Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 141 of 167
Found at i:47120766 original size:17 final size:18
Alignment explanation
Indices: 47120732--47120766 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
47120722 CATATTATTC
*
47120732 AAATTTAGTTTTATTTGT
1 AAATTTAGTTTCATTTGT
47120750 AAATTTA-TTTCATTTGT
1 AAATTTAGTTTCATTTGT
47120767 CCCTATTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.60
Consensus pattern (18 bp):
AAATTTAGTTTCATTTGT
Found at i:47120936 original size:45 final size:45
Alignment explanation
Indices: 47120881--47120991 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 45
47120871 AACGATAGTA
*
47120881 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATTT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTC-GAATTG
* * *
47120926 GTAATAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATTG
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATTG
* *
47120971 GTAACAATAACAATAACAGTA
1 GTAACAGTAACAGTAACAGTA
47120992 ACAATAGTCG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 56 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.23
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATTG
Found at i:47121232 original size:40 final size:40
Alignment explanation
Indices: 47121188--47121274 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
47121178 AATTCATTAC
*
47121188 TTCAGTAA-TATCACAGA-TCAATGCAGTATACATAACAATA
1 TTCAGTAACT-TCACA-ATTCAATGCAGTATACAAAACAATA
* **
47121228 TTCAGTAACTTCACAATTCAATTCAGTATTTAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTATACAAAACAATA
47121268 TTCAGTA
1 TTCAGTA
47121275 TTCCATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 1 0.02
40 39 0.95
41 1 0.02
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTATACAAAACAATA
Found at i:47121558 original size:17 final size:18
Alignment explanation
Indices: 47121536--47121569 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
47121526 TCTAGTTTTT
*
47121536 CCTTTTTCTTT-TCTTTC
1 CCTTTTTATTTCTCTTTC
47121553 CCTTTTTATTTCTCTTT
1 CCTTTTTATTTCTCTTT
47121570 TTCTCCCCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (18 bp):
CCTTTTTATTTCTCTTTC
Found at i:47124050 original size:24 final size:24
Alignment explanation
Indices: 47124006--47124051 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
47123996 GATATTTTAA
*
47124006 TAAAAAATATATATTAAATTAACT
1 TAAAAAATATATAATAAATTAACT
*
47124030 TAAAAAATA-AGTAATATATTAA
1 TAAAAAATATA-TAATAAATTAA
47124052 TTTATATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 18 0.95
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (24 bp):
TAAAAAATATATAATAAATTAACT
Found at i:47124064 original size:8 final size:8
Alignment explanation
Indices: 47124053--47124106 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 8
47124043 ATATATTAAT
47124053 TTATATTA
1 TTATATTA
47124061 TTATATTA
1 TTATATTA
*
47124069 TTACATTA
1 TTATATTA
47124077 -TATA-TA
1 TTATATTA
47124083 TTATATTA
1 TTATATTA
*
47124091 TTTTATATA
1 TTATAT-TA
47124100 TATATAT
1 T-TATAT
47124107 ATGTAAAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
6 2 0.05
7 7 0.18
8 22 0.58
9 3 0.08
10 4 0.11
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (8 bp):
TTATATTA
Found at i:47124083 original size:25 final size:25
Alignment explanation
Indices: 47124054--47124108 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 25
47124044 TATATTAATT
47124054 TATAT-TATTATATTA--TTACAT-
1 TATATATATTATATTATTTTACATA
*
47124075 TATATATATTATATTATTTTATATA
1 TATATATATTATATTATTTTACATA
47124100 TATATATAT
1 TATATATAT
47124109 GTAAAACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.17
22 10 0.34
24 5 0.17
25 9 0.31
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
TATATATATTATATTATTTTACATA
Found at i:47125173 original size:58 final size:58
Alignment explanation
Indices: 47125083--47125200 Score: 200
Period size: 58 Copynumber: 2.0 Consensus size: 58
47125073 AAATATAGTG
* * *
47125083 ATTGGTAGCAATTTCGCATAAGTTGTGGGCTACCGTAGCTCTGTGTGAGCATCGATGT
1 ATTGGTAGCAATTCCACATAAGTTGTGGGCTACCGTAGCTCTGTGTGAGCATCGAAGT
*
47125141 ATTGGTAGTAATTCCACATAAGTTGTGGGCTACCGTAGCTCTGTGTGAGCATCGAAGT
1 ATTGGTAGCAATTCCACATAAGTTGTGGGCTACCGTAGCTCTGTGTGAGCATCGAAGT
47125199 AT
1 AT
47125201 ATGATTTACC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (58 bp):
ATTGGTAGCAATTCCACATAAGTTGTGGGCTACCGTAGCTCTGTGTGAGCATCGAAGT
Found at i:47128636 original size:41 final size:40
Alignment explanation
Indices: 47128526--47128774 Score: 338
Period size: 41 Copynumber: 6.1 Consensus size: 40
47128516 GTAAAAATTG
* *
47128526 TAAAACACAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGC
1 TAAAA-ACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* * *
47128567 TAAAAACAGAGCATTAGTGGCGCTTTTGGTAAAATGTCGC
1 TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* *
47128607 TAAAAACTAGAGCATTAGCGGCTCATTTGGTAAAACGCCGC
1 TAAAAAC-AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
47128648 TAAAAACTAGA-CATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAAC-AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* * *
47128688 TAAAAAACAAAGCGTTAGCGGCGCTTTTGGTAAAACGCTGC
1 T-AAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* *
47128729 TAAAAACCAGAGCATTAGCAGCGCTTTTGGTAAAACGCCAC
1 TAAAAA-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
47128770 TAAAA
1 TAAAA
47128775 GTCATATAAC
Statistics
Matches: 184, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
40 72 0.39
41 112 0.61
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (40 bp):
TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:47128663 original size:81 final size:80
Alignment explanation
Indices: 47128526--47128774 Score: 331
Period size: 81 Copynumber: 3.1 Consensus size: 80
47128516 GTAAAAATTG
* *
47128526 TAAAACACAGAGCAATAGCGGCGT-TTTTGGTAAAACGCCGCTAAAAACAGAGCATTAGTGGCGC
1 TAAAA-ACAGAGCATTAGCGGC-TCTTTTGGTAAAACGCCGCTAAAAACAGAGCATTAGCGGCGC
* *
47128590 TTTTGGTAAAATGTCGC
64 TTTTGGTAAAACGCCGC
*
47128607 TAAAAACTAGAGCATTAGCGGCTCATTTGGTAAAACGCCGCTAAAAACTAGA-CATTAGCGGCGC
1 TAAAAAC-AGAGCATTAGCGGCTCTTTTGGTAAAACGCCGCTAAAAAC-AGAGCATTAGCGGCGC
47128671 TTTTGGTAAAACGCCGC
64 TTTTGGTAAAACGCCGC
* * * * *
47128688 TAAAAAACAAAGCGTTAGCGGCGCTTTTGGTAAAACGCTGCTAAAAACCAGAGCATTAGCAGCGC
1 T-AAAAACAGAGCATTAGCGGCTCTTTTGGTAAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGC
*
47128753 TTTTGGTAAAACGCCAC
64 TTTTGGTAAAACGCCGC
47128770 TAAAA
1 TAAAA
47128775 GTCATATAAC
Statistics
Matches: 150, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
80 3 0.02
81 109 0.73
82 38 0.25
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (80 bp):
TAAAAACAGAGCATTAGCGGCTCTTTTGGTAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTT
TTGGTAAAACGCCGC
Found at i:47128876 original size:17 final size:18
Alignment explanation
Indices: 47128843--47128876 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
47128833 TTAAAATAGT
*
47128843 AAACCCTTAAACCCTAAC
1 AAACCCTTAAACACTAAC
47128861 AAACCC-TAAACACTAA
1 AAACCCTTAAACACTAA
47128877 ACTATAACCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (18 bp):
AAACCCTTAAACACTAAC
Found at i:47129414 original size:24 final size:24
Alignment explanation
Indices: 47129387--47129435 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
47129377 CGTATATTTG
47129387 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
47129411 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
47129435 T
1 T
47129436 GTTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:47135671 original size:22 final size:22
Alignment explanation
Indices: 47135643--47135687 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
47135633 AGGGGGAGTG
47135643 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
47135665 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
47135687 T
1 T
47135688 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:47138525 original size:19 final size:19
Alignment explanation
Indices: 47138503--47138543 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
47138493 TTTATTGATA
47138503 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
47138521 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
47138540 TTTT
1 TTTT
47138544 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:47138761 original size:26 final size:23
Alignment explanation
Indices: 47138725--47138773 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 23
47138715 TTAATAGAAA
47138725 ATTTTTATATTTATATCATGGACATT
1 ATTTTTATATTT-T-TCAT-GACATT
47138751 ATTTTTATATTTTTCATGACATT
1 ATTTTTATATTTTTCATGACATT
47138774 TATAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.26
24 4 0.17
25 1 0.04
26 12 0.52
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (23 bp):
ATTTTTATATTTTTCATGACATT
Found at i:47139849 original size:52 final size:51
Alignment explanation
Indices: 47139762--47139975 Score: 189
Period size: 52 Copynumber: 3.9 Consensus size: 51
47139752 AGATAGAAAG
* ** *
47139762 AATATATCAAAAGAATATATATAGATGCAAGTTTCACTTACGGATGCATGCA
1 AATATATCAAAAGAATATATATACACACAA-TTTCACTTACAGATGCATGCA
47139814 AATATATCAAAAGAATATATATACACACACATTTCACTTACAGATGCATGAAGCAA
1 AATATATCAAAAGAATATATATACACACA-ATTTCACTTACAGATGCAT---GC-A
* ** *
47139870 AATTTATAACAGATAGAAAGAAATATATATACATGCA-AATTTCACTTATGGATACATGCA
1 AA--TATATC----A-AAAG-AATATATATACA--CACAATTTCACTTACAGATGCATGCA
*
47139930 AATATATAAAAAGAATATATATACACA-AATTTCACTTACAGATGCA
1 AATATATCAAAAGAATATATATACACACAATTTCACTTACAGATGCA
47139976 GGAAGCAAAA
Statistics
Matches: 134, Mismatches: 13, Indels: 32
0.75 0.07 0.18
Matches are distributed among these distances:
50 18 0.13
52 55 0.41
53 5 0.04
54 1 0.01
55 2 0.01
56 3 0.02
58 9 0.07
60 3 0.02
61 2 0.01
62 1 0.01
63 4 0.03
64 28 0.21
65 1 0.01
66 2 0.01
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (51 bp):
AATATATCAAAAGAATATATATACACACAATTTCACTTACAGATGCATGCA
Found at i:47139898 original size:64 final size:58
Alignment explanation
Indices: 47139822--47139991 Score: 160
Period size: 64 Copynumber: 2.9 Consensus size: 58
47139812 CAAATATATC
47139822 AAAAGAATATATATACACACACATTTCACTTACAGATGCATGAAGCAAAATTTATAACAGATA
1 AAAAGAATATATATACACACA-ATTTCACTTACAGATGCATGAAGCAAAATTTAT---A-ATA
* ** *
47139885 GAAAGAAATATATATACATGCA-AATTTCACTTATGGATACAT---GC-AAA--TAT-ATA
1 AAAAG-AATATATATACA--CACAATTTCACTTACAGATGCATGAAGCAAAATTTATAATA
*
47139938 AAAAGAATATATATACACA-AATTTCACTTACAGATGCAGGAAGCAAAATTTATA
1 AAAAGAATATATATACACACAATTTCACTTACAGATGCATGAAGCAAAATTTATA
47139992 TGGAATGTGC
Statistics
Matches: 88, Mismatches: 9, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
50 18 0.20
52 12 0.14
53 9 0.10
54 3 0.03
56 3 0.03
58 3 0.03
60 3 0.03
61 2 0.02
63 4 0.05
64 28 0.32
65 1 0.01
66 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (58 bp):
AAAAGAATATATATACACACAATTTCACTTACAGATGCATGAAGCAAAATTTATAATA
Found at i:47139985 original size:114 final size:115
Alignment explanation
Indices: 47139771--47139991 Score: 365
Period size: 116 Copynumber: 1.9 Consensus size: 115
47139761 GAATATATCA
* * * *
47139771 AAAGAATATATATAGATGCAAGTTTCACTTACGGATGCATGCAAATATATCAAAAGAATATATAT
1 AAAGAATATATATACATGCAAATTTCACTTACGGATACATGCAAATATATAAAAAGAATATATAT
*
47139836 ACACACACATTTCACTTACAGATGCATGAAGCAAAATTTATAACAGATAG
