGACTTA
3873978 CTCTCTTCAGT
66 CTCTCTTCAGT
3873989 ATTCCCCTTG
Statistics
Matches: 205, Mismatches: 15, Indels: 23
0.84 0.06 0.09
Matches are distributed among these distances:
150 59 0.29
151 1 0.00
156 1 0.00
157 4 0.02
158 80 0.39
159 1 0.00
161 2 0.01
162 1 0.00
164 56 0.27
ACGTcount: A:0.18, C:0.28, G:0.14, T:0.40
Consensus pattern (151 bp):
TTGTCTTTGTCTGTCCACCTTCAGAATCCAATTGCTTCTTATCCTTCTTAGACTCATCCGACTTA
CTCTCTTCAGTTTCTGGTAAGTTGCCAGTACCACCATCTTTAACCCCACTAGCATCCTTGGGTAA
ATTCTCACCACTTATTGTTGT
Found at i:3874798 original size:2 final size:2
Alignment explanation
Indices: 3874791--3874844 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
3874781 GGAACATCGA
3874791 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
3874833 AT AT AT AT AT AT
1 AT AT AT AT AT AT
3874845 TGTCGTGGGC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3875330 original size:31 final size:35
Alignment explanation
Indices: 3875293--3875371 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 35
3875283 TGTTTTTAGT
* *
3875293 TAATATTAATATAAT-AT-TTTTTATTTTGATA-A
1 TAATATTAATATAATGATATTTATATTTTAATATA
3875325 -AATATTAATAT-ATGATATTTATATTTTAATATA
1 TAATATTAATATAATGATATTTATATTTTAATATA
3875358 TAATATTTAATATA
1 TAATA-TTAATATA
3875372 GTACTTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
30 2 0.05
31 13 0.33
32 12 0.31
33 1 0.03
34 4 0.10
35 7 0.18
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (35 bp):
TAATATTAATATAATGATATTTATATTTTAATATA
Found at i:3876464 original size:6 final size:6
Alignment explanation
Indices: 3876447--3877379 Score: 1717
Period size: 6 Copynumber: 158.7 Consensus size: 6
3876437 ACCACCTCTC
3876447 ACAAAT AC-AAT ACAAAT ACAAAT ACAAAT ACAAAT -CAAAT ACAAAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
3876493 ACAAAT AC-AAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
3876540 ACAAAT ACAAAT ACAAAT ACAAAT ACAACAT ACAAAT ACAAAT ACAAAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAA-AT ACAAAT ACAAAT ACAAAT
3876589 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT AC-AAT ACAAAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
3876636 ACAAAT ACAAAT AC-AAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
3876683 ACAAAT ACAAAT ACAAAT ACAAA- ACAAAT ACAAAT AC-AAT ACAAAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
3876729 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
3876777 ACAAAT ACAAAT ACAAAT AC-AAT AC-AAT ACAAAT ACAAAT ACAAAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
3876823 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
3876871 ACAAAT ACAAAT ACAAAT ACAAAT AC-AA- ACAAAT ACAAAT ACAAAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
3876917 ACAAAT AC-AAT ACAAAT ACAAAT AC-AAT ACAAAT ACAAAT ACAAAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
3876963 ACAAAT AC-AAT ACAAAT ACAAAT ACAAAT ACAAAT AC-AA- ACAAAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
3877008 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
3877056 ACAAAT ACAAAT ACAAAT ACAAAT AC-AAT ACAAAT ACAAAT ACAAAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
3877103 ACAAAT ACAAAT ACAAAT AC-AAT ACAAAT ACAAAT ACAAAT ACAAAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
3877150 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
3877198 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
3877246 ACAAAT ACAAAT AC-AAT ACAAAT ACAAAT ACAAAT ACAAAT AC-AAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
3877292 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT
3877340 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAA
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAA
3877380 TACTCATATA
Statistics
Matches: 907, Mismatches: 0, Indels: 40
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.00
5 88 0.10
6 809 0.89
7 6 0.01
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
ACAAAT
Found at i:3879132 original size:19 final size:19
Alignment explanation
Indices: 3879104--3879140 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3879094 ATGACCAACA
*
3879104 AAATCGCAACGCGATCTCT
1 AAATCACAACGCGATCTCT
3879123 AAATCACAACGCGATCTC
1 AAATCACAACGCGATCTC
3879141 CAGTATTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.32, G:0.14, T:0.19
Consensus pattern (19 bp):
AAATCACAACGCGATCTCT
Found at i:3879212 original size:20 final size:20
Alignment explanation
Indices: 3879187--3879234 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
3879177 TAATACAAAA
3879187 ATCGCAACGCAATTCTGATT
1 ATCGCAACGCAATTCTGATT
** *
3879207 ATCGCAACGTGATTCTGTTT
1 ATCGCAACGCAATTCTGATT
3879227 ATCGCAAC
1 ATCGCAAC
3879235 ACTGAATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (20 bp):
ATCGCAACGCAATTCTGATT
Found at i:3880083 original size:24 final size:24
Alignment explanation
Indices: 3880056--3880109 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
3880046 GTATTCGAAA
3880056 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
3880080 TTTGATCTTGGTCAATGCTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
3880104 TTTGAT
1 TTTGAT
3880110 GATGTTTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:3880328 original size:14 final size:14
Alignment explanation
Indices: 3880299--3880335 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3880289 AGAAAAAGAA
3880299 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
3880314 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
3880328 GAAGAAAA
1 GAAGAAAA
3880336 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:3882592 original size:20 final size:20
Alignment explanation
Indices: 3882567--3882663 Score: 131
Period size: 20 Copynumber: 4.8 Consensus size: 20
3882557 TTACACATTT
* *
3882567 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGTGA
*
3882587 ATTTGACTATCACAACGTGA
1 ATTTGACTATCGCAACGTGA
*
3882607 ATTTGACTATCGTAACGTGA
1 ATTTGACTATCGCAACGTGA
* *
3882627 ATTTGATTATCGCAACGGGA
1 ATTTGACTATCGCAACGTGA
*
3882647 ATTTGACTATCGTAACG
1 ATTTGACTATCGCAACG
3882664 AGAAAATCGC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Consensus pattern (20 bp):
ATTTGACTATCGCAACGTGA
Found at i:3882737 original size:20 final size:20
Alignment explanation
Indices: 3882702--3882779 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
3882692 GCAACGTGAA
*
3882702 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCATTGCGATT
* *
3882722 TTGGCTTTCTCATTGCGATT
1 TTGACTTTCGCATTGCGATT
3882742 TTGACTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
* * *
3882762 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCATTGCGA
3882780 AAGTGTATCT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.13, C:0.18, G:0.24, T:0.45
Consensus pattern (20 bp):
TTGACTTTCGCATTGCGATT
Found at i:3882917 original size:14 final size:14
Alignment explanation
Indices: 3882898--3882934 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
3882888 CATCAATTAA
3882898 ACAAATCAACTTTT
1 ACAAATCAACTTTT
3882912 ACAAATCAACTTTT
1 ACAAATCAACTTTT
3882926 ACAAATCAA
1 ACAAATCAA
3882935 TTAAACAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:3884357 original size:21 final size:21
Alignment explanation
Indices: 3884333--3884372 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3884323 GTGGGAGGGA
3884333 CCTCTTCAACGATGACAGGAG
1 CCTCTTCAACGATGACAGGAG
*
3884354 CCTCTTGAACGATGACAGG
1 CCTCTTCAACGATGACAGG
3884373 TGAGTCGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.20
Consensus pattern (21 bp):
CCTCTTCAACGATGACAGGAG
Found at i:3884873 original size:20 final size:20
Alignment explanation
Indices: 3884848--3884891 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
3884838 AATAGTTTCT
3884848 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
*
3884868 GAAACTTAAAATTGCAACAC
1 GAAACTTAAAATCGCAACAC
3884888 GAAA
1 GAAA
3884892 ATGACTATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.52, C:0.20, G:0.11, T:0.16
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:3884999 original size:20 final size:20
Alignment explanation
Indices: 3884970--3885007 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3884960 CGAAACTAAA
* *
3884970 TTCGTGTTGCGATTTTCATT
1 TTCGTATTGCAATTTTCATT
3884990 TTCGTATTGCAATTTTCA
1 TTCGTATTGCAATTTTCA
3885008 CGTTGCGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.53
Consensus pattern (20 bp):
TTCGTATTGCAATTTTCATT
Found at i:3885018 original size:34 final size:34
Alignment explanation
Indices: 3884975--3885050 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
3884965 CTAAATTCGT
* *
3884975 GTTGCGATTTTCAT-TTTCGTATTGCAATTTTCAC
1 GTTGCGATTTT-ATATTTCGCATTGCAATTATCAC
* * *
3885009 GTTGCGATTTTTTATTTCGCATTGCGATTATCCC
1 GTTGCGATTTTATATTTCGCATTGCAATTATCAC
3885043 GTTGCGAT
1 GTTGCGAT
3885051 AGTTAAATTC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
33 1 0.03
34 35 0.97
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.47
Consensus pattern (34 bp):
