Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 67 of 295
Found at i:19399867 original size:81 final size:81
Alignment explanation
Indices: 19399732--19399897 Score: 251
Period size: 81 Copynumber: 2.0 Consensus size: 81
19399722 CGTTACCTCC
* * *
19399732 TTAACATCGGTCCTACGTGGCAGTCCAAATGAGTTTTAAATACCAACTTGGATATCCAAATGATG
1 TTAACAGCGGTCCTACATGGCAGTCCAAATGAGTTTTAAATACCAACTAGGATATCCAAATGATG
19399797 GGATGAAAATAGGTTT
66 GGATGAAAATAGGTTT
* * * * * *
19399813 TTAACAGCGGTCCTACATGGCCGTCTAAATGAGTTTTAAATGCCAACTAGGATATCTAGATGCTG
1 TTAACAGCGGTCCTACATGGCAGTCCAAATGAGTTTTAAATACCAACTAGGATATCCAAATGATG
19399878 GGATGAAAATAGGTTT
66 GGATGAAAATAGGTTT
19399894 TTAA
1 TTAA
19399898 TTAAATAAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (81 bp):
TTAACAGCGGTCCTACATGGCAGTCCAAATGAGTTTTAAATACCAACTAGGATATCCAAATGATG
GGATGAAAATAGGTTT
Found at i:19407007 original size:22 final size:22
Alignment explanation
Indices: 19406976--19407022 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 22
19406966 ATTAATTTAG
19406976 TAAAAATAAAG-TAAATAATTA
1 TAAAAATAAAGTTAAATAATTA
19406997 TAAAAAGTAAAGTTAAATAATTA
1 TAAAAA-TAAAGTTAAATAATTA
19407020 TAA
1 TAA
19407023 TATCTAACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 6 0.25
22 5 0.21
23 13 0.54
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (22 bp):
TAAAAATAAAGTTAAATAATTA
Found at i:19411881 original size:10 final size:9
Alignment explanation
Indices: 19411841--19411950 Score: 69
Period size: 9 Copynumber: 11.6 Consensus size: 9
19411831 TTTTAGAAAA
19411841 TTTTTAAA-
1 TTTTTAAAT
* *
19411849 ATTTTAACT
1 TTTTTAAAT
19411858 TTGTTTATATAT
1 TT-TTTA-A-AT
19411870 TTTTTAGAAT
1 TTTTTA-AAT
*
19411880 TTTTTAAAA
1 TTTTTAAAT
* * *
19411889 TATATATAT
1 TTTTTAAAT
19411898 TTTTTAAAT
1 TTTTTAAAT
19411907 TTTTATAAAT
1 TTTT-TAAAT
*
19411917 ATTTTAAAT
1 TTTTTAAAT
*
19411926 TTTTGAAAAT
1 TTTT-TAAAT
*
19411936 TGTTTTGAAT
1 T-TTTTAAAT
19411946 TTTTT
1 TTTTT
19411951 TTTGTAATTT
Statistics
Matches: 77, Mismatches: 18, Indels: 13
0.71 0.17 0.12
Matches are distributed among these distances:
8 6 0.08
9 30 0.39
10 29 0.38
11 9 0.12
12 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.61
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:19411900 original size:26 final size:27
Alignment explanation
Indices: 19411863--19411918 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
19411853 TAACTTTGTT
* *
19411863 TATATATTTTTTAGAATTTTTTA-AAA
1 TATATATATTTTAGAAATTTTTATAAA
**
19411889 TATATATATTTTTTAAATTTTTATAAA
1 TATATATATTTTAGAAATTTTTATAAA
19411916 TAT
1 TAT
19411919 TTTAAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (27 bp):
TATATATATTTTAGAAATTTTTATAAA
Found at i:19411913 original size:19 final size:19
Alignment explanation
Indices: 19411868--19411949 Score: 71
Period size: 19 Copynumber: 4.3 Consensus size: 19
19411858 TTGTTTATAT
19411868 ATTTTT-TAGAATTTTTTAA
1 ATTTTTATA-AATTTTTTAA
* * *
19411887 A-ATATATATATTTTTTAA
1 ATTTTTATAAATTTTTTAA
*
19411905 ATTTTTATAAATATTTTAA
1 ATTTTTATAAATTTTTTAA
*
19411924 ATTTTTGA-AAATTGTTTTGA
1 ATTTTT-ATAAATT-TTTTAA
19411944 ATTTTT
1 ATTTTT
19411950 TTTTGTAATT
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
18 12 0.24
19 26 0.52
20 12 0.24
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTTTTATAAATTTTTTAA
Found at i:19411927 original size:28 final size:28
Alignment explanation
Indices: 19411863--19411929 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
19411853 TAACTTTGTT
*
19411863 TATATATTTTTTAGAATTTTTTAAAATA
1 TATAAATTTTTTAGAATTTTTTAAAATA
*
19411891 TATATATTTTTTA-AA-TTTTTATAAATA
1 TATAAATTTTTTAGAATTTTTTA-AAATA
*
19411918 TTTTAAATTTTT
1 -TATAAATTTTT
19411930 GAAAATTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 6 0.17
27 7 0.20
28 22 0.63
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (28 bp):
TATAAATTTTTTAGAATTTTTTAAAATA
Found at i:19414023 original size:12 final size:13
Alignment explanation
Indices: 19414006--19414037 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
19413996 ATCATCATCC
19414006 TCCTCTTCC-TCT
1 TCCTCTTCCGTCT
19414018 TCCTC-TCCGTCT
1 TCCTCTTCCGTCT
19414030 TCCTCTTC
1 TCCTCTTC
19414038 ATCGACAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 13 0.72
13 2 0.11
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (13 bp):
TCCTCTTCCGTCT
Found at i:19419055 original size:17 final size:17
Alignment explanation
Indices: 19419035--19419088 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
19419025 ATTTTATCTT
19419035 AATTTTAAATTTTTAAA
1 AATTTTAAATTTTTAAA
**
19419052 AATTTTAAA-AATTAAA
1 AATTTTAAATTTTTAAA
*
19419068 AATTATTAAATGTTTGAAA
1 AATT-TTAAAT-TTTTAAA
19419087 AA
1 AA
19419089 AAAAACATAG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 9 0.31
17 14 0.48
19 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (17 bp):
AATTTTAAATTTTTAAA
Found at i:19421521 original size:12 final size:12
Alignment explanation
Indices: 19421506--19421555 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
19421496 ATCATCATCC
*
19421506 TCTTCGTCTTCA
1 TCTTCCTCTTCA
* *
19421518 TCTTCGTCTTCG
1 TCTTCCTCTTCA
*
19421530 TCTTCCTCTCCA
1 TCTTCCTCTTCA
19421542 TCTTCCTCTTCA
1 TCTTCCTCTTCA
19421554 TC
1 TC
19421556 AACAACTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.06, C:0.40, G:0.06, T:0.48
Consensus pattern (12 bp):
TCTTCCTCTTCA
Found at i:19421527 original size:18 final size:18
Alignment explanation
Indices: 19421497--19421555 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
19421487 AACATCATCA
19421497 TCATCATCC-TCTTCGTCT
1 TCATC-TCCATCTTCGTCT
* *
19421515 TCATCTTCGTCTTCGTCT
1 TCATCTCCATCTTCGTCT
* *
19421533 TCCTCTCCATCTTCCTCT
1 TCATCTCCATCTTCGTCT
19421551 TCATC
1 TCATC
19421556 AACAACTTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 2 0.06
18 32 0.94
ACGTcount: A:0.08, C:0.41, G:0.05, T:0.46
Consensus pattern (18 bp):
TCATCTCCATCTTCGTCT
Found at i:19431002 original size:73 final size:73
Alignment explanation
Indices: 19430916--19431059 Score: 252
Period size: 73 Copynumber: 2.0 Consensus size: 73
19430906 TGTTTATGGA
* *
19430916 AAGTATGATTTCAAATGTGCTATGTACATGAAATTTATCTTACCATGTGATAATTTTGTTAAATT
1 AAGTATGAATTCAAATGTGCTATGTACATGAAATCTATCTTACCATGTGATAATTTTGTTAAATT
19430981 ATGTGTGT
66 ATGTGTGT
* *
19430989 AAGTATGAATTCAAATGTGCTATGTACATGAAATCTATCTTACCATGTGATGATTTTGTTAAGTT
1 AAGTATGAATTCAAATGTGCTATGTACATGAAATCTATCTTACCATGTGATAATTTTGTTAAATT
19431054 ATGTGT
66 ATGTGT
19431060 TTAAAGACTA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.42
Consensus pattern (73 bp):
AAGTATGAATTCAAATGTGCTATGTACATGAAATCTATCTTACCATGTGATAATTTTGTTAAATT
ATGTGTGT
Found at i:19433016 original size:44 final size:44
Alignment explanation
Indices: 19432948--19433039 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
19432938 CCGATGTAAC
*
19432948 AGTAGCAGTACAACACACATAGTGCCTCATCGACTCAAAGTCGA
1 AGTAACAGTACAACACACATAGTGCCTCATCGACTCAAAGTCGA
* ** *
19432992 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACAACACACATAGTGCCTCATCGACTCAAAGTCGA
19433036 AGTA
1 AGTA
19433040 TCCCTGAACA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACAACACACATAGTGCCTCATCGACTCAAAGTCGA
Found at i:19440328 original size:26 final size:26
Alignment explanation
Indices: 19440292--19440345 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
19440282 TACACTAGCA
*
19440292 CACATATCAACGTCAATGCCATGTCC
1 CACATATCAACGCCAATGCCATGTCC
* *
19440318 CACATGTCAACGCCGATGCCATGTCC
1 CACATATCAACGCCAATGCCATGTCC
19440344 CA
1 CA
19440346 GACATGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.37, G:0.15, T:0.20
Consensus pattern (26 bp):
CACATATCAACGCCAATGCCATGTCC
Found at i:19440389 original size:48 final size:48
Alignment explanation
Indices: 19440318--19440462 Score: 195
Period size: 48 Copynumber: 3.0 Consensus size: 48
19440308 TGCCATGTCC
* * *
19440318 CACATGTCAACGCCGATGCCATGTCCCAGACATGGTTTTACACTGGCT
1 CACATATCAACGACGATGCCATGTCCCAGACATGGTCTTACACTGGCT
* *
19440366 CACATATCAACGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
1 CACATATCAACGACGATGCCATGTCCCAGACATGGTCTTACACTGGCT
* *
19440414 -ATCATATCAAC-ACTGATGCCATGTTCAAGACATGGTCTTACACTGGCT
1 CA-CATATCAACGAC-GATGCCATGTCCCAGACATGGTCTTACACTGGCT
19440462 C
1 C
19440463 TCATTAATTG
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
47 2 0.02
48 84 0.98
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
CACATATCAACGACGATGCCATGTCCCAGACATGGTCTTACACTGGCT
Found at i:19442176 original size:17 final size:17
Alignment explanation
Indices: 19442159--19442191 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19442149 ATAACATTAT
19442159 TTTAA-TAAATTTAATA
1 TTTAATTAAATTTAATA
*
19442175 TTTAATTTAATTTAATA
1 TTTAATTAAATTTAATA
19442192 CTTATCATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAATTAAATTTAATA
Found at i:19443861 original size:11 final size:10
Alignment explanation
Indices: 19443839--19443872 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
19443829 ATGGGATATT
19443839 TTATTATTTA
1 TTATTATTTA
19443849 TTATTATTTTA
1 TTATTA-TTTA
19443860 TTATTAATTTA
1 TTATT-ATTTA
19443871 TT
1 TT
19443873 TAATATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.27
11 15 0.68
12 1 0.05
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTATTATTTA
Found at i:19445557 original size:40 final size:40
Alignment explanation
Indices: 19445491--19445628 Score: 152
Period size: 40 Copynumber: 3.5 Consensus size: 40
19445481 CTCAAGAATA
* *
19445491 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATAATAACT
* * ** *
19445531 TAAAGTGGATAGAATTTGTTCTTGATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATAATAACT
* * *
19445571 TAAAGTGAATAGGATTTATTCCTGATTCACTA-AGGTAACT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATA-ATAACT
* *
19445611 TAAAGCGGATAAGATTTG
1 TAAAGTGGATAGGATTTG
19445629 ACCTGAAAAG
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.36
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATAATAACT
Found at i:19445700 original size:79 final size:78
Alignment explanation
Indices: 19445593--19445822 Score: 311
Period size: 79 Copynumber: 2.9 Consensus size: 78
19445583 GATTTATTCC
* * * *
19445593 TGATTCACTAAGGTAACTTAAAGCGGATAAGATTTGACCTGAAAAGGGTAATCCTGATTCACTAC
1 TGATTCATTATGGTAACTT-AAGGGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCACTAC
*
19445658 GGTTACATGATATA
65 GGTTACATGATACA
* *
19445672 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTAC
1 TGATTCATTATGGTAACTTAAGG-GGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCACTAC
* *
19445737 GATTACACGATACA
65 GGTTACATGATACA
* * **
19445751 TGATTCCTTATGATAACTTAAGGGG-TAGGATTTGACCTGAAAA-GGTAATCCTGATTCACTATA