66 ACACACACATTTCACTTACAGATGCAGGAAGCAAAATTTATAACAGATAG
*
47139886 AAAGAAATATATATACATGCAAATTTCACTTATGGATACATGCAAATATATAAAAAGAATATATA
1 AAAG-AATATATATACATGCAAATTTCACTTACGGATACATGCAAATATATAAAAAGAATATATA
47139951 TACACA-A-ATTTCACTTACAGATGCAGGAAGCAAAATTTATA
65 TACACACACATTTCACTTACAGATGCAGGAAGCAAAATTTATA
47139992 TGGAATGTGC
Statistics
Matches: 99, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
114 33 0.33
115 5 0.05
116 61 0.62
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.28
Consensus pattern (115 bp):
AAAGAATATATATACATGCAAATTTCACTTACGGATACATGCAAATATATAAAAAGAATATATAT
ACACACACATTTCACTTACAGATGCAGGAAGCAAAATTTATAACAGATAG
Found at i:47145897 original size:20 final size:21
Alignment explanation
Indices: 47145855--47145897 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
47145845 ACCATTTTTA
* * *
47145855 AATCGAGTTTTAGAAAATGAG
1 AATCGACTTTAAGAAAATAAG
47145876 AATCGACTTTAAGAAAA-AAG
1 AATCGACTTTAAGAAAATAAG
47145896 AA
1 AA
47145898 AACGGGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.51, C:0.07, G:0.19, T:0.23
Consensus pattern (21 bp):
AATCGACTTTAAGAAAATAAG
Found at i:47147286 original size:22 final size:21
Alignment explanation
Indices: 47147261--47147302 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47147251 ATTAAATCTC
47147261 CAAGATTACAAAATCATATCAA
1 CAAGATTAC-AAATCATATCAA
* *
47147283 CAAGATTGCATATCATATCA
1 CAAGATTACAAATCATATCA
47147303 TATCATATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.48, C:0.19, G:0.07, T:0.26
Consensus pattern (21 bp):
CAAGATTACAAATCATATCAA
Found at i:47147714 original size:44 final size:43
Alignment explanation
Indices: 47147666--47147753 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
47147656 CATGTTGATA
* *
47147666 TCTTCGATATGCTCTCCGTCAAACACAGAGATGCCAAATCTTCT
1 TCTTCGATATGCTCTCCGAC-AACACAGAGATGCCAAATCATCT
* * * * *
47147710 TCTTCGATTTGTTTTCTGACAATACAGAGATGCCAAATCATCT
1 TCTTCGATATGCTCTCCGACAACACAGAGATGCCAAATCATCT
47147753 T
1 T
47147754 AGATCTGCTT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 22 0.59
44 15 0.41
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (43 bp):
TCTTCGATATGCTCTCCGACAACACAGAGATGCCAAATCATCT
Found at i:47147833 original size:87 final size:86
Alignment explanation
Indices: 47147738--47148114 Score: 260
Period size: 87 Copynumber: 4.3 Consensus size: 86
47147728 ACAATACAGA
*
47147738 GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTGTGTCTTCG
1 GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCG
47147803 ATTTGCTCCTTGTGAACACAAG
66 ATTTGCTCCTTGT-AACACAAG
* * * *
47147825 GATGCCAAATCATCTTGGATCTGCTTCA--GTAAAATCATC-TGAAGGTCAGATCTGCTATGTCT
1 GATGCCAAATCATCTTAGATCTGCTTCAGCGT-AAA-CA-CGTGAAAGCCAAATCTGCTATGTCT
** * * * *
47147887 TTAATCTGCTTCTTGTAA-ACTTAT
63 TCGATTTGCTCCTTGTAACAC-AAG
* * * *
47147911 GACTGTCCTGTTAAT-ATCTTCA-ATCTGCTCTCCGCCG-AATACA-GAG-ACGCCAAATCTG-T
1 GA-TG-CC---AAATCATCTT-AGATCTGCT-TCAG-CGTAA-ACACGTGAAAGCCAAATCTGCT
* *
47147970 -T-TCTTCGATTTG-TTCTT-TAACAATACAG
57 ATGTCTTCGATTTGCTCCTTGTAAC-ACA-AG
* * * * * *
47147998 AGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAGCTATGCCTTC
1 -GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTC
*
47148063 GATTTGTTCCTTGTAAGCACAAG
65 GATTTGCTCCTTGTAA-CACAAG
* *
47148086 GATGCCAAACCATCTTGGATCTGCTTCAG
1 GATGCCAAATCATCTTAGATCTGCTTCAG
47148115 TCATCTGAAG
Statistics
Matches: 221, Mismatches: 38, Indels: 62
0.69 0.12 0.19
Matches are distributed among these distances:
82 4 0.02
83 11 0.05
84 20 0.09
85 8 0.04
86 16 0.07
87 110 0.50
88 12 0.05
89 6 0.03
90 22 0.10
91 6 0.03
92 4 0.02
93 1 0.00
94 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (86 bp):
GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCG
ATTTGCTCCTTGTAACACAAG
Found at i:47148092 original size:261 final size:256
Alignment explanation
Indices: 47147650--47148140 Score: 718
Period size: 261 Copynumber: 1.9 Consensus size: 256
47147640 TCAAACTCAA
* * * *
47147650 GACTGTCATGTTGATATCTTCGATATGCTCTCCGTCAAACACAGAGATGCCAAATCTTCTTCTTC
1 GACTGTCATGTTAATATCTTCAATATGCTCTCCGCCAAACACAGAGACGCCAAATCTTCTTCTTC
* *
47147715 GATTTGTTTTCTGACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGA
66 GATTTGTTTTCTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGCGA
* * * * *
47147780 AAGCCAAATCTGCTGTGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGAT
131 AAACCAAATCAGCTATGCCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAACCATCTTGGAT
47147845 CTGCTTCAGTAAAATCATCTGAAGGTCAGATCTGCTATGTCTTTAATCTGCTTCTTGTAAACTTA
196 CTGCTTCAG-----TCATCTGAAGGTCAGATCTGCTATGTCTTTAATCTGCTTCTTGTAAACTTA
47147910 T
256 T
* * * *
47147911 GACTGTCCTGTTAATATCTTCAATCTGCTCTCCGCCGAATACAGAGACGCCAAATCTGT-TTCTT
1 GACTGTCATGTTAATATCTTCAATATGCTCTCCGCCAAACACAGAGACGCCAAATCT-TCTTCTT
* *
47147975 CGATTTGTTCTT-TAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGC
65 CGATTTGTT-TTCTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGC
*
47148039 GAAAACCAAATCAGCTATGCCTTCGATTTGTTCCTTGT-AAGCACAAGGATGCCAAACCATCTTG
129 GAAAACCAAATCAGCTATGCCTTCGATTTGCTCCTTGTGAA-CACAAGGATGCCAAACCATCTTG
*
47148103 GATCTGCTTCAGTCATCTGAAGGTTAGATCTGCTATGT
193 GATCTGCTTCAGTCATCTGAAGGTCAGATCTGCTATGT
47148141 ATCTGCTCTC
Statistics
Matches: 208, Mismatches: 19, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
256 25 0.12
260 2 0.01
261 178 0.86
262 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (256 bp):
GACTGTCATGTTAATATCTTCAATATGCTCTCCGCCAAACACAGAGACGCCAAATCTTCTTCTTC
GATTTGTTTTCTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGCGA
AAACCAAATCAGCTATGCCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAACCATCTTGGAT
CTGCTTCAGTCATCTGAAGGTCAGATCTGCTATGTCTTTAATCTGCTTCTTGTAAACTTAT
Found at i:47148424 original size:205 final size:205
Alignment explanation
Indices: 47147972--47148930 Score: 1586
Period size: 205 Copynumber: 4.7 Consensus size: 205
47147962 AAATCTGTTT
* *
47147972 CTTCGATTTGTTCTTTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
47148037 GCGAAAACCAAATCAGCTATGCCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
47148102 GGATCTGCTTCAG--T---CATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
47148162 AGATGCCAGA
196 AGATGCCAGA
* *
47148172 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATTTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
47148237 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
47148302 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
47148367 AGATGCCAGA
196 AGATGCCAGA
* * * **
47148377 CTTCAATTTGTTCTCTGATAATATAGAGATGCCAAATCATCTTAGATTTGCTTCATTGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
*
47148442 GTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
47148507 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTTTGTATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
* *
47148572 AGATACTAGA
196 AGATGCCAGA
* *
47148582 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
47148647 GTGAAAGCCAAATCAGCTATGTCTGCGATTTGTTCCTTGTAAACACAAGGATGCCAAACTATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
47148712 GGATCTGCTTCAGTATAAATAACTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGA
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
* *
47148777 AGATGTCAAA
196 AGATGCCAGA
* * *
47148787 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATTTTAGATTTGCTTCAACATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* **
47148852 GTGAAAACCAAATCAGCTATGTCTTCGATTTCCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
47148917 GGATCTTGCTTCAG
131 GGATC-TGCTTCAG
47148931 CCAGATCTGC
Statistics
Matches: 707, Mismatches: 46, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
200 136 0.19
202 1 0.00
205 562 0.79
206 8 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
AGATGCCAGA
Found at i:47149883 original size:1 final size:1
Alignment explanation
Indices: 47149873--47149938 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
47149863 GGCCTCTCCA
* * * * * * * * *
47149873 TTTTTCTTTTTTTCTTTTTTTTTTTATTTTTATATTTTTTTCTCTTTTTCTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
47149938 T
1 T
47149939 GCAATAGAAG
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.05, C:0.09, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:47169203 original size:43 final size:43
Alignment explanation
Indices: 47169155--47169318 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 43
47169145 ATCAAGATGT
*
47169155 GATTACATGTAAGACCATATCTGGGACATTGACATTTTATTGA
1 GATTACATGTAAGACCATATCTGGGACATTGGCATTTTATTGA
* * * * * *
47169198 GATTACGTGTAAGACCATGTCTGAGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATATCTGGGACATTGGCAT-TTTATTGA
* * * * ** *
47169241 GATTTCGTGTAAGACCCTATCTGGGACAGTGGCA-TCGATATGT
1 GATTACATGTAAGACCATATCTGGGACATTGGCATTTTAT-TGA
* *
47169284 GATAACATGTAAGACCATATCTGGGATA-TGGCATT
1 GATTACATGTAAGACCATATCTGGGACATTGGCATT
47169319 GTACAAGCTT
Statistics
Matches: 95, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
41 1 0.01
42 6 0.06
43 84 0.88
44 4 0.04
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATATCTGGGACATTGGCATTTTATTGA
Found at i:47174145 original size:19 final size:19
Alignment explanation
Indices: 47174121--47174161 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
47174111 CATAATAATA
* * *
47174121 TATATAGTTATATTTTTAT
1 TATATAATTACATATTTAT
47174140 TATATAATTACATATTTAT
1 TATATAATTACATATTTAT
47174159 TAT
1 TAT
47174162 TTTATTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
TATATAATTACATATTTAT
Found at i:47174146 original size:28 final size:28
Alignment explanation
Indices: 47174115--47174174 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
47174105 TTTTAACATA
*
47174115 ATAATATATATAGTTA-TATTTT-TATTAT
1 ATAAT-TACATAGTTATTATTTTAT-TTAT
*
47174143 ATAATTACATATTTATTATTTTATTTAT
1 ATAATTACATAGTTATTATTTTATTTAT
47174171 ATAA
1 ATAA
47174175 ATAAAAGCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.29
28 19 0.68
29 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (28 bp):
ATAATTACATAGTTATTATTTTATTTAT
Found at i:47174736 original size:267 final size:267
Alignment explanation
Indices: 47174222--47174754 Score: 1007
Period size: 266 Copynumber: 2.0 Consensus size: 267
47174212 CTTGAAAGCA
* *
47174222 ATATATTTATTAATTAAAATTTTAAAAAAAGATTAAAATAACATGAAATAAAAAATAGAAATATG
1 ATATATTTATTAATTAAAATTTTAAAAAAAGATTAAAACAACATGAAATAAAAAATACAAATATG
47174287 AGTAGGAGAAGAATCAAACCCGAGACTTAAGGTTAAAATTATTAACATTTCACCATTTAACCAAA
66 AGTAGGAGAAGAATCAAACCCGAGACTTAAGGTTAAAATTATTAACATTTCACCATTTAACCAAA
47174352 AAAAAATTAATGTATTAAAAAATCCATTTTATAGGAAGTGTTTTCTGACACTTCAGTTGTCTTTA
131 AAAAAATTAATGTATTAAAAAATCCATTTTATAGGAAGTGTTTTCTGACACTTCAGTTGTCTTTA
47174417 AAATCGACTTATTTCTCTAAATATGAAAAATAAAAGCCTACTTTGCAAAAAAAAAAAGAGTTCAG
196 AAATCGACTTATTTCTCTAAATATGAAAAATAAAAGCCTACTTTGCAAAAAAAAAAAGAGTTCAG
47174482 CTTTTTT
261 CTTTTTT
47174489 ATATATTTATTAATTAAAAATTTT-AAAAAAGATTAAAACAACATGAAATAAAAAATACAAATAT
1 ATATATTTATTAATT-AAAATTTTAAAAAAAGATTAAAACAACATGAAATAAAAAATACAAATAT
47174553 GAGTAGGAGAAGAATCAAACCCGAGACTTAAGGTTAAAATTATTAACATTTCACCATTTAACC-A
65 GAGTAGGAGAAGAATCAAACCCGAGACTTAAGGTTAAAATTATTAACATTTCACCATTTAACCAA
*
47174617 AAAAAAATTAATGTATTAAAAAATTCATTTTATAGGAAGTGTTTTCTGACACTTCAGTTGTCTTT