GTTGCGATTTTATATTTCGCATTGCAATTATCAC
Found at i:3885083 original size:20 final size:20
Alignment explanation
Indices: 3885058--3885130 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
3885048 GATAGTTAAA
*
3885058 TTCGCGTTACGATGGTCATT
1 TTCGCGTTACGATAGTCATT
* *
3885078 TCCGCGTTGCGATAGTCATT
1 TTCGCGTTACGATAGTCATT
* *
3885098 TTTGCGTTGCGATAGTCATT
1 TTCGCGTTACGATAGTCATT
*
3885118 TTTGCGTTACGAT
1 TTCGCGTTACGAT
3885131 TTTAAGTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.41
Consensus pattern (20 bp):
TTCGCGTTACGATAGTCATT
Found at i:3885125 original size:40 final size:40
Alignment explanation
Indices: 3885042--3885118 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
3885032 GCGATTATCC
* *
3885042 CGTTGCGATAGTTAAATTCGCGTTACGATGGTCATTTCCG
1 CGTTGCGATAGTCAAATTCGCGTTACGATAGTCATTTCCG
** * *
3885082 CGTTGCGATAGTCATTTTTGCGTTGCGATAGTCATTT
1 CGTTGCGATAGTCAAATTCGCGTTACGATAGTCATTT
3885119 TTGCGTTACG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (40 bp):
CGTTGCGATAGTCAAATTCGCGTTACGATAGTCATTTCCG
Found at i:3887069 original size:20 final size:20
Alignment explanation
Indices: 3887046--3887132 Score: 86
Period size: 20 Copynumber: 4.4 Consensus size: 20
3887036 TCTGAAACTT
*
3887046 AAAATCGCAACTCGAAAATG
1 AAAATCGCAACGCGAAAATG
*
3887066 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
** **
3887086 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACGCGAAAATG
** *
3887106 ACTATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAAATG
3887125 AAAATCGC
1 AAAATCGC
3887133 GTTGCGATTT
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
19 6 0.11
20 51 0.89
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:3887577 original size:22 final size:22
Alignment explanation
Indices: 3887522--3887579 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
3887512 GATGGAGATA
*
3887522 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
3887544 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
*
3887566 GACGGATGTCGTCG
1 GACGGATTTCGTCG
3887580 TAGAGAGTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.17, C:0.17, G:0.45, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:3887850 original size:20 final size:20
Alignment explanation
Indices: 3887715--3887851 Score: 55
Period size: 20 Copynumber: 6.8 Consensus size: 20
3887705 TGGCGCTTTG
*
3887715 AAAATCGCATTGCGATAGTC
1 AAAATCGCGTTGCGATAGTC
* * *
3887735 AGAATTGCGTTGCGATA-AC
1 AAAATCGCGTTGCGATAGTC
* * *
3887754 TAGAATCACGTTGCGATTTTGT-
1 -AAAATCGCGTTGCGA--TAGTC
** *
3887776 ATTATCGCGTTGCGAT-TTAC
1 AAAATCGCGTTGCGATAGT-C
* * * **
3887796 ATATTCGCATTGCGATTTTC
1 AAAATCGCGTTGCGATAGTC
**
3887816 TAAAATCGCAATGCGATAGTC
1 -AAAATCGCGTTGCGATAGTC
3887837 AAAATCGCGTTGCGA
1 AAAATCGCGTTGCGA
3887852 ATCTGGAAAC
Statistics
Matches: 87, Mismatches: 22, Indels: 16
0.70 0.18 0.13
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 54 0.62
21 29 0.33
22 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.32
Consensus pattern (20 bp):
AAAATCGCGTTGCGATAGTC
Found at i:3889297 original size:15 final size:16
Alignment explanation
Indices: 3889277--3889316 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
3889267 TATAAGGTAA
3889277 TTTTATTATAAT-ATT
1 TTTTATTATAATCATT
*
3889292 TTTTATTATACTCATT
1 TTTTATTATAATCATT
*
3889308 GTTTATTAT
1 TTTTATTAT
3889317 GATTATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTTATTATAATCATT
Found at i:3889314 original size:16 final size:15
Alignment explanation
Indices: 3889278--3889316 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
3889268 ATAAGGTAAT
*
3889278 TTTATTATAATATTT
1 TTTATTATAATATTG
*
3889293 TTTATTATACTCATTG
1 TTTATTATAAT-ATTG
3889309 TTTATTAT
1 TTTATTAT
3889317 GATTATTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTATTATAATATTG
Found at i:3891256 original size:34 final size:35
Alignment explanation
Indices: 3891180--3891256 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 35
3891170 AATGGTAATA
* *
3891180 AACAAAATTAACCAAAATACATTAACAAAAAGTCC
1 AACAAATTTAACCAAAATAAATTAACAAAAAGTCC
*
3891215 AAAAAATTTAA-CAAAATAAATTAA-AATAAA-TCC
1 AACAAATTTAACCAAAATAAATTAACAA-AAAGTCC
3891248 AACCAAATT
1 AA-CAAATT
3891257 AATGAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
33 7 0.19
34 20 0.56
35 9 0.25
ACGTcount: A:0.62, C:0.16, G:0.01, T:0.21
Consensus pattern (35 bp):
AACAAATTTAACCAAAATAAATTAACAAAAAGTCC
Found at i:3893558 original size:16 final size:16
Alignment explanation
Indices: 3893525--3893575 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
3893515 TTATATCTGC
*
3893525 AATAAAA-ATTAATTA
1 AATAAAATATTAAATA
*
3893540 AATAAAATATTAAAAA
1 AATAAAATATTAAATA
*
3893556 AATTAAATACTTAAATA
1 AATAAAATA-TTAAATA
3893573 AAT
1 AAT
3893576 TACAAACAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 7 0.23
16 14 0.47
17 9 0.30
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAAAATATTAAATA
Found at i:3893569 original size:17 final size:16
Alignment explanation
Indices: 3893539--3893577 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
3893529 AAAATTAATT
*
3893539 AAATAAAATATTAAAA
1 AAATTAAATATTAAAA
*
3893555 AAATTAAATACTTAAAT
1 AAATTAAATA-TTAAAA
3893572 AAATTA
1 AAATTA
3893578 CAAACAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATTAAATATTAAAA
Found at i:3895179 original size:108 final size:107
Alignment explanation
Indices: 3895027--3895407 Score: 264
Period size: 108 Copynumber: 3.4 Consensus size: 107
3895017 CTTTTTAAAA
* * *
3895027 CTGATACG-GCCTTAGAAATCTGACGATAATAAAATAGGTCAATTACTTTATTTGTTATCAGTAT
1 CTGATA-GAGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTTATTTGTTATCAGTAT
3895091 TATAAACATATTAGGTAACGCCTAAAATGTTACCAAAATTTAAG
65 TAT-AACATATTAGGTAACGCCTAAAATGTTACCAAAATTTAAG
* * * ** * **** *
3895135 CTGATGGAGCCTTAGAAATCCGACAATAACATAACCGGTTAATTACTGTAAACATTATCAAGCAT
1 CTGATAGAGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTTATTTGTTATC-AGTAT
* * * *****
3895200 AATAACATATTAGGTAGCGCTTATGTAACGTAATAAG-TAGCGTCTTTTTAAAG
65 TATAACATATTAGGTAACGC----CTAA---AAT--GTTA-CCAAAATTT-AAG
* * * * * * * *
3895253 TTGA-CGAGGCATTAGAAATCTGACTATAACAAAATAAGTTAATTACTTAATTTGTTATTAGTAT
1 CTGATAGA-GCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTTATTTGTTATCAGTAT
* * * *
3895317 TATCAACATATTAGGTAACACCTAAAATGTTACTAAAGTTAAAG
65 TAT-AACATATTAGGTAACGCCTAAAATGTTACCAAAATTTAAG
* * *
3895361 CTGATAGAGTCTTAGAAATCCGACGATAACATAATCGGTTAATTACT
1 CTGATAGAGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACT
3895408 AGAAACATTA
Statistics
Matches: 198, Mismatches: 58, Indels: 34
0.68 0.20 0.12
Matches are distributed among these distances:
107 1 0.01
108 98 0.49
109 12 0.06
110 2 0.01
111 3 0.02
112 3 0.02
114 3 0.02
115 3 0.02
116 2 0.01
117 13 0.07
118 58 0.29
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (107 bp):
CTGATAGAGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTTATTTGTTATCAGTATT
ATAACATATTAGGTAACGCCTAAAATGTTACCAAAATTTAAG
Found at i:3895329 original size:226 final size:226
Alignment explanation
Indices: 3894935--3895482 Score: 823
Period size: 226 Copynumber: 2.4 Consensus size: 226
3894925 ATATTGACTT
* *
3894935 TAACATAACCGGTTAATTACTGTAAATATTATCAAGCATAATAACATATTAGGTAGCACTTATGT
1 TAACATAACCGGTTAATTACTGTAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATGT
* ** * * * *
3895000 AACGTAA-CAGATAGCGCCTTTTTAAAACTGATACGGCCTTAGAAATCTGACGATAATAAAATAG
66 AACGTAATAAG-TAGCGCCTTTTTAAAGTTGAGACGGCATTAGAAATCTGACGATAACAAAATAA
* *
3895064 GTCAATTACTTTATTTGTTATCAGTATTATAAACATATTAGGTAACGCCTAAAATGTTACCAAAA
130 GTCAATTACTTAATTTGTTATCAGTATTATAAACATATTAGGTAACACCTAAAATGTTACCAAAA
* *
3895129 TTTAAGCTGATGGAGCCTTAGAAATCCGACAA
195 TTAAAGCTGATAGAGCCTTAGAAATCCGACAA
3895161 TAACATAACCGGTTAATTACTGTAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATGT
1 TAACATAACCGGTTAATTACTGTAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATGT
* *
3895226 AACGTAATAAGTAGCGTCTTTTTAAAGTTGACGA-GGCATTAGAAATCTGACTATAACAAAATAA
66 AACGTAATAAGTAGCGCCTTTTTAAAGTTGA-GACGGCATTAGAAATCTGACGATAACAAAATAA
* * * * *
3895290 GTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACACCTAAAATGTTACTAAAG
130 GTCAATTACTTAATTTGTTATCAGTATTATAAACATATTAGGTAACACCTAAAATGTTACCAAAA
* *
3895355 TTAAAGCTGATAGAGTCTTAGAAATCCGACGA
195 TTAAAGCTGATAGAGCCTTAGAAATCCGACAA
*
3895387 TAACATAATCGGTTAATTACTAG-AAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATG
1 TAACATAACCGGTTAATTACT-GTAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATG
* *
3895451 TAACGTAATAGGTAGCACCTTTTTAAAGTTGA
65 TAACGTAATAAGTAGCGCCTTTTTAAAGTTGA
3895483 TGGTGTAACA
Statistics
Matches: 293, Mismatches: 26, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
226 289 0.99
227 4 0.01
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (226 bp):
TAACATAACCGGTTAATTACTGTAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATGT
AACGTAATAAGTAGCGCCTTTTTAAAGTTGAGACGGCATTAGAAATCTGACGATAACAAAATAAG