1 TGATTCATTATGGTAACTTAAGGGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCACTACG
19445814 GTTACATGA
66 GTTACATGA
19445823 GATGTGACTC
Statistics
Matches: 133, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
76 24 0.18
77 18 0.14
78 5 0.04
79 86 0.65
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (78 bp):
TGATTCATTATGGTAACTTAAGGGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCACTACG
GTTACATGATACA
Found at i:19448592 original size:25 final size:25
Alignment explanation
Indices: 19448564--19448652 Score: 133
Period size: 25 Copynumber: 3.6 Consensus size: 25
19448554 AACAGCTCGT
19448564 ATAAGCTTCTCGTTATTCAGCTCAC
1 ATAAGCTTCTCGTTATTCAGCTCAC
* * *
19448589 ATAAGCTTCCCGTTATTTAGCTCGC
1 ATAAGCTTCTCGTTATTCAGCTCAC
*
19448614 ATGAGCTTCTCGTTATTCAGCTCAC
1 ATAAGCTTCTCGTTATTCAGCTCAC
*
19448639 ATGAGCTTCTCGTT
1 ATAAGCTTCTCGTT
19448653 TACAACTCGT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (25 bp):
ATAAGCTTCTCGTTATTCAGCTCAC
Found at i:19448632 original size:50 final size:50
Alignment explanation
Indices: 19448557--19448652 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
19448547 GACACACAAC
*
19448557 AGCTCGTATAAGCTTCTCGTTATTCAGCTCACATAAGCTTCCCGTTATTT
1 AGCTCGCATAAGCTTCTCGTTATTCAGCTCACATAAGCTTCCCGTTATTT
* * *
19448607 AGCTCGCATGAGCTTCTCGTTATTCAGCTCACATGAGCTTCTCGTT
1 AGCTCGCATAAGCTTCTCGTTATTCAGCTCACATAAGCTTCCCGTT
19448653 TACAACTCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (50 bp):
AGCTCGCATAAGCTTCTCGTTATTCAGCTCACATAAGCTTCCCGTTATTT
Found at i:19461277 original size:49 final size:49
Alignment explanation
Indices: 19461169--19461278 Score: 143
Period size: 49 Copynumber: 2.2 Consensus size: 49
19461159 AATTCGAATG
* *
19461169 TTCTACCATC-CTAAATGGCCCGTCAATGATGGCTTTTACCAACTACTTA
1 TTCTACCATCTC-GAATGGCCCGTCAAGGATGGCTTTTACCAACTACTTA
* *
19461218 TTCTACCATCTCGAATGGCCCAG-CAAGGATGGCTTTTACCAACTGCTTT
1 TTCTACCATCTCGAATGGCCC-GTCAAGGATGGCTTTTACCAACTACTTA
*
19461267 TTCTATCATCTC
1 TTCTACCATCTC
19461279 AGATAATCTG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
49 52 0.96
50 2 0.04
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.34
Consensus pattern (49 bp):
TTCTACCATCTCGAATGGCCCGTCAAGGATGGCTTTTACCAACTACTTA
Found at i:19462292 original size:20 final size:22
Alignment explanation
Indices: 19462255--19462296 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
19462245 ATCGTGATCT
19462255 AAACTTAATATCTATCAATTTC
1 AAACTTAATATCTATCAATTTC
19462277 AAACTTAAT-T-TATCAATTTC
1 AAACTTAATATCTATCAATTTC
19462297 TCTTTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.50
21 1 0.05
22 9 0.45
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (22 bp):
AAACTTAATATCTATCAATTTC
Found at i:19463947 original size:15 final size:15
Alignment explanation
Indices: 19463927--19463970 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
19463917 ACTTAAATTT
19463927 AATACTTAATTTTTC
1 AATACTTAATTTTTC
*
19463942 AATACTTAATTTTTT
1 AATACTTAATTTTTC
*
19463957 AATA-TTTATTTTTC
1 AATACTTAATTTTTC
19463971 CAACATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 8 0.31
15 18 0.69
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
AATACTTAATTTTTC
Found at i:19463985 original size:30 final size:30
Alignment explanation
Indices: 19463924--19463985 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
19463914 ATAACTTAAA
*
19463924 TTTAATACTTAATTTTTCAATACTTAATTT
1 TTTAATACTTAATTTTTCAACACTTAATTT
* *
19463954 TTTAATA-TTTATTTTTCCAACA-TTTATTT
1 TTTAATACTTAATTTTT-CAACACTTAATTT
19463983 TTT
1 TTT
19463986 GAGTTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTAATACTTAATTTTTCAACACTTAATTT
Found at i:19465424 original size:20 final size:19
Alignment explanation
Indices: 19465378--19465429 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
19465368 CTAATGTATG
*
19465378 ATATATTAAATATTATTTTTT
1 ATATATT-AAT-TTATTATTT
19465399 AT-TATTAATTTATATATTT
1 ATATATTAATTTAT-TATTT
*
19465418 ATATATTTATTT
1 ATATATTAATTT
19465430 TAAGTGTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.15
19 9 0.33
20 12 0.44
21 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATATTAATTTATTATTT
Found at i:19465594 original size:17 final size:17
Alignment explanation
Indices: 19465555--19465598 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 17
19465545 TTTTATATAC
*
19465555 TAAATTAATAA-AAATT
1 TAAATTCATAATAAATT
19465571 T-AA-TCATAATAAATT
1 TAAATTCATAATAAATT
19465586 TAAATTCATAATA
1 TAAATTCATAATA
19465599 CCATACATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 5 0.21
15 8 0.33
16 3 0.12
17 8 0.33
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATTCATAATAAATT
Found at i:19466151 original size:16 final size:16
Alignment explanation
Indices: 19466130--19466161 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
19466120 TATTCAAAGA
19466130 CTTGGAGTCAATTTTT
1 CTTGGAGTCAATTTTT
19466146 CTTGGAGTCAATTTTT
1 CTTGGAGTCAATTTTT
19466162 TTATACATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (16 bp):
CTTGGAGTCAATTTTT
Found at i:19470082 original size:81 final size:80
Alignment explanation
Indices: 19469986--19470833 Score: 422
Period size: 81 Copynumber: 10.5 Consensus size: 80
19469976 GCAGGAAGGG
* * *
19469986 ATTTGGAAGAAAAATATGCTACAGCTTACTTTCACAAAACTTCTGATTCTGCAAATCACTTTGAT
1 ATTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAAT--C-TTGAT
* *
19470051 -G-G-AGGTGATGTGAAGA
63 AGAGAAAG-GAGGTGAAGA
* * * * *
19470067 ATTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGCTTTTGATGCTGAAAATCTTGATAGA
1 ATTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAATCTTGATAGA
*
19470132 GAAAAGGAGGTGACGA
66 G-AAAGGAGGTGAAGA
* * * ***
19470148 GTTTGGAAGACAAGTATGCTACGGCTTACTTTTACAAAACTTCTGATTCTGAAAGCCATGGCGA-
1 ATTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAA---ATCTTGAT
* * *
19470212 AGGGAAA-GAAGTGAAGG
63 AGAGAAAGGAGGTGAAGA
* * **** * ** * **
19470229 GTTTGGAAGATAAATATGCTAATATTTACTTCCACAAAACTTCTGATTCTGAAAGCCATGGCGAC
1 ATTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAATC-TTGATA-
* * *
19470294 GGGAAA-GAAGTGAAGG
64 GAGAAAGGAGGTGAAGA
* * ** * **
19470310 GTTTGGAAGATAAATATGCTA-ATCTTTACTTCCACAAAACTTCTGATTCTGAAAGCCATTGCGA
1 ATTTGGAAGACAAATATGCTACGGC-TTACTTTCACAAAACTTCTGATTCTGAAAATC-TT--GA
* * *
19470374 -AGGGAAA-GAAGTGAAGG
62 TAGAGAAAGGAGGTGAAGA
* * * ***
19470391 GTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTAATTCTGAAAGCCATGGCGA-
1 ATTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAA---ATCTTGAT
* * *
19470455 AGGGAAA-GAAGTGAAGG
63 AGAGAAAGGAGGTGAAGA
* * * * ***
19470472 GTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACGTCTAATTCTGAAAGCCATGGCGA-
1 ATTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAA---ATCTTGAT
* * *
19470536 AGGGAAA-GAAGTGAAGG
63 AGAGAAAGGAGGTGAAGA
* * * * ***
19470553 GTTTGGAAGACAAGTATACAACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCCATGGCGA-
1 ATTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAA---ATCTTGAT
* * *
19470617 AGGGAAA-GAAGTGAAGG
63 AGAGAAAGGAGGTGAAGA
* * * ***
19470634 GTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTAATTCTGAAAGCCATGGCGA-
1 ATTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAA---ATCTTGAT
* * *
19470698 AGGGAAA-GAAGTGAAGG
63 AGAGAAAGGAGGTGAAGA
* * * * **
19470715 GTTTGGAAGACAAATATGCTACTGCTTATTTTCATC-AAACTTCTAATTCTGAAAGCCATGGTGA
1 ATTTGGAAGACAAATATGCTACGGCTTACTTTCA-CAAAACTTCTGATTCTGAAA---ATCTTGA
* * *
19470779 AAG-GAAAGCA-ATGAAGA
62 TAGAGAAAGGAGGTGAAGA
* * * *
19470796 GTTTGGAAGACAAATATTCCACAGCTTACTTTCACAAA
1 ATTTGGAAGACAAATATGCTACGGCTTACTTTCACAAA
19470834 GCGTTTGATT
Statistics
Matches: 671, Mismatches: 75, Indels: 42
0.85 0.10 0.05
Matches are distributed among these distances:
78 5 0.01
79 3 0.00
80 3 0.00
81 641 0.96
82 11 0.02
83 4 0.01
84 4 0.01
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (80 bp):
ATTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAATCTTGATAGA
GAAAGGAGGTGAAGA
Found at i:19470260 original size:162 final size:160
Alignment explanation
Indices: 19469980--19470833 Score: 923
Period size: 162 Copynumber: 5.3 Consensus size: 160
19469970 GGCAATGCAG
* * * * *
19469980 GAAGGGATTTGGAAGAAAAATATGCTACAGCTTACTTTCACAAAACTTCTGATTCTGCAAA-TCA
1 GAAGGG-TTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTAATTCTG-AAAGCCA
** * ** * ** * * *
19470044 CT-TTG-ATGGAGGTGATGTGAAGAATTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGC
64 -TGGCGAAGGGA-AAGAAGTGAAGGGTTTGGAAGACAAATATGCTAAGGCTTACTTCCACAAAAC
* * ** * *
19470107 TTTTGATGCTGAAA-ATCTTGATAGAGAAAAGGAGGT
127 TTCTGATTCTGAAACATCGCGA-AG-GGAAA-GAAGT
* * * *
19470143 GACGAGTTTGGAAGACAAGTATGCTACGGCTTACTTTTACAAAACTTCTGATTCTGAAAGCCATG
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTAATTCTGAAAGCCATG
* ***
19470208 GCGAAGGGAAAGAAGTGAAGGGTTTGGAAGATAAATATGCTAATATTTACTTCCACAAAACTTCT
66 GCGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAATATGCTAAGGCTTACTTCCACAAAACTTCT
* *
19470273 GATTCTGAAAGCCATGGCGACGGGAAAGAAGT
131 GATTCTGAAA--CATCGCGAAGGGAAAGAAGT
* * ** * *
19470305 GAAGGGTTTGGAAGATAAATATGCTA-ATCTTTACTTCCACAAAACTTCTGATTCTGAAAGCCAT
1 GAAGGGTTTGGAAGACAAGTATGCTACGGC-TTACTTTCACAAAACTTCTAATTCTGAAAGCCAT
* * * *
19470369 TGCGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTC
65 GGCGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAATATGCTAAGGCTTACTTCCACAAAACTTC
* *
19470434 TAATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
130 TGATTCTGAAA--CATCGCGAAGGGAAAGAAGT
*
19470467 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACGTCTAATTCTGAAAGCCATG
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTAATTCTGAAAGCCATG
* * *
19470532 GCGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAGTATAC-AACGGCTTACTTTCACAAAACTTC
66 GCGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAATATGCTAA-GGCTTACTTCCACAAAACTTC
*
19470596 TGATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
130 TGATTCTGAAA--CATCGCGAAGGGAAAGAAGT
19470629 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTAATTCTGAAAGCCATG
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTAATTCTGAAAGCCATG
** * *
19470694 GCGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAATATGCTACTGCTTATTTTCATC-AAACTTC
66 GCGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAATATGCTAAGGCTTACTTCCA-CAAAACTTC
* * * *
19470758 TAATTCTGAAAGCCATGGTGAAAGGAAAGCAA-T
130 TGATTCTGAAA--CATCGCGAAGGGAAAG-AAGT
* * * * *
19470791 GAAGAGTTTGGAAGACAAATATTCCACAGCTTACTTTCACAAA
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAA
19470834 GCGTTTGATT
Statistics
Matches: 606, Mismatches: 73, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