130 AAAAAAATTAATGTATTAAAAAATCCATTTTATAGGAAGTGTTTTCTGACACTTCAGTTGTCTTT
*
47174682 AAAATCGACTTATTTCTCTAAATATGAAAAATAAAAGCCTACTTTGCAAAAAAAAAAAGAGTTCG
195 AAAATCGACTTATTTCTCTAAATATGAAAAATAAAAGCCTACTTTGCAAAAAAAAAAAGAGTTCA
47174747 GCTTTTTT
260 GCTTTTTT
47174755 CCCTAATTTT
Statistics
Matches: 261, Mismatches: 4, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
266 137 0.52
267 116 0.44
268 8 0.03
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (267 bp):
ATATATTTATTAATTAAAATTTTAAAAAAAGATTAAAACAACATGAAATAAAAAATACAAATATG
AGTAGGAGAAGAATCAAACCCGAGACTTAAGGTTAAAATTATTAACATTTCACCATTTAACCAAA
AAAAAATTAATGTATTAAAAAATCCATTTTATAGGAAGTGTTTTCTGACACTTCAGTTGTCTTTA
AAATCGACTTATTTCTCTAAATATGAAAAATAAAAGCCTACTTTGCAAAAAAAAAAAGAGTTCAG
CTTTTTT
Found at i:47177909 original size:39 final size:39
Alignment explanation
Indices: 47177853--47177930 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
47177843 CAATATTCAA
* *
47177853 ATAACCTGACCAACAGTTAAATCGATCAGCCCATTGGTT
1 ATAACCAGACCAACAGTTAAATCGATAAGCCCATTGGTT
* *
47177892 ATAACCAGACCAGCAGTTAAATTGATAAGCCCATTGGTT
1 ATAACCAGACCAACAGTTAAATCGATAAGCCCATTGGTT
47177931 TTCGATACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (39 bp):
ATAACCAGACCAACAGTTAAATCGATAAGCCCATTGGTT
Found at i:47178738 original size:12 final size:12
Alignment explanation
Indices: 47178723--47178756 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
47178713 ATTTTCTCTT
*
47178723 CTTTTTTTTTTG
1 CTTTTTTTTTTA
47178735 CTTTTTTTTTTA
1 CTTTTTTTTTTA
47178747 CTTCTTTTTT
1 CTT-TTTTTT
47178757 GTGTCATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (12 bp):
CTTTTTTTTTTA
Found at i:47178806 original size:187 final size:187
Alignment explanation
Indices: 47178463--47179021 Score: 1002
Period size: 187 Copynumber: 3.0 Consensus size: 187
47178453 GGACTTATTT
*
47178463 GTAAAAACATAAGGACAAGAAGGATAGATGTGAATGCAAAATTAATTCTTGGACTATAATTAGAT
1 GTAAAAACATAAGGACAAGAGGGATAGATGTGAATGCAAAATTAATTCTTGGACTATAATTAGAT
47178528 AAA-TTT-TC-TCTTTTTTTTTTGC-TTTTTTTTTACTTCTTTTTTGTGTCATAAGTACCACACT
66 AAATTTTCTCTTCTTTTTTTTTTGCTTTTTTTTTTACTTCTTTTTTGTGTCATAAGTACCACACT
47178589 TTAATAGAACGAATTGTTGATGCTTCAAAAAAAGCAAAGAATGGGTCAACTTCAATA
131 TTAATAGAACGAATTGTTGATGCTTCAAAAAAAGCAAAGAATGGGTCAACTTCAATA
*
47178646 GTAGAAACATAAGGACAAGAGGGATAGATGTGAATGCAAAATTAATTCTTGGACTATAATTAGAT
1 GTAAAAACATAAGGACAAGAGGGATAGATGTGAATGCAAAATTAATTCTTGGACTATAATTAGAT
47178711 AAATTTTCTCTTCTTTTTTTTTTGCTTTTTTTTTTACTTCTTTTTTGTGTCATAAGTACCACACT
66 AAATTTTCTCTTCTTTTTTTTTTGCTTTTTTTTTTACTTCTTTTTTGTGTCATAAGTACCACACT
47178776 TTAATAGAACGAATTGTTGATGCTTCAAAAAAAGCAAAGAATGGGTCAACTTCAATA
131 TTAATAGAACGAATTGTTGATGCTTCAAAAAAAGCAAAGAATGGGTCAACTTCAATA
47178833 GTAAAAACATAAGGACAAGAGGGATAGATGTGAATGCAAAATTAATTCTTGGACTATAATTAGAT
1 GTAAAAACATAAGGACAAGAGGGATAGATGTGAATGCAAAATTAATTCTTGGACTATAATTAGAT
* * *
47178898 AAATTTTCTTTTCTTTTTTTTTTTG-TGCTTTTATTTTACTTCTTTTTTGTGTCCTAAGTACCAC
66 AAATTTTCTCTTC-TTTTTTTTTTGCT--TTTTTTTTTACTTCTTTTTTGTGTCATAAGTACCAC
*
47178962 ACTTTAATAGAACGAATTGTTGATGCTTCAAAAAGAGCAAAGAATGGGTCAACTTCAATA
128 ACTTTAATAGAACGAATTGTTGATGCTTCAAAAAAAGCAAAGAATGGGTCAACTTCAATA
47179022 TACATTTTTT
Statistics
Matches: 362, Mismatches: 7, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
183 66 0.18
184 3 0.01
185 2 0.01
186 14 0.04
187 173 0.48
188 11 0.03
189 93 0.26
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (187 bp):
GTAAAAACATAAGGACAAGAGGGATAGATGTGAATGCAAAATTAATTCTTGGACTATAATTAGAT
AAATTTTCTCTTCTTTTTTTTTTGCTTTTTTTTTTACTTCTTTTTTGTGTCATAAGTACCACACT
TTAATAGAACGAATTGTTGATGCTTCAAAAAAAGCAAAGAATGGGTCAACTTCAATA
Found at i:47183781 original size:28 final size:28
Alignment explanation
Indices: 47183749--47183806 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
47183739 TTTCGGTGGA
*
47183749 TGTTAGATAAATTGGGATAACATGTATT
1 TGTTAGATAAATTAGGATAACATGTATT
47183777 TGTTAGATAAATTAGGATAACATGTATT
1 TGTTAGATAAATTAGGATAACATGTATT
47183805 TG
1 TG
47183807 ATATTAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.40
Consensus pattern (28 bp):
TGTTAGATAAATTAGGATAACATGTATT
Found at i:47194764 original size:50 final size:50
Alignment explanation
Indices: 47194640--47194888 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
47194630 GATAATAACA
* * ** * *
47194640 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
47194691 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
47194741 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
47194791 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
47194846 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
47194889 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:47194818 original size:100 final size:104
Alignment explanation
Indices: 47194639--47194888 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
47194629 TGATAATAAC
**
47194639 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
47194704 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
47194741 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
47194804 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
47194846 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
47194889 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:47195004 original size:13 final size:13
Alignment explanation
Indices: 47194983--47195014 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
47194973 GCTTGGATCA
*
47194983 TCATCAAATAAAT
1 TCATAAAATAAAT
47194996 TCATAAAATAAAT
1 TCATAAAATAAAT
47195009 TCATAA
1 TCATAA
47195015 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:47195261 original size:30 final size:30
Alignment explanation
Indices: 47195226--47195283 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
47195216 CCTCGACTCT
*
47195226 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
47195256 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
47195284 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:47200220 original size:20 final size:21
Alignment explanation
Indices: 47200181--47200220 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
47200171 CATGTTTTCT
* *
47200181 TTCCGTTTAGCTCTTATGAGC
1 TTCCGTTTAACTCATATGAGC
47200202 TTCCG-TTAACTCATATGAG
1 TTCCGTTTAACTCATATGAG
47200221 TTTCAGTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (21 bp):
TTCCGTTTAACTCATATGAGC
Found at i:47200305 original size:39 final size:39
Alignment explanation
Indices: 47200247--47200323 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
47200237 CGGGGTTTCA
* * *
47200247 GTTTAGCTCTGATGAGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTGATGAGCTTCAGCTAGACTTCGGGCTTCC
* *
47200286 GTTTAGCACTTATGTGCTTCAGCTAGACTTCGGGCTTC
1 GTTTAGCACTGATGAGCTTCAGCTAGACTTCGGGCTTC
47200324 AGATCACGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.14, C:0.25, G:0.25, T:0.36
Consensus pattern (39 bp):
GTTTAGCACTGATGAGCTTCAGCTAGACTTCGGGCTTCC
Found at i:47208421 original size:28 final size:28
Alignment explanation
Indices: 47208390--47208461 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
47208380 TCGATATTTT
* *
47208390 GCACACTAAGTGTCATTCTTAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
47208418 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
47208446 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
47208462 ATTTGATTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:47213657 original size:15 final size:15
Alignment explanation
Indices: 47213633--47213668 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
47213623 TCCCTATACT
*
47213633 TTTCAAAATTTGAAA
1 TTTCAGAATTTGAAA
47213648 TTTCAGAATTTGAAA
1 TTTCAGAATTTGAAA
47213663 TTTCAG
1 TTTCAG
47213669 TTTTTATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (15 bp):
TTTCAGAATTTGAAA
Found at i:47214118 original size:14 final size:14
Alignment explanation
Indices: 47214099--47214143 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
47214089 TTAAATTTAA
47214099 AAAATATAAAAATT
1 AAAATATAAAAATT
*
47214113 AAAATA-ACTAAATT
1 AAAATATA-AAAATT
47214127 AAAATATAAAAATT
1 AAAATATAAAAATT
47214141 AAA
1 AAA
47214144 TCCATAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:47221710 original size:32 final size:32
Alignment explanation
Indices: 47221673--47221735 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
47221663 GAGCTGGGTC
47221673 ACTCATACAGGCTCAACTCATTAAGAAACACT
1 ACTCATACAGGCTCAACTCATTAAGAAACACT
**
47221705 ACTCATACAGGCTCAACTTGTTAAGAAACAC
1 ACTCATACAGGCTCAACTCATTAAGAAACAC
47221736 CACTTCAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (32 bp):
ACTCATACAGGCTCAACTCATTAAGAAACACT
Found at i:47223860 original size:15 final size:15
Alignment explanation
Indices: 47223840--47223870 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47223830 AGTAATGTTT
47223840 AAATAAAACATCTAA
1 AAATAAAACATCTAA
*
47223855 AAATAAAATATCTAA
1 AAATAAAACATCTAA
47223870 A
1 A
47223871 GATCGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAAAACATCTAA
Found at i:47233269 original size:7 final size:7
Alignment explanation
Indices: 47233257--47233284 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
47233247 GATTACATTT
47233257 TATTAAA
1 TATTAAA
47233264 TATTAAA
1 TATTAAA
47233271 TATTAAA
1 TATTAAA
47233278 TATTAAA
1 TATTAAA
47233285 ATAAATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TATTAAA
Found at i:47234145 original size:61 final size:61
Alignment explanation
Indices: 47234069--47234193 Score: 198
Period size: 61 Copynumber: 2.0 Consensus size: 61
47234059 TTTTGAGTTC
*
47234069 ATATCCGATCAAATCATATTTTTTAAAATTTTTTATATAGAAATACAAAAATA-TCTTCAAA
1 ATATCCGATCAAATCATATTTTTTAAAATTTTTTATATAAAAATACAAAAATATTCTT-AAA
* * *
47234130 ATATCCTATCGAATCATATTTTTTAAAATTTTTTATATAAAAATATAAAAATATTCTTAAA
1 ATATCCGATCAAATCATATTTTTTAAAATTTTTTATATAAAAATACAAAAATATTCTTAAA
47234191 ATA
1 ATA
47234194 ATATTTATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
61 55 0.93
62 4 0.07
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (61 bp):
ATATCCGATCAAATCATATTTTTTAAAATTTTTTATATAAAAATACAAAAATATTCTTAAA
Found at i:47234461 original size:20 final size:20
Alignment explanation
Indices: 47234415--47234461 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
47234405 AAAATTTGAA
*
47234415 ATTTTATATAAAAATATATT
1 ATTTTATAAAAAAATATATT
**
47234435 AAGTTATAAAAAAAT-TATTT
1 ATTTTATAAAAAAATATA-TT
47234455 ATTTTAT
1 ATTTTAT
47234462 TGTCCATTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATTTTATAAAAAAATATATT
Found at i:47236000 original size:20 final size:21
Alignment explanation
Indices: 47235958--47235998 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
47235948 CACTTGAATT
47235958 TAAAATTTTAAAAATAAAAAA
1 TAAAATTTTAAAAATAAAAAA
*
47235979 TAAATTTTTAAAAATAAAAA
1 TAAAATTTTAAAAATAAAAA
47235999 TATTCTGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAATTTTAAAAATAAAAAA
Found at i:47239526 original size:107 final size:107
Alignment explanation
Indices: 47239340--47239554 Score: 430
Period size: 107 Copynumber: 2.0 Consensus size: 107
47239330 TAGTTAAACT
47239340 CTGTTTACTTGTTTCAATCAAACACTGATTAGTTTAGATTATTTTATTATTATTTGATCTATGAA
1 CTGTTTACTTGTTTCAATCAAACACTGATTAGTTTAGATTATTTTATTATTATTTGATCTATGAA
47239405 TTTAGCCTATAAATAGGCTCTTTTACAACCTTAGAAAATACA
66 TTTAGCCTATAAATAGGCTCTTTTACAACCTTAGAAAATACA
