Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 70 of 208
Found at i:20437060 original size:25 final size:25
Alignment explanation
Indices: 20437017--20437065 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
20437007 GCAAATATGA
*
20437017 CAAGACCATATACGTATATATATAC
1 CAAGACCATATACGCATATATATAC
* *
20437042 CAAGACCATATATGCATATTTATA
1 CAAGACCATATACGCATATATATA
20437066 TTATATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (25 bp):
CAAGACCATATACGCATATATATAC
Found at i:20437098 original size:37 final size:35
Alignment explanation
Indices: 20437031--20437113 Score: 94
Period size: 37 Copynumber: 2.3 Consensus size: 35
20437021 ACCATATACG
* * *
20437031 TATATATATACCAAGACCATATATGCATATTTATA
1 TATATATATAACAAGACCATACACGCATATTTATA
* *
20437066 TTATATATATAACATGACCCATACACGTATATTTATA
1 -TATATATATAACAAGA-CCATACACGCATATTTATA
20437103 TATTATATATA
1 TA-TATATATA
20437114 GATACAGACC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
36 16 0.40
37 24 0.60
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (35 bp):
TATATATATAACAAGACCATACACGCATATTTATA
Found at i:20438608 original size:113 final size:113
Alignment explanation
Indices: 20438410--20438626 Score: 389
Period size: 113 Copynumber: 1.9 Consensus size: 113
20438400 TCTATTTACA
* *
20438410 AAATTTTAAGAGTCTCATGATCTTTAAAACCATTTCTCCAATAGCCTTTTAACTTCTGTACCACG
1 AAATTTTAAGAGTCTCATGATCTTTAAAACCATTTCTCCAATAGCCTTTTAACTTCTATACCACA
*
20438475 TTGTCAGACAACAAAACTTACTCAATAAAGTTTTGAGTTCTGTTTATG
66 CTGTCAGACAACAAAACTTACTCAATAAAGTTTTGAGTTCTGTTTATG
20438523 AAATTTTAAGAGTCTCATGATCTTTAAAACCATTTCTCCAATAGCCTTTTAACTTCTATACCACA
1 AAATTTTAAGAGTCTCATGATCTTTAAAACCATTTCTCCAATAGCCTTTTAACTTCTATACCACA
* *
20438588 CTGTGAGACAACAAAACTTACTCAGTAAAGTTTTGAGTT
66 CTGTCAGACAACAAAACTTACTCAATAAAGTTTTGAGTT
20438627 AAAACTTATG
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 99 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (113 bp):
AAATTTTAAGAGTCTCATGATCTTTAAAACCATTTCTCCAATAGCCTTTTAACTTCTATACCACA
CTGTCAGACAACAAAACTTACTCAATAAAGTTTTGAGTTCTGTTTATG
Found at i:20439976 original size:107 final size:111
Alignment explanation
Indices: 20439771--20439979 Score: 363
Period size: 111 Copynumber: 1.9 Consensus size: 111
20439761 AAAAAAACAA
20439771 AAAAAAAATTTTTGGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAATACACGAAAAAAA
1 AAAAAAAATTTTTGGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAATACACG--AAAAA
20439836 AAATTTTATTTTTTTCGTGTCAGAATCAGATAAAAAAATACGAAAAAT
64 AAATTTTATTTTTTTCGTGTCAGAATCAGATAAAAAAATACGAAAAAT
*
20439884 AAAAAAAA-TTTT-GGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACACG-AAAAAA
1 AAAAAAAATTTTTGGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAATACACGAAAAAAA
20439946 ATTTTA-TTTTTTCGTGTCAGAATCAGATAAAAAA
66 ATTTTATTTTTTTCGTGTCAGAATCAGATAAAAAA
20439980 GTNNNNNNNN
Statistics
Matches: 95, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
107 28 0.29
108 12 0.13
111 43 0.45
112 4 0.04
113 8 0.08
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.26
Consensus pattern (111 bp):
AAAAAAAATTTTTGGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAATACACGAAAAAAA
ATTTTATTTTTTTCGTGTCAGAATCAGATAAAAAAATACGAAAAAT
Found at i:20445530 original size:16 final size:17
Alignment explanation
Indices: 20445504--20445547 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
20445494 TATATATATC
*
20445504 TATTATAAAAA-ATGTG
1 TATTTTAAAAACATGTG
20445520 TATTTTGAAAAACATGTG
1 TATTTT-AAAAACATGTG
20445538 TATTTTAAAA
1 TATTTTAAAA
20445548 CGTGCATGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 5 0.20
17 9 0.36
18 11 0.44
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (17 bp):
TATTTTAAAAACATGTG
Found at i:20447567 original size:45 final size:44
Alignment explanation
Indices: 20447500--20447751 Score: 190
Period size: 45 Copynumber: 5.6 Consensus size: 44
20447490 GCCAATGAAA
* * *
20447500 ACAAGGTCTGTTCTCTTCGATCTACTCCCCCACCAGTATGGAGAG
1 ACAAGATCTGTTATCTTCGATCTACTCCGCCACCAGTATGGA-AG
* * ** *
20447545 ACAAGATCTGTTGTCTTTGATCTACTTCACGCCAATA-CAT-GAAG
1 ACAAGATCTGTTATCTTCGATCTAC-TC-CGCCACCAGTATGGAAG
* *
20447589 ACAAGATCTGCTTTTTCCTTCGATCTACTTCGCCACCAGTATGGGAAG
1 ACAAGATCTG--TTAT-CTTCGATCTACTCCGCCACCAGTAT-GGAAG
* * * ** *
20447637 ACACGATCTATTATCTTTGATCTACTTCACGCCAGTA-CAT-GAAG
1 ACAAGATCTGTTATCTTCGATCTAC-TC-CGCCACCAGTATGGAAG
** *
20447681 ACAAGATCTGCTT-TCTTCGATCTGTTTCGCCACCAGTATGGAAAG
1 ACAAGATCTG-TTATCTTCGATCTACTCCGCCACCAGTATGG-AAG
*
20447726 ACAAGATCTGTTATCTTTGATCTACT
1 ACAAGATCTGTTATCTTCGATCTACT
20447752 TCACGCCAGT
Statistics
Matches: 159, Mismatches: 33, Indels: 30
0.72 0.15 0.14
Matches are distributed among these distances:
42 6 0.04
43 3 0.02
44 36 0.23
45 65 0.41
46 16 0.10
47 21 0.13
48 12 0.08
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (44 bp):
ACAAGATCTGTTATCTTCGATCTACTCCGCCACCAGTATGGAAG
Found at i:20447676 original size:92 final size:90
Alignment explanation
Indices: 20447476--20447782 Score: 430
Period size: 89 Copynumber: 3.5 Consensus size: 90
20447466 TCTGCTGCGC
* * * * *
20447476 TTGATCTACTTCACGCC---A-ATGAAAACAAGGTCTG-TTCTCTTCGATCTACTCCCCCACCAG
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCTTCGATCTACTTCGCCACCAG
*
20447536 TAT-GGAGAGACAAGATCTGTTGTCT
66 TATGGGA-AGACAAGATCTGTTATCT
*
20447561 TTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTTTCCTTCGATCTACTTCGCCACC
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC-TTTT-CTTCGATCTACTTCGCCACC
* *
20447626 AGTATGGGAAGACACGATCTATTATCT
64 AGTATGGGAAGACAAGATCTGTTATCT
**
20447653 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC-TTTCTTCGATCTGTTTCGCCACCAG
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCTTCGATCTACTTCGCCACCAG
*
20447717 TATGGAAAGACAAGATCTGTTATCT
66 TATGGGAAGACAAGATCTGTTATCT
20447742 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
20447783 CGCCACCAGT
Statistics
Matches: 199, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
85 17 0.09
88 1 0.01
89 95 0.48
90 4 0.02
91 3 0.02
92 76 0.38
93 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (90 bp):
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCTTCGATCTACTTCGCCACCAG
TATGGGAAGACAAGATCTGTTATCT
Found at i:20447795 original size:75 final size:75
Alignment explanation
Indices: 20447699--20447853 Score: 247