161 6 0.01
162 578 0.95
163 17 0.03
164 1 0.00
165 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (160 bp):
GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTAATTCTGAAAGCCATG
GCGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAATATGCTAAGGCTTACTTCCACAAAACTTCT
GATTCTGAAACATCGCGAAGGGAAAGAAGT
Found at i:19470415 original size:243 final size:242
Alignment explanation
Indices: 19469980--19470833 Score: 1078
Period size: 243 Copynumber: 3.5 Consensus size: 242
19469970 GGCAATGCAG
* * * *
19469980 GAAGGGATTTGGAAGAAAAATATGCTACAGCTTACTTTCACAAAACTTCTGATTCTGCAAA-TCA
1 GAAGGG-TTTGGAAGACAAATATGCTACTGCTTACTTTCACAAAACTTCTAATTCTG-AAAGCCA
** * ** * ** * * *
19470044 CT-TTG-ATGGAGGTGATGTGAAGAATTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGC
64 -TGGCGAAGGGA-AAGAAGTGAAGGGTTTGGAAGACAAATATACAAC-GCTTACTTCCACAAAAC
* * *** * * * *
19470107 TTTTGATGCTGAAA---ATCTTGATAGAGAAAAGGAGGTGACGAGTTTGGAAGACAAGTATGCTA
126 TTCTGATTCTGAAAGCCATGGCGA-AG-GGAAA-GAAGTGAAGGGTTTGGAAGACAAGTATGCTA
* *
19470169 CGGCTTACTTTTACAAAACTTCTGATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
188 CGGCTTACTTTCACAAAACTTCTAATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
* * ** * *
19470224 GAAGGGTTTGGAAGATAAATATGCTAATATTTACTTCCACAAAACTTCTGATTCTGAAAGCCATG
1 GAAGGGTTTGGAAGACAAATATGCTACTGCTTACTTTCACAAAACTTCTAATTCTGAAAGCCATG
* * * *
19470289 GCGACGGGAAAGAAGTGAAGGGTTTGGAAGATAAATATGCTAATC-TTTACTTCCACAAAACTTC
66 GCGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAATATAC-AA-CGCTTACTTCCACAAAACTTC
*
19470353 TGATTCTGAAAGCCATTGCGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTT
129 TGATTCTGAAAGCCATGGCGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTT
19470418 ACTTTCACAAAACTTCTAATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
194 ACTTTCACAAAACTTCTAATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
* * *
19470467 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACGTCTAATTCTGAAAGCCATG
1 GAAGGGTTTGGAAGACAAATATGCTACTGCTTACTTTCACAAAACTTCTAATTCTGAAAGCCATG
* *
19470532 GCGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAGTATACAACGGCTTACTTTCACAAAACTTCT
66 GCGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAATATACAAC-GCTTACTTCCACAAAACTTCT
19470597 GATTCTGAAAGCCATGGCGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTA
130 GATTCTGAAAGCCATGGCGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTA
19470662 CTTTCACAAAACTTCTAATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
195 CTTTCACAAAACTTCTAATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
*
19470710 GAAGGGTTTGGAAGACAAATATGCTACTGCTTATTTTCATC-AAACTTCTAATTCTGAAAGCCAT
1 GAAGGGTTTGGAAGACAAATATGCTACTGCTTACTTTCA-CAAAACTTCTAATTCTGAAAGCCAT
* * * * * *
19470774 GGTGAAAGGAAAGCAA-TGAAGAGTTTGGAAGACAAATATTCCACAGCTTACTTTCACAAA
65 GGCGAAGGGAAAG-AAGTGAAGGGTTTGGAAGACAAATATACAAC-GCTTACTTCCACAAA
19470834 GCGTTTGATT
Statistics
Matches: 539, Mismatches: 59, Indels: 25
0.87 0.09 0.04
Matches are distributed among these distances:
241 1 0.00
242 6 0.01
243 508 0.94
244 17 0.03
245 3 0.01
246 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (242 bp):
GAAGGGTTTGGAAGACAAATATGCTACTGCTTACTTTCACAAAACTTCTAATTCTGAAAGCCATG
GCGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAATATACAACGCTTACTTCCACAAAACTTCTG
ATTCTGAAAGCCATGGCGAAGGGAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTAC
TTTCACAAAACTTCTAATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
Found at i:19473593 original size:27 final size:26
Alignment explanation
Indices: 19473535--19473594 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
19473525 AATTGGATTG
*
19473535 AAAAAT-TATTTAATTGGGAAATTAA
1 AAAAATATATTTAATTGGGAAATAAA
** *
19473560 ATTAATATATTTATTTTGGGAAATAAA
1 AAAAATATATTTA-ATTGGGAAATAAA
19473587 AAAAATAT
1 AAAAATAT
19473595 TGGGTTGGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
25 4 0.15
26 6 0.22
27 17 0.63
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (26 bp):
AAAAATATATTTAATTGGGAAATAAA
Found at i:19487943 original size:12 final size:13
Alignment explanation
Indices: 19487920--19487962 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
19487910 CTTTTGCTCA
19487920 TATTTATATTTTT
1 TATTTATATTTTT
19487933 TATTT-TATTTTT
1 TATTTATATTTTT
** *
19487945 TAAATATTTTTTT
1 TATTTATATTTTT
19487958 TATTT
1 TATTT
19487963 TTAATTAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TATTTATATTTTT
Found at i:19487976 original size:19 final size:20
Alignment explanation
Indices: 19487935--19487978 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
19487925 ATATTTTTTA
* *
19487935 TTTTATTTTTTAAATATTTT
1 TTTTATTTTTTAAATAATAT
*
19487955 TTTTA-TTTTTAATTAATAT
1 TTTTATTTTTTAAATAATAT
19487974 TTTTA
1 TTTTA
19487979 ATATATTAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTATTTTTTAAATAATAT
Found at i:19487976 original size:20 final size:20
Alignment explanation
Indices: 19487935--19487977 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
19487925 ATATTTTTTA
*
19487935 TTTTATTTTTTAAATATTTT
1 TTTTATTTTTTAAATATATT
*
19487955 TTTTA-TTTTTAATTAATATT
1 TTTTATTTTTTAAAT-ATATT
19487975 TTT
1 TTT
19487978 AATATATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTATTTTTTAAATATATT
Found at i:19488102 original size:138 final size:136
Alignment explanation
Indices: 19487866--19488128 Score: 307
Period size: 138 Copynumber: 1.9 Consensus size: 136
19487856 TTGTCAGATA
* * *** * *
19487866 ATTAAATATTAGTGATTTTATCCTTAATCTCAGGTTCAATTCCTCTTTTGCTCATATTTATATTT
1 ATTAAATAATAGTGATTTTATCCTTAATCTCAGGTTCAATTCATCTTTTGAAAACATTTATAATT
* *
19487931 TTTATTTTATTTTTTAAATATTTTTTTTATTTTTAATTAATATTTTTAATATATTAACTCTATTG
66 TTTATTTCATTTTTTAAATA-TTTTTTTATTTTTAATTAATATTTTTAAT-TAATAACTCTATTG
19487996 GTTAAATG
129 GTTAAATG
* * *
19488004 ATTAAATAATATTGATTTTATCCTTTA-CTCCTAGGTTCAATTCATCTTTTGAAAACATTTGTAA
1 ATTAAATAATAGTGATTTTATCCTTAATCT-C-AGGTTCAATTCATCTTTTGAAAACATTTATAA
* * * *
19488068 TTTTTATTTCATGTTGTTTCAA-A-TTTTTTATTTTTTATTTATCTTTTTAATTAATAACTCT
64 TTTTTATTTCAT-TT-TTTAAATATTTTTTTATTTTTAATTAATATTTTTAATTAATAACTCT
19488129 TTTATTTATA
Statistics
Matches: 105, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
137 11 0.10
138 50 0.48
139 36 0.34
140 3 0.03
141 5 0.05
ACGTcount: A:0.28, C:0.10, G:0.06, T:0.56
Consensus pattern (136 bp):
ATTAAATAATAGTGATTTTATCCTTAATCTCAGGTTCAATTCATCTTTTGAAAACATTTATAATT
TTTATTTCATTTTTTAAATATTTTTTTATTTTTAATTAATATTTTTAATTAATAACTCTATTGGT
TAAATG
Found at i:19508009 original size:52 final size:51
Alignment explanation
Indices: 19507890--19508036 Score: 154
Period size: 52 Copynumber: 2.8 Consensus size: 51
19507880 AAGATGTGGT
* * *
19507890 ATGTGCTTCCATATAAGACCATAGCAGGGCTATGGCATCGGTACAATGTAAT
1 ATGTGATTCCATATAAGACCATAGCTGGGCTATGGCATCGGTA-AATGTAAA
* * *
19507942 TTGT-ATTCCCGTATAAGACCATAGCTGGGCTATGGCATCGTGT-GATGTGAAA
1 ATGTGATT-CCATATAAGACCATAGCTGGGCTATGGCATCG-GTAAATGT-AAA
* * * *
19507994 ATGTGATTCCATATAAGATCATATCTGGGATATGGCTTCGGTA
1 ATGTGATTCCATATAAGACCATAGCTGGGCTATGGCATCGGTA
19508037 TGATATGTGA
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
51 8 0.10
52 65 0.83
53 5 0.06
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (51 bp):
ATGTGATTCCATATAAGACCATAGCTGGGCTATGGCATCGGTAAATGTAAA
Found at i:19508900 original size:20 final size:20
Alignment explanation
Indices: 19508851--19508903 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
19508841 ACGGTTGAAG
* * *
19508851 CACACGGGCATGTTTCAGGC
1 CACACGGGCGTGTTCCAAGC
*
19508871 CACATGGGCGTGTTCCAAGC
1 CACACGGGCGTGTTCCAAGC
19508891 CACACGGGCGTGT
1 CACACGGGCGTGT
19508904 GCCCCTATCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.19, C:0.30, G:0.32, T:0.19
Consensus pattern (20 bp):
CACACGGGCGTGTTCCAAGC
Found at i:19510143 original size:13 final size:12
Alignment explanation
Indices: 19510119--19510143 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19510109 TTGATTTATG
19510119 TGTAACTTTTTT
1 TGTAACTTTTTT
19510131 TGTAACTTTTTT
1 TGTAACTTTTTT
19510143 T
1 T
19510144 AACTTGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (12 bp):
TGTAACTTTTTT
Found at i:19511539 original size:39 final size:39
Alignment explanation
Indices: 19511495--19511703 Score: 179
Period size: 39 Copynumber: 5.2 Consensus size: 39
19511485 AAATACCAAT
* *
19511495 AATTTAAAAATAGGATAAAAAATAAAATATGAACAGATA
1 AATTTAAAAACAGGATTAAAAATAAAATATGAACAGATA
* * **
19511534 AATTTAGAAACAAGATTAAAAATAAAATATGGTCAGATA
1 AATTTAAAAACAGGATTAAAAATAAAATATGAACAGATA
** * *
19511573 AATTTAAAAACAATATTAAAAATAAATTATGAACATATACCAA
1 AATTTAAAAACAGGATTAAAAATAAAATATGAACAGAT----A
* *
19511616 TAATTTAAAAACAGGATT-AAAA-AAATTATGAATAGATACCAA
1 -AATTTAAAAACAGGATTAAAAATAAAATATGAACAGAT----A
* * *
19511658 TAATTTAAAAACAGGATTAAAAATAAAACAGGAACATATA
1 -AATTTAAAAACAGGATTAAAAATAAAATATGAACAGATA
19511698 AATTTA
1 AATTTA
19511704 GGCTTGGGAT
Statistics
Matches: 142, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
39 71 0.50
40 1 0.01
42 36 0.25
43 9 0.06
44 25 0.18
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (39 bp):
AATTTAAAAACAGGATTAAAAATAAAATATGAACAGATA
Found at i:19511655 original size:42 final size:42
Alignment explanation
Indices: 19511469--19511680 Score: 174
Period size: 39 Copynumber: 5.1 Consensus size: 42
19511459 AACAATATTA
* * *
19511469 AAAATAAATTATGAACAAATACCAATAATTTAAAAATAGGATAA
1 AAAA-AAATTATGAACAGATACCAATAATTTAAAAACAGGAT-T
* * *
19511513 AAAATAAAATATGAACAGAT----A-AATTTAGAAACAAGATT
1 AAAA-AAATTATGAACAGATACCAATAATTTAAAAACAGGATT
* ** **
19511551 AAAAATAAAATATGGTCAGAT----A-AATTTAAAAACAATATT
1 -AAAA-AAATTATGAACAGATACCAATAATTTAAAAACAGGATT
*
19511590 AAAAATAAATTATGAACATATACCAATAATTTAAAAACAGGATT
1 -AAAA-AAATTATGAACAGATACCAATAATTTAAAAACAGGATT
*
19511634 AAAAAAATTATGAATAGATACCAATAATTTAAAAACAGGATT
1 AAAAAAATTATGAACAGATACCAATAATTTAAAAACAGGATT
19511676 AAAAA
1 AAAAA
19511681 TAAAACAGGA
Statistics
Matches: 144, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
39 64 0.44
40 1 0.01
42 41 0.28
43 5 0.03
44 33 0.23
ACGTcount: A:0.60, C:0.07, G:0.08, T:0.25
Consensus pattern (42 bp):
AAAAAAATTATGAACAGATACCAATAATTTAAAAACAGGATT
Found at i:19513465 original size:24 final size:22
Alignment explanation
Indices: 19513438--19513504 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 22
19513428 CACTAACAGT
19513438 ATTTGGTTATTCATCTTCAACAAA
1 ATTTGG-T-TTCATCTTCAACAAA
*
19513462 ATTT-GTTTCCTCTTCAACAAA
1 ATTTGGTTTCATCTTCAACAAA
* *
19513483 ATTT-GTTTCCTTTTCAACAAA
1 ATTTGGTTTCATCTTCAACAAA
19513504 A
1 A
19513505 CACCAATATG
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
21 35 0.85
22 1 0.02
23 1 0.02
