Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 155 of 175
Found at i:46766481 original size:21 final size:21
Alignment explanation
Indices: 46766449--46766582 Score: 151
Period size: 21 Copynumber: 6.4 Consensus size: 21
46766439 CACCAGCTTA
* * * *
46766449 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
46766470 AAGTAGAGGCGGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
46766491 AAGTACAGGCTACAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
**
46766512 AAGCAGAGGCTAAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
46766533 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
46766554 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
46766575 AAGTAGAG
1 AAGCAGAG
46766583 CAGCGTCAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 100 1.00
ACGTcount: A:0.34, C:0.16, G:0.43, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:46766767 original size:10 final size:9
Alignment explanation
Indices: 46766745--46766798 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
46766735 TAATACGATT
*
46766745 TTTATTTTA
1 TTTATTATA
46766754 TTTATTGATA
1 TTTATT-ATA
46766764 TTTATTATA
1 TTTATTATA
*
46766773 -TTATT-TG
1 TTTATTATA
*
46766780 TTTAATATA
1 TTTATTATA
46766789 TTTATT-TA
1 TTTATTATA
46766797 TT
1 TT
46766799 ACTTTTGGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
7 1 0.03
8 13 0.35
9 15 0.41
10 8 0.22
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (9 bp):
TTTATTATA
Found at i:46767227 original size:22 final size:22
Alignment explanation
Indices: 46767201--46767242 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
46767191 CGGCGCTTTT
*
46767201 AAAAGCGCCGCTAAAGGCCTAA
1 AAAAGCGCCGCTAAAAGCCTAA
46767223 AAAAGCGCCGCTAAAAGCCT
1 AAAAGCGCCGCTAAAAGCCT
46767243 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.29, G:0.21, T:0.10
Consensus pattern (22 bp):
AAAAGCGCCGCTAAAAGCCTAA
Found at i:46778584 original size:9 final size:9
Alignment explanation
Indices: 46778570--46778618 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
46778560 AAAATATATA
46778570 TTATTATTG
1 TTATTATTG
* *
46778579 TTATTAGTA
1 TTATTATTG
**
46778588 TTATTATCA
1 TTATTATTG
*
46778597 ATATTATTG
1 TTATTATTG
46778606 TTATTATTG
1 TTATTATTG
46778615 TTAT
1 TTAT
46778619 ATTTCCATTT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.61
Consensus pattern (9 bp):
TTATTATTG
Found at i:46778850 original size:16 final size:17
Alignment explanation
Indices: 46778828--46778873 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
46778818 CATATCTTTG
46778828 ATTTATATATATTTAT-
1 ATTTATATATATTTATA
* *
46778844 TTTTATATATACATTATA
1 ATTTATATATA-TTTATA
46778862 ATTTATATATAT
1 ATTTATATATAT
46778874 ACATATATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 10 0.42
17 4 0.17
18 10 0.42
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTATATATATTTATA
Found at i:46778854 original size:18 final size:18
Alignment explanation
Indices: 46778828--46778874 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
46778818 CATATCTTTG
46778828 ATTTATATATAT-TTAT-
1 ATTTATATATATATTATA
* *
46778844 TTTTATATATACATTATA
1 ATTTATATATATATTATA
46778862 ATTTATATATATA
1 ATTTATATATATA
46778875 CATATATTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 10 0.40
17 4 0.16
18 11 0.44
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATATATATATTATA
Found at i:46778887 original size:18 final size:19
Alignment explanation
Indices: 46778847--46778899 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
46778837 TATTTATTTT
*
46778847 TATATATACATTATAATTTA
1 TATATATACA-TATAATTCA
46778867 TATATATACATAT-ATTCA
1 TATATATACATATAATTCA
46778885 TATCTATATACATAT
1 TA--TATATACATAT
46778900 TTTTTAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 6 0.20
19 3 0.10
20 21 0.70
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATATACATATAATTCA
Found at i:46778934 original size:18 final size:18
Alignment explanation
Indices: 46778911--46778946 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
46778901 TTTTAAAATT
*
46778911 TTTATAAGTATATATATA
1 TTTATAAGTACATATATA
*
46778929 TTTATACGTACATATATA
1 TTTATAAGTACATATATA
46778947 CTTACATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
TTTATAAGTACATATATA
Found at i:46782288 original size:21 final size:22
Alignment explanation
Indices: 46782245--46782288 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
46782235 AATTATAAAA
*
46782245 AAGTATAATTTTTTTTATGAAT
1 AAGTATAATTTTTTTAATGAAT
46782267 AAGTATAATTTTTTTAAT-AAT
1 AAGTATAATTTTTTTAATGAAT
46782288 A
1 A
46782289 TATAGCATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
AAGTATAATTTTTTTAATGAAT
Found at i:46783770 original size:30 final size:30
Alignment explanation
Indices: 46783702--46783783 Score: 78
Period size: 31 Copynumber: 2.7 Consensus size: 30
46783692 GGTTAAATCA
46783702 AAATTAAAGTTTCAAGTATATATATGAACT
1 AAATTAAAGTTTCAAGTATATATATGAACT
* * * *
46783732 ACAATTAAAGTTTTACGTGTATA-ATTGCACT
1 A-AATTAAAGTTTCAAGTATATATA-TGAACT
* *
46783763 AAATTAAA-ATTCATGTATATA
1 AAATTAAAGTTTCAAGTATATA
46783784 ATTACACATT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
29 9 0.21
30 9 0.21
31 24 0.57
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.38
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATATATATGAACT
Found at i:46783786 original size:29 final size:30
Alignment explanation
Indices: 46783751--46783812 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
46783741 GTTTTACGTG
*
46783751 TATAATTGCAC-TAAATTAAAATTCATGTA
1 TATAATTACACATAAATTAAAATTCATGTA
* *
46783780 TATAATTACACATTAAATTAAAGTTGATGTA
1 TATAATTACACA-TAAATTAAAATTCATGTA
46783811 TA
1 TA
46783813 ATTTTGAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 10 0.36
31 18 0.64
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (30 bp):
TATAATTACACATAAATTAAAATTCATGTA
Found at i:46783813 original size:29 final size:27
Alignment explanation
Indices: 46783749--46783815 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
46783739 AAGTTTTACG
*
46783749 TGTATAATTGCACTAAATTAAAATTCA
1 TGTATAATTACACTAAATTAAAATTCA
* *
46783776 TGTATATAATTACACATTAAATTAAAGTTGA
1 TG--TATAATTACAC--TAAATTAAAATTCA
46783807 TGTATAATT
1 TGTATAATT
46783816 TTGAGATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.06
29 17 0.52
31 14 0.42
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.40
Consensus pattern (27 bp):
TGTATAATTACACTAAATTAAAATTCA
Found at i:46790454 original size:21 final size:21
Alignment explanation
Indices: 46790428--46790470 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
46790418 CTAAGGATAT
*
46790428 ATGGTCTCGGGTAATACCAGC
1 ATGGTCTCGGATAATACCAGC
*
46790449 ATGGTCTCGGATGATACCAGC
1 ATGGTCTCGGATAATACCAGC
46790470 A
1 A
46790471 GACTAGTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (21 bp):
ATGGTCTCGGATAATACCAGC
Found at i:46791686 original size:29 final size:27
Alignment explanation
Indices: 46791638--46791730 Score: 77
Period size: 28 Copynumber: 3.4 Consensus size: 27
46791628 TTCTTTAACA
*
46791638 TTTAAAAAATAT-AT-ATTTTTATACTT
1 TTTAAAAAATTTAATAATTTTTATA-TT
46791664 TTTAAATAAATTTAATAATTTTTA-ATT
1 TTTAAA-AAATTTAATAATTTTTATATT
** *
46791691 TTTAAAAATAATTTTTTAATTTTT-TAAAT
1 TTT-AAAA-AATTTAATAATTTTTAT-ATT
46791720 TTTAAAAAATT
1 TTTAAAAAATT
46791731 AATTAAATGT
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
26 6 0.11
27 15 0.27
28 23 0.41
29 12 0.21
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (27 bp):
TTTAAAAAATTTAATAATTTTTATATT
Found at i:46791703 original size:28 final size:27
Alignment explanation
Indices: 46791618--46791728 Score: 84
Period size: 29 Copynumber: 4.0 Consensus size: 27
46791608 ACATGTCAAC
**
46791618 ATTTAATTAATTCTTTAACATTT-AAAAA
1 ATTTAA-TAATT-TTTAATTTTTAAAAAA
* *
46791646 ATAT-AT-ATTTTTATACTTTTTAAATAA
1 ATTTAATAATTTTTA-A-TTTTTAAAAAA
46791673 ATTTAATAATTTTTAATTTTTAAAAATA
1 ATTTAATAATTTTTAATTTTTAAAAA-A
** *
46791701 ATTTTTTAATTTTTTAAATTTTAAAAAA
1 ATTTAATAA-TTTTTAATTTTTAAAAAA
46791729 TTAATTAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
24 4 0.06
25 4 0.06
26 4 0.06
27 17 0.25
28 15 0.22
29 23 0.34
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (27 bp):
ATTTAATAATTTTTAATTTTTAAAAAA
Found at i:46794954 original size:17 final size:18
Alignment explanation
Indices: 46794918--46794956 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
46794908 AGTTAGTAAA
46794918 TTTTTCGATCGTAAATTT
1 TTTTTCGATCGTAAATTT
* *
46794936 TTTTTTGATTGTAAATTT
1 TTTTTCGATCGTAAATTT
46794954 TTT
1 TTT
46794957 CGATCCTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.10, T:0.64
Consensus pattern (18 bp):
TTTTTCGATCGTAAATTT
Found at i:46795344 original size:73 final size:73
Alignment explanation
Indices: 46795204--46795344 Score: 164
Period size: 73 Copynumber: 1.9 Consensus size: 73
46795194 TTGCTTACAT
* * * *