Period size: 75 Copynumber: 2.1 Consensus size: 75
20447689 TGCTTTCTTC
* * * *
20447699 GATCTGTTTCGCCACCAGTATGGAAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTAC
1 GATCTGCTTCGCCACCAGTATGGAAAGACAAAATCTGGTATCTCTGATCTACTTCACGCCAGTAC
20447764 ATGAAGACAA
66 ATGAAGACAA
* * *
20447774 GATCTGCTTCGCCACCAGTATGGGAAGGCAAAATCTGGTATCTCTGATCTACTTCACGTCAGTAC
1 GATCTGCTTCGCCACCAGTATGGAAAGACAAAATCTGGTATCTCTGATCTACTTCACGCCAGTAC
20447839 ATGAAGACAA
66 ATGAAGACAA
20447849 GATCT
1 GATCT
20447854 ACTTTCTTTG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (75 bp):
GATCTGCTTCGCCACCAGTATGGAAAGACAAAATCTGGTATCTCTGATCTACTTCACGCCAGTAC
ATGAAGACAA
Found at i:20447895 original size:45 final size:45
Alignment explanation
Indices: 20447774--20447917 Score: 137
Period size: 45 Copynumber: 3.2 Consensus size: 45
20447764 ATGAAGACAA
* **
20447774 GATCTGCTTCGCCACCAGTATGGGAAGGCAAAATCTGGTATCTCT
1 GATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTACTATCTCT
* * ** *** * * *
20447819 GATCTACTTC-ACGTCAGTACATGAAGACAAGATCTACTTTCTTT
1 GATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTACTATCTCT
**
20447863 GATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCT
1 GATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTACTATCTCT
*
20447908 GATCTACTTC
1 GATCTGCTTC
20447918 ACGCCAGTAC
Statistics
Matches: 72, Mismatches: 26, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
44 31 0.43
45 41 0.57
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (45 bp):
GATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTACTATCTCT
Found at i:20447897 original size:164 final size:164
Alignment explanation
Indices: 20447610--20447943 Score: 533
Period size: 164 Copynumber: 2.0 Consensus size: 164
20447600 TTTTTCCTTC
* ** * *
20447610 GATCTACTTCGCCACCAGTATGGGAAGACACGATCTATTATCTTTGATCTACTTCACGCCAGTAC
1 GATCTGCTTCGCCACCAGTATGGGAAGACAAAATCTAGTATCTCTGATCTACTTCACGCCAGTAC
* * *
20447675 ATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGTATGGAAAGACAAGATCTGTTAT
66 ATGAAGACAAGATCTACTTTCTTCGATCTGCTTCGCCACCAGTATGGAAAGACAAGATCTGGTAT
*
20447740 CTTTGATCTACTTCACGCCAGTACATGAAGACAA
131 CTCTGATCTACTTCACGCCAGTACATGAAGACAA
* * *
20447774 GATCTGCTTCGCCACCAGTATGGGAAGGCAAAATCTGGTATCTCTGATCTACTTCACGTCAGTAC
1 GATCTGCTTCGCCACCAGTATGGGAAGACAAAATCTAGTATCTCTGATCTACTTCACGCCAGTAC
* * *
20447839 ATGAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTAT
66 ATGAAGACAAGATCTACTTTCTTCGATCTGCTTCGCCACCAGTATGGAAAGACAAGATCTGGTAT
20447904 CTCTGATCTACTTCACGCCAGTACATGAAGACAA
131 CTCTGATCTACTTCACGCCAGTACATGAAGACAA
20447938 GATCTG
1 GATCTG
20447944 TTATCTTTCA
Statistics
Matches: 155, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
164 155 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (164 bp):
GATCTGCTTCGCCACCAGTATGGGAAGACAAAATCTAGTATCTCTGATCTACTTCACGCCAGTAC
ATGAAGACAAGATCTACTTTCTTCGATCTGCTTCGCCACCAGTATGGAAAGACAAGATCTGGTAT
CTCTGATCTACTTCACGCCAGTACATGAAGACAA
Found at i:20447943 original size:44 final size:44
Alignment explanation
Indices: 20447797--20447949 Score: 162
Period size: 44 Copynumber: 3.5 Consensus size: 44
20447787 ACCAGTATGG
* * *
20447797 GAAGGCAAAATCTGGTATCTCTGATCTACTTCACGTCAGTACAT