TCAATTACTTAATTTGTTATCAGTATTATAAACATATTAGGTAACACCTAAAATGTTACCAAAAT
TAAAGCTGATAGAGCCTTAGAAATCCGACAA
Found at i:3901787 original size:2 final size:2
Alignment explanation
Indices: 3901780--3901815 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3901770 TAAGTATGGA
3901780 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
3901816 GTATCGATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3902688 original size:205 final size:208
Alignment explanation
Indices: 3902298--3902715 Score: 736
Period size: 205 Copynumber: 2.0 Consensus size: 208
3902288 ATCAGTTTTG
* * * *
3902298 TAGTTGGGATTATCCAGGTTAATCATGTTGATTGCATAGCCAATAAAACCCCTTGCAGGGTCTAA
1 TAGTTGAGATTATCCAGATTAACCATGTTGATTGCATAGCCAATAAAACCCCTTGCAGGGTCCAA
* *
3902363 ATGGTAAGCTAGGAATTGGTAAGACAAGCTTTCTTTGAGGGTTTAGGGACTCAACTCTTCCCAGG
66 ATGGTAAGCTAGGAATTGGTAAGACAAGCTTTCTTTGAGGGTTTAGGGACTCAACCCCTCCCAGG
3902428 TAAGGACTACATGATTGAACATTACATAGAATAGTTGTATTCAATTCTTGAAGAATTGTTCTTCA
131 TAAGGACTACATGATTGAACATTACATAGAATAGTTGTATTCAATTCTTGAAGAATTGTTCTTCA
3902493 TTGTATATAAGAA
196 TTGTATATAAGAA
3902506 TAGTTGAGATTATCCAGATTAACCATGTTGATTGCATAGCCAATAAAACCCCTTGCAGGGTCCAA
1 TAGTTGAGATTATCCAGATTAACCATGTTGATTGCATAGCCAATAAAACCCCTTGCAGGGTCCAA
3902571 ATGGTAAGCTAGGAATTGGTAAGACAAG-TTT-TTT-AGGGTTTAGGGACTCAACCCCTCCCAGG
66 ATGGTAAGCTAGGAATTGGTAAGACAAGCTTTCTTTGAGGGTTTAGGGACTCAACCCCTCCCAGG
*
3902633 TAAGGACTGA-ATGATTGAACATTACATAGAATAGTTGTATTCAATTCTTGAAGAATTGTTCTTT
131 TAAGGACT-ACATGATTGAACATTACATAGAATAGTTGTATTCAATTCTTGAAGAATTGTTCTTC
3902697 ATTGTATATAAGAA
195 ATTGTATATAAGAA
3902711 TAGTT
1 TAGTT
3902716 TTAATGATCT
Statistics
Matches: 202, Mismatches: 7, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
205 106 0.52
206 4 0.02
207 3 0.01
208 89 0.44
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (208 bp):
TAGTTGAGATTATCCAGATTAACCATGTTGATTGCATAGCCAATAAAACCCCTTGCAGGGTCCAA
ATGGTAAGCTAGGAATTGGTAAGACAAGCTTTCTTTGAGGGTTTAGGGACTCAACCCCTCCCAGG
TAAGGACTACATGATTGAACATTACATAGAATAGTTGTATTCAATTCTTGAAGAATTGTTCTTCA
TTGTATATAAGAA
Found at i:3904385 original size:21 final size:21
Alignment explanation
Indices: 3904335--3904385 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
3904325 ATATGTTCAC
* *
3904335 TAATTTTTCAAATTGGCTATT
1 TAATTTTTTAAATTGACTATT
* *
3904356 TAATATTTTAAATTGACTTTT
1 TAATTTTTTAAATTGACTATT
*
3904377 TTATTTTTT
1 TAATTTTTT
3904386 GAATAGACCA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (21 bp):
TAATTTTTTAAATTGACTATT
Found at i:3905075 original size:34 final size:32
Alignment explanation
Indices: 3905013--3905082 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
3905003 ACCTTACAAC
* *
3905013 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
*
3905045 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
3905079 TCCC
1 TCCC
3905083 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:3905458 original size:20 final size:20
Alignment explanation
Indices: 3905433--3905529 Score: 126
Period size: 20 Copynumber: 4.8 Consensus size: 20
3905423 CTTCGTGCAT
3905433 GGATGCATCGATGCACA-ACA
1 GGATGCATCGATGCACAGA-A
*
3905453 GGATGCATCGATGCACA-ACCT
1 GGATGCATCGATGCACAGA--A
* *
3905474 TGAAGCATCGATGCACAGAA
1 GGATGCATCGATGCACAGAA
3905494 GGATGCATCGATGCACAGAA
1 GGATGCATCGATGCACAGAA
3905514 GGATGCATCGATGCAC
1 GGATGCATCGATGCAC
3905530 TAAGTGCATT
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
20 52 0.75
21 16 0.23
22 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.27, T:0.16
Consensus pattern (20 bp):
GGATGCATCGATGCACAGAA
Found at i:3905597 original size:22 final size:23
Alignment explanation
Indices: 3905564--3905607 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
3905554 ATGGATGCAC
3905564 TGCATGGTGCATCCATGCACTAG
1 TGCATGGTGCATCCATGCACTAG
**
3905587 TGCA-GGTGCATGGATGCACTA
1 TGCATGGTGCATCCATGCACTA
3905608 CAGGGGTGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (23 bp):
TGCATGGTGCATCCATGCACTAG
Found at i:3907075 original size:87 final size:89
Alignment explanation
Indices: 3906976--3907152 Score: 304
Period size: 87 Copynumber: 2.0 Consensus size: 89
3906966 CTCTAAATCC
3906976 TTTTTCAAAATTTCATTTTGGCTTTCAAAATCTATTTTT-TGTTCAAAAGAAAATCG-TTTTCGA
1 TTTTTCAAAATTTCATTTTGGCTTTCAAAATCTATTTTTGTGTTCAAAAGAAAATCGTTTTTCGA
3907039 TTTTAAATTTTGAAATCATTTTCT
66 TTTTAAATTTTGAAATCATTTTCT
* * * *
3907063 TTTTTCAAAATTTCATTTTGGCTTTCAAAATCTATTTTTGTTTTCAAAAGAAAATTGTTTTTTGC
1 TTTTTCAAAATTTCATTTTGGCTTTCAAAATCTATTTTTGTGTTCAAAAGAAAATCGTTTTTCGA
3907128 TTTTAAATTTTGAAATCATTTTCT
66 TTTTAAATTTTGAAATCATTTTCT
3907152 T
1 T
3907153 ATATTTGGAG
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
87 39 0.46
88 15 0.18
89 30 0.36
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.53
Consensus pattern (89 bp):
TTTTTCAAAATTTCATTTTGGCTTTCAAAATCTATTTTTGTGTTCAAAAGAAAATCGTTTTTCGA
TTTTAAATTTTGAAATCATTTTCT
Found at i:3907107 original size:19 final size:19
Alignment explanation
Indices: 3907051--3907111 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
3907041 TTAAATTTTG
*
3907051 AAATC-ATTTTCTTTTTTCA
1 AAATCTATTTT-TGTTTTCA
* * *
3907070 AAATTTCATTTTGGCTTTCA
1 AAATCT-ATTTTTGTTTTCA
3907090 AAATCTATTTTTGTTTTCA
1 AAATCTATTTTTGTTTTCA
3907109 AAA
1 AAA
3907112 GAAAATTGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
19 18 0.55
20 10 0.30
21 5 0.15
ACGTcount: A:0.30, C:0.13, G:0.05, T:0.52
Consensus pattern (19 bp):
AAATCTATTTTTGTTTTCA
Found at i:3908287 original size:21 final size:21
Alignment explanation
Indices: 3908253--3908292 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3908243 TGTTGTATAT
*
3908253 AGCCGTTGGTGATG-TTTTGG
1 AGCCGTTGGGGATGATTTTGG
3908273 AGCCGTTTGGGGATGATTTT
1 AGCCG-TTGGGGATGATTTT
3908293 TCTACTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.12, C:0.10, G:0.38, T:0.40
Consensus pattern (21 bp):
AGCCGTTGGGGATGATTTTGG
Found at i:3908434 original size:20 final size:20
Alignment explanation
Indices: 3908405--3908477 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
3908395 GCAGCCTTCG
*
3908405 TGCATGGATGCACAGTAAGA
1 TGCATCGATGCACAGTAAGA
* *
3908425 TGCATTGATGCACAGTAGGA
1 TGCATCGATGCACAGTAAGA
3908445 TGCATCGATGCACAG-AATGA
1 TGCATCGATGCACAGTAA-GA
3908465 TGCATCGATGCAC
1 TGCATCGATGCAC
3908478 TCAGTGCATT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 1 0.02
20 47 0.98
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (20 bp):
TGCATCGATGCACAGTAAGA
Found at i:3908517 original size:13 final size:13
Alignment explanation
Indices: 3908499--3908568 Score: 54
Period size: 13 Copynumber: 5.2 Consensus size: 13
3908489 GGTGTTTGAG
3908499 TGCATGGATGCAC
1 TGCATGGATGCAC
3908512 TGCATGG-TGCATC
1 TGCATGGATGCA-C
* *
3908525 GATGCACTAG-TGCAGG
1 --TGCA-TGGATGCA-C
*
3908541 TGCATGGATACAC
1 TGCATGGATGCAC
3908554 TGCATGGATGCAC
1 TGCATGGATGCAC
3908567 TG
1 TG
3908569 TAGGGGTGCA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
12 4 0.09
13 24 0.53
14 7 0.16
15 4 0.09
16 6 0.13
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (13 bp):
TGCATGGATGCAC
Found at i:3908523 original size:20 final size:20
Alignment explanation
Indices: 3908498--3908565 Score: 75
Period size: 20 Copynumber: 3.2 Consensus size: 20
3908488 CGGTGTTTGA
3908498 GTGCATGGATGCACTGCATG
1 GTGCATGGATGCACTGCATG
*
3908518 GTGCATCGATGCACTAGTGCA-G
1 GTGCATGGATGCAC---TGCATG
*
3908540 GTGCATGGATACACTGCATG
1 GTGCATGGATGCACTGCATG
3908560 GATGCA
1 G-TGCA
3908566 CTGTAGGGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
19 4 0.10
20 15 0.38
21 4 0.10
22 13 0.32
23 4 0.10
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (20 bp):
GTGCATGGATGCACTGCATG
Found at i:3908545 original size:22 final size:23
Alignment explanation
Indices: 3908512--3908554 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
3908502 ATGGATGCAC
*
3908512 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATACACTAG
*
3908535 TGCA-GGTGCATGGATACACT
1 TGCATGGTGCATCGATACACT
3908555 GCATGGATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATCGATACACTAG
Found at i:3909473 original size:2 final size:2
Alignment explanation
Indices: 3909461--3909555 Score: 181
Period size: 2 Copynumber: 47.5 Consensus size: 2
3909451 TGATGATCGT
*
3909461 TA TA GA 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
3909503 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
3909545 TA TA TA TA TA T
1 TA TA TA TA TA T
3909556 TCATAGTCAT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 91 1.00
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3911315 original size:2 final size:2
Alignment explanation
Indices: 3911310--3911334 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3911300 AATATATTGC
3911310 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3911335 GGGGTGTGGT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3911470 original size:56 final size:56
Alignment explanation
Indices: 3911382--3911580 Score: 292
Period size: 56 Copynumber: 3.6 Consensus size: 56