46795204 CATCATTGGTTTGATGATGGCTTCCACGTTGCAAGACTTGTTTGTCTGCATATGGATTGTCTTCT
1 CATCATTGGTTTGATGATGACATCCACGTTGCAAGACTTGTTTGTCGGCATATGGATTGTCTCCT
46795269 TTTGTCTC
66 TTTGTCTC
* *
46795277 CATCA-TGGATTTGATGATGACATCCACGTTGCCAA-ACTT-TGTTGTCGGTATGTGGATT-TCC
1 CATCATTGG-TTTGATGATGACATCCACGTTG-CAAGACTTGT-TTGTCGGCATATGGATTGT-C
46795338 TCCTTTT
62 TCCTTTT
46795345 CAGGTTGCCA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
72 5 0.09
73 50 0.86
74 3 0.05
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (73 bp):
CATCATTGGTTTGATGATGACATCCACGTTGCAAGACTTGTTTGTCGGCATATGGATTGTCTCCT
TTTGTCTC
Found at i:46796687 original size:18 final size:19
Alignment explanation
Indices: 46796650--46796688 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
46796640 AGTTAGTAAA
46796650 TTTTTCGATCGTAAATTTT
1 TTTTTCGATCGTAAATTTT
* *
46796669 TTTTTTGATTGTAAATTTT
1 TTTTTCGATCGTAAATTTT
46796688 T
1 T
46796689 CGATGCTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.05, G:0.10, T:0.64
Consensus pattern (19 bp):
TTTTTCGATCGTAAATTTT
Found at i:46801726 original size:18 final size:19
Alignment explanation
Indices: 46801689--46801728 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
46801679 AGTTAGTAAA
46801689 TTTTTCGATCGTAAATTTT
1 TTTTTCGATCGTAAATTTT
* *
46801708 TTTTTTGATTGTAAATTTT
1 TTTTTCGATCGTAAATTTT
46801727 TT
1 TT
46801729 CGATGCTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.65
Consensus pattern (19 bp):
TTTTTCGATCGTAAATTTT
Found at i:46806356 original size:17 final size:18
Alignment explanation
Indices: 46806320--46806358 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
46806310 AGTTAGTAAA
46806320 TTTTTCGATCGTAAATTT
1 TTTTTCGATCGTAAATTT
* *
46806338 TTTTTTGATTGTAAATTT
1 TTTTTCGATCGTAAATTT
46806356 TTT
1 TTT
46806359 CGATCCTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.10, T:0.64
Consensus pattern (18 bp):
TTTTTCGATCGTAAATTT
Found at i:46808083 original size:18 final size:19
Alignment explanation
Indices: 46808046--46808085 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
46808036 AGTTAGTAAA
46808046 TTTTTCGATCGTAAATTTT
1 TTTTTCGATCGTAAATTTT
* *
46808065 TTTTTTGATTGTAAATTTT
1 TTTTTCGATCGTAAATTTT
46808084 TT
1 TT
46808086 CGATGCTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.65
Consensus pattern (19 bp):
TTTTTCGATCGTAAATTTT
Found at i:46821330 original size:21 final size:21
Alignment explanation
Indices: 46821300--46821339 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
46821290 TACAATAAAA
46821300 AAAATATTTGTTAGAAAATTC
1 AAAATATTTGTTAGAAAATTC
*
46821321 AAAATCTTTGTTAGAAAAT
1 AAAATATTTGTTAGAAAAT
46821340 CTAAGATAGT
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:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (21 bp):
AAAATATTTGTTAGAAAATTC
Found at i:46821521 original size:27 final size:27
Alignment explanation
Indices: 46821490--46821575 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 27
46821480 GACTTTTATG
46821490 TCTTCATCCTGATCTGTTGAAGTTTTT
1 TCTTCATCCTGATCTGTTGAAGTTTTT
* * **
46821517 TCTTCAT-CAGATAAAT-TTCTA-TTTTT
1 TCTTCATCCTGAT--CTGTTGAAGTTTTT
*
46821543 TATT--TCCTGATCTGTTGAAGTTTTT
1 TCTTCATCCTGATCTGTTGAAGTTTTT
46821568 TCTTCATC
1 TCTTCATC
46821576 AAATTGTTTC
Statistics
Matches: 42, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
23 1 0.02
24 4 0.10
25 12 0.29
26 12 0.29
27 12 0.29
28 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.10, T:0.53
Consensus pattern (27 bp):
TCTTCATCCTGATCTGTTGAAGTTTTT
Found at i:46823733 original size:43 final size:43
Alignment explanation
Indices: 46823672--46823759 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
46823662 TCCAATCTAT
46823672 ATTTTATAGTTGGACAATTATTTCCAATAAAATTTATAAAAAC
1 ATTTTATAGTTGGACAATTATTTCCAATAAAATTTATAAAAAC
46823715 ATTTTATAGTTGGACAATTATTTCCAATAAAATTTATAAAAAC
1 ATTTTATAGTTGGACAATTATTTCCAATAAAATTTATAAAAAC
46823758 AT
1 AT
46823760 AAGATTGTAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (43 bp):
ATTTTATAGTTGGACAATTATTTCCAATAAAATTTATAAAAAC
Found at i:46827063 original size:27 final size:27
Alignment explanation
Indices: 46827032--46827117 Score: 72
Period size: 25 Copynumber: 3.3 Consensus size: 27
46827022 GACTTTTATG
46827032 TCTTCATCCTGATCTGTTGAAGTTTTT
1 TCTTCATCCTGATCTGTTGAAGTTTTT
* *** **
46827059 TCTTCAT-CAGATAAAATTCTA-TTTTT
1 TCTTCATCCTGAT-CTGTTGAAGTTTTT
*
46827085 TATT--TCCTGATCTGTTGAAGTTTTT
1 TCTTCATCCTGATCTGTTGAAGTTTTT
46827110 TCTTCATC
1 TCTTCATC
46827118 AGATTGTTTC
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
24 4 0.10
25 12 0.30
26 12 0.30
27 12 0.30
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.52
Consensus pattern (27 bp):
TCTTCATCCTGATCTGTTGAAGTTTTT
Found at i:46834092 original size:29 final size:29
Alignment explanation
Indices: 46834043--46834098 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
46834033 ATAGAGACTT
*
46834043 GATTAAATTAGTCCATCTACTATTAAATG
1 GATTAAATTAGTCCATCTACTACTAAATG
* * *
46834072 GATTAATTTAGTCCTTGTACTACTAAA
1 GATTAAATTAGTCCATCTACTACTAAA
46834099 AAAGAATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (29 bp):
GATTAAATTAGTCCATCTACTACTAAATG
Found at i:46835672 original size:12 final size:13
Alignment explanation
Indices: 46835648--46835676 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
46835638 TTTTTGATGT
46835648 ATTATATTAAAAA
1 ATTATATTAAAAA
46835661 ATTATA-TAAAAA
1 ATTATATTAAAAA
46835673 ATTA
1 ATTA
46835677 ATCCGGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTATATTAAAAA
Found at i:46837539 original size:15 final size:15
Alignment explanation
Indices: 46837521--46837553 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
46837511 CAAATGCCAT
46837521 AATAATAAATACAAC
1 AATAATAAATACAAC
*
46837536 AATAATAAATACATC
1 AATAATAAATACAAC
46837551 AAT
1 AAT
46837554 GGCATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:46838150 original size:21 final size:21
Alignment explanation
Indices: 46838097--46838151 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 21
46838087 TTTTAAAAAA
* *
46838097 ATATAAAT-AAATATGTACAT
1 ATATAAATAAAAAATATACAT
* *
46838117 A-A-AAACAACAAATATACAT
1 ATATAAATAAAAAATATACAT
46838136 ATATAAATAAAAAATA
1 ATATAAATAAAAAATA
46838152 ATTACAGAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
18 3 0.12
19 11 0.42
20 2 0.08
21 10 0.38
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.25
Consensus pattern (21 bp):
ATATAAATAAAAAATATACAT
Found at i:46839954 original size:45 final size:45
Alignment explanation
Indices: 46839904--46839999 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 45
46839894 GTAACGATAG
* *
46839904 CAGTAACAATAACAGTATTCAACACACAAAGTG-CTGAATCTGTAA
1 CAGTAACAATAACAGTATTCAACACACAAAGTGTC-AAATCGGTAA
** * *
46839949 CAGTAACGGTAACAGTATTCGATACACAAAGTGTCAAATCGGTAA
1 CAGTAACAATAACAGTATTCAACACACAAAGTGTCAAATCGGTAA
46839994 CAGTAA
1 CAGTAA
46840000 TAGTAGTTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
45 43 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.22
Consensus pattern (45 bp):
CAGTAACAATAACAGTATTCAACACACAAAGTGTCAAATCGGTAA
Found at i:46841216 original size:30 final size:29
Alignment explanation
Indices: 46841182--46841238 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
46841172 TTATCAAGTA
46841182 AATAAA-ATCTTTTAATATAATAATTTAATT
1 AATAAATATCTTTTAAT-TAA-AATTTAATT
*
46841212 AATAAATATCTTTTACTTAAAATTTAA
1 AATAAATATCTTTTAATTAAAATTTAA
46841239 GAAAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 7 0.28
30 9 0.36
31 9 0.36
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (29 bp):
AATAAATATCTTTTAATTAAAATTTAATT
Found at i:46841363 original size:17 final size:16
Alignment explanation
Indices: 46841332--46841375 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
46841322 GATTTATTTA
46841332 ATAATATAATATCATT
1 ATAATATAATATCATT
*
46841348 ATAATTTAACTATCATT
1 ATAATATAA-TATCATT
*
46841365 AATTATATAAT
1 -ATAATATAAT
46841376 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.35
17 8 0.35
18 7 0.30
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAATATAATATCATT
Found at i:46845973 original size:29 final size:29
Alignment explanation
Indices: 46845950--46846006 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
46845940 TATTATTGTT
*
46845950 ATTATTTTATTATATTAT-AAATTAAATTG
1 ATTATATTATTATATTATGAAATT-AATTG
*
46845979 ATTATATTATTATATTATGAAATAAATT
1 ATTATATTATTATATTATGAAATTAATT
46846007 AAGAAAAGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (29 bp):
ATTATATTATTATATTATGAAATTAATTG
Found at i:46845989 original size:37 final size:37
Alignment explanation
Indices: 46845925--46845996 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
46845915 ATGATTGTTT
* * *
46845925 TATTATAAAATATATTATTATTGTTATTATTTTATTA
1 TATTATAAAATAAATTATTATTATTATTATATTATTA
*
46845962 TATTATAAATTAAATTGATTA-TATTATTATATTAT
1 TATTATAAAATAAATT-ATTATTATTATTATATTAT