24 4 0.10
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.43
Consensus pattern (22 bp):
ATTTGGTTTCATCTTCAACAAA
Found at i:19513477 original size:21 final size:21
Alignment explanation
Indices: 19513451--19513504 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
19513441 TGGTTATTCA
19513451 TCTTCAACAAAATTTGTTTCC
1 TCTTCAACAAAATTTGTTTCC
19513472 TCTTCAACAAAATTTGTTTCC
1 TCTTCAACAAAATTTGTTTCC
*
19513493 TTTTCAACAAAA
1 TCTTCAACAAAA
19513505 CACCAATATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (21 bp):
TCTTCAACAAAATTTGTTTCC
Found at i:19515358 original size:25 final size:25
Alignment explanation
Indices: 19515312--19515361 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
19515302 ACAATAATCA
*
19515312 GAGTTTAAGTGGGAAACTAAAAACT
1 GAGTTTAAGTGGGAAACGAAAAACT
*
19515337 GAGTTTAATTGGGAGAA-GAAAAACT
1 GAGTTTAAGTGGGA-AACGAAAAACT
19515362 AAAAAATACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.44, C:0.06, G:0.26, T:0.24
Consensus pattern (25 bp):
GAGTTTAAGTGGGAAACGAAAAACT
Found at i:19515707 original size:236 final size:237
Alignment explanation
Indices: 19515293--19515769 Score: 866
Period size: 236 Copynumber: 2.0 Consensus size: 237
19515283 AATAATATTA
*
19515293 AAATAACCAACAATAATCAGAGTTTAAGTGGGAAACTAAAAACTGAGTTTAATTGGGAGAAGAAA
1 AAATAACCAACAATAATCAGAGTTTAAGTGGGAAACTAAAAACGGAGTTTAATTGGGAGAAGAAA
19515358 AACTAAAAAATACGAGGCATAACTCCACAAATCTCCACCTTGACTCATATTTTCACAGCACCTTC
66 AACTAAAAAATACGAGGCATAACTCCACAAATCTCCACCTTGACTCATATTTTCACAGCACCTTC
19515423 TTTGCGAAAGCCAATCATGGGCTTATCTCAAACTATGCAAGATATTAATTGAGTTGAAGTTGTGT
131 TTTGCGAAAGCCAATCATGGGCTTATCTCAAACTATGCAAGATATTAATTGAGTTGAAGTTGTGT
19515488 TTAGAAGCTAGAAGTCTTTTAGTCTTCGACTTGTGCACTATC
196 TTAGAAGCTAGAAGTCTTTTAGTCTTCGACTTGTGCACTATC
* *
19515530 AAATAACCAACACTAATCAGAGTTTGAGTGGGAAACT-AAAACGGAGTTTAATTGGGAGAAGAAA
1 AAATAACCAACAATAATCAGAGTTTAAGTGGGAAACTAAAAACGGAGTTTAATTGGGAGAAGAAA
* * *
19515594 AACTAAAAAATACGAGGCATAACTCCACGAATCTCTACCTTGACTCGTATTTTCACAGCACCTTC
66 AACTAAAAAATACGAGGCATAACTCCACAAATCTCCACCTTGACTCATATTTTCACAGCACCTTC
* *
19515659 TTTGCGAAAGCCCATCATGGGCTTATCTCGAACTATGCAAGATATTAATTGAGTTGAAGTTGTGT
131 TTTGCGAAAGCCAATCATGGGCTTATCTCAAACTATGCAAGATATTAATTGAGTTGAAGTTGTGT
*
19515724 TTAGAAGCTAGAAGTCTTTTAGTCTTCGACTTGTGCACTATT
196 TTAGAAGCTAGAAGTCTTTTAGTCTTCGACTTGTGCACTATC
19515766 AAAT
1 AAAT
19515770 CAAAACTGAC
Statistics
Matches: 231, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
236 196 0.85
237 35 0.15
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (237 bp):
AAATAACCAACAATAATCAGAGTTTAAGTGGGAAACTAAAAACGGAGTTTAATTGGGAGAAGAAA
AACTAAAAAATACGAGGCATAACTCCACAAATCTCCACCTTGACTCATATTTTCACAGCACCTTC
TTTGCGAAAGCCAATCATGGGCTTATCTCAAACTATGCAAGATATTAATTGAGTTGAAGTTGTGT
TTAGAAGCTAGAAGTCTTTTAGTCTTCGACTTGTGCACTATC
Found at i:19516603 original size:30 final size:30
Alignment explanation
Indices: 19516569--19516627 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
19516559 TCAACAGATG
19516569 ACTCTTCACATCCTCGAATGAGAGATTAAA
1 ACTCTTCACATCCTCGAATGAGAGATTAAA
19516599 ACTCTTCACATCCTCGAATGAGAGATTAA
1 ACTCTTCACATCCTCGAATGAGAGATTAA
19516628 CTCTGCCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.27
Consensus pattern (30 bp):
ACTCTTCACATCCTCGAATGAGAGATTAAA
Found at i:19518659 original size:13 final size:13
Alignment explanation
Indices: 19518641--19518665 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19518631 TTAGAAGGAG
19518641 ATTAAATTAATTA
1 ATTAAATTAATTA
19518654 ATTAAATTAATT
1 ATTAAATTAATT
19518666 TTAATATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAAATTAATTA
Found at i:19524416 original size:21 final size:21
Alignment explanation
Indices: 19524362--19524419 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
19524352 GATATCCATT
*
19524362 ATATTTATTAAAAAATTCAGA
1 ATATTTATTAAAAAATTCAAA
**
19524383 ATA-ACATTCAAAAAATT-AAA
1 ATATTTATT-AAAAAATTCAAA
19524403 ATATTTATTAAAAAATT
1 ATATTTATTAAAAAATT
19524420 TTAAAGTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (21 bp):
ATATTTATTAAAAAATTCAAA
Found at i:19524715 original size:28 final size:29
Alignment explanation
Indices: 19524673--19524733 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 29
19524663 TTAACAAGAT
* *
19524673 TTTAATTTGATATGTTTAATAGTTTTT-A
1 TTTAATATGACATGTTTAATAGTTTTTAA
19524701 TTTAATATGACATGTTTAATAGTTTTTAA
1 TTTAATATGACATGTTTAATAGTTTTTAA
19524730 TTTA
1 TTTA
19524734 CTTTGAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (29 bp):
TTTAATATGACATGTTTAATAGTTTTTAA
Found at i:19526598 original size:26 final size:26
Alignment explanation
Indices: 19526562--19526614 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
19526552 TAACGATTTG
19526562 ATGGAAAAGGGTTACCTAATCAACTA
1 ATGGAAAAGGGTTACCTAATCAACTA
19526588 ATGGAAAAGGGTTACCTAATCAACTA
1 ATGGAAAAGGGTTACCTAATCAACTA
19526614 A
1 A
19526615 CTTCTCAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (26 bp):
ATGGAAAAGGGTTACCTAATCAACTA
Found at i:19528059 original size:22 final size:22
Alignment explanation
Indices: 19528025--19528069 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
19528015 AACATTAAAT
19528025 ATTTGCAGATAAACTGCCAGTA
1 ATTTGCAGATAAACTGCCAGTA
* * * *
19528047 ATTTGTAGTTAAATTGCTAGTA
1 ATTTGCAGATAAACTGCCAGTA
19528069 A
1 A
19528070 AAAGTTTGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (22 bp):
ATTTGCAGATAAACTGCCAGTA
Found at i:19532704 original size:9 final size:9
Alignment explanation
Indices: 19532690--19532718 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
19532680 GAGTACAAAT
19532690 AAAAATAAA
1 AAAAATAAA
19532699 AAAAAT-AA
1 AAAAATAAA
19532707 AAAAATAAA
1 AAAAATAAA
19532716 AAA
1 AAA
19532719 TATTCAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAATAAA
Found at i:19532704 original size:15 final size:15
Alignment explanation
Indices: 19532686--19532720 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
19532676 TAATGAGTAC
19532686 AAATAAAAATAA-AAA
1 AAATAAAAA-AATAAA
19532701 AAATAAAAAAATAAA
1 AAATAAAAAAATAAA
19532716 AAATA
1 AAATA
19532721 TTCAATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (15 bp):
AAATAAAAAAATAAA
Found at i:19532708 original size:8 final size:8
Alignment explanation
Indices: 19532686--19532718 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
19532676 TAATGAGTAC
19532686 AAATAAAA
1 AAATAAAA
*
19532694 ATA-AAAA
1 AAATAAAA
19532701 AAATAAAA
1 AAATAAAA
19532709 AAATAAAA
1 AAATAAAA
19532717 AA
1 AA
19532719 TATTCAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAATAAAA
Found at i:19534067 original size:14 final size:15
Alignment explanation
Indices: 19534043--19534077 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
19534033 TTCTTTCTCT
*
19534043 TTGTTTTTCTGCTTC
1 TTGTTTCTCTGCTTC
19534058 -TGTTTCTCTGCTTC
1 TTGTTTCTCTGCTTC
19534072 TTGTTT
1 TTGTTT
19534078 ATACTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.00, C:0.20, G:0.14, T:0.66
Consensus pattern (15 bp):
TTGTTTCTCTGCTTC
Found at i:19534711 original size:94 final size:93
Alignment explanation
Indices: 19534569--19535069 Score: 403
Period size: 94 Copynumber: 5.3 Consensus size: 93
19534559 AATTTCATCT
* * * * * * **
19534569 TGCTCCATTGTAACTTTAA-GGAGATAAGATTTGTTGTTGTAGTTTCAATCCAATCCACTACAAC
1 TGCTCCACTGCAAC-TTAAGGGAGATAAGATTCGCTATAGTAGAATCAATCCAA-CCACTACAAC
*
19534633 TTCAGGGATATAAGATTTGTAGCTTCAATC
64 TTCAGGGGTATAAGATTTGTAGCTTCAATC
* * * * *
19534663 TGCTTCACTGTAACTTAAGGGAGATAAGATTCACTATAGTAGAATCAATCCGACTCACTGCAACT
1 TGCTCCACTGCAACTTAAGGGAGATAAGATTCGCTATAGTAGAATCAATCCAAC-CACTACAACT
* * *
19534728 TTAGGGGTTTAAGATTTGTAGTTTCAATC
65 TCAGGGGTATAAGATTTGTAGCTTCAATC
* * * * * * * * * * *
19534757 TACTCTATTGCAATTTCAGGGAGATAAAATTCGCTATGGTAGATTCAATCCGACCTATTGCAACT
1 TGCTCCACTGCAACTTAAGGGAGATAAGATTCGCTATAGTAGAATCAATCCAACC-ACTACAACT
* *
19534822 TTAGGGGTATAGGATTTGTAGCTTCAATC
65 TCAGGGGTATAAGATTTGTAGCTTCAATC
* * * * * * * * * ** *
19534851 TGCTCCACTACGACTTCAAAGG-TATAGGATTTGTTGTTGTAGTTTCAATCCAACCCATTACAAC
1 TGCTCCACTGCAACTT-AAGGGAGATAAGATTCGCTATAGTAGAATCAATCCAA-CCACTACAAC
* *
19534915 TTCAGGGATATAATATTTGTAGCTTCAATC
64 TTCAGGGGTATAAGATTTGTAGCTTCAATC
* * * * *
19534945 TGCTCCATTGCATCTTCAGGGAGATAAGATTCGTTATAGTAGAATTAATCCAACCCACTACAACT
1 TGCTCCACTGCAACTTAAGGGAGATAAGATTCGCTATAGTAGAATCAATCCAA-CCACTACAACT
* * *
19535010 TCAGGGGTATAAAAATTATAGCTTCAATC
65 TCAGGGGTATAAGATTTGTAGCTTCAATC
* * * * * *
19535039 TGATCCACCGCTACTTCAGGGATATAGGATT
1 TGCTCCACTGCAACTTAAGGGAGATAAGATT
19535070 TGTAGCTTCA
Statistics
Matches: 323, Mismatches: 78, Indels: 12
0.78 0.19 0.03
Matches are distributed among these distances:
93 9 0.03
94 309 0.96
95 5 0.02
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (93 bp):
TGCTCCACTGCAACTTAAGGGAGATAAGATTCGCTATAGTAGAATCAATCCAACCACTACAACTT
CAGGGGTATAAGATTTGTAGCTTCAATC
Found at i:19535073 original size:232 final size:233
Alignment explanation
Indices: 19534819--19535390 Score: 613
Period size: 232 Copynumber: 2.5 Consensus size: 233
19534809 ACCTATTGCA
* * * * * *
19534819 ACTTTAGGGGTATAGGATTTGTAGCTTCAATC-TGCTCCACTACGACTTCAAAGG-TATAGGATT
1 ACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTGCTCCACTGCAACTTCAAAGGAGATAAGATT
* * ** * *
19534882 TGTTGTTGTAGTTTCAATCCAACCCATTACAAC-TTCAGGGATATAATATTTGTAGCTTCAATC-
65 TGCTATCATAGTTTCAATCCAACCCACTACAACTTTCAGGG-TATAAGATTTGTAGCTTC-ATCT
* * **
19534945 TGCTCCATTGCATCTTCAGGGAGATAAGATTCGTTATAGTAGAATT-AATCCAACCCACTACAAC
128 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATAGTAG-ATTCAATCCAACCCACTACAAC
* * * *
19535009 TTCAGGGGTATAAAAATTATAGCTTCAA-TCTGATCCACCGCT
192 TTCAGGGGTATAAAAATTATAACTTCAATTC-AATCAACCGCG
* * *
19535051 ACTTCAGGGATATAGGATTTGTAGCTTCATCTTACTCCATTGCAACTTC-ATGGAGATAAGATTT
1 ACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAAGGAGATAAGATTT
* * * *
19535115 GCTATCATAGTTTCATTCCAACCCACTGCAACTTTGAGGGTATAAGATTTGTAGTTTCATCTTGC
66 GCTATCATAGTTTCAATCCAACCCACTACAACTTTCAGGGTATAAGATTTGTAGCTTCATCTTGC
* * * * * *
19535180 TCCACTGCAACTTCAGGGAGATAAGATTTGCCCTAGTAGTTTCATTCCGACCCATTACAACTTCA
131 TCCACTGCAACTTCAGGGAGATAAGATTCGCCATAGTAGATTCAATCCAACCCACTACAACTTCA
** * * **
19535245 GGGGTATATGAATTGTAACTTTAATTCAATCAATTGCG
196 GGGGTATAAAAATTATAACTTCAATTCAATCAACCGCG
*
19535283 ACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTC-AAGGAGATAATATTT
1 ACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAAGGAGATAAGATTT
** * * * *
19535347 GCTATGGTAGGTTCAATCTAACACACTGCAAC-TTCAAGGGTATA
66 GCTATCATAGTTTCAATCCAACCCACTACAACTTTC-AGGGTATA
19535391 GGATCTATGA
Statistics
Matches: 283, Mismatches: 50, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
231 13 0.05
232 262 0.93
233 8 0.03