3911372 CAGGGTCCCA
* * *
3911382 AAAAATAGGGGCCCCGAAATCGAGTATATCTATCAGTTATTCCCATTAATAAGCAT
1 AAAAATAGGGGCCCCGAAATCGAGTATATCTATCAGTTGTTACCATTAAGAAGCAT
* * *
3911438 AGAAATAGGAGCCCCGAAATCGAGTATATCTATAAGTTGTTACCATTAAGAAGCAT
1 AAAAATAGGGGCCCCGAAATCGAGTATATCTATCAGTTGTTACCATTAAGAAGCAT
* * *
3911494 AAAAATAGGGGCTCCGAAATCGAGTATATTTATCAGTTGTTGCCATTAAGAAGCAT
1 AAAAATAGGGGCCCCGAAATCGAGTATATCTATCAGTTGTTACCATTAAGAAGCAT
* *
3911550 AAAAATATGGGCCCCGAAAT-GAATATATCTA
1 AAAAATAGGGGCCCCGAAATCGAGTATATCTA
3911581 GAAAATAGAA
Statistics
Matches: 127, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
55 9 0.07
56 118 0.93
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.26
Consensus pattern (56 bp):
AAAAATAGGGGCCCCGAAATCGAGTATATCTATCAGTTGTTACCATTAAGAAGCAT
Found at i:3924857 original size:19 final size:19
Alignment explanation
Indices: 3924824--3924868 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
3924814 TAGTTCTCCA
*
3924824 GGAGCACACGACGACTTAT
1 GGAGCACACGACGACCTAT
3924843 GGAGCACAC-AGCGACCTAT
1 GGAGCACACGA-CGACCTAT
*
3924862 GTAGCAC
1 GGAGCAC
3924869 TTGGCGACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 1 0.04
19 22 0.96
ACGTcount: A:0.31, C:0.29, G:0.27, T:0.13
Consensus pattern (19 bp):
GGAGCACACGACGACCTAT
Found at i:3925136 original size:12 final size:12
Alignment explanation
Indices: 3925109--3925168 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 12
3925099 AAATTAATCA
*
3925109 TTAATTA-AAAT
1 TTAATTATAATT
*
3925120 TTAATTATACTT
1 TTAATTATAATT
3925132 TTAA-TATAATT
1 TTAATTATAATT
*
3925143 TTAATTCTAATT
1 TTAATTATAATT
* *
3925155 CTAATTTTAATT
1 TTAATTATAATT
3925167 TT
1 TT
3925169 TTTATTAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
11 17 0.43
12 23 0.57
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (12 bp):
TTAATTATAATT
Found at i:3925159 original size:23 final size:24
Alignment explanation
Indices: 3925110--3925168 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 24
3925100 AATTAATCAT
* * *
3925110 TAATTA-AAATTTAATTATACTTT
1 TAATTATAATTTTAATTATAATTC
*
3925133 TAA-TATAATTTTAATTCTAATTC
1 TAATTATAATTTTAATTATAATTC
*
3925156 TAATTTTAATTTT
1 TAATTATAATTTT
3925169 TTTATTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 2 0.07
23 19 0.66
24 8 0.28
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (24 bp):
TAATTATAATTTTAATTATAATTC
Found at i:3926347 original size:26 final size:24
Alignment explanation
Indices: 3926318--3926373 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 24
3926308 TTATTTATAT
3926318 TTAATTTCAAGTTTAAAT-TAAAAATA
1 TTAATTTCAA--TTAAATATAAAAA-A
*
3926344 TTAATATCAATTAAATATAAAAAA
1 TTAATTTCAATTAAATATAAAAAA
3926368 TTAATT
1 TTAATT
3926374 CACTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 12 0.44
25 6 0.22
26 9 0.33
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (24 bp):
TTAATTTCAATTAAATATAAAAAA
Found at i:3926365 original size:24 final size:23
Alignment explanation
Indices: 3926330--3926380 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
3926320 AATTTCAAGT
*
3926330 TTAAATTAAAAATATTAATATCAA
1 TTAAATTAAAAAAATTAAT-TCAA
*
3926354 TTAAA-TATAAAAAATTAATTCAC
1 TTAAATTA-AAAAAATTAATTCAA
3926377 TTAA
1 TTAA
3926381 TAACTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (23 bp):
TTAAATTAAAAAAATTAATTCAA
Found at i:3930536 original size:3 final size:3
Alignment explanation
Indices: 3930520--3930607 Score: 86
Period size: 3 Copynumber: 28.7 Consensus size: 3
3930510 TTTGGACTTG
* * * *
3930520 TAA TAA TATT TAA TAA TAA TAT TAA TAA TAAA TAA TAA TAT TAG TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* * * *
3930567 TTA TAA TTA TAA TAA TAA TTA TTA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3930608 TAAATATAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
3 65 0.93
4 5 0.07
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:3930965 original size:113 final size:112
Alignment explanation
Indices: 3930756--3931396 Score: 665
Period size: 113 Copynumber: 5.7 Consensus size: 112
3930746 GTTGAATAAA
* * * ** * *
3930756 TTCTTC-TCTTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATAATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCT-CTGGAAATGCTGATCCATC
* * *
3930820 AAGTGATAAATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
65 AA-TGATGAATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAAC
* * * * *
3930869 TTCTTCATCCTTCTTTAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGCGGATCTATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGCTGATCCATCA
*
3930934 AGTGATGGATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAA-
66 A-TGATGAATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAAC
* * * *
3930981 -T-TTCTT-CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTAATCC
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TCCTCTGGAAATGCTGATCC
* *
3931042 ATCATATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
62 ATCA-ATGATGAATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAAC
* * * *
3931094 TTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCTATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGCTGATCCATC-
* * *
3931159 AATGATGGATTTGAGC-AAAAGATTGAACAAATTCTTCTCATTATGAAT
65 AATGATGAATTTAAGCAAAAAG-TTGAACAAATTCTTCTCATTATGAAC
* * * *
3931207 TTCTTCTTCTTTCTTCAGATGAGTTATTCTCATTATGAAC-TCGAC-CTGGCAATGTTGATCCAT
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTC--CTCTGGAAATGCTGATCCAT
* * * *
3931270 CGAATGATGAATTCAAGCGAAAAGTTAAACAAGTTCTTCTCATTATGAAC
64 C-AATGATGAATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAAC
* * * * * *
3931320 TTCTTCTTCTTTCTTCATATAAGTTCTTCTTATTATGAAC-TCGAC-CTGGCAATGTTGATCCAT
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTC--CTCTGGAAATGCTGATCCAT
*
3931383 CGAATGATGGATTT
64 C-AATGATGAATTT
3931397 GAATCTTTGC
Statistics
Matches: 453, Mismatches: 59, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
109 10 0.02
110 4 0.01
111 1 0.00
112 84 0.19
113 296 0.65
114 42 0.09
115 5 0.01
116 11 0.02
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (112 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGCTGATCCATCA
ATGATGAATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAAC
Found at i:3931360 original size:226 final size:225
Alignment explanation
Indices: 3930756--3931360 Score: 837
Period size: 225 Copynumber: 2.7 Consensus size: 225
3930746 GTTGAATAAA
* ** *
3930756 TTCTTC-TCTTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTG--CTGGGGATGATAATCCA
1 TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAAC--TC-GACCTGGCAATGTTAATCCA
* * *
3930818 TCAAGTGATAAATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCT
63 TCAA-TGATGAATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCT
* *
3930883 TTAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGCGGATCTATCAAGTGATGGATTTAA
127 TCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGCGGATCTATCAAATGATGGATTTAA
3930948 GCAAAAAGTTGAACAAATTCTTCTCATTATGAAT
192 GCAAAAAGTTGAACAAATTCTTCTCATTATGAAT
** * *
3930982 TTCTTCTTC-TTC-AGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATC
1 TTCTTCTTCTTTCTTCA-GATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGTTAATCCATC
* *
3931045 ATATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTC
65 A-ATGATGAATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
* * *
3931110 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCTATCAAATGATGGATTTGAGC
129 AGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGCGGATCTATCAAATGATGGATTTAAGC
3931175 -AAAAGATTGAACAAATTCTTCTCATTATGAAT
194 AAAAAG-TTGAACAAATTCTTCTCATTATGAAT
* *
3931207 TTCTTCTTCTTTCTTCAGATGAGTTATTCTCATTATGAACTCGACCTGGCAATGTTGATCCATCG
1 TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGTTAATCCATC-
* * * *
3931272 AATGATGAATTCAAGCGAAAA-GTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTC
65 AATGATGAATTTAAGC-AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
* * *
3931336 ATATAAGTTCTTCTTATTATGAACT
129 AGATGAGTTCTTCTCATTATGAACT
3931361 CGACCTGGCA
Statistics
Matches: 336, Mismatches: 33, Indels: 20
0.86 0.08 0.05
Matches are distributed among these distances:
224 7 0.02
225 170 0.51
226 151 0.45
227 8 0.02
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (225 bp):
TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGTTAATCCATCA
ATGATGAATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
ATGAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGCGGATCTATCAAATGATGGATTTAAGCAA
AAAGTTGAACAAATTCTTCTCATTATGAAT
Found at i:3931391 original size:226 final size:223
Alignment explanation
Indices: 3930756--3931398 Score: 816
Period size: 226 Copynumber: 2.8 Consensus size: 223
3930746 GTTGAATAAA
* ** *
3930756 TTCTTC-TCTTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTG--CTGGGGATGATAATCCA
1 TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAAC--TC-GACCTGGCAATGTTAATCCA
* * *