47239447 CTGTTTACTTGTTTCAATCAAACACTGATTAGTTTAGATTATTTTATTATTATTTGATCTATGAA
1 CTGTTTACTTGTTTCAATCAAACACTGATTAGTTTAGATTATTTTATTATTATTTGATCTATGAA
47239512 TTTAGCCTATAAATAGGCTCTTTTACAACCTTAGAAAATACA
66 TTTAGCCTATAAATAGGCTCTTTTACAACCTTAGAAAATACA
47239554 C
1 C
47239555 CCATTAGAGA
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 108 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (107 bp):
CTGTTTACTTGTTTCAATCAAACACTGATTAGTTTAGATTATTTTATTATTATTTGATCTATGAA
TTTAGCCTATAAATAGGCTCTTTTACAACCTTAGAAAATACA
Found at i:47244473 original size:12 final size:13
Alignment explanation
Indices: 47244447--47244484 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
47244437 TGTAGATTGT
47244447 TTTATAAAGAATTA
1 TTTATAAA-AATTA
47244461 -TTATAAAAATTA
1 TTTATAAAAATTA
*
47244473 TTTATAGAAATT
1 TTTATAAAAATT
47244485 GATATCCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (13 bp):
TTTATAAAAATTA
Found at i:47244961 original size:24 final size:25
Alignment explanation
Indices: 47244923--47244971 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
47244913 TGTTTTCCGT
*
47244923 AAAAAGATTTGAATGACTTTTTTAA
1 AAAAAGATTTGAATGAATTTTTTAA
*
47244948 AAAAAG-TTTTAATGAATTTTTTAA
1 AAAAAGATTTGAATGAATTTTTTAA
47244972 CCCTTCAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (25 bp):
AAAAAGATTTGAATGAATTTTTTAA
Found at i:47246728 original size:17 final size:16
Alignment explanation
Indices: 47246684--47246736 Score: 88
Period size: 16 Copynumber: 3.2 Consensus size: 16
47246674 TTTGGTTCGC
47246684 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
47246700 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47246716 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
47246733 TGTA
1 TGTA
47246737 ATAGCTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
16 20 0.59
17 14 0.41
ACGTcount: A:0.25, C:0.02, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:47246993 original size:18 final size:17
Alignment explanation
Indices: 47246972--47247006 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47246962 TTATTATTAA
*
47246972 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
47246990 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
47247007 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:47247093 original size:26 final size:26
Alignment explanation
Indices: 47247064--47247154 Score: 94
Period size: 26 Copynumber: 3.4 Consensus size: 26
47247054 TGATACTGTA
* *
47247064 AAATATAAATTAACATAATTATTATT
1 AAATATAATTTAAAATAATTATTATT
* *
47247090 AAATATATTTTAATTAA-AATATATGATT
1 AAATATAATTTAA--AATAAT-TATTATT
* *
47247118 TAATACAATTTAAAATAATTATTATT
1 AAATATAATTTAAAATAATTATTATT
47247144 AAATATAATTT
1 AAATATAATTT
47247155 CATAAAATGT
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
26 28 0.55
27 6 0.12
28 17 0.33
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (26 bp):
AAATATAATTTAAAATAATTATTATT
Found at i:47252501 original size:43 final size:43
Alignment explanation
Indices: 47252453--47252661 Score: 310
Period size: 43 Copynumber: 4.9 Consensus size: 43
47252443 TTATGAGGCA
* * *
47252453 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* *
47252496 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCCTTACCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* *
47252539 AAACGCTGCTAAAGAACATGATCTTTAGCGGCGCTTTAAACAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* *
47252582 AAATGCCGCTAAAGAACATGATCTTTAGCGACGCTTTAACCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* * *
47252625 AAATGCCGCTAAAAAACATGATCTTTAGCGACGCTTT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTT
47252662 TGATAAAAGC
Statistics
Matches: 154, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 154 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
Found at i:47257064 original size:16 final size:16
Alignment explanation
Indices: 47257031--47257070 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
47257021 TTTCGGGTAT
47257031 GGGAA-AAA-TTGAAG
1 GGGAATAAATTTGAAG
*
47257045 GGGAATAAATTTGGAG
1 GGGAATAAATTTGAAG
47257061 GGGAATAAAT
1 GGGAATAAAT
47257071 ATTTCAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.22
15 3 0.13
16 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.20
Consensus pattern (16 bp):
GGGAATAAATTTGAAG
Found at i:47257455 original size:25 final size:26
Alignment explanation
Indices: 47257427--47257479 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
47257417 AAAATTAAAA
* *
47257427 ATTTTAGTGTTTTTATTTCATTT-TT
1 ATTTTAGTATTTTAATTTCATTTCTT
* *
47257452 ATTTTTGTATTTTAATTTTATTTCTT
1 ATTTTAGTATTTTAATTTCATTTCTT
47257478 AT
1 AT
47257480 AATTTGGTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.72
Consensus pattern (26 bp):
ATTTTAGTATTTTAATTTCATTTCTT
Found at i:47257462 original size:19 final size:18
Alignment explanation
Indices: 47257426--47257479 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
47257416 TAAAATTAAA
47257426 AATTTTAGTGTTTTTATTTC
1 AATTTTA-T-TTTTTATTTC
* *
47257446 ATTTTTATTTTTGTATTTT
1 AATTTTATTTTT-TATTTC
*
47257465 AATTTTATTTCTTAT
1 AATTTTATTTTTTAT
47257480 AATTTGGTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 16 0.55
20 6 0.21
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.70
Consensus pattern (18 bp):
AATTTTATTTTTTATTTC
Found at i:47257814 original size:22 final size:21
Alignment explanation
Indices: 47257789--47257855 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
47257779 CCGACCCTTG
*
47257789 AATCCTTAAGTCCTAACCCCTA
1 AATCCCTAA-TCCTAACCCCTA
*
47257811 AATCCCTAACTCTTAACCCCT-
1 AATCCCTAA-TCCTAACCCCTA
* *
47257832 AACCCCTAACCACTAACCCCTA
1 AATCCCTAATC-CTAACCCCTA
47257854 AA
1 AA
47257856 CCTTAAATCC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
20 1 0.03
21 16 0.43
22 20 0.54
ACGTcount: A:0.34, C:0.42, G:0.01, T:0.22
Consensus pattern (21 bp):
AATCCCTAATCCTAACCCCTA
Found at i:47257834 original size:7 final size:7
Alignment explanation
Indices: 47257800--47257854 Score: 65
Period size: 7 Copynumber: 7.7 Consensus size: 7
47257790 ATCCTTAAGT
47257800 CCTAACC
1 CCTAACC
*
47257807 CCTAAATC
1 CCT-AACC
*
47257815 CCTAACT
1 CCTAACC
*
47257822 CTTAACC
1 CCTAACC
47257829 CCTAACC
1 CCTAACC
47257836 CCTAACC
1 CCTAACC
*
47257843 ACTAACC
1 CCTAACC
47257850 CCTAA
1 CCTAA
47257855 ACCTTAAATC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 33 0.85
8 6 0.15
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (7 bp):
CCTAACC
Found at i:47258169 original size:26 final size:26
Alignment explanation
Indices: 47258133--47258186 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
47258123 GCCCTAAATC
* *
47258133 CCTAACTCTTAACATCTAACCCCTAA
1 CCTAACCCTTAACACCTAACCCCTAA
* *
47258159 CCTAACCCTTAACCCCTAACCCTTAA
1 CCTAACCCTTAACACCTAACCCCTAA
47258185 CC
1 CC
47258187 CATAAACCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.44, G:0.00, T:0.24
Consensus pattern (26 bp):
CCTAACCCTTAACACCTAACCCCTAA
Found at i:47258187 original size:14 final size:14
Alignment explanation
Indices: 47258132--47258198 Score: 66
Period size: 14 Copynumber: 4.9 Consensus size: 14
47258122 AGCCCTAAAT
*
47258132 CCCTAACTCTTAAC
1 CCCTAACCCTTAAC
** *
47258146 ATCTAACCCCTAA-
1 CCCTAACCCTTAAC
47258159 -CCTAACCCTTAAC
1 CCCTAACCCTTAAC
47258172 CCCTAACCCTTAAC
1 CCCTAACCCTTAAC
* *
47258186 CCATAAACCTTAA
1 CCCTAACCCTTAA
47258199 ATCACATTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 10 0.23
14 33 0.77
ACGTcount: A:0.34, C:0.42, G:0.00, T:0.24
Consensus pattern (14 bp):
CCCTAACCCTTAAC
Found at i:47258215 original size:7 final size:7
Alignment explanation
Indices: 47258149--47258198 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
47258139 TCTTAACATC
*
47258149 TAACCCC
1 TAACCCT
47258156 TAA-CC-
1 TAACCCT
47258161 TAACCCT
1 TAACCCT
*
47258168 TAACCCC
1 TAACCCT
47258175 TAACCCT
1 TAACCCT
*
47258182 TAACCCA
1 TAACCCT
*
47258189 TAAACCT
1 TAACCCT
47258196 TAA
1 TAA
47258199 ATCACATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
5 3 0.08
6 4 0.11
7 29 0.81
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.22
Consensus pattern (7 bp):
TAACCCT
Found at i:47258240 original size:14 final size:15
Alignment explanation
Indices: 47258221--47258253 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
47258211 CTTAAATCAG
47258221 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
47258235 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
47258250 AATC
1 AATC
47258254 TATAAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:47259122 original size:147 final size:148
Alignment explanation
Indices: 47258837--47259151 Score: 571
Period size: 148 Copynumber: 2.1 Consensus size: 148
47258827 ATGGCAGATG
47258837 TATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAA
1 TATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAA
47258902 GCGCCGCAAAATTTTTTTCATTTTGAAAAAAACGACGCCGTTTTGCTATTCTAACAATTTTTTAT
66 GCGCCGCAAAATTTTTTTCATTTTGAAAAAAACGACGCCGTTTTGCTATTCTAACAATTTTTTAT
*
47258967 TTTTTTTATAAGTTGATT
131 TTTTTTTATAAATTGATT
47258985 TATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAA
1 TATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAA
*
47259050 GCGCCGCAAAA-TTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAA-AATTTTTTTA
66 GCGCCGCAAAATTTTTTTCATTTTGAAAAAAACGACGCCGTTTTGCTATTCTAACAA-TTTTTTA
47259113 TTTTTTTTATAAATTGATT
130 TTTTTTTTATAAATTGATT
*
47259132 TATTTTTTAGTGGCGTTTTT
1 TATTTTTT-GCGGCGTTTTT
47259152 TATCCAAACG
Statistics
Matches: 162, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
146 2 0.01
147 74 0.46
148 86 0.53
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.45
Consensus pattern (148 bp):
TATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAA
GCGCCGCAAAATTTTTTTCATTTTGAAAAAAACGACGCCGTTTTGCTATTCTAACAATTTTTTAT
TTTTTTTATAAATTGATT
Found at i:47259174 original size:12 final size:12
Alignment explanation
Indices: 47259157--47259182 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47259147 TTTTTTATCC
47259157 AAACGCCGCTAA
1 AAACGCCGCTAA
47259169 AAACGCCGCTAA
1 AAACGCCGCTAA
47259181 AA
1 AA
47259183 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:47260149 original size:13 final size:13
Alignment explanation
Indices: 47260131--47260156 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47260121 CAGCTAAACT
47260131 GAAACAGAAGGAA
1 GAAACAGAAGGAA
47260144 GAAACAGAAGGAA
1 GAAACAGAAGGAA
47260157 CAGCTAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAACAGAAGGAA
Found at i:47260162 original size:36 final size:36
Alignment explanation
Indices: 47260121--47260199 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 36
47260111 GGTTGTGAAG
*
47260121 CAGCTAAACTGAAACAGAAGGAAGAAACAGAAGGAA
1 CAGCTAAACTGAAACAGAAAGAAGAAACAGAAGGAA
*
47260157 CAGCTAAACTGAAACAGAAAGAAGAAATAGAAGGAA
1 CAGCTAAACTGAAACAGAAAGAAGAAACAGAAGGAA
*
47260193 CGGCTAA
1 CAGCTAA
47260200 GTTGTGAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.54, C:0.14, G:0.24, T:0.08
Consensus pattern (36 bp):
CAGCTAAACTGAAACAGAAAGAAGAAACAGAAGGAA
Found at i:47270214 original size:52 final size:52
Alignment explanation
Indices: 47270152--47270256 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
47270142 ACATAGTCCT
*