46845997 GAAATAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 26 0.87
38 4 0.13
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (37 bp):
TATTATAAAATAAATTATTATTATTATTATATTATTA
Found at i:46846471 original size:22 final size:22
Alignment explanation
Indices: 46846446--46846495 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
46846436 AAACTAAAGT
*
46846446 AAAATAAAATAAAAAATAAAAA
1 AAAACAAAATAAAAAATAAAAA
**
46846468 AAAACAAAATAAAGCATAAAAA
1 AAAACAAAATAAAAAATAAAAA
*
46846490 GAAACA
1 AAAACA
46846496 GAACCATTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.10
Consensus pattern (22 bp):
AAAACAAAATAAAAAATAAAAA
Found at i:46847510 original size:38 final size:38
Alignment explanation
Indices: 46847408--46847540 Score: 135
Period size: 38 Copynumber: 3.4 Consensus size: 38
46847398 GACGTCGAGT
* * *
46847408 CGATGAGACACTGGGTGTCACTATTTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA--ACTTTACTTCGGCTAG-TC
* * *
46847449 CGATGAGATACTGGGTATC-ACTTTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTTTACTTCGGCTAGTC
* *
46847486 CGATGAGACACTGGGTGTCAACTTTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTTTACTTCG-GCTAGTC
*
46847524 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
46847541 CCAATCTGGT
Statistics
Matches: 78, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
37 17 0.22
38 41 0.53
39 3 0.04
41 17 0.22
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGGCTAGTC
Found at i:46851135 original size:20 final size:21
Alignment explanation
Indices: 46851110--46851159 Score: 77
Period size: 19 Copynumber: 2.4 Consensus size: 21
46851100 TTTAAAATAC
46851110 TTTAAAAATATTTTTT-TATT
1 TTTAAAAATATTTTTTATATT
46851130 TTT-AAAATATTTTTTATATT
1 TTTAAAAATATTTTTTATATT
46851150 TATTAAAAAT
1 T-TTAAAAAT
46851160 CGGGCCGGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 12 0.44
20 8 0.30
21 2 0.07
22 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTAAAAATATTTTTTATATT
Found at i:46851144 original size:18 final size:19
Alignment explanation
Indices: 46851114--46851151 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
46851104 AAATACTTTA
*
46851114 AAAATATTTTTTTATTTTT
1 AAAATATTTTTTTATATTT
46851133 AAAATA-TTTTTTATATTT
1 AAAATATTTTTTTATATTT
46851151 A
1 A
46851152 TTAAAAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
AAAATATTTTTTTATATTT
Found at i:46851645 original size:31 final size:31
Alignment explanation
Indices: 46851576--46851650 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
46851566 TGTGTAATTA
* *
46851576 TACATATTAAAATTTGATTTTGATTCAAATG
1 TACACATTAAAATTTGATTTTGATACAAATG
* * * *
46851607 TATACATTAAACTTTGATTTTGATACGATTG
1 TACACATTAAAATTTGATTTTGATACAAATG
*
46851638 TACACATTTAAAT
1 TACACATTAAAAT
46851651 AAATGAATAA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (31 bp):
TACACATTAAAATTTGATTTTGATACAAATG
Found at i:46851940 original size:41 final size:41
Alignment explanation
Indices: 46851889--46851976 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 41
46851879 TAATCAAAAC
46851889 ATGA-ATATAACACATAATTAATCATATTAAATCTTGAAAT
1 ATGACATATAACACATAATTAATCATATTAAATCTTGAAAT
46851929 ATGACATATAACACATAATTAATCATATTAAATCTTGAAAT
1 ATGACATATAACACATAATTAATCATATTAAATCTTGAAAT
46851970 ATGACAT
1 ATGACAT
46851977 GTGACTTATC
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 4 0.09
41 43 0.91
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (41 bp):
ATGACATATAACACATAATTAATCATATTAAATCTTGAAAT
Found at i:46858470 original size:25 final size:24
Alignment explanation
Indices: 46858433--46858528 Score: 77
Period size: 25 Copynumber: 3.8 Consensus size: 24
46858423 ATGCATATAT
* *
46858433 GAGCACATAAACGGGAAGCT-CATGT
1 GAGC-CATTAACGGGAAGCTCCA-GA
46858458 GAGCCATGTAACGGGAAGCTCCAGA
1 GAGCCAT-TAACGGGAAGCTCCAGA
* * *
46858483 GAGCCATTAACGAGAAGCTTACAAA
1 GAGCCATTAACGGGAAGC-TCCAGA
* *
46858508 GAGCCTTTAATCAGGAAGCTC
1 GAGCCATTAA-CGGGAAGCTC
46858529 ACGAAGAGCC
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
24 13 0.22
25 37 0.64
26 8 0.14
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCCAGA
Found at i:46858635 original size:24 final size:24
Alignment explanation
Indices: 46858603--46858684 Score: 60
Period size: 24 Copynumber: 3.4 Consensus size: 24
46858593 AAACCAAATT
*
46858603 GGGATGCTCCGAAGAGCTATTAAC
1 GGGAAGCTCCGAAGAGCTATTAAC
* * *
46858627 GGGAAGCT-CGCAAGAACCATTTATC
1 GGGAAGCTCCG-AAGAGCTA-TTAAC
* *
46858652 GGGAAGCTCATG-AGAGCTAATAAC
1 GGGAAGCTC-CGAAGAGCTATTAAC
*
46858676 GGGACGCTC
1 GGGAAGCTC
46858685 TTTCGAGCTG
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
23 2 0.05
24 24 0.55
25 17 0.39
27 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.18
Consensus pattern (24 bp):
GGGAAGCTCCGAAGAGCTATTAAC
Found at i:46861378 original size:15 final size:15
Alignment explanation
Indices: 46861358--46861409 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
46861348 ACTACAAAAC
46861358 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
46861373 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
46861392 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
46861407 ATT
1 ATT
46861410 AGTATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:46861518 original size:22 final size:22
Alignment explanation
Indices: 46861490--46861533 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
46861480 TGTTAAATAA
46861490 TTTATTAAAATAATAAATTATT
1 TTTATTAAAATAATAAATTATT
* * *
46861512 TTTATTATATTAATAATTTATT
1 TTTATTAAAATAATAAATTATT
46861534 ATATGACTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTATTAAAATAATAAATTATT
Found at i:46862961 original size:36 final size:36
Alignment explanation
Indices: 46862921--46862989 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 36
46862911 TTTGCTACAA
* * * *
46862921 TTTCACTATTATATTATTATTATTTTGTTGTTATTG
1 TTTCAATATTATATAACTATTATTTTATTGTTATTG
* *
46862957 TTTCAATATTTTATAACTCTTATTTTATTGTTA
1 TTTCAATATTATATAACTATTATTTTATTGTTA
46862990 ATTTTGTTAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.06, T:0.62
Consensus pattern (36 bp):
TTTCAATATTATATAACTATTATTTTATTGTTATTG
Found at i:46868885 original size:2 final size:2
Alignment explanation
Indices: 46868878--46868913 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
46868868 ATTTTCAGAC
46868878 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
46868914 GGAAAAAGAA
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:46870539 original size:31 final size:29
Alignment explanation
Indices: 46870501--46870577 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
46870491 TTAACGGCTC
* *
46870501 AGTGACTAAAATGTTACATCATGATAACATA
1 AGTGACTAAAATGTAACAT-ATCA-AACATA
* * *
46870532 AGTGACTACAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACATATCAAACATA
46870561 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
46870578 CTGAACCAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 21 0.54
30 2 0.05
31 16 0.41
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (29 bp):
AGTGACTAAAATGTAACATATCAAACATA
Found at i:46872431 original size:55 final size:55
Alignment explanation
Indices: 46872347--46872458 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
46872337 CCTATGCAAA
46872347 TTGAAGCTTTGGTTTAACTAGTGAAATTAAAATTTTAATTGTTATGGGTTAAAGT
1 TTGAAGCTTTGGTTTAACTAGTGAAATTAAAATTTTAATTGTTATGGGTTAAAGT
46872402 TTGAAGCTTTGGTTTAACTAGTGAAATTAAAATTTTAATTGTTATGGGTTAAAGT
1 TTGAAGCTTTGGTTTAACTAGTGAAATTAAAATTTTAATTGTTATGGGTTAAAGT
46872457 TT
1 TT
46872459 AAAATAAGTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.45
Consensus pattern (55 bp):
TTGAAGCTTTGGTTTAACTAGTGAAATTAAAATTTTAATTGTTATGGGTTAAAGT
Found at i:46883746 original size:16 final size:16
Alignment explanation
Indices: 46883713--46883762 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
46883703 AAAAACACGA
*
46883713 ATAAAAAATTAATT-AT
1 ATAAAAAA-TATTTAAT
*
46883729 ATTAAAAATATTTAAT
1 ATAAAAAATATTTAAT
46883745 ATAAAAAATATTTAAT
1 ATAAAAAATATTTAAT
46883761 AT
1 AT
46883763 GGATATAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
15 4 0.13
16 26 0.87
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAAAAAATATTTAAT
Found at i:46886972 original size:14 final size:14
Alignment explanation
Indices: 46886955--46886981 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46886945 TATCATTTGA
46886955 AATTTAATTTTTAT
1 AATTTAATTTTTAT
46886969 AATTTAATTTTTA
1 AATTTAATTTTTA
46886982 AAATAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AATTTAATTTTTAT
Found at i:46887556 original size:29 final size:30
Alignment explanation
Indices: 46887501--46887558 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
46887491 ACTTGGATTT
* *
46887501 TTAAAATTGAAAAGTAGAGTGACTAAATTC
1 TTAAAAATGAAAAGTAGAGAGACTAAATTC
* *
46887531 TTAAAAAT-AAAAGTAGTGAGATTAAATT
1 TTAAAAATGAAAAGTAGAGAGACTAAATT