1 GAAGACAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
** * * * * * ***
20447841 GAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGGTATCTCTGATCTACTTC-ACGCCAGTACAT
*
20447886 GAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
*
20447930 GAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGGTATCT
20447950 TTCAACCTAC
Statistics
Matches: 82, Mismatches: 26, Indels: 2
0.75 0.24 0.02
Matches are distributed among these distances:
44 50 0.61
45 32 0.39
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
GAAGACAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
Found at i:20447951 original size:89 final size:89
Alignment explanation
Indices: 20447774--20447942 Score: 320
Period size: 89 Copynumber: 1.9 Consensus size: 89
20447764 ATGAAGACAA
*
20447774 GATCTGCTTCGCCACCAGTATGGGAAGGCAAAATCTGGTATCTCTGATCTACTTCACGTCAGTAC
1 GATCTGCTTCGCCACCAGTATGGGAAGGCAAAATCTGGTATCTCTGATCTACTTCACGCCAGTAC
20447839 ATGAAGACAAGATCTACTTTCTTT
66 ATGAAGACAAGATCTACTTTCTTT
*
20447863 GATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTAC
1 GATCTGCTTCGCCACCAGTATGGGAAGGCAAAATCTGGTATCTCTGATCTACTTCACGCCAGTAC
20447928 ATGAAGACAAGATCT
66 ATGAAGACAAGATCT
20447943 GTTATCTTTC
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
89 78 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (89 bp):
GATCTGCTTCGCCACCAGTATGGGAAGGCAAAATCTGGTATCTCTGATCTACTTCACGCCAGTAC
ATGAAGACAAGATCTACTTTCTTT
Found at i:20449234 original size:7 final size:7
Alignment explanation
Indices: 20449224--20449258 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
20449214 CCGTTTTTAC
20449224 TTTTTCA
1 TTTTTCA
20449231 TTTTTCA
1 TTTTTCA
20449238 -TTTTCA
1 TTTTTCA
20449244 TCTTTTCA
1 T-TTTTCA
20449252 TTTTTCA
1 TTTTTCA
20449259 CATCACTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTTCA
Found at i:20449241 original size:14 final size:15
Alignment explanation
Indices: 20449224--20449258 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
20449214 CCGTTTTTAC
20449224 TTTTTCAT-TTTTCA
1 TTTTTCATCTTTTCA
20449238 -TTTTCATCTTTTCA
1 TTTTTCATCTTTTCA
20449252 TTTTTCA
1 TTTTTCA
20449259 CATCACTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.37
14 6 0.32
15 6 0.32
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTCATCTTTTCA
Found at i:20452178 original size:20 final size:20
Alignment explanation
Indices: 20452153--20452192 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
20452143 TAAAGGTCTA
20452153 TAATGCATATAATGCGATGC
1 TAATGCATATAATGCGATGC
*
20452173 TAATGCATATGATGCGATGC
1 TAATGCATATAATGCGATGC
20452193 ATGAGATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (20 bp):
TAATGCATATAATGCGATGC
Found at i:20454219 original size:16 final size:17
Alignment explanation
Indices: 20454193--20454236 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
20454183 TATATATATC
*
20454193 TATTATAAAAA-ATGTG
1 TATTTTAAAAACATGTG
20454209 TATTTTGAAAAACATGTG
1 TATTTT-AAAAACATGTG
20454227 TATTTTAAAA
1 TATTTTAAAA
20454237 CGTGCATGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 5 0.20
17 9 0.36
18 11 0.44
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (17 bp):