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (233 bp):
ACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAAGGAGATAAGATTT
GCTATCATAGTTTCAATCCAACCCACTACAACTTTCAGGGTATAAGATTTGTAGCTTCATCTTGC
TCCACTGCAACTTCAGGGAGATAAGATTCGCCATAGTAGATTCAATCCAACCCACTACAACTTCA
GGGGTATAAAAATTATAACTTCAATTCAATCAACCGCG
Found at i:19535099 original size:44 final size:44
Alignment explanation
Indices: 19534911--19535347 Score: 168
Period size: 44 Copynumber: 9.5 Consensus size: 44
19534901 CAACCCATTA
* * *
19534911 CAACTTCAGGGATATAATATTTGTAGCTTCAATC-TGCTCCATTG
1 CAACTTCAGGGATATAAGATTTGTAGCTTC-ATCTTACTCCACTG
* * * * ** *
19534955 CATCTTCAGGGAGATAAGATTCGTTATAGTAGAATTAATCCAAC-CCACTA
1 CAACTTCAGGGATATAAGA----TT-T-GTAG-CTTCATCTTACTCCACTG
* * * * * *
19535005 CAACTTCAGGGGTATAAAAATTATAGCTTCAATCTGA-TCCACCG
1 CAACTTCAGGGATATAAGATTTGTAGCTTC-ATCTTACTCCACTG
* * *
19535049 CTACTTCAGGGATATAGGATTTGTAGCTTCATCTTACTCCATTG
1 CAACTTCAGGGATATAAGATTTGTAGCTTCATCTTACTCCACTG
* * * **
19535093 CAACTTCATGGAGATAAGATTTGCTATCATAGTTTCATTCCAAC-CCACTG
1 CAACTTCAGGGATATAAGATTTG------TAGCTTCA-TCTTACTCCACTG
* * *
19535143 CAACTTTGAGGG-TATAAGATTTGTAGTTTCATCTTGCTCCACTG
1 CAAC-TTCAGGGATATAAGATTTGTAGCTTCATCTTACTCCACTG
* * ** * *
19535187 CAACTTCAGGGAGATAAGATTTGCCCTAGTAGTTTCATTCCGAC-CCATTA
1 CAACTTCAGGGATATAAGA-TT----T-GTAGCTTCA-TCTTACTCCACTG
* * * * * * * * *
19535237 CAACTTCAGGGGTATATGAATTGTAACTTTAAT-TCAATCAATTG
1 CAACTTCAGGGATATAAGATTTGTAGC-TTCATCTTACTCCACTG
* * *
19535281 CGACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCACTG
1 CAACTTCAGGGATATAAGATTTGTAGCTTCATCTTACTCCACTG
* * *
19535325 CAACTTCAAGGAGATAATATTTG
1 CAACTTCAGGGATATAAGATTTG
19535348 CTATGGTAGG
Statistics
Matches: 283, Mismatches: 79, Indels: 62
0.67 0.19 0.15
Matches are distributed among these distances:
43 21 0.07
44 153 0.54
45 7 0.02
46 1 0.00
48 2 0.01
49 3 0.01
50 81 0.29
51 15 0.05
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (44 bp):
CAACTTCAGGGATATAAGATTTGTAGCTTCATCTTACTCCACTG
Found at i:19535147 original size:138 final size:138
Alignment explanation
Indices: 19534911--19535209 Score: 347
Period size: 138 Copynumber: 2.2 Consensus size: 138
19534901 CAACCCATTA
* * *
19534911 CAACTTCAGGGATATAATATTTGTAGCTTCAATCTGCTCCATTGCATCTTCAGGGAGATAAGATT
1 CAACTTCAGGGATATAAGATTTGTAGCTTCAATCTACTCCATTGCAACTTCAGGGAGATAAGATT
*
19534976 CGTTATAGTAGAATTAATCCAACCCACTACAACTTCAG-GGGTATAAAAATTATAGCTTCAATC-
66 CGCTATAGTAGAATTAATCCAACCCACTACAACTT-AGAGGGTATAAAAATTATAGCTTC-ATCT
19535039 TGATCCACCG
129 TGATCCACCG
* * *
19535049 CTACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTACTCCATTGCAACTTCATGGAGATAAGAT
1 CAACTTCAGGGATATAAGATTTGTAGCTTCAATC-TACTCCATTGCAACTTCAGGGAGATAAGAT
* * * * * * * * *
19535113 TTGCTATCA-TAG-TTTCATTCCAACCCACTGCAACTTTGAGGGTATAAGATTTGTAGTTTCATC
65 TCGCTAT-AGTAGAATT-AATCCAACCCACTACAACTTAGAGGGTATAAAAATTATAGCTTCATC
* *
19535176 TTGCTCCACTG
128 TTGATCCACCG
*
19535187 CAACTTCAGGGAGATAAGATTTG
1 CAACTTCAGGGATATAAGATTTG
19535210 CCCTAGTAGT
Statistics
Matches: 135, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
137 9 0.07
138 125 0.93
139 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (138 bp):
CAACTTCAGGGATATAAGATTTGTAGCTTCAATCTACTCCATTGCAACTTCAGGGAGATAAGATT
CGCTATAGTAGAATTAATCCAACCCACTACAACTTAGAGGGTATAAAAATTATAGCTTCATCTTG
ATCCACCG
Found at i:19535250 original size:94 final size:94
Alignment explanation
Indices: 19535051--19535261 Score: 264
Period size: 94 Copynumber: 2.2 Consensus size: 94
19535041 ATCCACCGCT
* * * *
19535051 ACTTCAGGGATATAGGATTTGTAGCTTCATCTTACTCCATTGCAACTTCATGGAGATAAGATTTG
1 ACTTCAGGGGTATAAGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTTG
* *
19535116 CTATCATAGTTTCATTCCAACCCACTGCA
66 CCATCATAGTTTCATTCCAACCCACTACA
* * *
19535145 ACTT-TGAGGGTATAAGATTTGTAGTTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTT
1 ACTTCAG-GGGTATAAGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTT
* * *
19535209 GCCCT-AGTAGTTTCATTCCGACCCATTACA
65 GCCATCA-TAGTTTCATTCCAACCCACTACA
* *
19535239 ACTTCAGGGGTATATGAATTGTA
1 ACTTCAGGGGTATAAGATTTGTA
19535262 ACTTTAATTC
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
93 2 0.02
94 96 0.97
95 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (94 bp):
ACTTCAGGGGTATAAGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTTG
CCATCATAGTTTCATTCCAACCCACTACA
Found at i:19535834 original size:24 final size:24
Alignment explanation
Indices: 19535807--19535854 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
19535797 GAGCAACATG
19535807 TAGAAATCCTTTTAGTTTAATATT
1 TAGAAATCCTTTTAGTTTAATATT
19535831 TAGAAATCCTTTTAGTTTAATATT
1 TAGAAATCCTTTTAGTTTAATATT
19535855 GTTAGTCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.50
Consensus pattern (24 bp):
TAGAAATCCTTTTAGTTTAATATT
Found at i:19538078 original size:53 final size:53
Alignment explanation
Indices: 19537978--19538122 Score: 132
Period size: 53 Copynumber: 2.7 Consensus size: 53
19537968 ATCCTTTTGA
* * * *
19537978 AACTTACCATTGCCATGTATTGACATGGTCTTACATGCTATCCTTGCCTTATG
1 AACTCACCAATGCCATGCATTGACATGGTCTTACATGCGATCCTTGCCTTATG
* * *
19538031 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTCACCAATGCCATGCATTGACATGGTCTTACATGCGATCC-TTGCCTTAT-G
* ** * *
19538085 TAACTTATTAATGCCCTGTC-TTGATATGGTCTTACATG
1 -AACTCACCAATGCCATG-CATTGACATGGTCTTACATG
19538123 ATTTCCTACT
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
52 2 0.03
53 42 0.56
54 1 0.01
55 29 0.39
56 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
AACTCACCAATGCCATGCATTGACATGGTCTTACATGCGATCCTTGCCTTATG
Found at i:19544403 original size:27 final size:27
Alignment explanation
Indices: 19544365--19544423 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
19544355 CTCAAATCGA
19544365 AGGTGGTTCTTGACGACGGCTCTTAAC
1 AGGTGGTTCTTGACGACGGCTCTTAAC
*
19544392 AGGTGGTTCTTGACGGCGGCTCTTAAC
1 AGGTGGTTCTTGACGACGGCTCTTAAC
19544419 AGGTG
1 AGGTG
19544424 AAAATTTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.17, C:0.20, G:0.34, T:0.29
Consensus pattern (27 bp):
AGGTGGTTCTTGACGACGGCTCTTAAC
Found at i:19553124 original size:25 final size:25
Alignment explanation
Indices: 19553096--19553189 Score: 66
Period size: 25 Copynumber: 3.7 Consensus size: 25
19553086 ATATTAATCG
19553096 TTATAAATTGAAAAAAAATACATTC
1 TTATAAATTGAAAAAAAATACATTC
* * * * *
19553121 TTAT-TATT-AAACTACAATATTAATC
1 TTATAAATTGAAA-AAAAATA-CATTC
*
19553146 GTTATAAATTGAAAAAAAATGCATTC
1 -TTATAAATTGAAAAAAAATACATTC
* * *
19553172 TTATTAGTTGGAAAAAAA
1 TTATAAATTGAAAAAAAA
19553190 GTGAAGAGAA
Statistics
Matches: 50, Mismatches: 14, Indels: 10
0.68 0.19 0.14
Matches are distributed among these distances:
23 3 0.06
24 8 0.16
25 22 0.44
26 7 0.14
27 7 0.14
28 3 0.06
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (25 bp):
TTATAAATTGAAAAAAAATACATTC
Found at i:19553133 original size:51 final size:51
Alignment explanation
Indices: 19553072--19553177 Score: 203
Period size: 51 Copynumber: 2.1 Consensus size: 51
19553062 ATAATACTCA
19553072 ATTATTAAACTACAATATTAATCGTTATAAATTGAAAAAAAATACATTCTT
1 ATTATTAAACTACAATATTAATCGTTATAAATTGAAAAAAAATACATTCTT
*
19553123 ATTATTAAACTACAATATTAATCGTTATAAATTGAAAAAAAATGCATTCTT
1 ATTATTAAACTACAATATTAATCGTTATAAATTGAAAAAAAATACATTCTT
19553174 ATTA
1 ATTA
19553178 GTTGGAAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (51 bp):
ATTATTAAACTACAATATTAATCGTTATAAATTGAAAAAAAATACATTCTT
Found at i:19553676 original size:111 final size:111
Alignment explanation
Indices: 19553482--19553703 Score: 444
Period size: 111 Copynumber: 2.0 Consensus size: 111
19553472 TGATGAAGTA
19553482 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
1 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
19553547 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
66 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
19553593 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
1 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
19553658 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
66 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
19553704 CATGGTATTG
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 111 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (111 bp):
TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
Found at i:19563921 original size:43 final size:43
Alignment explanation
Indices: 19563824--19563970 Score: 154
Period size: 43 Copynumber: 3.4 Consensus size: 43
19563814 TACGAGATGT
* * * *
19563824 GATTACATGTAAGACCATGTCTGGGACATTGGAATTGTATTGA
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAATGA
* *
19563867 GATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCG-TAATGA
* * * * *
19563910 GATTTCATGTAAGACCCTGTCCAGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTA-ATGA
*
19563953 GATAACATGTAAGACCAT
1 GATTACATGTAAGACCAT
19563971 ATATGGGATA
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 80 0.93
44 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAATGA
Found at i:19567534 original size:30 final size:30
Alignment explanation
Indices: 19567489--19567554 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
19567479 CAACAGAATT
* * ** *
19567489 TGATGGTTGCTGATTGTTTGTAACAAGATG
1 TGATGGCTGCCGATTGCGTGTAACAAGATA
19567519 TGATGGCTGCCGATTGCGTGTAACAAGATA
1 TGATGGCTGCCGATTGCGTGTAACAAGATA
19567549 TGATGG
1 TGATGG
19567555 TCATTGTTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.11, G:0.32, T:0.33
Consensus pattern (30 bp):
TGATGGCTGCCGATTGCGTGTAACAAGATA
Found at i:19568582 original size:15 final size:15
Alignment explanation
Indices: 19568564--19568628 Score: 60
Period size: 15 Copynumber: 4.1 Consensus size: 15
19568554 TGTAGATATG
19568564 TATAAAATATTAATA
1 TATAAAATATTAATA
19568579 TATATAAATACTTAATA
1 TATA-AAATA-TTAATA
*
19568596 TTTAAGAATA-TAATA
1 TATAA-AATATTAATA
* *
19568611 TAATATAATATTATTA
1 T-ATAAAATATTAATA
19568627 TA
1 TA
19568629 ATAATTAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
15 15 0.37
16 13 0.32
17 13 0.32
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (15 bp):
TATAAAATATTAATA
Found at i:19568584 original size:17 final size:17
Alignment explanation
Indices: 19568559--19568632 Score: 61
Period size: 16 Copynumber: 4.6 Consensus size: 17
19568549 AATAATGTAG
*
19568559 ATATGTATAAAATATTA
1 ATATATATAAAATATTA
19568576 ATATATAT-AAATACTTA
1 ATATATATAAAATA-TTA
19568593 ATAT-T-TAAGAATA-TA
1 ATATATATAA-AATATTA
*
19568608 ATATA-ATATAATATTA
1 ATATATATAAAATATTA
*
19568624 TTATA-ATAA
1 ATATATATAA
19568633 TTAAAGTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
15 11 0.23
16 18 0.38
17 18 0.38