46887559 TCAAATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.50, C:0.03, G:0.16, T:0.31
Consensus pattern (30 bp):
TTAAAAATGAAAAGTAGAGAGACTAAATTC
Found at i:46901837 original size:27 final size:27
Alignment explanation
Indices: 46901789--46901846 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
46901779 AAACCCGGTG
* * *
46901789 CAGCAGCAGCCACTCCAGGGTTAAACC
1 CAGCAGCAGCAACACAAGGGTTAAACC
* *
46901816 CAGCAGCAGCAACACAATGGTTGAACC
1 CAGCAGCAGCAACACAAGGGTTAAACC
46901843 CAGC
1 CAGC
46901847 TCCAGCAGGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.34, G:0.22, T:0.10
Consensus pattern (27 bp):
CAGCAGCAGCAACACAAGGGTTAAACC
Found at i:46902784 original size:3 final size:3
Alignment explanation
Indices: 46902778--46902812 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
46902768 CTCGTCATCT
46902778 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
46902813 TTCAAATTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
TCC
Found at i:46905908 original size:15 final size:15
Alignment explanation
Indices: 46905890--46905945 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
46905880 TAACACATGA
*
46905890 AATAATATGTACGGT
1 AATAAAATGTACGGT
* *
46905905 AATAAAATGTA-TGA
1 AATAAAATGTACGGT
*
46905919 AATAAAATGTATGGT
1 AATAAAATGTACGGT
46905934 AATAAAATGTAC
1 AATAAAATGTAC
46905946 AAAAACATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 12 0.35
15 22 0.65
ACGTcount: A:0.50, C:0.04, G:0.16, T:0.30
Consensus pattern (15 bp):
AATAAAATGTACGGT
Found at i:46905920 original size:29 final size:29
Alignment explanation
Indices: 46905886--46905944 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
46905876 ATAATAACAC
*
46905886 ATGAAATAATATGTACGGTAATAAAATGT
1 ATGAAATAAAATGTACGGTAATAAAATGT
*
46905915 ATGAAATAAAATGTATGGTAATAAAATGT
1 ATGAAATAAAATGTACGGTAATAAAATGT
46905944 A
1 A
46905945 CAAAAACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.31
Consensus pattern (29 bp):
ATGAAATAAAATGTACGGTAATAAAATGT
Found at i:46915152 original size:5 final size:5
Alignment explanation
Indices: 46915138--46915166 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
46915128 ACATAAGTGC
46915138 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
46915167 ATTGTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:46927522 original size:44 final size:43
Alignment explanation
Indices: 46927242--46927623 Score: 214
Period size: 44 Copynumber: 8.9 Consensus size: 43
46927232 ATTATACAGG
* *** * *
46927242 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---GAGA
* * * *
46927288 TCTTATCTCCCTGAGATTACAGCGGAGCAGA-TCAAGGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAG--A
* * * *
46927332 TCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA--AG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAGA
* * * * *
46927371 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACATCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-AGCAGAGA
* *** * *
46927412 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---GAGA
*
46927458 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* * **
46927502 TCTTATCTCCCTGAGATTACAGCGGAGC--ATCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* * * **
46927543 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAGAGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT-GAAGCAGAGA
* *
46927587 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG
46927624 ACACTATCTT
Statistics
Matches: 259, Mismatches: 55, Indels: 47
0.72 0.15 0.13
Matches are distributed among these distances:
38 2 0.01
39 24 0.09
40 2 0.01
41 53 0.20
42 16 0.06
43 5 0.02
44 88 0.34
45 7 0.03
46 61 0.24
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAGA
Found at i:46927568 original size:85 final size:86
Alignment explanation
Indices: 46927461--46927654 Score: 291
Period size: 85 Copynumber: 2.3 Consensus size: 86
46927451 TTTCAGATCT
* * * *
46927461 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAGAGATCTTATCTCCCTGAGATTACAGCG
46927526 GAGC-ATCGAAGACACTATCC
66 GAGCAATCGAAGACACTATCC
* *
46927546 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGAGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAGAGATCTTATCTCCCTGAGATTACAGCG
*
46927611 GAGCAGATCGAAGACACTATCT
66 GAGCA-ATCGAAGACACTATCC
* *
46927633 TATCCCCCTGAAGTTGCAGTGG
1 TATCTCCCTGAAGTTACAGTGG
46927655 CCCAAGTTGA
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
85 63 0.64
87 35 0.36
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (86 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAGAGATCTTATCTCCCTGAGATTACAGCG
GAGCAATCGAAGACACTATCC
Found at i:46929402 original size:27 final size:25
Alignment explanation
Indices: 46929371--46929434 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 25
46929361 GTGTCCCTTT
*
46929371 TTTTTATATAT-ATGTAAATCTCCATA
1 TTTTTATATATCATATAAAT-T-CATA
*
46929397 TATTTTACATATGCATATAAATTCATA
1 T-TTTTATATAT-CATATAAATTCATA
46929424 TTTTTATATAT
1 TTTTTATATAT
46929435 TTTATAATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
26 10 0.31
27 14 0.44
28 1 0.03
29 7 0.22
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (25 bp):
TTTTTATATATCATATAAATTCATA
Found at i:46929609 original size:5 final size:5
Alignment explanation
Indices: 46929595--46929623 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
46929585 ACATAAGTGC
46929595 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
46929624 ATTGTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:46933523 original size:21 final size:21
Alignment explanation
Indices: 46933497--46933552 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
46933487 AACAGCGGTG
* *
46933497 GCGGTGAGATTAGGTACTGTA
1 GCGGTGAGATTAGATAATGTA
46933518 GCGGTGAGATTAGATAATGTA
1 GCGGTGAGATTAGATAATGTA
*
46933539 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
46933553 AACAGTGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.07, G:0.36, T:0.27
Consensus pattern (21 bp):
GCGGTGAGATTAGATAATGTA
Found at i:46933761 original size:19 final size:18
Alignment explanation
Indices: 46933715--46933753 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
46933705 ATATTATTAA
46933715 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
46933733 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
46933750 ATAT
1 ATAT
46933754 TGAATTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:46933767 original size:19 final size:16
Alignment explanation
Indices: 46933715--46933768 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 16
46933705 ATATTATTAA
46933715 ATATAATTTAATAAAAAT
1 ATATAATTT-A-AAAAAT
46933733 ATATAATTTAATAAAAT
1 ATATAATTTAA-AAAAT
46933750 ATATTGAATTTACAAAAAT
1 ATA-T-AATTTA-AAAAAT
46933769 TCAATCACAG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 1 0.03
17 9 0.28
18 10 0.31
19 11 0.34
20 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (16 bp):
ATATAATTTAAAAAAT
Found at i:46934106 original size:17 final size:18
Alignment explanation
Indices: 46934084--46934118 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
46934074 AGAGCAAACC
46934084 AAGGGGAA-GGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
46934101 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
46934119 GAGAAGAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGGAAAGGG
Found at i:46938822 original size:4 final size:4
Alignment explanation
Indices: 46938815--46938859 Score: 81
Period size: 4 Copynumber: 11.2 Consensus size: 4
46938805 TTTGTGTGTG
*
46938815 TGTA TGTA TGTA TGTA TATA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
46938860 ATTAGAGCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:46942937 original size:8 final size:8
Alignment explanation
Indices: 46942924--46942954 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
46942914 GTTAAAATAT
46942924 ATATTATA
1 ATATTATA
46942932 ATATTATA
1 ATATTATA
46942940 ATATTATA
1 ATATTATA
46942948 ATATTAT
1 ATATTAT
46942955 TTCTTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
ATATTATA
Found at i:46943065 original size:10 final size:10
Alignment explanation
Indices: 46943014--46943076 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 10
46943004 TATAATAAAT
*
46943014 AAAAGAAACA
1 AAAAGAAAGA
46943024 AAAAGAAAGA
1 AAAAGAAAGA
*
46943034 CAGAAGGTTAAACGA
1 -A-AAAG--AAA-GA
*
46943049 AATAGAAAGA
1 AAAAGAAAGA
46943059 AAAAGAAAGA
1 AAAAGAAAGA
46943069 AAAAGAAA
1 AAAAGAAA
46943077 AAGAGAAAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
10 28 0.65
11 4 0.09
12 3 0.07
13 2 0.05
14 4 0.09
15 2 0.05
ACGTcount: A:0.71, C:0.05, G:0.19, T:0.05
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:46943085 original size:12 final size:13
Alignment explanation
Indices: 46943056--46943101 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 13
46943046 CGAAATAGAA
46943056 AGAAA-AAGAAAG