3930818 TCAAGTGATAAATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCT
63 TCAA-TGATGAATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCT
* * *
3930883 TTAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGCGGATCTATCAAGTGATGGATTTAA
127 TCAGATGAGTTCTTCTCATTATGAAC-TCCTCTGGAAAAGCTGATCTATCAA-TGATGGATTTGA
3930948 GCAAAAAGTTGAACAAATTCTTCTCATTATGAAT
190 GCAAAAAGTTGAACAAATTCTTCTCATTATGAAT
** * *
3930982 TTCTTCTTC-TTC-AGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATC
1 TTCTTCTTCTTTCTTCA-GATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGTTAATCCATC
* *
3931045 ATATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTC
65 A-ATGATGAATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
*
3931110 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCTATCAAATGATGGATTTGAGC
129 AGATGAGTTCTTCTCATTATGAAC-TCCTCTGGAAAAGCTGATCTATC-AATGATGGATTTGAGC
3931175 -AAAAGATTGAACAAATTCTTCTCATTATGAAT
192 AAAAAG-TTGAACAAATTCTTCTCATTATGAAT
* *
3931207 TTCTTCTTCTTTCTTCAGATGAGTTATTCTCATTATGAACTCGACCTGGCAATGTTGATCCATCG
1 TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGTTAATCCATC-
* * * *
3931272 AATGATGAATTCAAGCGAAAA-GTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTC
65 AATGATGAATTTAAGC-AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
* * * * * * *
3931336 ATATAAGTTCTTCTTATTATGAACTCGAC-CTGGCAATGTTGATCCATCGAATGATGGATTTGA
129 AGATGAGTTCTTCTCATTATGAACTC--CTCTGGAAAAGCTGATCTATC-AATGATGGATTTGA
3931399 ATCTTTGCTA
Statistics
Matches: 366, Mismatches: 38, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
224 7 0.02
225 169 0.46
226 181 0.49
227 9 0.02
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (223 bp):
TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGTTAATCCATCA
ATGATGAATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
ATGAGTTCTTCTCATTATGAACTCCTCTGGAAAAGCTGATCTATCAATGATGGATTTGAGCAAAA
AGTTGAACAAATTCTTCTCATTATGAAT
Found at i:3932406 original size:83 final size:83
Alignment explanation
Indices: 3932209--3932859 Score: 1077
Period size: 83 Copynumber: 7.8 Consensus size: 83
3932199 TTGGGGTTCA
* * *
3932209 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGGAGATGCTATTGGGCACATTCGTCTTT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTT
* * *
3932274 CCAAATTCAATAACTAGTTT
65 -CAAATTCAATGATTGGTTT
* *
3932294 TACAAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
3932359 AAATTCAATGATTGGTTT
66 AAATTCAATGATTGGTTT
* * *
3932377 TACCAAACCAGATCAGATAACTCAAAGAACATTTCCAGAAGATGCTATTGGGCACATTCATTTGT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCT-T
* *
3932442 TCCAAATTCAATAACTGGTTT
64 T-CAAATTCAATGATTGGTTT
*
3932463 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
*
3932528 AATTTCAATGATTGGTTT
66 AAATTCAATGATTGGTTT
* *
3932546 TGCCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
3932611 AAATTCAATGATTGGTTT
66 AAATTCAATGATTGGTTT
3932629 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
*
3932694 AATTTCAATGATTGGTTT
66 AAATTCAATGATTGGTTT
3932712 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
*
3932777 AATTTCAATGATTGGTTT
66 AAATTCAATGATTGGTTT
*
3932795 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
3932860 CAGCTAATGT
Statistics
Matches: 533, Mismatches: 30, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
83 383 0.72
84 28 0.05
85 59 0.11
86 63 0.12
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
AAATTCAATGATTGGTTT
Found at i:3934011 original size:10 final size:10
Alignment explanation
Indices: 3933996--3934061 Score: 79
Period size: 10 Copynumber: 7.0 Consensus size: 10
3933986 TGACCCCCCA
3933996 TTTTTTCTTC
1 TTTTTTCTTC
3934006 TTTTTTCTAT-
1 TTTTTTCT-TC
3934016 TTTTTTC-T-
1 TTTTTTCTTC
3934024 TTTTTT-TTC
1 TTTTTTCTTC
3934033 -TTTTTCTTC
1 TTTTTTCTTC
*
3934042 TTTTTTTTTC
1 TTTTTTCTTC
3934052 TTTTTTCTTC
1 TTTTTTCTTC
3934062 AAGCATAATA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
8 13 0.27
9 3 0.06
10 32 0.65
11 1 0.02
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:3934061 original size:20 final size:19
Alignment explanation
Indices: 3933996--3934057 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
3933986 TGACCCCCCA
*
3933996 TTTTTTCTTCTTTTTTCTAT
1 TTTTTTCTTTTTTTTTCT-T
3934016 TTTTTTCTTTTTTTTTCTT
1 TTTTTTCTTTTTTTTTCTT
*
3934035 TTTCTTCTTTTTTTTTCTT
1 TTTTTTCTTTTTTTTTCTT
3934054 TTTT
1 TTTT
3934058 CTTCAAGCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 22 0.56
20 17 0.44
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTTCTTTTTTTTTCTT
Found at i:3944700 original size:20 final size:20
Alignment explanation
Indices: 3944675--3944712 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3944665 AAAATAAAAC
*
3944675 ATATAAATATTATGAAAATA
1 ATATAAAAATTATGAAAATA
*
3944695 ATATAAAAATTTTGAAAA
1 ATATAAAAATTATGAAAA
3944713 GAAATAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
ATATAAAAATTATGAAAATA
Found at i:3946773 original size:3 final size:3
Alignment explanation
Indices: 3946757--3946850 Score: 107
Period size: 3 Copynumber: 30.7 Consensus size: 3
3946747 TTTGGGCTTG
* * * *
3946757 TAA TAA TATT TAA TAA TAA TAT TAA TAA TAAA TAA TAA TAT TAG TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* * *
3946804 TTA TAA TAA TAA TAA TAA TAA TTA TAA TAA TTA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3946851 TAAATATTTA
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
3 71 0.93
4 5 0.07
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:3948216 original size:62 final size:63
Alignment explanation
Indices: 3948159--3948338 Score: 183
Period size: 64 Copynumber: 2.9 Consensus size: 63
3948149 TAAAATTTTA
3948159 ATAA-TATATAAAATAATTTATATAATAAAATTAAATATCTAT-A-ATAATATTAAAAAATTAAT
1 ATAATTATATAAAA-AA-TTA-ATAATAAAATT-AATATCTATAATATAATATTAAAAAATTAAT
3948221 AT
62 AT
* * *
3948223 TTAATTTATTTAAAAAATTAATATTAAAATTAATATCTATAATATAATATTAAAAAATTAATAT
1 ATAA-TTATATAAAAAATTAATAATAAAATTAATATCTATAATATAATATTAAAAAATTAATAT
* * ** * *
3948287 TTAATTTATTTAAAATTTTAATATTAAAATTAAAATC-A-AATATAATA-TAAAA
1 ATAA-TTATATAAAAAATTAATAATAAAATTAATATCTATAATATAATATTAAAA
3948339 TTAAATATAA
Statistics
Matches: 106, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
61 5 0.05
62 18 0.17
63 12 0.11
64 61 0.58
65 2 0.02
66 8 0.08
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (63 bp):
ATAATTATATAAAAAATTAATAATAAAATTAATATCTATAATATAATATTAAAAAATTAATAT
Found at i:3948235 original size:24 final size:25
Alignment explanation
Indices: 3948171--3948253 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 25
3948161 AATATATAAA
*
3948171 ATAATTTATATAATAAAATTAAATATCT
1 ATAATTTATTTAA-AAAATT-AATAT-T
*
3948199 ATAA-TAATATTAAAAAATTAATATT
1 ATAATTTAT-TTAAAAAATTAATATT
3948224 -TAATTTATTTAAAAAATTAATATT
1 ATAATTTATTTAAAAAATTAATATT
*
3948248 AAAATT
1 ATAATT
3948254 AATATCTATA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
24 19 0.40
25 8 0.17
26 5 0.10
27 9 0.19
28 7 0.15
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (25 bp):
ATAATTTATTTAAAAAATTAATATT
Found at i:3948279 original size:64 final size:64
Alignment explanation
Indices: 3948184--3948338 Score: 239
Period size: 64 Copynumber: 2.5 Consensus size: 64
3948174 ATTTATATAA
3948184 TAAAATTAAATATCTAT-A-ATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATT-AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
**
3948247 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAATTTTAATAT
1 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
*
3948311 TAAAATTAAAATC-A-AATATAATA-TAAAA
1 TAAAATTAATATCTATAATATAATATTAAAA
3948339 TTAAATATAA
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
61 5 0.06
62 18 0.21
63 9 0.10
64 55 0.63
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (64 bp):
TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
Found at i:3948282 original size:40 final size:37
Alignment explanation
Indices: 3948203--3948287 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 37
3948193 ATATCTATAA
*
3948203 TAATATTAAAAAATTAATATTTAATTTATTTAAAAAAT
1 TAATATT-AAAAATTAATATTTAATTAATTTAAAAAAT
3948241 TAATATT-AAAATTAATATCTATAATATAATATTAAAAAAT
1 TAATATTAAAAATTAATAT-T-TAAT-TAAT-TTAAAAAAT
3948281 TAATATT
1 TAATATT
3948288 TAATTTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
36 11 0.26
37 1 0.02
38 11 0.26
39 3 0.07
40 16 0.38
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (37 bp):
TAATATTAAAAATTAATATTTAATTAATTTAAAAAAT
Found at i:3956325 original size:56 final size:56
Alignment explanation
Indices: 3956237--3956351 Score: 178
Period size: 56 Copynumber: 2.1 Consensus size: 56
3956227 TTGAAATAGA
* * *
3956237 CTTGATGAAATAAACATCGTAAGTGTGGAAAACTAGTAACCTTTCATGAAGGATGT
1 CTTGATGAAATAAACATCGTAAGCGTGAAAAACTAGTAACCTTCCATGAAGGATGT
*
3956293 CTTGATGAAATAAACAAT-GTAAGCGTGAAAAACTAGTCACCTTCCATGAAGGATGT
1 CTTGATGAAATAAAC-ATCGTAAGCGTGAAAAACTAGTAACCTTCCATGAAGGATGT
3956349 CTT
1 CTT
3956352 TTTAGGATGA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 52 0.96