47270152 CTTTCCCTTGTGCAATAAAACCCTCTGGCTGCTCCATGTAAAGCTCTTCTTC
1 CTTTCCCTTGTGCAACAAAACCCTCTGGCTGCTCCATGTAAAGCTCTTCTTC
47270204 CTTTCCCTTGTGCAACAAAACCCTCTGGCTGCTCCATGTAAAGCTCTTCTTC
1 CTTTCCCTTGTGCAACAAAACCCTCTGGCTGCTCCATGTAAAGCTCTTCTTC
47270256 C
1 C
47270257 AAGTCACCAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.33
Consensus pattern (52 bp):
CTTTCCCTTGTGCAACAAAACCCTCTGGCTGCTCCATGTAAAGCTCTTCTTC
Found at i:47276548 original size:21 final size:21
Alignment explanation
Indices: 47276522--47276564 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
47276512 ATAGATCTAC
47276522 TGTTTAGGAAGGAAATACATT
1 TGTTTAGGAAGGAAATACATT
47276543 TGTTTAGGAAGGAAATACATT
1 TGTTTAGGAAGGAAATACATT
47276564 T
1 T
47276565 TAACTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (21 bp):
TGTTTAGGAAGGAAATACATT
Found at i:47292031 original size:16 final size:16
Alignment explanation
Indices: 47292012--47292042 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47292002 CTTCTTCACT
47292012 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
47292028 TACTTACTTACTTAA
1 TACTCACTTACTTAA
47292043 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:47292048 original size:20 final size:20
Alignment explanation
Indices: 47292009--47292048 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
47291999 AAACTTCTTC
* *
47292009 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
47292029 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
47292049 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:47292363 original size:53 final size:54
Alignment explanation
Indices: 47292234--47292485 Score: 268
Period size: 55 Copynumber: 4.7 Consensus size: 54
47292224 ACGCGGGTAC
* * * *
47292234 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
47292283 CTTACCATTGCCATGTCTTGACATGGTCTTACATAGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
47292336 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * *
47292391 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
47292444 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATC
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATC
47292486 TTTAAACCCT
Statistics
Matches: 169, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 48 0.28
54 10 0.06
55 69 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:47292433 original size:108 final size:110
Alignment explanation
Indices: 47292281--47292481 Score: 320
Period size: 108 Copynumber: 1.8 Consensus size: 110
47292271 ATCCTTTTGA
*
47292281 AACTTACCATTGCCATGTCTTGACATGGTCTTACATAGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATAGTATCCTTGCCTTA-GAAACCTCACCAA
47292344 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
47292389 AACTTATCAATGCCATGTCTTGACATGGTCTTACAT-GATTTCCTTGCCTTAGAAACCTTACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATAG-TATCCTTGCCTTAGAAACCTCACCAA
47292453 TTGCCATGCCTTGGCATGGTCTTACATGG
65 TTGCCATGCCTTGGCATGGTCTTACATGG
47292482 TATCTTTAAA
Statistics
Matches: 85, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
107 2 0.02
108 48 0.56
109 7 0.08
110 28 0.33
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATAGTATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:47301890 original size:5 final size:5
Alignment explanation
Indices: 47301880--47301935 Score: 103
Period size: 5 Copynumber: 11.2 Consensus size: 5
47301870 CCAGACCCAC
*
47301880 ACTAG ACTAG AATAG ACTAG ACTAG ACTAG ACTAG ACTAG ACTAG ACTAG
1 ACTAG ACTAG ACTAG ACTAG ACTAG ACTAG ACTAG ACTAG ACTAG ACTAG
47301930 ACTAG A
1 ACTAG A
47301936 GAGAGCAATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 49 1.00
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.20
Consensus pattern (5 bp):
ACTAG
Found at i:47310480 original size:56 final size:56
Alignment explanation
Indices: 47310394--47310507 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
47310384 AATTTCATAT
*
47310394 CATCAAACACAAGTGAATTCTCAATTTATGAGAAAAGTTAAGGGAATTCTATCCAC
1 CATCAAACACAAATGAATTCTCAATTTATGAGAAAAGTTAAGGGAATTCTATCCAC
*
47310450 CATCAAACACAAATGAATTCTCAATTTATGAGAACAGTTAAGGGAATTCTATCCAC
1 CATCAAACACAAATGAATTCTCAATTTATGAGAAAAGTTAAGGGAATTCTATCCAC
47310506 CA
1 CA
47310508 AAAGTAAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.26
Consensus pattern (56 bp):
CATCAAACACAAATGAATTCTCAATTTATGAGAAAAGTTAAGGGAATTCTATCCAC
Found at i:47311512 original size:21 final size:21
Alignment explanation
Indices: 47311488--47311555 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 21
47311478 GAAACTTTCA
47311488 AAGAAAAATCTAAACCTTAGG
1 AAGAAAAATCTAAACCTTAGG
* *
47311509 AAGACATAAAGT-GAAACTTTCA--
1 AAGA-A-AAA-TCTAAACCTT-AGG
47311531 AAGAAAAATCTAAACCTTAGG
1 AAGAAAAATCTAAACCTTAGG
47311552 AAGA
1 AAGA
47311556 CAATCTTCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 9 0.25
21 9 0.25
22 5 0.14
23 9 0.25
24 2 0.06
ACGTcount: A:0.53, C:0.13, G:0.15, T:0.19
Consensus pattern (21 bp):
AAGAAAAATCTAAACCTTAGG
Found at i:47311533 original size:43 final size:43
Alignment explanation
Indices: 47311472--47311557 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
47311462 AAGGCAATGG
47311472 TAAAGTGAAACTTTCAAAGAAAAATCTAAACCTTAGGAAGACA
1 TAAAGTGAAACTTTCAAAGAAAAATCTAAACCTTAGGAAGACA
47311515 TAAAGTGAAACTTTCAAAGAAAAATCTAAACCTTAGGAAGACA
1 TAAAGTGAAACTTTCAAAGAAAAATCTAAACCTTAGGAAGACA
47311558 ATCTTCATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (43 bp):
TAAAGTGAAACTTTCAAAGAAAAATCTAAACCTTAGGAAGACA
Found at i:47314067 original size:46 final size:46
Alignment explanation
Indices: 47314014--47314189 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
47314004 TATTTGGGCA
*
47314014 TCCGAACTCTTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
47314060 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
47314105 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
47314153 TCCGAGCTCTTTGAGTTGAGTCCAAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47314190 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47314169 original size:93 final size:93
Alignment explanation
Indices: 47314010--47314181 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
47314000 GGGATATTTG
* *
47314010 GGCATCCGAACTCTTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
*
47314075 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
* * *
47314103 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTCTTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
47314168 TTGAGTCCAAGTTC
66 TTGAGTCCAAGTTC
47314182 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:47316853 original size:52 final size:52
Alignment explanation
Indices: 47316782--47316885 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
47316772 CCTGTTTTCC
47316782 AAGTCCAGACTCAGCTCGATCCTAAAATGGGCATAAAATTCTGCCCCAAGCT
1 AAGTCCAGACTCAGCTCGATCCTAAAATGGGCATAAAATTCTGCCCCAAGCT
47316834 AAGTCCAGACTCAGCTCGATCCTAAAATGGGCATAAAATTCTGCCCCAAGCT
1 AAGTCCAGACTCAGCTCGATCCTAAAATGGGCATAAAATTCTGCCCCAAGCT
47316886 TAGCTCAGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (52 bp):
AAGTCCAGACTCAGCTCGATCCTAAAATGGGCATAAAATTCTGCCCCAAGCT
Found at i:47321801 original size:26 final size:25
Alignment explanation
Indices: 47321752--47321801 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
47321742 ATCTAGGACA
*
47321752 TTTAAACCAAGCCAAAAAAAAATCT
1 TTTAAACCAAGCAAAAAAAAAATCT
47321777 TTTAAACCAAGTCAAAAAAAAAATC
1 TTTAAACCAAG-CAAAAAAAAAATC
47321802 AAGTCTTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.58, C:0.18, G:0.04, T:0.20
Consensus pattern (25 bp):
TTTAAACCAAGCAAAAAAAAAATCT
Found at i:47323464 original size:30 final size:30
Alignment explanation
Indices: 47323428--47323514 Score: 156
Period size: 30 Copynumber: 2.9 Consensus size: 30
47323418 CGCAGAGCAG
*
47323428 TTCATATCACTCGGACATTGGCGGTTCAAA
1 TTCATATCACTCGGACATAGGCGGTTCAAA
*
47323458 TTCATATCACTCGGACATAGGCGGTTCAAG
1 TTCATATCACTCGGACATAGGCGGTTCAAA
47323488 TTCATATCACTCGGACATAGGCGGTTC
1 TTCATATCACTCGGACATAGGCGGTTC
47323515 GAGTTTATTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (30 bp):
TTCATATCACTCGGACATAGGCGGTTCAAA
Found at i:47327218 original size:19 final size:17
Alignment explanation
Indices: 47327175--47327209 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
47327165 AAAGAGATAG
47327175 TATTAATTTTAAAATAT
1 TATTAATTTTAAAATAT
47327192 TATTAATTTTAAAATAT
1 TATTAATTTTAAAATAT
47327209 T
1 T
47327210 GAATTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTAATTTTAAAATAT
Found at i:47327269 original size:21 final size:21
Alignment explanation
Indices: 47327223--47327328 Score: 54
Period size: 21 Copynumber: 5.0 Consensus size: 21
47327213 TTAATTATCA
* *
47327223 TTATAGTTTAGGGTTTATGGT
1 TTATGGTTAAGGGTTTATGGT
*
47327244 ATATGGTTAAGGGTTTAAT-GT
1 TTATGGTTAAGGGTTT-ATGGT
*** *
47327265 TTATGAGTT-ACTATTGTAAGGT
1 TTATG-GTTAAGGGTT-TATGGT
* * *
47327287 TTATGGATTATGGGTTTAGGGA
1 TTATGG-TTAAGGGTTTATGGT
* *
47327309 TTATGGTTTATGGTTTATGG
1 TTATGGTTAAGGGTTTATGG
47327329 GTTAAAGGTT
Statistics
Matches: 61, Mismatches: 18, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
21 34 0.56
22 25 0.41
23 2 0.03
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.47
Consensus pattern (21 bp):
TTATGGTTAAGGGTTTATGGT
Found at i:47327299 original size:7 final size:7
Alignment explanation
Indices: 47327284--47327328 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
47327274 ACTATTGTAA
47327284 GGTTTAT
1 GGTTTAT
*
47327291 GGATTAT
1 GGTTTAT
*
47327298 GGGTTTAG
1 -GGTTTAT
*
47327306 GGATTAT
1 GGTTTAT
47327313 GGTTTAT
1 GGTTTAT
47327320 GGTTTAT
1 GGTTTAT
47327327 GG
1 GG
47327329 GTTAAAGGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
7 26 0.84
8 5 0.16
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.47
Consensus pattern (7 bp):
GGTTTAT
Found at i:47327304 original size:15 final size:15
Alignment explanation
Indices: 47327284--47327331 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
47327274 ACTATTGTAA
47327284 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
47327299 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
*
47327313 GGTTTATGGTTTATG
1 GGTTTATGGATTATG
47327328 GGTT
1 GGTT
47327332 AAAGGTTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:47327384 original size:14 final size:15
Alignment explanation
Indices: 47327360--47327388 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47327350 TTAAGGGATT
47327360 GGGGTTTAAGGTTTA
1 GGGGTTTAAGGTTTA
47327375 GGGG-TTAAGGTTTA
1 GGGGTTTAAGGTTTA
47327389 TTCTTTTCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (15 bp):
GGGGTTTAAGGTTTA
Found at i:47327890 original size:34 final size:34
Alignment explanation
Indices: 47327846--47327913 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
47327836 TATCAAGATT
*
47327846 CTTGCAATCCTCTTCTATTTAGTTGTCTTACATA
1 CTTGCAATCCTCTTCTATTTAGTTGCCTTACATA
*
47327880 CTTGCTATCCTCTTCTATTTAGTTGCCTTACATA
1 CTTGCAATCCTCTTCTATTTAGTTGCCTTACATA
47327914 AAAAATGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.19, C:0.25, G:0.09, T:0.47
Consensus pattern (34 bp):
CTTGCAATCCTCTTCTATTTAGTTGCCTTACATA
Found at i:47328788 original size:16 final size:15
Alignment explanation
Indices: 47328758--47328796 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