1 AGAAAGAAGAAAG
*
46943068 AAAAAGAA-AAAG
1 AGAAAGAAGAAAG
46943080 AGAAAGAAGGAAAGG
1 AGAAAGAA-GAAA-G
46943095 AGAAAGA
1 AGAAAGA
46943102 TGCAAAGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 15 0.54
13 2 0.07
14 3 0.11
15 8 0.29
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AGAAAGAAGAAAG
Found at i:46943099 original size:15 final size:15
Alignment explanation
Indices: 46943052--46943101 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
46943042 TAAACGAAAT
46943052 AGAAAGAA-AAAGAA-
1 AGAAAGAAGAAA-AAG
46943066 AGAAA-AAGAAAAAG
1 AGAAAGAAGAAAAAG
* *
46943080 AGAAAGAAGGAAAGG
1 AGAAAGAAGAAAAAG
46943095 AGAAAGA
1 AGAAAGA
46943102 TGCAAAGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 4 0.13
14 13 0.42
15 14 0.45
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (15 bp):
AGAAAGAAGAAAAAG
Found at i:46944059 original size:40 final size:39
Alignment explanation
Indices: 46943964--46944059 Score: 97
Period size: 40 Copynumber: 2.5 Consensus size: 39
46943954 TAATTCGATA
* ** *
46943964 AGGCACTGGGTGCC-AA-TTTATTTCGGTTTAACCGATG
1 AGGCACTGGGTGCCAAATTTTACTTCGAATTAACCAATG
* ** *
46944001 AGACACTGGGTGTTAAATTATTACTTCGAATTATCCAATG
1 AGGCACTGGGTGCCAAATT-TTACTTCGAATTAACCAATG
46944041 AGGCACTGGGTGCCAAATT
1 AGGCACTGGGTGCCAAATT
46944060 GGTATGTTTT
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
37 11 0.24
38 2 0.04
39 1 0.02
40 31 0.69
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (39 bp):
AGGCACTGGGTGCCAAATTTTACTTCGAATTAACCAATG
Found at i:46945984 original size:28 final size:28
Alignment explanation
Indices: 46945951--46946047 Score: 106
Period size: 28 Copynumber: 3.5 Consensus size: 28
46945941 TAATGAGATT
* *
46945951 AGCACTAAGTGTGCGAGTTTAATTG-AA
1 AGCACTAAGTGTGCGAGTATAATGGTAA
*
46945978 ATGCACTAAGTGTTCGAGTATAATGGTAA
1 A-GCACTAAGTGTGCGAGTATAATGGTAA
* * ** *
46946007 AGCACTAAGTGTGCGAGTGTGATTATTA
1 AGCACTAAGTGTGCGAGTATAATGGTAA
46946035 AGCACTAAGTGTG
1 AGCACTAAGTGTG
46946048 AGTACTTATT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
27 1 0.02
28 55 0.93
29 3 0.05
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTATAATGGTAA
Found at i:46959981 original size:18 final size:18
Alignment explanation
Indices: 46959958--46959992 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46959948 TTACATATAA
46959958 AAATAATAATTGTATTTG
1 AAATAATAATTGTATTTG
* *
46959976 AAATAATTATTTTATTT
1 AAATAATAATTGTATTT
46959993 TATAATATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (18 bp):
AAATAATAATTGTATTTG
Found at i:46961125 original size:16 final size:16
Alignment explanation
Indices: 46961100--46961139 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
46961090 GAAAATTTAT
*
46961100 ATTTTCCACCC-TTCA
1 ATTTTTCACCCTTTCA
46961115 AGTTTTTCACCCTTTCA
1 A-TTTTTCACCCTTTCA
46961132 ATTTTTCA
1 ATTTTTCA
46961140 TATTTCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 16 0.73
17 5 0.23
ACGTcount: A:0.20, C:0.30, G:0.03, T:0.47
Consensus pattern (16 bp):
ATTTTTCACCCTTTCA
Found at i:46962111 original size:50 final size:50
Alignment explanation
Indices: 46962036--46962269 Score: 265
Period size: 50 Copynumber: 4.7 Consensus size: 50
46962026 CATTTGGGTA
** *
46962036 AAGAGGTCCCATGTAAGACCATGTCTGGGACACAGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
46962086 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * * *
46962136 GAGAGGTCCCCCGTAAGACCATGTATGGGACATGGCATGGGCATCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
** * * * *
46962186 AAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGAT
* ** *
46962235 AAAACATCCCATGTAAGACCATGTCTGAGACATGG
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGG
46962270 GTTTGGCATG
Statistics
Matches: 156, Mismatches: 27, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
48 1 0.01
49 31 0.20
50 124 0.79
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.20
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:46966581 original size:43 final size:43
Alignment explanation
Indices: 46966545--46966732 Score: 130
Period size: 43 Copynumber: 4.6 Consensus size: 43
46966535 TATATAATAC
*
46966545 TAAAAAATATAATTTAA-AATAATTATTATTAAATATAATTTAA
1 TAAAAAATATAATTTAATAA-AATTATTATTAAATATAATATAA
* * * *
46966588 TAAAATATATAATTTAATAAAATTATTA--ATATTTAA-ATAT
1 TAAAAAATATAATTTAATAAAATTATTATTAAATATAATATAA
*** * * * *
46966628 TCTTAAAT-GAATTTACTAAAATCA-TA--ATATATAATACT-A
1 TAAAAAATATAATTTAATAAAATTATTATTAAATATAATA-TAA
* *
46966667 T--AAAATATAATTTAA-AATAATAATTATTAAATATAATTTAA
1 TAAAAAATATAATTTAATAA-AATTATTATTAAATATAATATAA
46966708 TAAAAATATATAATTTAATAAAATT
1 TAAAAA-ATATAATTTAATAAAATT
46966733 CTTAATATTA
Statistics
Matches: 111, Mismatches: 21, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
37 6 0.05
38 19 0.17
39 17 0.15
40 8 0.07
41 16 0.14
43 27 0.24
44 16 0.14
45 2 0.02
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (43 bp):
TAAAAAATATAATTTAATAAAATTATTATTAAATATAATATAA
Found at i:46966582 original size:26 final size:25
Alignment explanation
Indices: 46966549--46966716 Score: 83
Period size: 26 Copynumber: 6.8 Consensus size: 25
46966539 TAATACTAAA
46966549 AAATATAATTTAAAATAATTATTATT
1 AAATATAATTTAAAATAA-TATTATT
46966575 AAATATAATTTAATAA-AATA-TA-T
1 AAATATAATTTAA-AATAATATTATT
* * *
46966598 -AATTTAA--TAAAATTATTAATATTT
1 AAATATAATTTAAAA-TAATATTA-TT
*
46966622 AAATAT--TCTT-AAATGAAT-TTACTA
1 AAATATAAT-TTAAAAT-AATATTA-TT
* * *
46966646 AAATCATAA--T-ATATAATACTATA
1 AAAT-ATAATTTAAAATAATATTATT
46966669 AAATATAATTTAAAATAATAATTATT
1 AAATATAATTTAAAATAAT-ATTATT
*
46966695 AAATATAATTTAATAAAAATAT
1 AAATATAATTTAA-AATAATAT
46966717 ATAATTTAAT
Statistics
Matches: 109, Mismatches: 13, Indels: 40
0.67 0.08 0.25
Matches are distributed among these distances:
19 2 0.02
20 3 0.03
21 3 0.03
22 12 0.11
23 10 0.09
24 18 0.17
25 19 0.17
26 35 0.32
27 7 0.06
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (25 bp):
AAATATAATTTAAAATAATATTATT
Found at i:46966691 original size:13 final size:12
Alignment explanation
Indices: 46966667--46966707 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
46966657 TATAATACTA
46966667 TAAAATATAATT
1 TAAAATATAATT
46966679 TAAAATAATAATT
1 TAAAAT-ATAATT
*
46966692 ATTAAATATAATT
1 -TAAAATATAATT
46966705 TAA
1 TAA
46966708 TAAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:46966821 original size:16 final size:16
Alignment explanation
Indices: 46966800--46966844 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
46966790 AATATAATTT
*
46966800 AAAATAATAATTATTA
1 AAAATAATAATTAGTA
46966816 AAAAT-ATAATTTAGTA
1 AAAATAATAA-TTAGTA
46966832 AAAATATATAATT
1 AAAATA-ATAATT
46966845 TAATAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 4 0.16
16 15 0.60
17 2 0.08
18 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATAATAATTAGTA
Found at i:46966840 original size:18 final size:17
Alignment explanation
Indices: 46966815--46966852 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
46966805 AATAATTATT
*
46966815 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
46966832 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
46966850 AAA
1 AAA
46966853 TTCTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:46966871 original size:122 final size:121
Alignment explanation
Indices: 46966437--46967413 Score: 1673
Period size: 122 Copynumber: 8.1 Consensus size: 121
46966427 TTAATCATAT
* *
46966437 TTTAACATAATAATTATT-AAATATAATTAAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 TTTAAAATAATAATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
* * *
46966501 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTAAAAAATATAA
66 TAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
46966557 TTTAAAATAATTATTATT-AAATATAATTTAAT-AAAATATATAATTTAATAAAATTATTAATAT
1 TTTAAAATAATAATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA-
46966620 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
46966677 TTTAAAATAATAATTATT-AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 TTTAAAATAATAATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
46966741 TAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 TAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
46966797 TTTAAAATAATAATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATA
1 TTTAAAATAATAATTATT-AAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
46966862 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
46966919 TTTAAAATAATAATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATA
1 TTTAAAATAATAATTATT-AAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
46966984 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
46967041 TTTAAAATAATAATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATA
1 TTTAAAATAATAATTATT-AAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
46967106 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