57 2 0.04
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (56 bp):
CTTGATGAAATAAACATCGTAAGCGTGAAAAACTAGTAACCTTCCATGAAGGATGT
Found at i:3957154 original size:2 final size:2
Alignment explanation
Indices: 3957105--3957140 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3957095 TTATGTGCAT
3957105 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
3957141 ATCCATCCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:3958221 original size:29 final size:29
Alignment explanation
Indices: 3958165--3958223 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
3958155 GATGCATTTA
* *
3958165 TGATTTTGCATAGGATTATATCCCCGTCC
1 TGATTCTGCATAGGATTATATCACCGTCC
*
3958194 TGATTCTGCAT-GAGATTATATCATCGTCC
1 TGATTCTGCATAG-GATTATATCACCGTCC
3958223 T
1 T
3958224 TATAATGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (29 bp):
TGATTCTGCATAGGATTATATCACCGTCC
Found at i:3959151 original size:19 final size:19
Alignment explanation
Indices: 3959123--3959164 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
3959113 GAACCTGAAT
3959123 TTTTAAGTTGCAAACCAGA
1 TTTTAAGTTGCAAACCAGA
*
3959142 TTTTAGGTTGCAAACCAGA
1 TTTTAAGTTGCAAACCAGA
3959161 TTTT
1 TTTT
3959165 TAAATTACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (19 bp):
TTTTAAGTTGCAAACCAGA
Found at i:3961459 original size:19 final size:19
Alignment explanation
Indices: 3961435--3961520 Score: 172
Period size: 19 Copynumber: 4.5 Consensus size: 19
3961425 TTAAAAAGGG
3961435 AAAGAGTGAATGAGCTTTA
1 AAAGAGTGAATGAGCTTTA
3961454 AAAGAGTGAATGAGCTTTA
1 AAAGAGTGAATGAGCTTTA
3961473 AAAGAGTGAATGAGCTTTA
1 AAAGAGTGAATGAGCTTTA
3961492 AAAGAGTGAATGAGCTTTA
1 AAAGAGTGAATGAGCTTTA
3961511 AAAGAGTGAA
1 AAAGAGTGAA
3961521 AGTGTTTAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.44, C:0.05, G:0.27, T:0.24
Consensus pattern (19 bp):
AAAGAGTGAATGAGCTTTA
Found at i:3961949 original size:20 final size:20
Alignment explanation
Indices: 3961894--3961940 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
3961884 TAGAACCTGA
*
3961894 ATTTTTAAGTTGCAAGCCAG
1 ATTTTTAAGTTGCAAACCAG
*
3961914 A-TTTTAGGTTGCAAACCAG
1 ATTTTTAAGTTGCAAACCAG
3961933 ATTTTTAA
1 ATTTTTAA
3961941 ATTACAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (20 bp):
ATTTTTAAGTTGCAAACCAG
Found at i:3962076 original size:40 final size:40
Alignment explanation
Indices: 3961953--3962095 Score: 121
Period size: 40 Copynumber: 3.6 Consensus size: 40
3961943 TACAAACAAA
* * * * *
3961953 GTGATGTATCGTACGAGGTACACACCTAAACATGAAAGGG
1 GTGATGTATCGTATGAGATACACACCTAAATATAAAAGAG
* * * * *
3961993 GTGATATATTGTA-GTAGATACACA-TTCAAT-TACAAGGAAG
1 GTGATGTATCGTATG-AGATACACACCTAAATATA-AAAG-AG
*
3962033 GTGATGTATCGTATGAGATACACACCTAAATATAAAAGTG
1 GTGATGTATCGTATGAGATACACACCTAAATATAAAAGAG
* *
3962073 GTGATGTATTGTATGGGATACAC
1 GTGATGTATCGTATGAGATACAC
3962096 CTAATATGGT
Statistics
Matches: 80, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
38 1 0.01
39 7 0.09
40 62 0.77
41 8 0.10
42 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (40 bp):
GTGATGTATCGTATGAGATACACACCTAAATATAAAAGAG
Found at i:3964992 original size:29 final size:29
Alignment explanation
Indices: 3964937--3965092 Score: 195
Period size: 29 Copynumber: 5.4 Consensus size: 29
3964927 GCTACAATCA
* * *
3964937 TGATTCTGTATTAGATTATATCCCCGTCT
1 TGATTCTGCATGAGATTATATCCCCGTCC
* * * *
3964966 TAATTTTGCATGGGATTATATCCCCGTCT
1 TGATTCTGCATGAGATTATATCCCCGTCC
3964995 TGATTCTGCATGAGATTATATCCCCGTCC
1 TGATTCTGCATGAGATTATATCCCCGTCC
* *
3965024 TGGTTCTGCATGAGATTATATCTCCGTCC
1 TGATTCTGCATGAGATTATATCCCCGTCC
* ***
3965053 TGGTTCTGCATGAGATTATATCTTTGTCC
1 TGATTCTGCATGAGATTATATCCCCGTCC
3965082 TGATTCTGCAT
1 TGATTCTGCAT
3965093 AGGATCCTCT
Statistics
Matches: 113, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 113 1.00
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.41
Consensus pattern (29 bp):
TGATTCTGCATGAGATTATATCCCCGTCC
Found at i:3966043 original size:3 final size:3
Alignment explanation
Indices: 3966035--3966063 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3966025 CATGCATGTT
3966035 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3966064 TGATAAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3972475 original size:19 final size:21
Alignment explanation
Indices: 3972451--3972489 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
3972441 TATTACTATA
3972451 ATTATTATT-TA-ATTTTTCT
1 ATTATTATTATATATTTTTCT
3972470 ATTATTATTATATATTTTTC
1 ATTATTATTATATATTTTTC
3972490 CCTCTCTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTATTATTATATATTTTTCT
Found at i:3972476 original size:22 final size:21
Alignment explanation
Indices: 3972446--3972489 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
3972436 TTTTGTATTA
*
3972446 CTATAATTATTATTTAATTTTT
1 CTATAATTATTATAT-ATTTTT
*
3972468 CTATTATTATTATATATTTTT
1 CTATAATTATTATATATTTTT
3972489 C
1 C
3972490 CCTCTCTCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
CTATAATTATTATATATTTTT
Found at i:3984248 original size:105 final size:105
Alignment explanation
Indices: 3984062--3984733 Score: 1094
Period size: 105 Copynumber: 6.4 Consensus size: 105
3984052 AGGTTTTACC
*
3984062 CAGAGCCAATTTCAACTTCACAACGAAGGACATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
3984127 ACGAAGGGACCACTGGTTGTCAATAAACATTTCTTAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
3984167 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACGACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
3984232 ACGAAGGGACCGCTGGTTGTCAACAAACGTTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
3984272 CAGAGTCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
3984337 ACGAAGGGACCGCTGGTTTTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
3984377 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
3984442 ACGAAGGGACCGCTGGTTGTCAACAACCATTTCTCAA-TC
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
3984481 CTAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 C-AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
3984546 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
65 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* ****
3984587 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTATAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
** ** *
3984652 ACGAAGGGACCGCTGACTGTCAACCGACAACTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTT
* *
3984693 CAGAGCCAATTTCAACTTCACAATGAATGATATTGGACTCC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
3984734 GGAACAATAC
Statistics
Matches: 529, Mismatches: 35, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
104 2 0.00
105 476 0.90
106 51 0.10
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:3987488 original size:15 final size:15
Alignment explanation
Indices: 3987468--3987496 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3987458 TGGTCGACCG
3987468 AACCGAATTAACCAT
1 AACCGAATTAACCAT
3987483 AACCGAATTAACCA
1 AACCGAATTAACCA
3987497 AACTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.28, G:0.07, T:0.17
Consensus pattern (15 bp):
AACCGAATTAACCAT
Found at i:3987811 original size:95 final size:95
Alignment explanation
Indices: 3987712--3987997 Score: 238
Period size: 95 Copynumber: 3.1 Consensus size: 95
3987702 TTTTAATTAA
3987712 TTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTG
1 TTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTG
3987777 GGCTTAGCCCATATGTTATATATAATATAT
66 GGCTTAGCCCATATGTTATATATAATATAT
* *** * ** *
3987807 TTAATATT-TTTTAA--TTAAAA---AACAG-T-TTACAATTAATTTAAAT--AATATATAAT--
1 TTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTA-AATT-A-TTAATTGGGTTTTA-AATGG
* *** * **** * * * *
3987860 TATGAAATAAAAAAATTATATTATTTTTTAAT-TAA
62 TTTGGGCTTAGCCCA-TATGTTA-TATATAATATAT
3987895 TTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTG
1 TTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTG
3987960 GGCTTAGCCCATATGTTATATATAATATAT
66 GGCTTAGCCCATATGTTATATATAATATAT
3987990 TTAATATT
1 TTAATATT
3987998 TTTTAATTAA
Statistics
Matches: 130, Mismatches: 42, Indels: 38
0.62 0.20 0.18
Matches are distributed among these distances:
87 9 0.07
88 24 0.18
89 17 0.13
90 5 0.04
91 6 0.05
92 6 0.05
93 5 0.04
94 17 0.13
95 32 0.25
96 9 0.07
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (95 bp):
TTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTG
GGCTTAGCCCATATGTTATATATAATATAT
Found at i:3987934 original size:183 final size:183
Alignment explanation
Indices: 3987614--3988181 Score: 973
Period size: 183 Copynumber: 3.1 Consensus size: 183
3987604 TTTTCTAATT
* * * *
3987614 TATATAA-A-ATTAAATATTTTTTAATTCAAACAA-AGTTTATAATTAATTTAAATAATAAATAA
1 TATATAATATATTTAATATTTTTTAATT-AAAAAACAGTTTACAATTAATTTAAATAATATATAA
* * *
3987676 TTATAAAATAAAAATTTTAGATAAATTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
65 TTATAAAATAAAAAATTTATATAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