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (17 bp):
ATATATATAAAATATTA
Found at i:19576000 original size:23 final size:24
Alignment explanation
Indices: 19575974--19576027 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
19575964 ATATTTGTTA
*
19575974 TTAAAACAT-TACTATAAATATT-T
1 TTAAAA-ATATACTAAAAATATTAT
* *
19575997 TTAATAATATATTAAAAATATTAT
1 TTAAAAATATACTAAAAATATTAT
19576021 TTAAAAA
1 TTAAAAA
19576028 CTAAATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 2 0.08
23 16 0.64
24 7 0.28
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
TTAAAAATATACTAAAAATATTAT
Found at i:19579483 original size:96 final size:97
Alignment explanation
Indices: 19579367--19579575 Score: 255
Period size: 96 Copynumber: 2.2 Consensus size: 97
19579357 GTTTTTAAAT
* ** ** *
19579367 TTTAGGGTTTTAAGGAAAAAAATTAAATAAATTAGGGTTTATTGTTTGTTAATTAAATTAATTAC
1 TTTAGGGTTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA-
*
19579432 TA-ATTT-TAAAAAATTAGATTATGGTTTAGTG
65 TATATTTAAAAAAAATTAGATTATGGTTTAGTG
* *
19579463 TTTATGGTTTTCAAGG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTA
1 TTTAGGGTTTT-AAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA
*
19579527 TATATTTAAAAAAAATTAGATTA-GGATTTTAGGG
65 TATATTTAAAAAAAATTAGATTATGG--TTTAGTG
*
19579561 TTTAGAGTTTTAAGG
1 TTTAGGGTTTTAAGG
19579576 TATTTAAGAA
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
95 2 0.02
96 57 0.59
97 22 0.23
98 15 0.16
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (97 bp):
TTTAGGGTTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTAT
ATATTTAAAAAAAATTAGATTATGGTTTAGTG
Found at i:19579875 original size:126 final size:126
Alignment explanation
Indices: 19579659--19580196 Score: 837
Period size: 126 Copynumber: 4.3 Consensus size: 126
19579649 AAAAGCTTCT
* *
19579659 ACGTGG-CGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
*
19579723 ATAGTGTCAAAAACGATTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGATTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* **
19579784 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * *
19579849 ATAGTGTAAAAAATGATTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGATTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
*
19579910 ACGTGGACGCTCTTTTGCTACTGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * * * *
19579975 TTAGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAACTCCC
66 ATAGT-GTCAAAAACGATTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * *
19580036 ACGTGGATGCTCTTTTGCTACAATGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * *
19580101 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTTAGCAAAAATACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGATTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
19580162 ACGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
19580197 TAACTTGGGC
Statistics
Matches: 379, Mismatches: 31, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
125 8 0.02
126 369 0.97
127 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
ATAGTGTCAAAAACGATTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:19583544 original size:116 final size:116
Alignment explanation
Indices: 19583213--19583824 Score: 1005
Period size: 116 Copynumber: 5.3 Consensus size: 116
19583203 TTTATATTTT
* *** *
19583213 ATTACATGAAATAATATAAAAATATTCAAAATATTAATTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
** * *
19583278 AAAATATAAAAGTAAATTATTATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* * *
19583329 ATCACATGAAATAATATAAAAATATTCAAAATGTTG---TCTTTAAAATAATTTCCATTTCATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
19583391 ATAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
19583442 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
19583507 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
19583558 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAGTTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * *
19583623 AAAATATAAAATTAAATTATAATTACTTTATTTAAAACAACTTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
19583674 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
19583739 AAAATATAAAAGTAAATTACAGTTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* *
19583790 ATTATATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
19583825 TGTACAAATA
Statistics
Matches: 465, Mismatches: 28, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
113 104 0.22
116 361 0.78
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.41
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:19584878 original size:7 final size:7
Alignment explanation
Indices: 19584868--19584893 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19584858 GTTAAATAAA
19584868 AAATACT
1 AAATACT
19584875 AAATACT
1 AAATACT
19584882 AAATACT
1 AAATACT
19584889 AAATA
1 AAATA
19584894 TGAATCCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATACT
Found at i:19584879 original size:14 final size:14
Alignment explanation
Indices: 19584860--19584893 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19584850 AAATATTAGT
19584860 TAAATAAAAAATAC
1 TAAATAAAAAATAC
**
19584874 TAAATACTAAATAC
1 TAAATAAAAAATAC
19584888 TAAATA
1 TAAATA
19584894 TGAATCCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAAAATAC
Found at i:19586018 original size:15 final size:15
Alignment explanation
Indices: 19585998--19586029 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19585988 TTTTTATTTT
*
19585998 AAAAAATAAATTTAG
1 AAAAAATAAAATTAG
19586013 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
19586028 AA
1 AA
19586030 CTTTTTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:19586067 original size:22 final size:22
Alignment explanation
Indices: 19586042--19586104 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 22
19586032 TTTTTGAAAA
**
19586042 AATTAAAGAGAGTTTTGAGAGG
1 AATTAAAGAGAAATTTGAGAGG
*
19586064 AATTTAAGAGAAATTTGAGA-G
1 AATTAAAGAGAAATTTGAGAGG
**
19586085 -ATTTGAGAGAAATTTGAGAG
1 AATTAAAGAGAAATTTGAGAG
19586105 AATATTGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 18 0.50
21 1 0.03
22 17 0.47
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (22 bp):
AATTAAAGAGAAATTTGAGAGG
Found at i:19586088 original size:20 final size:20
Alignment explanation
Indices: 19586055--19586105 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
19586045 TAAAGAGAGT
19586055 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGA-G-ATTTAAGAGAAA
*
19586077 TTTGAGAGATTTGAGAGAAA
1 TTTGAGAGATTTAAGAGAAA
19586097 TTTGAGAGA
1 TTTGAGAGA
19586106 ATATTGAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 20 0.71
21 1 0.04
22 7 0.25
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (20 bp):
TTTGAGAGATTTAAGAGAAA
Found at i:19586118 original size:31 final size:31
Alignment explanation
Indices: 19586055--19586118 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
19586045 TAAAGAGAGT
* *
19586055 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
*
19586086 TTTGAGAGAAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGAAATTTAAGAGAAAT-TTGAAAGA
19586117 TT
1 TT
19586119 GAAGATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:19593995 original size:16 final size:16
Alignment explanation
Indices: 19593974--19594006 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19593964 GCATAGTAAG
*
19593974 CAAAGTGCGAGCCTGT
1 CAAAGTGAGAGCCTGT
19593990 CAAAGTGAGAGCCTGT
1 CAAAGTGAGAGCCTGT
19594006 C
1 C
19594007 GAATTGCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.24, G:0.30, T:0.18
Consensus pattern (16 bp):
CAAAGTGAGAGCCTGT
Found at i:19595971 original size:20 final size:21
Alignment explanation
Indices: 19595946--19595987 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
19595936 AATTTTAGGG
19595946 TTATTT-GATTTTTTTATTTT
1 TTATTTAGATTTTTTTATTTT
*
19595966 TTATTTATATTTTTTTATTTT
1 TTATTTAGATTTTTTTATTTT
19595987 T
1 T
19595988 AAATATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (21 bp):
TTATTTAGATTTTTTTATTTT
Found at i:19595988 original size:20 final size:21
Alignment explanation
Indices: 19595953--19595999 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
19595943 GGGTTATTTG
**
19595953 ATTTTTTTATTTTTTATTTAT
1 ATTTTTTTATTTTTTAAATAT
19595974 ATTTTTTTA-TTTTTAAATAT
1 ATTTTTTTATTTTTTAAATAT
19595994 ATTTTT
1 ATTTTT
19596000 ATCAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (21 bp):
ATTTTTTTATTTTTTAAATAT
Found at i:19595999 original size:21 final size:21
Alignment explanation
Indices: 19595953--19595999 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
19595943 GGGTTATTTG
* *
19595953 ATTTTTTTATTTTTTATTTAT
1 ATTTTTTTATTTTTAATATAT
19595974 ATTTTTTTATTTTTAA-ATAT
1 ATTTTTTTATTTTTAATATAT
19595994 ATTTTT
1 ATTTTT
19596000 ATCAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (21 bp):
ATTTTTTTATTTTTAATATAT
Found at i:19596562 original size:25 final size:23
Alignment explanation
Indices: 19596522--19596581 Score: 57
Period size: 25 Copynumber: 2.5 Consensus size: 23
19596512 TTATGTAAAG
*
19596522 AATTTTTTTTTATTTTATATGTT
1 AATTTTTTTTTATTTTATATCTT
* *
19596545 AATTTTTTTTCCTTTTTTTTATCTT
1 AATTTTTTTT--TATTTTATATCTT
*
19596570 TATGTTTTTTTT
1 AAT-TTTTTTTT
19596582 TGTTTCTTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
23 10 0.33
24 1 0.03
25 12 0.40
26 7 0.23
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (23 bp):
AATTTTTTTTTATTTTATATCTT
Found at i:19596574 original size:31 final size:30
Alignment explanation
Indices: 19596525--19596582 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
19596515 TGTAAAGAAT
*
19596525 TTTTTTTTATTTTATATGTTAATTTTTTTTCC
1 TTTTTTTTATCTTATATGTT--TTTTTTTTCC
19596557 TTTTTTTTATCTT-TATGTTTTTTTTT
1 TTTTTTTTATCTTATATGTTTTTTTTT
19596583 GTTTCTTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 7 0.28
31 6 0.24
32 12 0.48
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.79
Consensus pattern (30 bp):
TTTTTTTTATCTTATATGTTTTTTTTTTCC
Found at i:19598573 original size:5 final size:5
Alignment explanation
Indices: 19598563--19598587 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19598553 ATTAAAATGA
19598563 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
19598588 GAACGAGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:19599110 original size:28 final size:28
Alignment explanation
Indices: 19599049--19599120 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
19599039 TTAAGAAATC
* *
19599049 TGGTGCTTTTCTATTCTGATAAGCACTA
1 TGGTGTTTTTCTGTTCTGATAAGCACTA
**
19599077 CAGTGTTTTTCTGTTCTGATAAGCAC-A
1 TGGTGTTTTTCTGTTCTGATAAGCACTA
*
19599104 TTGGTGTTGTTCTGTTC