46967163 TTTAAAATAATAATTATTAAAATATAATTTAGTAAAAATATATAATATAATAAAATTCTTAATAC
1 TTTAAAATAATAATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
* *
46967228 TAAATATGCTT--A-GAATTTACTAAAATCATAATATATAATGCTATAAAATATAA
66 TAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
46967281 TTTAAATTAATTATT-TTTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 TTTAAAATAATAATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
* *
46967345 TAAATATTCTTATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 TAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
46967401 TTTTAAATAATAA
1 TTTAAAATAATAA
46967414 AATTTGAATC
Statistics
Matches: 824, Mismatches: 26, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
117 55 0.07
118 53 0.06
119 31 0.04
120 238 0.29
121 84 0.10
122 363 0.44
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (121 bp):
TTTAAAATAATAATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:46966943 original size:16 final size:16
Alignment explanation
Indices: 46966922--46966966 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
46966912 AATATAATTT
*
46966922 AAAATAATAATTATTA
1 AAAATAATAATTAGTA
46966938 AAAAT-ATAATTTAGTA
1 AAAATAATAA-TTAGTA
46966954 AAAATATATAATT
1 AAAATA-ATAATT
46966967 TAATAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 4 0.16
16 15 0.60
17 2 0.08
18 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATAATAATTAGTA
Found at i:46966962 original size:18 final size:17
Alignment explanation
Indices: 46966937--46966974 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
46966927 AATAATTATT
*
46966937 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
46966954 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
46966972 AAA
1 AAA
46966975 TTCTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:46967065 original size:16 final size:16
Alignment explanation
Indices: 46967044--46967088 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
46967034 AATATAATTT
*
46967044 AAAATAATAATTATTA
1 AAAATAATAATTAGTA
46967060 AAAAT-ATAATTTAGTA
1 AAAATAATAA-TTAGTA
46967076 AAAATATATAATT
1 AAAATA-ATAATT
46967089 TAATAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 4 0.16
16 15 0.60
17 2 0.08
18 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATAATAATTAGTA
Found at i:46967084 original size:18 final size:17
Alignment explanation
Indices: 46967059--46967096 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
46967049 AATAATTATT
*
46967059 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
46967076 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
46967094 AAA
1 AAA
46967097 TTCTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:46967170 original size:12 final size:12
Alignment explanation
Indices: 46967153--46967193 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
46967143 TATAATACTA
46967153 TAAAATATAATT
1 TAAAATATAATT
46967165 TAAAATAATAATTAT
1 TAAAAT-ATAA-T-T
46967180 TAAAATATAATT
1 TAAAATATAATT
46967192 TA
1 TA
46967194 GTAAAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 9 0.35
13 5 0.19
14 5 0.19
15 7 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:46967199 original size:15 final size:13
Alignment explanation
Indices: 46967137--46967191 Score: 58
Period size: 15 Copynumber: 4.0 Consensus size: 13
46967127 TACTAAAATC
*
46967137 ATAATATATAATACT
1 ATAAAATATAAT--T
46967152 ATAAAATATAATT
1 ATAAAATATAATT
46967165 -TAAAATAATAATT
1 ATAAAAT-ATAATT
46967178 ATTAAAATATAATT
1 A-TAAAATATAATT
46967192 TAGTAAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
12 6 0.17
13 7 0.19
14 6 0.17
15 17 0.47
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAAAATATAATT
Found at i:46967202 original size:16 final size:15
Alignment explanation
Indices: 46967154--46967204 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
46967144 ATAATACTAT
46967154 AAAATATAATTTA-A
1 AAAATATAATTTATA
* *
46967168 AATA-ATAA-TTATT
1 AAAATATAATTTATA
46967181 AAAATATAATTTAGTA
1 AAAATATAATTTA-TA
46967197 AAAATATA
1 AAAATATA
46967205 TAATATAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 3 0.10
13 7 0.24
14 7 0.24
15 3 0.10
16 9 0.31
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
AAAATATAATTTATA
Found at i:46967456 original size:20 final size:20
Alignment explanation
Indices: 46967409--46967447 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46967399 AATTTTAAAT
*
46967409 AATAAAATTTGAATCGATTA
1 AATAATATTTGAATCGATTA
* *
46967429 AATGATATTTGAATTGATT
1 AATAATATTTGAATCGATT
46967448 TGATAATATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (20 bp):
AATAATATTTGAATCGATTA
Found at i:46970636 original size:12 final size:12
Alignment explanation
Indices: 46970604--46970637 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
46970594 ATTTGAGCAC
*
46970604 AAGCAAAAGCAA
1 AAGCAAAATCAA
46970616 AAGCAAAATCAA
1 AAGCAAAATCAA
*
46970628 AATCAAAATC
1 AAGCAAAATC
46970638 GATTTTACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.65, C:0.18, G:0.09, T:0.09
Consensus pattern (12 bp):
AAGCAAAATCAA
Found at i:46970746 original size:17 final size:16
Alignment explanation
Indices: 46970705--46970747 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
46970695 AGAAATCTGG
46970705 AGAAAAGAAAATGGAGA
1 AGAAAAG-AAATGGAGA
46970722 A-AAGAAGAAATGTGAGA
1 AGAA-AAGAAATG-GAGA
46970739 AGAAAAGAA
1 AGAAAAGAA
46970748 GCGTACCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 7 0.30
17 14 0.61
18 2 0.09
ACGTcount: A:0.65, C:0.00, G:0.28, T:0.07
Consensus pattern (16 bp):
AGAAAAGAAATGGAGA
Found at i:46975421 original size:29 final size:29
Alignment explanation
Indices: 46975379--46975438 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
46975369 TTTAGTTGGG
46975379 ATCCAACATCTAAATCTAATCACAAGTGC
1 ATCCAACATCTAAATCTAATCACAAGTGC
46975408 ATCCAACATCTAAATCTAATCACAAGTGC
1 ATCCAACATCTAAATCTAATCACAAGTGC
46975437 AT
1 AT
46975439 TATTGTCTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.27, G:0.07, T:0.25
Consensus pattern (29 bp):
ATCCAACATCTAAATCTAATCACAAGTGC
Found at i:46979284 original size:30 final size:26
Alignment explanation
Indices: 46979216--46979286 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 26
46979206 AAAATTTATA
* *
46979216 AAAATCATAAAAGATTATTAAATATT
1 AAAATTATAAAAAATTATTAAATATT
46979242 AAAATTACTAAAAAATTATTAGAATTGATAT
1 AAAATTA-TAAAAAATTATTA-AA-T-AT-T
*
46979273 AAATTTATAAAAAA
1 AAAATTATAAAAAA
46979287 AAAATTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 6 0.16
27 12 0.32
28 2 0.05
29 1 0.03
30 9 0.24
31 7 0.19
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (26 bp):
AAAATTATAAAAAATTATTAAATATT
Found at i:46988805 original size:5 final size:5
Alignment explanation
Indices: 46988797--46988832 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
46988787 CCAATAAAGG
*
46988797 ATAAA ATAAA ATAAA ATAAA ATAAC ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
46988833 AAACGAGTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:46989236 original size:24 final size:24
Alignment explanation
Indices: 46989203--46989282 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
46989193 ATATGCATGT
*
46989203 ATATAAATATATATAAAAAATGAA
1 ATATATATATATATAAAAAATGAA
*
46989227 ATATATATATATA-AATAAAATAAA
1 ATATATATATATATAA-AAAATGAA
* * *
46989251 ATATATGTATATATAATATA-GAA
1 ATATATATATATATAAAAAATGAA
46989274 A-ATATATAT
1 ATATATATAT
46989283 GCATTATAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
22 7 0.15
23 5 0.11
24 33 0.70
25 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (24 bp):
ATATATATATATATAAAAAATGAA
Found at i:46989237 original size:22 final size:22
Alignment explanation
Indices: 46989209--46989282 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 22
46989199 ATGTATATAA
46989209 ATATATATAAAAAATGAAATAT
1 ATATATATAAAAAATGAAATAT
*
46989231 ATATATATAAATAAAATAAAATAT
1 ATATATAT-AA-AAAATGAAATAT
* * *
46989255 ATGTATATATAATATAGAAA-AT
1 ATATATATAAAAAAT-GAAATAT
46989277 ATATAT
1 ATATAT
46989283 GCATTATAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
22 19 0.44
23 6 0.14
24 18 0.42
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATATATAAAAAATGAAATAT
Found at i:46989283 original size:26 final size:26
Alignment explanation
Indices: 46989190--46989291 Score: 82
Period size: 26 Copynumber: 3.8 Consensus size: 26
46989180 TATGTGTGTG
**
46989190 AAAATATGCATGTATATAAATATATATAA
1 AAAATATATATGTATAT--ATA-ATATAA
* *
46989219 AAAATGAAATATATATATATAA-ATAA
1 AAAAT-ATATATGTATATATAATATAA
* *
46989245 AATAAAATATATGTATATATAATATAG
1 AA-AATATATATGTATATATAATATAA
*
46989272 AAAATATATATGCAT-TATAA
1 AAAATATATATGTATATATAA
46989292 AAGGTAAATG
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
25 5 0.08
26 31 0.52
27 8 0.13
28 3 0.05
29 5 0.08
30 8 0.13
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (26 bp):
AAAATATATATGTATATATAATATAA