47328748 CTTGAATAGC
*
47328758 AAATTTTATTATATT
1 AAATTTTTTTATATT
*
47328773 ACATTTTTTTAGTATT
1 AAATTTTTTTA-TATT
47328789 AAATTTTT
1 AAATTTTT
47328797 CATGAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
AAATTTTTTTATATT
Found at i:47331133 original size:20 final size:21
Alignment explanation
Indices: 47331081--47331141 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
47331071 AAATTTCAAG
47331081 AATTAAACATAATATAATATTTA
1 AATTAAA-ATAA-ATAATATTTA
* *
47331104 AAATAGAAATAAATATTATTT-
1 AATTA-AAATAAATAATATTTA
47331125 AATTAAAATAAAATAAT
1 AATTAAAAT-AAATAAT
47331142 TTTTTAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
20 4 0.12
21 10 0.31
22 8 0.25
23 8 0.25
24 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
AATTAAAATAAATAATATTTA
Found at i:47336360 original size:5 final size:5
Alignment explanation
Indices: 47336352--47336413 Score: 67
Period size: 5 Copynumber: 12.4 Consensus size: 5
47336342 AAAAAAAAAG
*
47336352 AGAAA AGAAA AGAAA AG-AA AGAAA TA-AAGA AGAAAA AGAAA A-AGA
1 AGAAA AGAAA AGAAA AGAAA AGAAA -AGAA-A AG-AAA AGAAA AGAAA
47336397 AGAAA AGAAA AGAAA AG
1 AGAAA AGAAA AGAAA AG
47336414 GAGAGGCCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
4 7 0.14
5 35 0.71
6 5 0.10
7 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (5 bp):
AGAAA
Found at i:47336382 original size:8 final size:8
Alignment explanation
Indices: 47336345--47336412 Score: 55
Period size: 9 Copynumber: 7.5 Consensus size: 8
47336335 GATCAACAAA
47336345 AAAAAAGAG
1 AAAAAA-AG
47336354 AAAAGAAAAG
1 -AAA-AAAAG
47336364 AAAAGAAAG
1 AAAA-AAAG
*
47336373 AAATAAAG
1 AAAAAAAG
47336381 AAGAAAAAG
1 AA-AAAAAG
47336390 AAAAAGAAG
1 AAAAA-AAG
47336399 AAAAGAAAAG
1 -AAA-AAAAG
47336409 AAAA
1 AAAA
47336413 GGAGAGGCCA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
8 11 0.22
9 23 0.46
10 11 0.22
11 5 0.10
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.01
Consensus pattern (8 bp):
AAAAAAAG
Found at i:47337726 original size:44 final size:44
Alignment explanation
Indices: 47337677--47337969 Score: 331
Period size: 44 Copynumber: 6.9 Consensus size: 44
47337667 TCCTTTAAGT
* *
47337677 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGTAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGA
* * *
47337721 AGATAACAGATTTTGCGTCTCTGTAGCGGTGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGA
*
47337765 AGATAACAGATTT--AG---C-G--GT---GGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGA
*
47337798 AGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGA
** * *
47337842 AGATAGTAGATTTGGCGTCTCTGTAGTGGAGGAGAGCAAATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGA
* * *
47337886 AGATAATAGATTTGGTGTCTCTATAGTGGCGGAGAGCA-AGTCGA
1 AGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGA-TCGA
* * * *
47337930 AGATAGCAAATTTGGCGTATCTGTAGTGGCAGAGAGCAGA
1 AGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGA
47337970 CGTCTCTGTA
Statistics
Matches: 215, Mismatches: 21, Indels: 25
0.82 0.08 0.10
Matches are distributed among these distances:
33 26 0.12
35 1 0.00
36 1 0.00
38 2 0.01
39 2 0.01
41 2 0.01
42 1 0.00
43 1 0.00
44 178 0.83
45 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.24
Consensus pattern (44 bp):
AGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGA
Found at i:47337781 original size:33 final size:33
Alignment explanation
Indices: 47337744--47337810 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
47337734 TGCGTCTCTG
47337744 TAGCGGTGGAGAGCAGATCGAAGATAACAGATT
1 TAGCGGTGGAGAGCAGATCGAAGATAACAGATT
*
47337777 TAGCGGTGGAGAGCAGATCGAAGATAATAGATT
1 TAGCGGTGGAGAGCAGATCGAAGATAACAGATT
47337810 T
1 T
47337811 GGCGTCTCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.10, G:0.33, T:0.21
Consensus pattern (33 bp):
TAGCGGTGGAGAGCAGATCGAAGATAACAGATT
Found at i:47337795 original size:77 final size:77
Alignment explanation
Indices: 47337700--47338765 Score: 246
Period size: 88 Copynumber: 13.0 Consensus size: 77
47337690 GGCGTCTCTG
* * *
47337700 TAGCGGCGGAGAGTAGATCGAAGATAACAGATTTTGCGTCTCTGTAGCGGTGGAGAGCAGATCGA
1 TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
47337765 AGATAACAGATT
66 AGATAACAGATT
* * *
47337777 TAGCGGTGGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGA
1 TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
47337842 AGATAGTAGATTTGGCGTCTCT
66 AGATA--ACA------G-AT-T
* * * * * * *
47337864 GTAGTGGAGGAGAGCAAATCGAAGATAATAGATTTGGTGTCTCTATAGTGGCGGAGAGCA-AGTC
1 -TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGA-TC
* *
47337928 GAAGATAGCAAATT
64 GAAGATAACAGATT
* ** * * * * * * * *
47337942 T---GGCGTATCTGTAG-TGGCAGAGAGCAGA-----CGTCTCTGTAGTGGCAGAGAGCAGATTG
1 TAGCGGCGGA-GAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
*
47337998 AAGATAATAGATTTGGCGTCTCT
65 AAGATAACAGA---------T-T
* ** * * *
47338021 GTAGTGGCGGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTAGTGGAGGAGAGCAAATCG
1 -TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
*
47338086 AAGATAATAGATTTGGTGTCTCT
65 AAGATAACAGA---------T-T
* * * * * *
47338109 ATAGTGGCGGAGAGCA-AGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGGCAGAGAGCAGA-C
1 -TAGCGGCGGAGAGCAGA-TCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATC
** *
47338172 ---G-T--C-TCTG
64 GAAGATAACAGATT
* * *
47338179 TAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGA
1 TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
47338244 AGATAGTAGATTTGGCGTCTCT
66 AGATA--ACA------G-AT-T
* * * * * * *
47338266 GTAGTGGAGGAGAGCAAATCGAAGATAATAGATTTGGTGTCTCTATAGTGGCGGAGAGCA-AGTC
1 -TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGA-TC
* *
47338330 GAAGATAGCAAATT
64 GAAGATAACAGATT
* ** * * * * * * * *
47338344 T---GGCGTATCTGTAG-TGGCAGAGAGCAGA-----CGTCTCTGTAGTGGCAGAGAGCAGATCA
1 TAGCGGCGGA-GAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
*
47338400 AAGATAATAGATTTGGCGTCT
65 AAGATAACAGA-------T-T
* ** * *
47338421 CCATAGTGGCGGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGAT
1 ---TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGAT
* *
47338486 CGAAAATAACAAATTTGGCGTCTCT
63 CGAAGATAAC--A------G-AT-T
* * * *
47338511 GTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGAGTAGATCG
1 -TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
*
47338576 AAGATAATAGATTTGGCGTCTCT
65 AAGATAACAGA---------T-T
* * * * * * *
47338599 ATAGTGGCAGAGAGTAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATTG
1 -TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
*
47338664 AAGATAATAGATTTGGCGTCTCT
65 AAGATAACAGA---------T-T
* * *
47338687 GTAGTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCG
1 -TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
47338752 AAGATAACAGATT
65 AAGATAACAGATT
47338765 T
1 T
47338766 GGCGTTTCCG
Statistics
Matches: 765, Mismatches: 128, Indels: 192
0.71 0.12 0.18
Matches are distributed among these distances:
69 114 0.15
70 4 0.01
71 1 0.00
73 1 0.00
74 27 0.04
75 4 0.01
76 1 0.00
77 68 0.09
78 4 0.01
79 6 0.01
80 3 0.00
82 6 0.01
83 31 0.04
84 1 0.00
85 1 0.00
86 6 0.01
87 5 0.01
88 477 0.62
90 4 0.01
96 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (77 bp):
TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
AGATAACAGATT
Found at i:47338013 original size:69 final size:69
Alignment explanation
Indices: 47337902--47338038 Score: 186
Period size: 69 Copynumber: 2.0 Consensus size: 69
47337892 TAGATTTGGT
* *
47337902 GTCTCTATAGTGGCGGAGAGCAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGGCAGAGAGC
1 GTCTCTATAGTGGCAGAGAGCAAGTCGAAGATAACAAATTTGGCGTATCTGTAGTGGCAGAGAGC
47337967 AGAC
66 AGAC
* * * * * *
47337971 GTCTCTGTAGTGGCAGAGAGC-AGATTGAAGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGAG
1 GTCTCTATAGTGGCAGAGAGCAAG-TCGAAGATAACAAATTTGGCGTATCTGTAGTGGCAGAGAG
47338035 CAGA
65 CAGA
47338039 TCGAAGATAG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
68 2 0.03
69 57 0.97
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.23
Consensus pattern (69 bp):
GTCTCTATAGTGGCAGAGAGCAAGTCGAAGATAACAAATTTGGCGTATCTGTAGTGGCAGAGAGC
AGAC
Found at i:47338019 original size:157 final size:157
Alignment explanation
Indices: 47337813--47338124 Score: 471
Period size: 157 Copynumber: 2.0 Consensus size: 157
47337803 ATAGATTTGG
* *
47337813 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTAGTGGAGGAGAG
1 CGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGTGGAGGAGAG
* * * *
47337878 CAAATCGAAGATAATAGATTTGGTGTCTCTATAGTGGCGGAGAGCAAGTCGAAGATAGCAAATTT
66 CAAATCGAAGATAATAGATTTGGCGTCTCTATAGTGGAGGAGAGCAAATCGAAGATAACAAATTT
*
47337943 GGCGTATCTGTAGTGGCAGAGAGCAGA
131 GGCGTATCTATAGTGGCAGAGAGCAGA
* *
47337970 CGTCTCTGTAGTGGCAGAGAGCAGATTGAAGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGAG
1 CGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGTGGAGGAGAG
* * * * *
47338035 CAGATCGAAGATAGTAGATTTGGCGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAATAGATTT
66 CAAATCGAAGATAATAGATTTGGCGTCTCTATAGTGGAGGAGAGCAAATCGAAGATAACAAATTT
* * *
47338100 GGTGTCTCTATAGTGGCGGAGAGCA
131 GGCGTATCTATAGTGGCAGAGAGCA
47338125 AGTCGAAGAT
Statistics
Matches: 138, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
157 138 1.00
ACGTcount: A:0.28, C:0.13, G:0.34, T:0.25
Consensus pattern (157 bp):
CGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGTGGAGGAGAG
CAAATCGAAGATAATAGATTTGGCGTCTCTATAGTGGAGGAGAGCAAATCGAAGATAACAAATTT
GGCGTATCTATAGTGGCAGAGAGCAGA
Found at i:47338034 original size:44 final size:44
Alignment explanation
Indices: 47337970--47338170 Score: 278
Period size: 44 Copynumber: 4.6 Consensus size: 44
47337960 AGAGAGCAGA
* *
47337970 CGTCTCTGTAGTGGCAGAGAGCAGATTGAAGATAATAGATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGG
*
47338014 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAGTAGATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGG
* *
47338058 CGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAATAGATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGG
* * ** *
47338102 TGTCTCTATAGTGGCGGAGAGCA-AGTCGAAGATAGCAAATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGA-TCGAAGATAATAGATTTGG
* *
47338146 CGTATCTGTAGTGGCAGAGAGCAGA
1 CGTCTCTGTAGTGGCGGAGAGCAGA
47338171 CGTCTCTGTA
Statistics
Matches: 139, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
43 1 0.01
44 137 0.99
45 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (44 bp):
CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGG
Found at i:47338037 original size:201 final size:201
Alignment explanation
Indices: 47337785--47338770 Score: 1465
Period size: 201 Copynumber: 4.8 Consensus size: 201
47337775 TTTAGCGGTG
47337785 GAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAGTA
1 GAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAGTA
47337850 GATTTGGCGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAATAGATTTGGTGTCTCTATAGTGG
66 GATTTGGCGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAATAGATTTGGTGTCTCTATAGTGG
47337915 CGGAGAGCAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGGCAGAGAGCAGACGTCTCTGTA
131 CGGAGAGCAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGGCAGAGAGCAGACGTCTCTGTA
47337980 GTGGCA
196 GTGGCA
*
47337986 GAGAGCAGATTGAAGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAGTA
1 GAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAGTA
47338051 GATTTGGCGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAATAGATTTGGTGTCTCTATAGTGG
66 GATTTGGCGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAATAGATTTGGTGTCTCTATAGTGG
47338116 CGGAGAGCAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGGCAGAGAGCAGACGTCTCTGTA
131 CGGAGAGCAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGGCAGAGAGCAGACGTCTCTGTA
47338181 GTGGCA
196 GTGGCA
*
47338187 GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAGTA
1 GAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAGTA
47338252 GATTTGGCGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAATAGATTTGGTGTCTCTATAGTGG
66 GATTTGGCGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAATAGATTTGGTGTCTCTATAGTGG
47338317 CGGAGAGCAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGGCAGAGAGCAGACGTCTCTGTA
131 CGGAGAGCAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGGCAGAGAGCAGACGTCTCTGTA
47338382 GTGGCA
196 GTGGCA
* **
47338388 GAGAGCAGATCAAAGATAATAGATTTGGCGTCTCCATAGTGGCGGAGAGCAGATCGAAGATAGTA
1 GAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAGTA
* * * * * *
47338453 GATTTGGCGTCTCTGTAGTGGCA-GAGAGCAGATCGAAAATAACAAATTTGGCGTCTCTGTAGTG
66 GATTTGGCGTCTCTGTAGTGG-AGGAGAGCAAATCGAAGATAATAGATTTGGTGTCTCTATAGTG
** * *
47338517 GCGGAGAGC-AGATCGAAGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGAGTAGATCGAAGAT
130 GCGGAGAGCAAG-TCGAAGATAGCAAATTTGGCGTATCTGTAGTGGC--AGAG-AG--C------
*
47338581 AATAGATTTGGCGTCTCTATAGTGGCA
183 ---AGA-----CGTCTCTGTAGTGGCA
* ** * * *
47338608 GAGAGTAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATTGAAGATAATA
1 GAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAGTA
* * ** * * *
47338673 GATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGG
66 GATTTGGCGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAATAGATTTGGTGTCTCTATAGTGG
* * *
47338738 CAGAGAGC-AGATCGAAGATAACAGATTTGGCGT
131 CGGAGAGCAAG-TCGAAGATAGCAAATTTGGCGT
47338771 TTCCGTAGCG
Statistics
Matches: 729, Mismatches: 34, Indels: 25
0.93 0.04 0.03
Matches are distributed among these distances:
200 2 0.00
201 555 0.76
202 1 0.00
203 4 0.01
204 2 0.00
206 1 0.00
215 3 0.00
220 161 0.22
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (201 bp):
GAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAGTA
GATTTGGCGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAATAGATTTGGTGTCTCTATAGTGG
CGGAGAGCAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGGCAGAGAGCAGACGTCTCTGTA
GTGGCA
Found at i:47338056 original size:113 final size:113
Alignment explanation
Indices: 47337857--47338080 Score: 337
Period size: 113 Copynumber: 2.0 Consensus size: 113
47337847 GTAGATTTGG
*
47337857 CGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAATAGATTTGGTGTCTCTATAGTGGCGGAGAG
1 CGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAATAGATTTGGCGTCTCTATAGTGGCGGAGAG
47337922 CAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGGCA-GAGAGCAGA
66 CAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGG-AGGAGAGCAGA
* * *
47337970 CGTCTCTGTAGTGGCA-GAGAGCAGATTGAAGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGA
1 CGTCTCTGTAGTGG-AGGAGAGCAAATCGAAGATAATAGATTTGGCGTCTCTATAGTGGCGGAGA
* * *
47338034 GC-AGATCGAAGATAGTAGATTTGGCGTCTCTGTAGTGGAGGAGAGCA
65 GCAAG-TCGAAGATAGCAAATTTGGCGTATCTGTAGTGGAGGAGAGCA
47338081 AATCGAAGAT
Statistics
Matches: 101, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
112 3 0.03
113 97 0.96
114 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.34, T:0.25
Consensus pattern (113 bp):
CGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAATAGATTTGGCGTCTCTATAGTGGCGGAGAG
CAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGGAGGAGAGCAGA
Found at i:47338175 original size:157 final size:157
Alignment explanation
Indices: 47338014--47338325 Score: 471
Period size: 157 Copynumber: 2.0 Consensus size: 157
47338004 ATAGATTTGG
* **
47338014 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTAGTGGAGGAGAG
1 CGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGAGGAGAG
* * * *
47338079 CAAATCGAAGATAATAGATTTGGTGTCTCTATAGTGGCGGAGAGCAAGTCGAAGATAGCAAATTT
66 CAAATCGAAGATAATAGATTTGGCGTCTCTATAGTGGAGGAGAGCAAATCGAAGATAACAAATTT
*
47338144 GGCGTATCTGTAGTGGCAGAGAGCAGA
131 GGCGTATCTATAGTGGCAGAGAGCAGA
*
47338171 CGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAG
1 CGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGAGGAGAG
* * * * *
47338236 CAGATCGAAGATAGTAGATTTGGCGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAATAGATTT
66 CAAATCGAAGATAATAGATTTGGCGTCTCTATAGTGGAGGAGAGCAAATCGAAGATAACAAATTT
* * *
47338301 GGTGTCTCTATAGTGGCGGAGAGCA
131 GGCGTATCTATAGTGGCAGAGAGCA
47338326 AGTCGAAGAT
Statistics
Matches: 138, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
157 138 1.00
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (157 bp):
CGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGAGGAGAG
CAAATCGAAGATAATAGATTTGGCGTCTCTATAGTGGAGGAGAGCAAATCGAAGATAACAAATTT
GGCGTATCTATAGTGGCAGAGAGCAGA
Found at i:47338214 original size:69 final size:69
Alignment explanation
Indices: 47338103--47338239 Score: 204
Period size: 69 Copynumber: 2.0 Consensus size: 69
47338093 TAGATTTGGT
* *
47338103 GTCTCTATAGTGGCGGAGAGCAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGGCAGAGAGC
1 GTCTCTATAGTGGCAGAGAGCAAGTCGAAGATAACAAATTTGGCGTATCTGTAGTGGCAGAGAGC
47338168 AGAC
66 AGAC
* * * *
47338172 GTCTCTGTAGTGGCAGAGAGC-AGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAG
1 GTCTCTATAGTGGCAGAGAGCAAG-TCGAAGATAACAAATTTGGCGTATCTGTAGTGGCAGAGAG
47338236 CAGA
65 CAGA
47338240 TCGAAGATAG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 2 0.03
69 59 0.97
ACGTcount: A:0.28, C:0.16, G:0.34, T:0.22
Consensus pattern (69 bp):
GTCTCTATAGTGGCAGAGAGCAAGTCGAAGATAACAAATTTGGCGTATCTGTAGTGGCAGAGAGC
AGAC
Found at i:47338235 original size:44 final size:44
Alignment explanation
Indices: 47338171--47338371 Score: 278
Period size: 44 Copynumber: 4.6 Consensus size: 44
47338161 AGAGAGCAGA
*
47338171 CGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACAGATTTGG
**
47338215 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAGTAGATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACAGATTTGG
* * *
47338259 CGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAATAGATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACAGATTTGG
* * * *
47338303 TGTCTCTATAGTGGCGGAGAGCA-AGTCGAAGATAGCAAATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGA-TCGAAGATAACAGATTTGG
* *
47338347 CGTATCTGTAGTGGCAGAGAGCAGA
1 CGTCTCTGTAGTGGCGGAGAGCAGA
47338372 CGTCTCTGTA
Statistics
Matches: 139, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
43 1 0.01
44 137 0.99
45 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (44 bp):
CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACAGATTTGG
Found at i:47338257 original size:113 final size:113
Alignment explanation
Indices: 47338058--47338281 Score: 337
Period size: 113 Copynumber: 2.0 Consensus size: 113
47338048 GTAGATTTGG
* *
47338058 CGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAATAGATTTGGTGTCTCTATAGTGGCGGAGAG
1 CGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAACAGATTTGGCGTCTCTATAGTGGCGGAGAG
47338123 CAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGGCA-GAGAGCAGA
66 CAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGG-AGGAGAGCAGA
* *
47338171 CGTCTCTGTAGTGGCA-GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGA
1 CGTCTCTGTAGTGG-AGGAGAGCAAATCGAAGATAACAGATTTGGCGTCTCTATAGTGGCGGAGA
* * *
47338235 GC-AGATCGAAGATAGTAGATTTGGCGTCTCTGTAGTGGAGGAGAGCA
65 GCAAG-TCGAAGATAGCAAATTTGGCGTATCTGTAGTGGAGGAGAGCA
47338282 AATCGAAGAT
Statistics
Matches: 101, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
112 3 0.03
113 97 0.96
114 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (113 bp):
CGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAACAGATTTGGCGTCTCTATAGTGGCGGAGAG
CAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGGAGGAGAGCAGA
Found at i:47338415 original size:69 final size:69
Alignment explanation
Indices: 47338304--47338440 Score: 168
Period size: 69 Copynumber: 2.0 Consensus size: 69
47338294 TAGATTTGGT
* * * **
47338304 GTCTCTATAGTGGCGGAGAGCAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGGCAGAGAGC
1 GTCTCTATAGTGGCAGAGAGCAAGTCAAAGATAACAAATTTGGCGTATCCATAGTGGCAGAGAGC
47338369 AGAC
66 AGAC
* * * * *
47338373 GTCTCTGTAGTGGCAGAGAGC-AGATCAAAGATAATAGATTTGGCGTCTCCATAGTGGCGGAGAG
1 GTCTCTATAGTGGCAGAGAGCAAG-TCAAAGATAACAAATTTGGCGTATCCATAGTGGCAGAGAG
47338437 CAGA
65 CAGA
47338441 TCGAAGATAG
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
68 2 0.04
69 55 0.96
ACGTcount: A:0.29, C:0.16, G:0.33, T:0.22
Consensus pattern (69 bp):
GTCTCTATAGTGGCAGAGAGCAAGTCAAAGATAACAAATTTGGCGTATCCATAGTGGCAGAGAGC
AGAC
Found at i:47338436 original size:44 final size:44
Alignment explanation
Indices: 47338372--47338977 Score: 707
Period size: 44 Copynumber: 13.7 Consensus size: 44
47338362 AGAGAGCAGA
* *
47338372 CGTCTCTGTAGTGGCAGAGAGCAGATCAAAGATAATAGATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGG
** *
47338416 CGTCTCCATAGTGGCGGAGAGCAGATCGAAGATAGTAGATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGG
* * * *
47338460 CGTCTCTGTAGTGGCAGAGAGCAGATCGAAAATAACAAATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGG
47338504 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGG
*
47338548 CGTCTCTGTAGTGGCGGAGAGTAGATCGAAGATAATAGATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGG
* * * **
47338592 CGTCTCTATAGTGGCAGAGAGTAGATCGAAGATAGCAGATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGG
* *
47338636 CGTCTCTGTAGTGGCAGAGAGCAGATTGAAGATAATAGATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGG
**
47338680 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAGCAGATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGG
* * *
47338724 CGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGG
* * * * * * * *
47338768 CGTTTCCGTAGCGACGAAAAGCAGATCGAAGACAACAGATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGG
* * * * * * *
47338812 TGTTTCTGTAGCGGCAGAAAGCAGGTCGAAGATAACAGATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGG
* *
47338856 CGTCTCTGTAGCGGCGGAGAGTAGATCGAAGA-AGCAT-GATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATA--ATAGATTTGG
* ** *
47338900 CATCTCTGTAGCAGCGGAGAGTAGATCGAAGATAGCAT-GATTTGG
1 CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATA--ATAGATTTGG
* * * *
47338945 CATCTCTATATTAGGCAGG-GAGCAGATCAAAGA
1 CGTCTCTGTAGT-GGC-GGAGAGCAGATCGAAGA
47338978 CATAGCTGAT
Statistics
Matches: 495, Mismatches: 62, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
43 1 0.00
44 456 0.92
45 22 0.04
46 14 0.03
47 2 0.00
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.24
Consensus pattern (44 bp):
CGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGG
Found at i:47338458 original size:113 final size:113
Alignment explanation
Indices: 47338259--47338484 Score: 357
Period size: 113 Copynumber: 2.0 Consensus size: 113
47338249 GTAGATTTGG
* * *