1 -TGGTGTTTTTCTGTTC
19599121 CGTTAACACA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 1 0.03
28 35 0.97
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.46
Consensus pattern (28 bp):
TGGTGTTTTTCTGTTCTGATAAGCACTA
Found at i:19599137 original size:28 final size:28
Alignment explanation
Indices: 19599057--19599137 Score: 67
Period size: 28 Copynumber: 2.9 Consensus size: 28
19599047 TCTGGTGCTT
* * * *
19599057 TTCTATTCTGATAAGCAC-TACAGTGTTT
1 TTCTGTTCCGATAAGCACAT-CGGTGTTG
* *
19599085 TTCTGTTCTGATAAGCACATTGGTGTTG
1 TTCTGTTCCGATAAGCACATCGGTGTTG
*
19599113 TTCTGTTCCGTTAA-CACACTCGGTG
1 TTCTGTTCCGATAAGCACA-TCGGTG
19599138 CCCTTTGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
27 4 0.09
28 39 0.89
29 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (28 bp):
TTCTGTTCCGATAAGCACATCGGTGTTG
Found at i:19603992 original size:21 final size:21
Alignment explanation
Indices: 19603966--19604006 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19603956 AGACAAGCGA
* *
19603966 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
19603987 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
19604007 TTAAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:19608152 original size:29 final size:27
Alignment explanation
Indices: 19608135--19608204 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
19608125 ATATTAAGTC
19608135 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
19608162 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
19608190 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
19608205 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:19608198 original size:28 final size:28
Alignment explanation
Indices: 19608135--19608232 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
19608125 ATATTAAGTC
*
19608135 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
19608162 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
19608190 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
19608219 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19608233 CAACCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:19610243 original size:41 final size:41
Alignment explanation
Indices: 19610168--19610416 Score: 312
Period size: 41 Copynumber: 6.1 Consensus size: 41
19610158 CAAAAATTGT
***
19610168 AAAACACAGAGCAATAGCGGCG-TTTTACCAAAAACGCCGCTA
1 AAAAC-CAGAGCAATAGCGGCGCTTTT-GGTAAAACGCCGCTA
* *
19610210 AAAA-CAGAGCAATAGCGGCGTTTTTTGTTAAAACGCCGCTA
1 AAAACCAGAGCAATAGCGGCG-CTTTTGGTAAAACGCCGCTA
* *
19610251 AAAA-TAG-GTCAATAGCGGCGCTTTCGGTAAAACGCCGCTA
1 AAAACCAGAG-CAATAGCGGCGCTTTTGGTAAAACGCCGCTA
* *
19610291 AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTA
1 AAAACCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTA
19610332 AAAACCAGAG-AATTAGCGGCGCTTTCT-GTAAAACGCCGCTA
1 AAAACCAGAGCAA-TAGCGGCGCTTT-TGGTAAAACGCCGCTA
*
19610373 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTA
19610414 AAA
1 AAA
19610417 GTCATATAAC
Statistics
Matches: 186, Mismatches: 12, Indels: 19
0.86 0.06 0.09
Matches are distributed among these distances:
40 40 0.22
41 136 0.73
42 10 0.05
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (41 bp):
AAAACCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTA
Found at i:19610513 original size:17 final size:18
Alignment explanation
Indices: 19610485--19610519 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
19610475 CTAATGCACT
19610485 AAACCTCTAAACCTTAAA
1 AAACCTCTAAACCTTAAA
19610503 AAACC-CTAAACCTTAAA
1 AAACCTCTAAACCTTAAA
19610520 CTATAACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (18 bp):
AAACCTCTAAACCTTAAA
Found at i:19615338 original size:19 final size:19
Alignment explanation
Indices: 19615315--19615361 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
19615305 ATTTAATCTA
*
19615315 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
19615333 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
19615353 ATTTTTATT
1 ATTTTTATT
19615362 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:19615673 original size:43 final size:43
Alignment explanation
Indices: 19615625--19615709 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
19615615 TTAAAATTTC
* *
19615625 ATGATCTTTAGCGGCGTTTGGGGAAAAAGTGCCGCTAAAGGTT
1 ATGATCTTTAGCGGCGTTTGGGAAAAAAGCGCCGCTAAAGGTT
*
19615668 ATGATCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGT
1 ATGATCTTTAGCGGCGTTTGGGAAAAAAGCGCCGCTAAAGGT
19615710 CGTAGTTAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (43 bp):
ATGATCTTTAGCGGCGTTTGGGAAAAAAGCGCCGCTAAAGGTT
Found at i:19615793 original size:43 final size:43
Alignment explanation
Indices: 19615725--19615828 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 43
19615715 TTAGAGGTCA
* * **
19615725 TGGTTTTTAGCGGTGTTTGTGAAAAAAGCACCGCTAAAGCTCC
1 TGGTCTTTAGCGGCGTTTGCAAAAAAAGCACCGCTAAAGCTCC
* * * *
19615768 TGGTCTTTAGCGTCGTTTGCAAAAAATGCGCCGCTAAAGGTCC
1 TGGTCTTTAGCGGCGTTTGCAAAAAAAGCACCGCTAAAGCTCC
19615811 TGGTCTTTAGCGGCGTTT
1 TGGTCTTTAGCGGCGTTT
19615829 TTTTCGAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (43 bp):
TGGTCTTTAGCGGCGTTTGCAAAAAAAGCACCGCTAAAGCTCC
Found at i:19615799 original size:99 final size:99
Alignment explanation
Indices: 19615631--19615809 Score: 243
Period size: 99 Copynumber: 1.8 Consensus size: 99
19615621 TTTCATGATC
* ** * * *
19615631 TTTAGCGGCGTTTGGGGAAAAAGTGCCGCTAAAGGTTATGATCTTTAGCGGCGTTTGTGAAAAAA
1 TTTAGCGGCGTTTGGGAAAAAAGCACCGCTAAAGCTCATGATCTTTAGCGGCGTTTGTCAAAAAA
19615696 GCGCCGCTAAAGGTCGTAGTTAGAGGTCATGGTT
66 GCGCCGCTAAAGGTCGTAGTTAGAGGTCATGGTT
* * * * *
19615730 TTTAGCGGTGTTTGTGAAAAAAGCACCGCTAAAGCTCCTGGTCTTTAGCGTCGTTTG-CAAAAAA
1 TTTAGCGGCGTTTGGGAAAAAAGCACCGCTAAAGCTCATGATCTTTAGCGGCGTTTGTCAAAAAA
19615794 TGCGCCGCTAAAGGTC
66 -GCGCCGCTAAAGGTC
19615810 CTGGTCTTTA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
98 6 0.09
99 62 0.91
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (99 bp):
TTTAGCGGCGTTTGGGAAAAAAGCACCGCTAAAGCTCATGATCTTTAGCGGCGTTTGTCAAAAAA
GCGCCGCTAAAGGTCGTAGTTAGAGGTCATGGTT
Found at i:19616520 original size:11 final size:12
Alignment explanation
Indices: 19616499--19616525 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19616489 CCAACTTCAG
19616499 TTTCTTTTTTTT
1 TTTCTTTTTTTT
19616511 TTTCTTTTTTTT
1 TTTCTTTTTTTT
19616523 TTT
1 TTT
19616526 TGTTCTAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:19623873 original size:40 final size:40
Alignment explanation
Indices: 19623829--19623960 Score: 174
Period size: 40 Copynumber: 3.3 Consensus size: 40
19623819 AAAATATTAT
** * **
19623829 TGAATGCACATATGTGCCATTGTTTGTACTTCGGTACTTC
1 TGAATGCACATATGTGCCCCTATTTGTACTTCGGTACCCC
* *
19623869 TGAATGCACATATGTGCCCCTAATTATACTTCGGTACCCC
1 TGAATGCACATATGTGCCCCTATTTGTACTTCGGTACCCC
* * *
19623909 TGAATACACATACGTGCCCCTATTTGTACTTCGATACCCC
1 TGAATGCACATATGTGCCCCTATTTGTACTTCGGTACCCC
19623949 TGAATGCACATA
1 TGAATGCACATA
19623961 CATGCTTTGA
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.33
Consensus pattern (40 bp):
TGAATGCACATATGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:19624669 original size:17 final size:18
Alignment explanation
Indices: 19624636--19624670 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
19624626 GTAAAAATAT
*
19624636 ATAACCCAATTAGCCCAA
1 ATAACCCAATTACCCCAA
19624654 ATAACCC-ATTACCCCAA
1 ATAACCCAATTACCCCAA
19624671 GCCCAAAACA
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:0.43, C:0.37, G:0.03, T:0.17
Consensus pattern (18 bp):
ATAACCCAATTACCCCAA
Found at i:19637725 original size:22 final size:23
Alignment explanation
Indices: 19637700--19637753 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 23
19637690 AGGTTTAATT
*
19637700 GATTTAGGGTTAGTG-TTTTTAG
1 GATTTAGGGTTAGGGTTTTTTAG
19637722 GATTTAGGGTTAGGGTTTTTTAG
1 GATTTAGGGTTAGGGTTTTTTAG
19637745 G--TTAGGGTT
1 GATTTAGGGTT
19637754 TTTAGGGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 8 0.27
22 14 0.47
23 8 0.27
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (23 bp):
GATTTAGGGTTAGGGTTTTTTAG
Found at i:19637765 original size:16 final size:16
Alignment explanation
Indices: 19637724--19637762 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
19637714 GTTTTTAGGA
19637724 TTTAGGGTTAGGGTTT
1 TTTAGGGTTAGGGTTT
19637740 TTTA-GGTTAGGG-TT
1 TTTAGGGTTAGGGTTT
19637754 TTTAGGGTT
1 TTTAGGGTT
19637763 TAGAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.27
15 12 0.55
16 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.36, T:0.51
Consensus pattern (16 bp):
TTTAGGGTTAGGGTTT
Found at i:19637880 original size:19 final size:19
Alignment explanation
Indices: 19637859--19637927 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
19637849 ATTTAGGGTA
19637859 TTAGGGTTAATTGATTTAA-
1 TTAGGGTTAATTGA-TTAAC
19637878 TTAGGG---ATTGATTAAC
1 TTAGGGTTAATTGATTAAC
*
19637894 TTAGGGTTAATTGATTAAT
1 TTAGGGTTAATTGATTAAC
19637913 TTAGGGTTAATTGAT
1 TTAGGGTTAATTGAT
19637928 ACATAATAGT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
15 4 0.09
16 11 0.24
19 30 0.67
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.45
Consensus pattern (19 bp):
TTAGGGTTAATTGATTAAC
Found at i:19645462 original size:2 final size:2
Alignment explanation
Indices: 19645455--19645489 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
19645445 GTCAAAATGT
* *
19645455 TA TA TA TA TA TA TC TA TA TA TC TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19645490 CTTGATTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19646191 original size:7 final size:7
Alignment explanation
Indices: 19646181--19646213 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
19646171 CATAATACAT
19646181 AATACTA
1 AATACTA
19646188 AATACTA
1 AATACTA
*
19646195 AATATTA
1 AATACTA
19646202 AATACTA
1 AATACTA
19646209 AATAC
1 AATAC
19646214 GAAACGTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (7 bp):
AATACTA
Found at i:19647277 original size:48 final size:46
Alignment explanation
Indices: 19647192--19647325 Score: 162
Period size: 48 Copynumber: 2.8 Consensus size: 46
19647182 ATGCAAACAT
* **
19647192 CATAAATGAAAAAAAATCAAGCAGTATTGAAATTTTAATTATAA-TTG
1 CATAAATGAAAAAATATCAAATAGTATTGAAA-TTTAATTA-AATTTG
19647239 CATAAATGAATAAAATATCAAATAGTATTGCAAATTTAATTAAATTTG
1 CATAAATGAA-AAAATATCAAATAGTATTG-AAATTTAATTAAATTTG
* *
19647287 CATAAATTAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAA-TGAAAAAATATCAAATAGTATTG-AAATTTAA
19647326 AATTATCACT
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
47 12 0.16
48 59 0.77
49 6 0.08
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (46 bp):
CATAAATGAAAAAATATCAAATAGTATTGAAATTTAATTAAATTTG