Found at i:46990830 original size:42 final size:41
Alignment explanation
Indices: 46990725--46990831 Score: 101
Period size: 42 Copynumber: 2.6 Consensus size: 41
46990715 TTTCAATCTA
* * *
46990725 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
1 CTCCACTGCAACTTCAAGGAGATAAGACTAGATGCAATCCG
* ** **
46990766 CTCTACTATAACTTC-AGAGAGATAAGATCT-GATTTTAATCCG
1 CTCCACTGCAACTTCAAG-GAGATAAGA-CTAGA-TGCAATCCG
46990808 CTCCACTGCAACTTCAAGGAGATA
1 CTCCACTGCAACTTCAAGGAGATA
46990832 GGATTATTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
40 1 0.02
41 23 0.45
42 25 0.49
43 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (41 bp):
CTCCACTGCAACTTCAAGGAGATAAGACTAGATGCAATCCG
Found at i:46991044 original size:50 final size:50
Alignment explanation
Indices: 46990892--46991455 Score: 261
Period size: 50 Copynumber: 11.4 Consensus size: 50
46990882 GTTGTCGTGA
* * *
46990892 CTTCAATCTATTCCACTGCACCGCC-AGGGAGATAAGATTCGCCGTTGTGG
1 CTTCAATCTATTCAACTGCACTGCCGAGGAAG-TAAGATTCGCCGTTGTGG
* * * * ** * * * *
46990942 CTTCAATCTATTTAATTGCAATGTCGA-GAAACAAGATCCGCCATCGTAG
1 CTTCAATCTATTCAACTGCACTGCCGAGGAAGTAAGATTCGCCGTTGTGG
* * *
46990991 CTTCAATCTGTTCAACTACACTGCCAAGGAAGTAAGATTCGCCGTTGTGG
1 CTTCAATCTATTCAACTGCACTGCCGAGGAAGTAAGATTCGCCGTTGTGG
* * * * * * ** *
46991041 CTTC--T-T-TTTAATTGTAATGTCGGGGAAACAAGATTCGCCGTCGTGG
1 CTTCAATCTATTCAACTGCACTGCCGAGGAAGTAAGATTCGCCGTTGTGG
* * * **
46991087 CTTCAATCTATTCCACTACACCGCC-AGGGAAGTAAGATTCGTTGTTGTGG
1 CTTCAATCTATTCAACTGCACTGCCGA-GGAAGTAAGATTCGCCGTTGTGG
* * * * * * *** * *
46991137 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACCAGATTCGCCATTGTAG
1 CTTCAATCTATTCAACTGCACTGCCGAGGAAGTAAGATTCGCCGTTGTGG
* * *
46991187 CTTCAATCTATTCCACTGCACCGCC-AGGAAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTATTCAACTGCACTGCCGAGG-AAGTAAGATTCGCCGTTGTGG
* * * * * *** * ** *
46991237 CTTCAATCTTTTTC-ATTGCAATGTCGGGGAAACCAGATCCGCCGTCATAG
1 CTTCAATC-TATTCAACTGCACTGCCGAGGAAGTAAGATTCGCCGTTGTGG
* * * ** *
46991287 CTTCAATCTGTTCCACTGCACCGCTAAGGAAGTAAGATTCACCGTTGTGG
1 CTTCAATCTATTCAACTGCACTGCCGAGGAAGTAAGATTCGCCGTTGTGG
* * * * * * * * * * *
46991337 CTTCAATAT-TTAAATTGCAATGTCGGGGAAACT-AGATCCGCCATCGTAG
1 CTTCAATCTATTCAACTGCACTGCCGAGG-AAGTAAGATTCGCCGTTGTGG
* * * * *
46991386 CTTCAATCTGTTCCACTGTACCGCC-AGGGAAGTAAGATTCGCCGCTGTGG
1 CTTCAATCTATTCAACTGCACTGCCGA-GGAAGTAAGATTCGCCGTTGTGG
* * *
46991436 CTTTATTCTATTCCACTGCA
1 CTTCAATCTATTCAACTGCA
46991456 ACGTCAAGGC
Statistics
Matches: 354, Mismatches: 144, Indels: 32
0.67 0.27 0.06
Matches are distributed among these distances:
46 33 0.09
47 1 0.00
48 2 0.01
49 72 0.20
50 239 0.68
51 7 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.29
Consensus pattern (50 bp):
CTTCAATCTATTCAACTGCACTGCCGAGGAAGTAAGATTCGCCGTTGTGG
Found at i:46991191 original size:100 final size:100
Alignment explanation
Indices: 46990842--46991438 Score: 753
Period size: 100 Copynumber: 6.0 Consensus size: 100
46990832 GGATTATTTT
* * * ***
46990842 CTTCAAT-TTGTTTAACTGCAATGTCAGGGAAACAAGATTCGTTGTCGT-GACTTCAATCTATTC
1 CTTCAATCTT-TTTAATTGCAATGTCGGGGAAACAAGATCCGCCATCGTAG-CTTCAATCTATTC
46990905 CACTGCACCGCCAGGG-AGATAAGATTCGCCGTTGTGG
64 CACTGCACCGCCAGGGAAG-TAAGATTCGCCGTTGTGG
* * * *
46990942 CTTCAATCTATTTAATTGCAATGTC-GAGAAACAAGATCCGCCATCGTAGCTTCAATCTGTTCAA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCGCCATCGTAGCTTCAATCTATTCCA
* * *
46991006 CTACACTGCCAAGGAAGTAAGATTCGCCGTTGTGG
66 CTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* * * *
46991041 C-T---TCTTTTTAATTGTAATGTCGGGGAAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCGCCATCGTAGCTTCAATCTATTCCA
* **
46991102 CTACACCGCCAGGGAAGTAAGATTCGTTGTTGTGG
66 CTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* * *
46991137 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACCAGATTCGCCATTGTAGCTTCAATCTATTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCGCCATCGTAGCTTCAATCTATTCCA
* *
46991202 CTGCACCGCCAGGAAAGTAAGATCCGCCGTTGTGG
66 CTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* * * * *
46991237 CTTCAATCTTTTTCATTGCAATGTCGGGGAAACCAGATCCGCCGTCATAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCGCCATCGTAGCTTCAATCTATTCCA
* * *
46991302 CTGCACCGCTAAGGAAGTAAGATTCACCGTTGTGG
66 CTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* * * *
46991337 CTTCAAT-ATTTAAATTGCAATGTCGGGGAAACTAGATCCGCCATCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCGCCATCGTAGCTTCAATCTATTCCA
* *
46991401 CTGTACCGCCAGGGAAGTAAGATTCGCCGCTGTGG
66 CTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
46991436 CTT
1 CTT
46991439 TATTCTATTC
Statistics
Matches: 433, Mismatches: 56, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
95 17 0.04
96 65 0.15
97 1 0.00
98 1 0.00
99 144 0.33
100 204 0.47
101 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (100 bp):
CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCGCCATCGTAGCTTCAATCTATTCCA
CTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
Found at i:46991571 original size:88 final size:88
Alignment explanation
Indices: 46991473--46991650 Score: 257
Period size: 88 Copynumber: 2.0 Consensus size: 88
46991463 GGCGATAAGA
* * * *
46991473 CTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTA
1 CTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCCATTTTCAACCTACTA
* *
46991538 TACTACTGCTCATGGAGACAAGG
66 TACTACTACTCAGGGAGACAAGG
* * *
46991561 CTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTATTC
1 CTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCCATTTTCAACCTACTA
* *
46991626 TACTGCTACTCAGGGAGATAAGG
66 TACTACTACTCAGGGAGACAAGG
46991649 CT
1 CT
46991651 TTATGGTTTC
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 79 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (88 bp):
CTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCCATTTTCAACCTACTA
TACTACTACTCAGGGAGACAAGG
Found at i:46992919 original size:15 final size:15
Alignment explanation
Indices: 46992907--46992968 Score: 92
Period size: 15 Copynumber: 4.2 Consensus size: 15
46992897 CTATTTTTAC
46992907 TTTTTCCATTTTTCA
1 TTTTTCCATTTTTCA
46992922 TTTTTCCATTTTTCA
1 TTTTTCCATTTTTCA
46992937 TTTTT-CA-TTTTCA
1 TTTTTCCATTTTTCA
*
46992950 TTTTTTCATTTTTTCA
1 TTTTTCCA-TTTTTCA
46992966 TTT
1 TTT
46992969 CATCATTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.25
14 4 0.09
15 20 0.45
16 9 0.20
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTCCATTTTTCA
Found at i:46992925 original size:6 final size:7
Alignment explanation
Indices: 46992907--46992978 Score: 83
Period size: 8 Copynumber: 9.7 Consensus size: 7
46992897 CTATTTTTAC
46992907 TTTTTCCA
1 TTTTT-CA
46992915 TTTTTCA
1 TTTTTCA
46992922 TTTTTCCA
1 TTTTT-CA
46992930 TTTTTCA
1 TTTTTCA
46992937 TTTTTCA
1 TTTTTCA
46992944 -TTTTCA
1 TTTTTCA
46992950 TTTTTTCA
1 -TTTTTCA
46992958 TTTTTTCA
1 -TTTTTCA
*
46992966 TTTCATCA
1 TTT-TTCA
46992974 TTTTT
1 TTTTT
46992979 TTACGACTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
6 6 0.10
7 20 0.34
8 32 0.55
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTTCA
Found at i:47000452 original size:5 final size:5
Alignment explanation
Indices: 47000444--47000479 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
47000434 CCAATAAAGG
* *
47000444 ATAAA ATAAA ATAAA ATAAA GTAAC ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
47000480 AAACGAGTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:47000859 original size:22 final size:22
Alignment explanation
Indices: 47000818--47000859 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
47000808 AGATAAACTA
*
47000818 TGAAAATATGTATATGTATATG
1 TGAAAATATGTATATATATATG
*
47000840 TGAAAATATGTATGTATATA
1 TGAAAATATGTATATATATA
47000860 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (22 bp):
TGAAAATATGTATATATATATG
Found at i:47000883 original size:26 final size:26
Alignment explanation
Indices: 47000854--47000965 Score: 108
Period size: 26 Copynumber: 4.4 Consensus size: 26
47000844 AATATGTATG
*
47000854 TATATAAATATATATATAAAATGAAA
1 TATATATATATATATATAAAATGAAA
*
47000880 TATATATATATATAAATAAAAT-AAA
1 TATATATATATATATATAAAATGAAA
* *
47000905 -A-ATATATGTATATATAATATAGAAA
1 TATATATATATATATATAAAAT-GAAA
**
47000930 -ATATATATGCAT-TATAAAATGTAAA
1 TATATATATATATATATAAAATG-AAA
*
47000955 TGTATATATAT
1 TATATATATAT
47000966 TCATGCATAT
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
23 16 0.23
24 2 0.03
25 17 0.24
26 36 0.51
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (26 bp):
TATATATATATATATATAAAATGAAA
Found at i:47006026 original size:79 final size:79
Alignment explanation
Indices: 47005924--47006071 Score: 172
Period size: 79 Copynumber: 1.9 Consensus size: 79
47005914 TCATGCTTAT
* * * ** * *
47005924 ATATATATTATAAATTGATATATAATAACGGCCTTTCCATAACATGCAAAATTTTAAC-AGACAA
1 ATATATATTATAAATAGACATATAACAACAACCTGTCCATAACATACAAAATTTT-ACTAGACAA