3987741 GGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTTAGCCCATATGTTA
130 GGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTTAGCCCATATGTTA
3987795 TATATAATATATTTAATATTTTTTAATTAAAAAACAGTTTACAATTAATTTAAATAATATATAAT
1 TATATAATATATTTAATATTTTTTAATTAAAAAACAGTTTACAATTAATTTAAATAATATATAAT
* * *
3987860 TATGAAATAAAAAAATTATATTATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTG
66 TATAAAATAAAAAATTTATATAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTG
3987925 GATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTTAGCCCATATGTTA
131 GATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTTAGCCCATATGTTA
3987978 TATATAATATATTTAATATTTTTTAATTAAAAAACAGTTTACAATTAATTTAAATAATATATAAT
1 TATATAATATATTTAATATTTTTTAATTAAAAAACAGTTTACAATTAATTTAAATAATATATAAT
3988043 TATAAAATAAAAAATTTATATAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTG
66 TATAAAATAAAAAATTTATATAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTG
* * *
3988108 GATTTTAAATTATTAATTGGGTTTTTAATGATTTGGG-TTGAGCCCATATGTTA
131 GATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTT-AGCCCATATGTTA
3988161 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
3988182 AAAATTTAAT
Statistics
Matches: 367, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
181 7 0.02
182 8 0.02
183 352 0.96
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (183 bp):
TATATAATATATTTAATATTTTTTAATTAAAAAACAGTTTACAATTAATTTAAATAATATATAAT
TATAAAATAAAAAATTTATATAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTG
GATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTTAGCCCATATGTTA
Found at i:3988547 original size:16 final size:16
Alignment explanation
Indices: 3988494--3988554 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
3988484 ATAAATTGCA
*
3988494 TAAATTTTATAAAAAT
1 TAAATTTTATATAAAT
* * **
3988510 TAAAATATATAATTTAT
1 TAAATTTTAT-ATAAAT
*
3988527 CAAATTTTATATAAAT
1 TAAATTTTATATAAAT
3988543 TAAATTATTATA
1 TAAATT-TTATA
3988555 ATTACAGTAT
Statistics
Matches: 32, Mismatches: 11, Indels: 3
0.70 0.24 0.07
Matches are distributed among these distances:
16 17 0.53
17 15 0.47
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAATTTTATATAAAT
Found at i:3988893 original size:31 final size:32
Alignment explanation
Indices: 3988869--3988964 Score: 108
Period size: 32 Copynumber: 3.1 Consensus size: 32
3988859 TTAAGAGTCG
* *
3988869 AATTGATATTTTATCTAAAGTTTAAAGGTAAA
1 AATTAATATTTTATCTAAAATTTAAAGGTAAA
*
3988901 AATTAATATTTTATCTAAAATTTAAA-AT-AA
1 AATTAATATTTTATCTAAAATTTAAAGGTAAA
* * * *
3988931 AATTATTATTCTATATAAAA-TTAAAGGTGAA
1 AATTAATATTTTATCTAAAATTTAAAGGTAAA
3988962 AAT
1 AAT
3988965 CAAAATTTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
29 5 0.09
30 20 0.36
31 6 0.11
32 24 0.44
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.41
Consensus pattern (32 bp):
AATTAATATTTTATCTAAAATTTAAAGGTAAA
Found at i:3991481 original size:6 final size:6
Alignment explanation
Indices: 3991472--3991503 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
3991462 ACGTGGCCGT
3991472 GACAGG GACAGG GACAGG GACAGG GACAGG GA
1 GACAGG GACAGG GACAGG GACAGG GACAGG GA
3991504 TCGTTATCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.50, T:0.00
Consensus pattern (6 bp):
GACAGG
Found at i:3993783 original size:2 final size:2
Alignment explanation
Indices: 3993776--3993812 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
3993766 CAACACAATA
3993776 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3993813 TTCATTTTGT
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):
AT
Found at i:3995831 original size:24 final size:23
Alignment explanation
Indices: 3995795--3995840 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
3995785 CATATTTATA
3995795 AACACGTCCATAAACATATAAATG
1 AACACGTCCATAAACAT-TAAATG
** *
3995819 AACACGTTTATAAATATTAAAT
1 AACACGTCCATAAACATTAAAT
3995841 AAATATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.28
Consensus pattern (23 bp):
AACACGTCCATAAACATTAAATG
Found at i:4001384 original size:27 final size:27
Alignment explanation
Indices: 4001353--4001421 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
4001343 TCTATTTACA
*
4001353 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAAGAATGGTAAC
4001380 AAATCATATCTCTATAAGAATGGTAAC
1 AAATCATATCTCTATAAGAATGGTAAC
4001407 AAATC--ATCTCTATAA
1 AAATCATATCTCTATAA
4001422 TTCCTACAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 10 0.24
27 31 0.76
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATCATATCTCTATAAGAATGGTAAC
Found at i:4009940 original size:2 final size:2
Alignment explanation
Indices: 4009933--4009977 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
4009923 TAGAAACTTC
4009933 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
4009975 AT A
1 AT A
4009978 ACTAATTAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4012561 original size:31 final size:31
Alignment explanation
Indices: 4012451--4012573 Score: 119
Period size: 31 Copynumber: 4.0 Consensus size: 31
4012441 GTTGAGGGTA
*
4012451 TACCTATGTTCTACGGAAC--ATGGACAGAAT
1 TACCTATGTTCTACGGAACATATGGACAG-TT
* *
4012481 TACCTATG-TCTTTC-GAGACATATGGACAGTA
1 TACCTATGTTC-TACGGA-ACATATGGACAGTT
*
4012512 TACCTATGTTCTAAGGAACATATGGACAGTT
1 TACCTATGTTCTACGGAACATATGGACAGTT
* * * *
4012543 TACCTAGGTTCTTCGGAACCTAGGGACAGTT
1 TACCTATGTTCTACGGAACATATGGACAGTT
4012574 ACCGAGGATC
Statistics
Matches: 76, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
29 4 0.05
30 12 0.16
31 48 0.63
32 12 0.16
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAGTT
Found at i:4012604 original size:30 final size:30
Alignment explanation
Indices: 4012570--4012631 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
4012560 ACCTAGGGAC
4012570 AGTTACCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
4012600 AGTTACCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
4012630 AG
1 AG
4012632 GTCCTTCGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (30 bp):
AGTTACCGAGGATCTTTATGACCTCTGGAT
Found at i:4017273 original size:31 final size:31
Alignment explanation
Indices: 4017161--4017285 Score: 137
Period size: 31 Copynumber: 4.0 Consensus size: 31
4017151 GTTGAGGGTA
*
4017161 TACCTATGTTCTACGGAACATATGGACAGAAT
1 TACCTATGTTCTACGGAACATATGGACAG-TT
* *
4017193 TACCTATG-TCTTTC-GAGACATATGGACAGTA
1 TACCTATGTTC-TACGGA-ACATATGGACAGTT
*
4017224 TACCTATGTTCTAAGGAACATATGGACAGTT
1 TACCTATGTTCTACGGAACATATGGACAGTT
* * * *
4017255 TACCTAGGTTCTTCGGAACCTAGGGACAGTT
1 TACCTATGTTCTACGGAACATATGGACAGTT
4017286 ACCGAGGATC
Statistics
Matches: 78, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
31 52 0.67
32 26 0.33
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAGTT
Found at i:4017316 original size:30 final size:30
Alignment explanation
Indices: 4017282--4017343 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
4017272 ACCTAGGGAC
4017282 AGTTACCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
4017312 AGTTACCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
4017342 AG
1 AG
4017344 GTCATTCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (30 bp):
AGTTACCGAGGATCTTTATGACCTCTGGAT
Found at i:4020881 original size:18 final size:18
Alignment explanation
Indices: 4020858--4020921 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 18
4020848 CAAATAGTTG
4020858 TAATAAATATTAATAATA
1 TAATAAATATTAATAATA
4020876 TAAT-AATCATATAATATATAA
1 TAATAAAT-AT-TAATA-AT-A
*
4020897 TAATAATTATTATTATAATA
1 TAATAAATATTA--ATAATA
4020917 TAATA
1 TAATA
4020922 TTTATATCCC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
17 3 0.08
18 6 0.16
19 5 0.13
20 10 0.26
21 9 0.24
22 5 0.13
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAAATATTAATAATA
Found at i:4021239 original size:52 final size:52
Alignment explanation
Indices: 4021176--4021875 Score: 1139
Period size: 52 Copynumber: 13.6 Consensus size: 52
4021166 TCGCTCTCTA
* * *
4021176 TTTCTTCAGGGAGTAGAACTCGAACGATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAAT
* *
4021228 TTTCTTCAGGGACTAGAACTCGAACAATAA---TCCTACGGGTCTGTCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAAT
*
4021277 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAAT
* * *
4021329 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTTCTACGAGACTGTCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAAT
* *
4021381 TTTCTTCAGGGACTAGAACTCGAAAAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAAT
* * *
4021433 TTTCTTCAAGG---AGAACTCGAACAATAATCTTTCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAAT
* *
4021482 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGTCCAA-
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAAT
*
4021533 TTTCTTCAGGGACTAGAACTCGAAAAATAATCTTCCTACG-GTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAAT
*
4021584 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAAT
*