47338259 CGTCTCTGTAGTGGAGGAGAGCAAATCGAAGATAATAGATTTGGTGTCTCTATAGTGGCGGAGAG
1 CGTCTCTGTAGTGGAGGAGAGCAAATCAAAGATAATAGATTTGGCGTCTCCATAGTGGCGGAGAG
47338324 CAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGGCAGAGAGCAGA
66 CAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGGCAGAGAGCAGA
*
47338372 CGTCTCTGTAGTGGCA-GAGAGCAGATCAAAGATAATAGATTTGGCGTCTCCATAGTGGCGGAGA
1 CGTCTCTGTAGTGG-AGGAGAGCAAATCAAAGATAATAGATTTGGCGTCTCCATAGTGGCGGAGA
* * *
47338436 GC-AGATCGAAGATAGTAGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGA
65 GCAAG-TCGAAGATAGCAAATTTGGCGTATCTGTAGTGGCAGAGAGCAGA
47338485 TCGAAAATAA
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
112 2 0.02
113 101 0.97
114 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (113 bp):
CGTCTCTGTAGTGGAGGAGAGCAAATCAAAGATAATAGATTTGGCGTCTCCATAGTGGCGGAGAG
CAAGTCGAAGATAGCAAATTTGGCGTATCTGTAGTGGCAGAGAGCAGA
Found at i:47338521 original size:88 final size:88
Alignment explanation
Indices: 47338372--47338992 Score: 778
Period size: 88 Copynumber: 7.0 Consensus size: 88
47338362 AGAGAGCAGA
* * **
47338372 CGTCTCTGTAGTGGCAGAGAGCAGATCAAAGATAATAGATTTGGCGTCTCCATAGTGGCGGAGAG
1 CGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAG
*
47338437 CAGATCGAAGATAGTAGATTTGG
66 CAGATCGAAGATAGCAGATTTGG
* *
47338460 CGTCTCTGTAGTGGCAGAGAGCAGATCGAAAATAACAAATTTGGCGTCTCTGTAGTGGCGGAGAG
1 CGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAG
**
47338525 CAGATCGAAGATAATAGATTTGG
66 CAGATCGAAGATAGCAGATTTGG
* * * * *
47338548 CGTCTCTGTAGTGGCGGAGAGTAGATCGAAGATAATAGATTTGGCGTCTCTATAGTGGCAGAGAG
1 CGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAG
*
47338613 TAGATCGAAGATAGCAGATTTGG
66 CAGATCGAAGATAGCAGATTTGG
* *
47338636 CGTCTCTGTAGTGGCAGAGAGCAGATTGAAGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGAG
1 CGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAG
47338701 CAGATCGAAGATAGCAGATTTGG
66 CAGATCGAAGATAGCAGATTTGG
* * * * * * *
47338724 CGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTTTCCGTAGCGACGAAAAG
1 CGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAG
* *
47338789 CAGATCGAAGACAACAGATTTGG
66 CAGATCGAAGATAGCAGATTTGG
* * * * * *
47338812 TGTTTCTGTAGCGGCAGAAAGCAGGTCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
1 CGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAG
*
47338877 TAGATCGAAGA-AGCATGATTTGG
66 CAGATCGAAGATAGCA-GATTTGG
* ** * * * * * *
47338900 CATCTCTGTAGCAGCGGAGAGTAGATCGAAGATAGCATGATTTGGCATCTCTATATTAGGCAGG-
1 CGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACA-GATTTGGCGTCTCTGTAGT-GGC-GGA
* *
47338964 GAGCAGATCAAAGACATAGCTGATTTGG
63 GAGCAGATCGAAG--ATAGCAGATTTGG
47338992 C
1 C
47338993 TTTCACGTGT
Statistics
Matches: 465, Mismatches: 61, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
87 3 0.01
88 419 0.90
89 15 0.03
90 14 0.03
91 2 0.00
92 9 0.02
93 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (88 bp):
CGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAG
CAGATCGAAGATAGCAGATTTGG
Found at i:47339103 original size:44 final size:44
Alignment explanation
Indices: 47339025--47339109 Score: 73
Period size: 44 Copynumber: 1.9 Consensus size: 44
47339015 AAATCCAAGT
* * ** * *
47339025 AGATTTGACGTCTCTGTATTGTTAGAGGGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAAC
* * *
47339069 AGATTTGGCATCTCTGT-GTTGACAGAGAGTAGATCGAAGAT
1 AGATTTGGCGTCTCTGTAG-TGGCAGAGAGCAGATCGAAGAT
47339110 GGTGAATCTA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.29
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAAC
Found at i:47339708 original size:24 final size:22
Alignment explanation
Indices: 47339681--47339730 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
47339671 CTCCACACCT
*
47339681 GCAAAGAAACAGACAAACACAACA
1 GCAAAG-AACAGACAAAAACAA-A
*
47339705 GC-AAGAACAGGCAAAAACAAA
1 GCAAAGAACAGACAAAAACAAA
47339726 GCAAA
1 GCAAA
47339731 AAAAAACAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 3 0.13
24 2 0.09
ACGTcount: A:0.62, C:0.22, G:0.16, T:0.00
Consensus pattern (22 bp):
GCAAAGAACAGACAAAAACAAA
Found at i:47342217 original size:132 final size:132
Alignment explanation
Indices: 47341978--47342267 Score: 413
Period size: 132 Copynumber: 2.2 Consensus size: 132
47341968 TAAGTATTCA
* * ***
47341978 TTTAAAAATTCTTTAAAACGAAGAC-GAGATTCGATATTTGGCAATTCGCGGAATAGTGTCCTAA
1 TTTAAAAATTCTTTAAAACGAAGGCAAAGATTCGATATTTGGCAATTCGCGGAATAGCACCCTAA
* * *
47342042 CGTGTTGGGTTGCAATTTCGCGTTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTTGTG
66 CGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTAG-G
47342107 CCT
130 CCT
* *
47342110 TTTAAAAATTCTTTAAAACGAAGGCAAAG-TTTGATATTTGGCAATTCGCGGAATCGCACCCTAA
1 TTTAAAAATTCTTTAAAACGAAGGCAAAGATTCGATATTTGGCAATTCGCGGAATAGCACCCTAA
* ** *
47342174 CGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATCCCTTTGAAATTTCACTAGGT
66 CGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTAGGC
47342239 CT
131 CT
* *
47342241 TCTAAAAATCCTTTAAAACGAAGGCAA
1 TTTAAAAATTCTTTAAAACGAAGGCAA
47342268 TACTCGGTGT
Statistics
Matches: 141, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
131 28 0.20
132 111 0.79
133 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (132 bp):
TTTAAAAATTCTTTAAAACGAAGGCAAAGATTCGATATTTGGCAATTCGCGGAATAGCACCCTAA
CGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTAGGC
CT
Found at i:47342497 original size:135 final size:130
Alignment explanation
Indices: 47342014--47342607 Score: 405
Period size: 132 Copynumber: 4.5 Consensus size: 130
47342004 AGATTCGATA
* * * * * * *
47342014 TTTGGCAATTCGCGGAATAGTGTCCTAACGTGTTGGGTTGCAATTTCGCGTTTGTTCAAAATAAT
1 TTTGGCAATTCG-GGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGTTCAAAATAAT
** * * *** * * * * *
47342079 CGAATATCCCTTCAAAATTTCACTTGTGCCTTT-TAAAAATTCTTTAAAACGAAGGCAAA-GTTT
65 CGAACGTCCCTT-TAAGTTTCACTCACG-TTTTCTAAAAACTCTTGAAAACGAAAG-AAATGTTC
* *
47342142 GATA
127 AATG
** * * * * *
47342146 TTTGGCAATTCGCGGAATCGCACCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAAT
1 TTTGGCAATTCG-GGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGTTCAAAATAAT
* ** * * * * * * ** *
47342211 CAAATATCCCTTTGAAATTTCACT-AGGTCTTCTAAAAA-TCCTTTAAAACGAAGGCAATACTCG
65 CGAACGTCCCTTT-AAGTTTCACTCACGTTTTCTAAAAACT-CTTGAAAACGAAAGAAATGTTCA
*
47342274 GTG
128 ATG
* * * *
47342277 TTTGACAATTTGGGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCATTTGTTCAAAATAATC
1 TTTGGCAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGTTCAAAATAATC
* * * * **
47342342 GAACGTTCCTTTAAGTTTTCACTCATGTTTTTTTTAAGAAAAAC-CTTTAAAAC-AAATGCGATG
66 GAACGTCCCTTTAAG-TTTCACTCACG--TTTTCT---AAAAACTCTTGAAAACGAAA-GAAATG
*
47342405 TTCGATG
124 TTCAATG
* * * *
47342412 TTTGGCAATTCGAGAATCGTGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGTTCAAAATGATC
1 TTTGGCAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGTTCAAAATAATC
*
47342477 GAA-GATCCCTTTGGAA-TTTCACTCACGTTTTCTAAAAACTCTTGAAAACGGAAGAAATGTTCA
66 GAACG-TCCCTTT--AAGTTTCACTCACGTTTTCTAAAAACTCTTGAAAACGAAAGAAATGTTCA
47342540 ATG
128 ATG
* * * *
47342543 TTTGGCAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTGC-AATCCCCAGTTTGTTCAAAATAA
1 TTTGGCAATTC-GGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCA-TTTGTTCAAAATAA
47342607 T
64 T
47342608 TGAATGTCTT
Statistics
Matches: 376, Mismatches: 66, Indels: 40
0.78 0.14 0.08
Matches are distributed among these distances:
129 2 0.01
130 70 0.19
131 68 0.18
132 123 0.33
133 9 0.02
134 3 0.01
135 94 0.25
136 5 0.01
137 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (130 bp):
TTTGGCAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGTTCAAAATAATC
GAACGTCCCTTTAAGTTTCACTCACGTTTTCTAAAAACTCTTGAAAACGAAAGAAATGTTCAATG
Found at i:47345127 original size:32 final size:29
Alignment explanation
Indices: 47345072--47345130 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
47345062 AATATTAATT
*
47345072 TTTGAAATTTTAAATTTAATTTAAAAATG
1 TTTGAAATTTTAAAATTAATTTAAAAATG
*
47345101 TTTGAATATCTTTAAAATTAATTTTAAAAT
1 TTTGAA-AT-TTTAAAATTAATTTAAAAAT
47345131 TAATAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 6 0.23
30 2 0.08
31 18 0.69
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (29 bp):
TTTGAAATTTTAAAATTAATTTAAAAATG
Found at i:47345160 original size:12 final size:13
Alignment explanation
Indices: 47345106--47345160 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 13
47345096 AAATGTTTGA
47345106 ATATCTTTAAAATT
1 ATAT-TTTAAAATT
47345120 A-ATTTTAAAATT
1 ATATTTTAAAATT
47345132 AATAATTTATAAAAATT
1 -AT-ATTT-T-AAAATT
47345149 ATA-TTTAAAATT
1 ATATTTTAAAATT
47345161 TAAAAAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
12 15 0.42
13 4 0.11
14 3 0.08
15 5 0.14
16 3 0.08
17 6 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTTTAAAATT
Found at i:47345173 original size:17 final size:19
Alignment explanation
Indices: 47345151--47345187 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
47345141 TAAAAATTAT
47345151 ATTTAAAAT-TTA-AAAAA
1 ATTTAAAATATTATAAAAA
47345168 ATTTAAAATATTATAAAAA
1 ATTTAAAATATTATAAAAA
47345187 A
1 A
47345188 ATAAATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 3 0.17
19 6 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTTAAAATATTATAAAAA
Found at i:47345275 original size:21 final size:20
Alignment explanation
Indices: 47345246--47345284 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
47345236 TAAAAACCAT
*
47345246 AATTTAAAATATTATAAAACA
1 AATTAAAAATATT-TAAAACA
47345267 AATTAAAAATATTTAAAA
1 AATTAAAAATATTTAAAA
47345285 TTTAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTAAAAATATTTAAAACA
Found at i:47345291 original size:16 final size:16
Alignment explanation
Indices: 47345266--47345314 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
47345256 ATTATAAAAC
*
47345266 AAATTAAAAATATTTA
1 AAATTTAAAATATTTA
47345282 AAATTTAAAATA--T-
1 AAATTTAAAATATTTA
*
47345295 ACATTTAAAATATTATA
1 AAATTTAAAATATT-TA
47345312 AAA
1 AAA
47345315 CTAATAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
13 11 0.42
14 1 0.04
16 12 0.46
17 2 0.08
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATTTAAAATATTTA
Found at i:47345431 original size:23 final size:21
Alignment explanation
Indices: 47345371--47345429 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
47345361 TTATATTATT
*
47345371 AAAAAT-ATATTTAATATTTA
1 AAAAATAATATTTAAAATTTA
47345391 AAAAATAATATTTAAAATTTA
1 AAAAATAATATTTAAAATTTA
47345412 AAAAA-AATAATTTCAAAA
1 AAAAATAAT-ATTT-AAAA
47345430 ATATATATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
20 9 0.26
21 22 0.63
22 4 0.11
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAAATAATATTTAAAATTTA
Found at i:47345501 original size:23 final size:22
Alignment explanation
Indices: 47345427--47345501 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 22
47345417 AATAATTTCA
*
47345427 AAAATATATATTTAAAATTTTAAA
1 AAAATATATATTTAAAATTTT--T
**
47345451 AAAATATATATTATAAAACATTT
1 AAAATATATATT-TAAAATTTTT
* *
47345474 CAAATATATATTTCGAAATTTTT
1 AAAATATATATTT-AAAATTTTT
47345497 AAAAT
1 AAAAT
47345502 TAATAATAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
22 1 0.02
23 21 0.51
24 12 0.29
25 7 0.17
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (22 bp):
AAAATATATATTTAAAATTTTT
Done.