47005988 ATAGAATTATTATAA
65 ATAGAATTATTATAA
* * * * *
47006003 ATATATATTATAGATAGGCATATAACAACAATCTGTCCATAATATACAAAATTTTACTAGATAAA
1 ATATATATTATAAATAGACATATAACAACAACCTGTCCATAACATACAAAATTTTACTAGACAAA
47006068 TAGA
66 TAGA
47006072 GTTTTAAATT
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
78 2 0.04
79 54 0.96
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.33
Consensus pattern (79 bp):
ATATATATTATAAATAGACATATAACAACAACCTGTCCATAACATACAAAATTTTACTAGACAAA
TAGAATTATTATAA
Found at i:47006956 original size:22 final size:21
Alignment explanation
Indices: 47006918--47006960 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
47006908 TGGTATAATA
47006918 ACATATTTAGTCCTCAATACTT
1 ACATATTTAGTCCTCAA-ACTT
*
47006940 ACATATTCTA-TCTTCAAACTT
1 ACATATT-TAGTCCTCAAACTT
47006961 GTTAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 13 0.68
23 2 0.11
ACGTcount: A:0.33, C:0.23, G:0.02, T:0.42
Consensus pattern (21 bp):
ACATATTTAGTCCTCAAACTT
Found at i:47008656 original size:16 final size:16
Alignment explanation
Indices: 47008635--47008666 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47008625 TAATTATATA
47008635 ATTTTAAATTTAAAAT
1 ATTTTAAATTTAAAAT
*
47008651 ATTTTAAATTTTAAAT
1 ATTTTAAATTTAAAAT
47008667 TAAATGGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTAAATTTAAAAT
Found at i:47025650 original size:21 final size:21
Alignment explanation
Indices: 47025624--47025676 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
47025614 AAAGGAGTAA
47025624 TTTTACGTTGACTGAAAAATC
1 TTTTACGTTGACTGAAAAATC
47025645 TTTTACGTTGACTGAAAAATC
1 TTTTACGTTGACTGAAAAATC
47025666 TTTTACGTTGA
1 TTTTACGTTGA
47025677 TCATCCTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (21 bp):
TTTTACGTTGACTGAAAAATC
Found at i:47028553 original size:31 final size:31
Alignment explanation
Indices: 47028518--47028576 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
47028508 GAAAGTGATC
*
47028518 ACTGAACTAATTAAAAGTTTTCATTTAAGTA
1 ACTGAACTAATCAAAAGTTTTCATTTAAGTA
47028549 ACTGAACTAATCAAAAGTTTTCATTTAA
1 ACTGAACTAATCAAAAGTTTTCATTTAA
47028577 ATCATTGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.37
Consensus pattern (31 bp):
ACTGAACTAATCAAAAGTTTTCATTTAAGTA
Found at i:47036030 original size:21 final size:21
Alignment explanation
Indices: 47035981--47036103 Score: 102
Period size: 21 Copynumber: 5.9 Consensus size: 21
47035971 AAGCCCGAAG
* **
47035981 GCTGAACAGAAGCTCATTGGA
1 GCTGAACAGAAACTCATAAGA
* * *
47036002 ACTAAACAGAAACTCATAAGG
1 GCTGAACAGAAACTCATAAGA
* *
47036023 GTTGAACAGAAGCTCATAAGA
1 GCTGAACAGAAACTCATAAGA
* *
47036044 GCTGAACAGAAACCCATAAGG
1 GCTGAACAGAAACTCATAAGA
* * * *
47036065 GTTAAACAGAAGCTCAAAAGA
1 GCTGAACAGAAACTCATAAGA
**
47036086 GCTGAATGGAAACTCATA
1 GCTGAACAGAAACTCATA
47036104 TGAGTTAAAC
Statistics
Matches: 75, Mismatches: 27, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 75 1.00
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (21 bp):
GCTGAACAGAAACTCATAAGA
Found at i:47036129 original size:42 final size:42
Alignment explanation
Indices: 47035985--47036139 Score: 166
Period size: 42 Copynumber: 3.7 Consensus size: 42
47035975 CCGAAGGCTG
** * * * *
47035985 AACAGAAGCTCATTGGAACTAAACAGAAACTCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTGAACGGAAACTCATAAGGGTTA
* *
47036027 AACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTGAACGGAAACTCATAAGGGTTA
* * * *
47036069 AACAGAAGCTCAAAAGAGCTGAATGGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTGAACGGAAACTCATAAGGGTTA
* * * *
47036111 AACAAAAGCTCGTGAGAGCTAAACGGAAA
1 AACAGAAGCTCATAAGAGCTGAACGGAAA
47036140 GTAAACACGA
Statistics
Matches: 95, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 95 1.00
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTGAACGGAAACTCATAAGGGTTA
Found at i:47042850 original size:26 final size:26
Alignment explanation
Indices: 47042821--47042902 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
47042811 TTGTAATATT
47042821 TATATTTATTTTTAGAGTAAAAATTC
1 TATATTTATTTTTAGAGTAAAAATTC
* * *
47042847 TATATTTATTTAATA-AGTCGAGAA-T-
1 TATATTTATTT-TTAGAGT-AAAAATTC
* *
47042872 GATATATATTTTTAGAGTAAAAATTC
1 TATATTTATTTTTAGAGTAAAAATTC
47042898 TATAT
1 TATAT
47042903 ATTTGATCAT
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
24 5 0.12
25 13 0.31
26 19 0.45
27 5 0.12
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (26 bp):
TATATTTATTTTTAGAGTAAAAATTC
Found at i:47044393 original size:17 final size:16
Alignment explanation
Indices: 47044371--47044404 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
47044361 CTTTTAAATT
47044371 AAAAAATAAAAGAGAAA
1 AAAAAATAAAAGA-AAA
*
47044388 AAAAAATGAAAGAAAA
1 AAAAAATAAAAGAAAA
47044404 A
1 A
47044405 GGTAATGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAAAATAAAAGAAAA
Found at i:47047294 original size:21 final size:20
Alignment explanation
Indices: 47047260--47047304 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
47047250 ATTCTTGCTG
**
47047260 TTTTTTTTTCTTTTTTTCTA
1 TTTTTTTTTCTTTTTCACTA
*
47047280 TTTTTTGTTTTTTTTTCACTA
1 TTTTTT-TTTCTTTTTCACTA
47047301 TTTT
1 TTTT
47047305 GCTACCATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.82
Consensus pattern (20 bp):
TTTTTTTTTCTTTTTCACTA
Found at i:47047387 original size:17 final size:19
Alignment explanation
Indices: 47047354--47047388 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
47047344 ATTGTTTGGA
47047354 TATTGTATAACTTTTGTTT
1 TATTGTATAACTTTTGTTT
47047373 TATTGT-TAA-TTTTGTT
1 TATTGTATAACTTTTGTT
47047389 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.20, C:0.03, G:0.11, T:0.66
Consensus pattern (19 bp):
TATTGTATAACTTTTGTTT
Found at i:47049354 original size:31 final size:31
Alignment explanation
Indices: 47049319--47049401 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 31
47049309 CGAGTGAGTT
*
47049319 ATTATTTTAATATT-TATTTAATGTCTACAAG
1 ATTATTTTAAGATTGTA-TTAATGTCTACAAG
* *
47049350 ATTATTTTAAGGTTGTATTAATGTCTACAAT
1 ATTATTTTAAGATTGTATTAATGTCTACAAG
*
47049381 ATTATTTTAAGGTTGTATTAA
1 ATTATTTTAAGATTGTATTAA
47049402 AATTTTGTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
31 46 0.96
32 2 0.04
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.51
Consensus pattern (31 bp):
ATTATTTTAAGATTGTATTAATGTCTACAAG
Found at i:47050948 original size:18 final size:18
Alignment explanation
Indices: 47050925--47050964 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
47050915 AATGATATTA
47050925 TGCTTATTCTATAAATTG
1 TGCTTATTCTATAAATTG
47050943 TGCTTATTCTATAAATTG
1 TGCTTATTCTATAAATTG
47050961 TGCT
1 TGCT
47050965 AATGAAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (18 bp):
TGCTTATTCTATAAATTG
Found at i:47060724 original size:29 final size:30
Alignment explanation
Indices: 47060695--47060916 Score: 182
Period size: 30 Copynumber: 7.4 Consensus size: 30
47060685 TTCGGCTATC
*
47060695 AATTATGAAAAGGGATTGTGACGACCATCA
1 AATTATGAAAAGGGATGGTGACGACCATCA
47060725 AATTATGAAAAGGGATGGTGACGACCATCA
1 AATTATGAAAAGGGATGGTGACGACCATCA
* ** * * *
47060755 AATTATAAAAAGGGATGGCT-TTGGCTATCG
1 AATTATGAAAAGGGATGG-TGACGACCATCA
* * * * *
47060785 TATGATGAAAAGGGATGGCT-TCGGCTATC-
1 AATTATGAAAAGGGATGG-TGACGACCATCA
* * *
47060814 AATCTATGAAAAGGGATGGCT-TCGACTATTA
1 AAT-TATGAAAAGGGATGG-TGACGACCATCA
*
47060845 AATTATGAAAAGGGATGTTGACGACCATCA
1 AATTATGAAAAGGGATGGTGACGACCATCA
** * ** *
47060875 AACAATAAAAATTGATGGTGACAACCATCA
1 AATTATGAAAAGGGATGGTGACGACCATCA
47060905 AATTATGAAAAG
1 AATTATGAAAAG
47060917 AGATAGTTTC
Statistics
Matches: 158, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
29 3 0.02
30 151 0.96
31 4 0.03
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (30 bp):
AATTATGAAAAGGGATGGTGACGACCATCA
Found at i:47060731 original size:30 final size:31
Alignment explanation
Indices: 47060670--47060916 Score: 181
Period size: 30 Copynumber: 8.3 Consensus size: 31
47060660 TCATTGACGA
* * * *
47060670 ATGAAAAGGGATAGCT-TCGGCTATC-AATT
1 ATGAAAAGGGATGGCTGACGACCATCAAATT
*
47060699 ATGAAAAGGGATTG-TGACGACCATCAAATT
1 ATGAAAAGGGATGGCTGACGACCATCAAATT
47060729 ATGAAAAGGGATGG-TGACGACCATCAAATT
1 ATGAAAAGGGATGGCTGACGACCATCAAATT
* ** * * ** *
47060759 ATAAAAAGGGATGGCT-TTGGCTATCGTATG
1 ATGAAAAGGGATGGCTGACGACCATCAAATT
* * *
47060789 ATGAAAAGGGATGGCT-TCGGCTATC-AATCT
1 ATGAAAAGGGATGGCTGACGACCATCAAAT-T
* * *
47060819 ATGAAAAGGGATGGCT-TCGACTATTAAATT
1 ATGAAAAGGGATGGCTGACGACCATCAAATT
* **
47060849 ATGAAAAGGGAT-GTTGACGACCATCAAACA
1 ATGAAAAGGGATGGCTGACGACCATCAAATT
* ** *
47060879 ATAAAAATTGATGG-TGACAACCATCAAATT
1 ATGAAAAGGGATGGCTGACGACCATCAAATT
47060909 ATGAAAAG
1 ATGAAAAG
47060917 AGATAGTTTC
Statistics
Matches: 178, Mismatches: 33, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
28 1 0.01
29 23 0.13
30 149 0.84
31 5 0.03
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (31 bp):
ATGAAAAGGGATGGCTGACGACCATCAAATT
Done.