4021636 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAAT
*
4021688 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAAT
*
4021740 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAAT
*
4021792 TTTCTTCAGGGACTAGAACTCGAACAATAATC-TCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAAT
4021843 TTTCTTCAGGGACTAGAACTCGAACAATAATCT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCT
4021876 CCAACGATCG
Statistics
Matches: 604, Mismatches: 35, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
49 92 0.15
50 8 0.01
51 127 0.21
52 377 0.62
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (52 bp):
TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAAT
Found at i:4021691 original size:307 final size:310
Alignment explanation
Indices: 4021137--4021875 Score: 1190
Period size: 307 Copynumber: 2.4 Consensus size: 310
4021127 TCAGGAGTAT
** * * *
4021137 AGAACTCGAACAATCTTCTTTTTACGGGT-TCGCTCTCTA-TTTCTTCAGGGAGTAGAACTCGAA
1 AGAACTCGAACAATAATCTTTCTACGGGTCT-GC-C-CAATTTTCTTCAGGGACTAGAACTCGAA
*
4021200 CGATAATCTTCCTACGAGACTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAATAA---TCCT
63 CAATAATCTTCCTACGAGACTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCT
*
4021262 ACGGGTCTGTCCAATTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCA
128 ACGGGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCA
* *
4021327 ATTTTCTTCAGGGACTAGAACTCGAACAATAATCTTTCTACGAGACTGTCCAATTTTCTTCAGGG
193 ATTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAATTTTCTTCAGGG
4021392 ACTAGAACTCGAAAAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAAGG-
258 ACTAGAACTCGAAAAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAAGGA
4021444 AGAACTCGAACAATAATCTTTCTACGGGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAA
1 AGAACTCGAACAATAATCTTTCTACGGGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAA
* *
4021509 TAATCTTCCTACGAGACTGTCCAA-TTTCTTCAGGGACTAGAACTCGAAAAATAATCTTCCTAC-
66 TAATCTTCCTACGAGACTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACG
* *
4021572 GGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATT
131 GGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAATT
4021637 TTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAATTTTCTTCAGGGACT
196 TTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAATTTTCTTCAGGGACT
* *
4021702 AGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGA
261 AGAACTCGAAAAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAAGGA
* * *
4021752 CTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAATTTTCTTCAGGGACTAGAACTCGAAC
1 --AGAACTCGAACAATAATCTTTCTACGGGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAAC
* *
4021817 AATAATC-TCCTACGGGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAATAATCT
64 AATAATCTTCCTACGAGACTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAATAATCT
4021876 CCAACGATCG
Statistics
Matches: 401, Mismatches: 22, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
305 31 0.08
306 49 0.12
307 200 0.50
308 7 0.02
309 15 0.04
310 99 0.25
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (310 bp):
AGAACTCGAACAATAATCTTTCTACGGGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAA
TAATCTTCCTACGAGACTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACG
GGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAATT
TTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAATTTTCTTCAGGGACT
AGAACTCGAAAAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAAGGA
Found at i:4021930 original size:55 final size:55
Alignment explanation
Indices: 4021871--4022097 Score: 400
Period size: 55 Copynumber: 4.1 Consensus size: 55
4021861 CTCGAACAAT
*
4021871 AATCTCCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* *
4021926 AATCTTCAACAATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* *
4021981 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGATTCGAAT
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
*
4022036 AATCTTCAACGATCGCGTCTGCCCTCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
4022091 AATCTTC
1 AATCTTC
4022098 TTTTGCTTCA
Statistics
Matches: 162, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 162 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (55 bp):
AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
Found at i:4023397 original size:21 final size:20
Alignment explanation
Indices: 4023373--4023423 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
4023363 TGAACCCCCC
4023373 TTTTATTTTTTTTGT-TTTTT
1 TTTTATTTTTTTT-TCTTTTT
*
4023393 TTTTTTTTTTTTTTCTTTTT
1 TTTTATTTTTTTTTCTTTTT
4023413 TTTTATTTTTT
1 TTTTATTTTTT
4023424 CCATTTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.04, C:0.02, G:0.02, T:0.92
Consensus pattern (20 bp):
TTTTATTTTTTTTTCTTTTT
Found at i:4023440 original size:1 final size:1
Alignment explanation
Indices: 4023373--4023423 Score: 66
Period size: 1 Copynumber: 51.0 Consensus size: 1
4023363 TGAACCCCCC
* * * *
4023373 TTTTATTTTTTTTGTTTTTTTTTTTTTTTTTTTTCTTTTTTTTTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4023424 CCATTTTTTC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.04, C:0.02, G:0.02, T:0.92
Consensus pattern (1 bp):
T
Found at i:4023478 original size:8 final size:8
Alignment explanation
Indices: 4023410--4023478 Score: 65
Period size: 8 Copynumber: 8.8 Consensus size: 8
4023400 TTTTTTTCTT
*
4023410 TTTTTTTA
1 TTTTTTCA
4023418 TTTTTTCCA
1 TTTTTT-CA
4023427 TTTTTTC-
1 TTTTTTCA
4023434 TATTTTTC-
1 T-TTTTTCA
*
4023442 -TATTTCA
1 TTTTTTCA
4023449 TTTTTTCA
1 TTTTTTCA
4023457 TTTTTTTCA
1 -TTTTTTCA
4023466 -TTTTTCA
1 TTTTTTCA
4023473 TTTTTT
1 TTTTTT
4023479 TTTATCTTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
6 5 0.10
7 8 0.15
8 24 0.46
9 15 0.29
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTCA
Found at i:4023479 original size:9 final size:9
Alignment explanation
Indices: 4023400--4023479 Score: 60
Period size: 9 Copynumber: 8.8 Consensus size: 9
4023390 TTTTTTTTTT
*
4023400 TTTTTTTCT
1 TTTTTTTCA
*
4023409 TTTTTTTTA
1 TTTTTTTCA
*
4023418 TTTTTTCCA
1 TTTTTTTCA
4023427 -TTTTTTCTA
1 TTTTTTTC-A
4023436 TTTTTCTATTTCA
1 --TTT-T-TTTCA
4023449 -TTTTTTCA
1 TTTTTTTCA
4023457 TTTTTTTCA
1 TTTTTTTCA
4023466 --TTTTTCA
1 TTTTTTTCA
4023473 TTTTTTT
1 TTTTTTT
4023480 TTATCTTAAG
Statistics
Matches: 57, Mismatches: 5, Indels: 18
0.71 0.06 0.22
Matches are distributed among these distances:
7 7 0.12
8 11 0.19
9 29 0.51
10 2 0.04
12 2 0.04
13 2 0.04
14 4 0.07
ACGTcount: A:0.10, C:0.11, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:4029874 original size:17 final size:17
Alignment explanation
Indices: 4029854--4029887 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4029844 TAAAATTACC
4029854 CAACCATTAGAAAGATA
1 CAACCATTAGAAAGATA
*
4029871 CAACCTTTAGAAAGATA
1 CAACCATTAGAAAGATA
4029888 AAGAATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.21
Consensus pattern (17 bp):
CAACCATTAGAAAGATA
Found at i:4032270 original size:3 final size:3
Alignment explanation
Indices: 4032252--4032299 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
4032242 CAAATAGTTG
* *
4032252 TAA TAAA TAT TAA TAA TAA TAA TAA TCA T-A TAA T-A TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4032296 TAA T
1 TAA T
4032300 TATTATTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
2 4 0.10
3 32 0.82
4 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:4032277 original size:22 final size:21
Alignment explanation
Indices: 4032252--4032315 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
4032242 CAAATAGTTG
4032252 TAATAAATATTAATAATAATAA
1 TAATAAATATTAAT-ATAATAA
*
4032274 TAAT-CATA-TAATATAATAA
1 TAATAAATATTAATATAATAA
* * *
4032293 TAATAATTATTATTATTATAA
1 TAATAAATATTAATATAATAA
4032314 TA
1 TA
4032316 TAATTTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 11 0.31
20 6 0.17
21 14 0.40
22 4 0.11
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATAAATATTAATATAATAA
Found at i:4032666 original size:77 final size:76
Alignment explanation
Indices: 4032477--4032679 Score: 268
Period size: 76 Copynumber: 2.7 Consensus size: 76
4032467 GTTGTACAAG
* * * *
4032477 GGGGGAATCGGTACCCCCT-TGGGGGGG-ATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGC
1 GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGC
**
4032540 AAAACTGTTTA
66 AAAACCATTTA
* *
4032551 GGGGTAAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGG
1 GGGG-GAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
4032615 CCAAAACCATTTA
65 -CAAAACCATTTA
* * *
4032628 GGGGGAATCGGTTCCTCTTATGGGGGGGAATCGGTTCCCTCTGAGCAATCTG
1 GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCATTCTG
4032680 TAATTTTTGG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
74 4 0.04
75 18 0.16
76 48 0.43
77 42 0.38
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.25
Consensus pattern (76 bp):
GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGC
AAAACCATTTA
Done.