Found at i:19647478 original size:11 final size:11
Alignment explanation
Indices: 19647459--19647533 Score: 71
Period size: 11 Copynumber: 6.9 Consensus size: 11
19647449 TTTTAAACAA
*
19647459 AGAACTTTGAT
1 AGAATTTTGAT
19647470 AGAATTTTGAT
1 AGAATTTTGAT
*
19647481 AGAATTTTGAA
1 AGAATTTTGAT
*
19647492 AGAATTTTGAG
1 AGAATTTTGAT
* **
19647503 AAAATTTCAAT
1 AGAATTTTGAT
*
19647514 -GAAATTTGAT
1 AGAATTTTGAT
*
19647524 AGATTTTTGA
1 AGAATTTTGA
19647534 AGGGAATATT
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
10 6 0.12
11 44 0.88
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (11 bp):
AGAATTTTGAT
Found at i:19651475 original size:26 final size:24
Alignment explanation
Indices: 19651445--19651547 Score: 104
Period size: 24 Copynumber: 4.2 Consensus size: 24
19651435 GGACTCACCA
19651445 CAGCTCGTATA-AGCTTATCGATATAT
1 CAGCTCGTA-AGAGCTTA-CGAT-TAT
*
19651471 CAGCTCGTAAGAGCTTACTATTAT
1 CAGCTCGTAAGAGCTTACGATTAT
* * *
19651495 CAGCTCGTAAGAGTTTACTATTTT
1 CAGCTCGTAAGAGCTTACGATTAT
*
19651519 CAGCTCGTCAGAGCTTATCG-TT-T
1 CAGCTCGTAAGAGCTTA-CGATTAT
19651542 CAGCTC
1 CAGCTC
19651548 AATAGAGCTT
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
23 7 0.10
24 42 0.61
25 5 0.07
26 15 0.22
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.35
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACGATTAT
Found at i:19651495 original size:24 final size:24
Alignment explanation
Indices: 19651445--19651535 Score: 112
Period size: 24 Copynumber: 3.7 Consensus size: 24
19651435 GGACTCACCA
*
19651445 CAGCTCGTATA-AGCTTATCGATATAT
1 CAGCTCGTA-AGAGCTTA-CTAT-TAT
19651471 CAGCTCGTAAGAGCTTACTATTAT
1 CAGCTCGTAAGAGCTTACTATTAT
* *
19651495 CAGCTCGTAAGAGTTTACTATTTT
1 CAGCTCGTAAGAGCTTACTATTAT
*
19651519 CAGCTCGTCAGAGCTTA
1 CAGCTCGTAAGAGCTTA
19651536 TCGTTTCAGC
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
24 40 0.68
25 4 0.07
26 15 0.25
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACTATTAT
Found at i:19651554 original size:23 final size:25
Alignment explanation
Indices: 19651528--19651573 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
19651518 TCAGCTCGTC
19651528 AGAGCTTATCGT-T-TCAGCTCAAT
1 AGAGCTTATCGTATATCAGCTCAAT
*
19651551 AGAGCTTATTGTATATCAGCTCA
1 AGAGCTTATCGTATATCAGCTCA
19651574 GGAGGAGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 1 0.05
25 8 0.40
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (25 bp):
AGAGCTTATCGTATATCAGCTCAAT
Found at i:19669391 original size:16 final size:17
Alignment explanation
Indices: 19669372--19669405 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
19669362 TATTTAATTG
19669372 TTAAAAATGTTAA-AAT
1 TTAAAAATGTTAATAAT
*
19669388 TTAATAATGTTAATAAT
1 TTAAAAATGTTAATAAT
19669405 T
1 T
19669406 ATATTTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
TTAAAAATGTTAATAAT
Found at i:19669776 original size:16 final size:17
Alignment explanation
Indices: 19669751--19669785 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
19669741 ACCCTTTTGC
19669751 TTTAAAAATGTTAA-AA
1 TTTAAAAATGTTAATAA
*
19669767 TTTAATAATGTTAATAA
1 TTTAAAAATGTTAATAA
19669784 TT
1 TT
19669786 ATATTTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (17 bp):
TTTAAAAATGTTAATAA
Found at i:19670040 original size:380 final size:380
Alignment explanation
Indices: 19669372--19670130 Score: 1518
Period size: 380 Copynumber: 2.0 Consensus size: 380
19669362 TATTTAATTG
19669372 TTAAAAATGTTAAAATTTAATAATGTTAATAATTATATTTGAATATAAAAATACGAAAAGTAGAG
1 TTAAAAATGTTAAAATTTAATAATGTTAATAATTATATTTGAATATAAAAATACGAAAAGTAGAG
19669437 AATAAATTTTTGAAAATAAAAGTAAATAAATAAAATTTCTAATTTGTAAAAAATGTGACGACATT
66 AATAAATTTTTGAAAATAAAAGTAAATAAATAAAATTTCTAATTTGTAAAAAATGTGACGACATT
19669502 TTTAACTTTGAATAACACTGTTAATTATGTTTCATGAAGAAACCAAAATCTTCATTTACATATCT
131 TTTAACTTTGAATAACACTGTTAATTATGTTTCATGAAGAAACCAAAATCTTCATTTACATATCT
19669567 TACAAGTGAAATTAAGCCAAACAAAACAAAACAACAAAAAAAGATAAAATGTAGGGTATGTTTGT
196 TACAAGTGAAATTAAGCCAAACAAAACAAAACAACAAAAAAAGATAAAATGTAGGGTATGTTTGT
19669632 GTACATGTAAAAAGTTTTACGGAGAATATTTTTTGTATTTTTCTGTATTAGTTTAACAGAAAATA
261 GTACATGTAAAAAGTTTTACGGAGAATATTTTTTGTATTTTTCTGTATTAGTTTAACAGAAAATA
19669697 GCTTGGTTGACGTAAAATAAGCTATTTTTCCTATAAAATAACTTACCCTTTTGCT
326 GCTTGGTTGACGTAAAATAAGCTATTTTTCCTATAAAATAACTTACCCTTTTGCT
19669752 TTAAAAATGTTAAAATTTAATAATGTTAATAATTATATTTGAATATAAAAATACGAAAAGTAGAG
1 TTAAAAATGTTAAAATTTAATAATGTTAATAATTATATTTGAATATAAAAATACGAAAAGTAGAG
19669817 AATAAATTTTTGAAAATAAAAGTAAATAAATAAAATTTCTAATTTGTAAAAAATGTGACGACATT
66 AATAAATTTTTGAAAATAAAAGTAAATAAATAAAATTTCTAATTTGTAAAAAATGTGACGACATT
19669882 TTTAACTTTGAATAACACTGTTAATTATGTTTCATGAAGAAACCAAAATCTTCATTTACATATCT
131 TTTAACTTTGAATAACACTGTTAATTATGTTTCATGAAGAAACCAAAATCTTCATTTACATATCT
19669947 TACAAGTGAAATTAAGCCAAACAAAACAAAACAACAAAAAAAGATAAAATGTAGGGTATGTTTGT
196 TACAAGTGAAATTAAGCCAAACAAAACAAAACAACAAAAAAAGATAAAATGTAGGGTATGTTTGT
19670012 GTACATGTAAAAAGTTTTACGGAGAATATTTTTTGTATTTTTCTGTATTAGTTTAACAGAAAATA
261 GTACATGTAAAAAGTTTTACGGAGAATATTTTTTGTATTTTTCTGTATTAGTTTAACAGAAAATA
19670077 GCTTGGTTGACGTAAAATAAGCTATTTTTCCTATAAAATAACTTACCCTTTTGC
326 GCTTGGTTGACGTAAAATAAGCTATTTTTCCTATAAAATAACTTACCCTTTTGC
19670131 AAAGCATAAG
Statistics
Matches: 379, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
380 379 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (380 bp):
TTAAAAATGTTAAAATTTAATAATGTTAATAATTATATTTGAATATAAAAATACGAAAAGTAGAG
AATAAATTTTTGAAAATAAAAGTAAATAAATAAAATTTCTAATTTGTAAAAAATGTGACGACATT
TTTAACTTTGAATAACACTGTTAATTATGTTTCATGAAGAAACCAAAATCTTCATTTACATATCT
TACAAGTGAAATTAAGCCAAACAAAACAAAACAACAAAAAAAGATAAAATGTAGGGTATGTTTGT
GTACATGTAAAAAGTTTTACGGAGAATATTTTTTGTATTTTTCTGTATTAGTTTAACAGAAAATA
GCTTGGTTGACGTAAAATAAGCTATTTTTCCTATAAAATAACTTACCCTTTTGCT
Found at i:19670309 original size:22 final size:22
Alignment explanation
Indices: 19670284--19670327 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19670274 TAGTCATATA
19670284 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
19670306 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
19670328 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:19670378 original size:13 final size:13
Alignment explanation
Indices: 19670362--19670386 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19670352 AATTATAAAT
19670362 TTTTAAATAATAA
1 TTTTAAATAATAA
19670375 TTTTAAATAATA
1 TTTTAAATAATA
19670387 TTATTCACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTAAATAATAA
Found at i:19670878 original size:20 final size:20
Alignment explanation
Indices: 19670853--19670956 Score: 82
Period size: 20 Copynumber: 5.2 Consensus size: 20
19670843 TATCAAAATA
19670853 TCTAAGGATTTACCAATATT
1 TCTAAGGATTTACCAATATT
* * * *
19670873 TTTAAGTATATACCAATATA
1 TCTAAGGATTTACCAATATT
* *
19670893 TCTAACGATTTATCAATATT
1 TCTAAGGATTTACCAATATT
* * * *
19670913 TCTAAGAACTAACCAATATA
1 TCTAAGGATTTACCAATATT
** * *
19670933 TCTAACAATTTGCCAAAATT
1 TCTAAGGATTTACCAATATT
19670953 TCTA
1 TCTA
19670957 TATATTTTTC
Statistics
Matches: 62, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.38
Consensus pattern (20 bp):
TCTAAGGATTTACCAATATT
Found at i:19670903 original size:40 final size:40
Alignment explanation
Indices: 19670850--19670956 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
19670840 CTTTATCAAA
* * *
19670850 ATATCTAAGGATTTACCAATATTTTTAAGTA-TATACCAAT
1 ATATCTAACGATTTACCAATATTTCTAAGAACTA-ACCAAT
*
19670890 ATATCTAACGATTTATCAATATTTCTAAGAACTAACCAAT
1 ATATCTAACGATTTACCAATATTTCTAAGAACTAACCAAT
* * *
19670930 ATATCTAACAATTTGCCAAAATTTCTA
1 ATATCTAACGATTTACCAATATTTCTA
19670957 TATATTTTTC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 56 0.97
41 2 0.03
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (40 bp):
ATATCTAACGATTTACCAATATTTCTAAGAACTAACCAAT
Found at i:19671054 original size:20 final size:20
Alignment explanation
Indices: 19671023--19671220 Score: 132
Period size: 20 Copynumber: 9.9 Consensus size: 20
19671013 TATCAAGTCT
19671023 TAACAA-TTACCAAAATTTC
1 TAACAATTTACCAAAATTTC
** * *
19671042 TATGATTTTACCAAAATATC
1 TAACAATTTACCAAAATTTC
19671062 TAACAATTTACCAAAATTTC
1 TAACAATTTACCAAAATTTC
** * *
19671082 TAAGGATTTACCAATATATC
1 TAACAATTTACCAAAATTTC
* * * *
19671102 TAATAAATTACCAATATTTT
1 TAACAATTTACCAAAATTTC
* * *
19671122 TGA-AGTTGTACCAAAATATC
1 TAACAATT-TACCAAAATTTC
19671142 TAACAATTT-CACAAAATTTC
1 TAACAATTTAC-CAAAATTTC
* * *
19671162 TACCGATTTACCAAGATTTC
1 TAACAATTTACCAAAATTTC
** * ** *
19671182 TAAGGATTTATCATTATATC
1 TAACAATTTACCAAAATTTC
*
19671202 TAACAAATTACCAAAATTT
1 TAACAATTTACCAAAATTT
19671221 GTTGGAGATC
Statistics
Matches: 132, Mismatches: 42, Indels: 9
0.72 0.23 0.05
Matches are distributed among these distances:
19 6 0.05
20 122 0.92
21 4 0.03
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (20 bp):
TAACAATTTACCAAAATTTC
Found at i:19671174 original size:40 final size:39
Alignment explanation
Indices: 19671023--19671184 Score: 168
Period size: 40 Copynumber: 4.1 Consensus size: 39
19671013 TATCAAGTCT
*
19671023 TAACAA-TTACCAAAATTTCTATGATTTTACCAAAATATC
1 TAACAATTTACCAAAATTTCTAAGA-TTTACCAAAATATC
*
19671062 TAACAATTTACCAAAATTTCTAAGGATTTACCAATATATC
1 TAACAATTTACCAAAATTTCTAA-GATTTACCAAAATATC
* * * *
19671102 TAATAAATTACCAATATTTTTGAAG-TTGTACCAAAATATC
1 TAACAATTTACCAAAATTTCT-AAGATT-TACCAAAATATC
* * *
19671142 TAACAATTT-CACAAAATTTCTACCGATTTACCAAGATTTC
1 TAACAATTTAC-CAAAATTTCTA-AGATTTACCAAAATATC
19671182 TAA
1 TAA
19671185 GGATTTATCA
Statistics
Matches: 102, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
39 10 0.10
40 86 0.84
41 6 0.06
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (39 bp):
TAACAATTTACCAAAATTTCTAAGATTTACCAAAATATC
Found at i:19671214 original size:80 final size:79
Alignment explanation
Indices: 19671049--19671218 Score: 180
Period size: 80 Copynumber: 2.1 Consensus size: 79
19671039 TTCTATGATT
* * *
19671049 TTACCAAAATATCTAACAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAATAAATTACC
1 TTACCAAAATATCTAACAATTTACCAAAATTTCTAACGATTTACCAAGATATCTAAGAAATTACC
* * * **
19671114 AATATTTTTGAAGT
66 AATATATCTAAAAA
* * * *
19671128 TGTACCAAAATATCTAACAATTT-CACAAAATTTCTACCGATTTACCAAGATTTCTAAGGATTTA
1 T-TACCAAAATATCTAACAATTTAC-CAAAATTTCTAACGATTTACCAAGATATCTAAGAAATTA
* *
19671192 TCATTATATCTAACAAA
64 CCAATATATCTAA-AAA
19671209 TTACCAAAAT
1 TTACCAAAAT
19671219 TTGTTGGAGA
Statistics
Matches: 74, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
79 2 0.03
80 70 0.95
81 2 0.03
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.35
Consensus pattern (79 bp):
TTACCAAAATATCTAACAATTTACCAAAATTTCTAACGATTTACCAAGATATCTAAGAAATTACC
AATATATCTAAAAA
Done.