TATTTTAAAAACATGTG
Found at i:20455857 original size:125 final size:126
Alignment explanation
Indices: 20455675--20455901 Score: 330
Period size: 125 Copynumber: 1.8 Consensus size: 126
20455665 GGCTTGTTCA
* * *
20455675 GACGTTTTTGAGCAAACAGTATAAAAAAACGCTTCAAGCAGGACGATTTATCAGAAGAATTTCTA
1 GACGTTTCTGAGAAAACAGTATAAAAAAACGCTTCAAGCAAGACGATTTATCAGAAGAATTTCTA
* *
20455740 AAATCGCGCCCTCGTGGACATGTTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGAGTT
66 AAATCGCGCCCTCGTGGACAGGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGAGTT
* * * * *
20455801 GACGTTTCTGAGAAAATAGTAT-AAAAAACGCTTCAAGCAAGATGCTTTATTAGAAGAATTTCTG
1 GACGTTTCTGAGAAAACAGTATAAAAAAACGCTTCAAGCAAGACGATTTATCAGAAGAATTTCTA
* **
20455865 AAATCTCGCCCTCGTGGATGGGCTTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACAGGCTTTTGCTACAGTAG
20455902 CATGTTTGGG
Statistics
Matches: 88, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
125 69 0.78
126 19 0.22
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (126 bp):
GACGTTTCTGAGAAAACAGTATAAAAAAACGCTTCAAGCAAGACGATTTATCAGAAGAATTTCTA
AAATCGCGCCCTCGTGGACAGGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGAGTT
Found at i:20459107 original size:112 final size:112
Alignment explanation
Indices: 20458910--20459123 Score: 383
Period size: 112 Copynumber: 1.9 Consensus size: 112
20458900 ATATTTTTTT
* *
20458910 GTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTAATTGTA
1 GTACCAATCAAAACATTTTATAAAATCTAACATTTTGTTAGTCAAATTAATAATTGTTAATTGTA
20458975 TTAATTGTTAGTAAAATTATCAAATTATATCAAATTATTAATTGTTA
66 TTAATTGTTAGTAAAATTATCAAATTATATCAAATTATTAATTGTTA
20459022 GTACCAATCAAAACATTTTATAAAATCTAACATTTTGTTAGTCAAATTAATAATTGTTAATTGTA
1 GTACCAATCAAAACATTTTATAAAATCTAACATTTTGTTAGTCAAATTAATAATTGTTAATTGTA
* * *
20459087 TTAATTTTTAGTAAATTTATCAAATTATATCATATTA
66 TTAATTGTTAGTAAAATTATCAAATTATATCAAATTA
20459124 GGGTTAGGGT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 97 1.00
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (112 bp):
GTACCAATCAAAACATTTTATAAAATCTAACATTTTGTTAGTCAAATTAATAATTGTTAATTGTA
TTAATTGTTAGTAAAATTATCAAATTATATCAAATTATTAATTGTTA
Found at i:20459197 original size:21 final size:21
Alignment explanation
Indices: 20459129--20459223 Score: 115
Period size: 21 Copynumber: 4.6 Consensus size: 21
20459119 TATTAGGGTT
*
20459129 AGGGTTAGGGTTTTT--GTTA
1 AGGGTTAGAGTTTTTAAGTTA
* *
20459148 A-GATTAGAGTTTTTAAGCTA
1 AGGGTTAGAGTTTTTAAGTTA
*
20459168 AGGGTTTAGGGTTTTTAAGTTA
1 AGGG-TTAGAGTTTTTAAGTTA
*
20459190 ATGGTTAGAGTTTTTAAGTTA
1 AGGGTTAGAGTTTTTAAGTTA
20459211 AGGGTTAGAGTTT
1 AGGGTTAGAGTTT
20459224 AGGGTTAGGG
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
18 11 0.17
19 1 0.02
20 4 0.06
21 29 0.46
22 18 0.29
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.44
Consensus pattern (21 bp):
AGGGTTAGAGTTTTTAAGTTA
Found at i:20459204 original size:43 final size:40
Alignment explanation
Indices: 20459129--20459216 Score: 124
Period size: 43 Copynumber: 2.1 Consensus size: 40
20459119 TATTAGGGTT
20459129 AGGG-TTAGGGTTTTTGTTAAGATTAGAGTTTTTAAGCTA
1 AGGGTTTAGGGTTTTTGTTAAGATTAGAGTTTTTAAGCTA
* *
20459168 AGGGTTTAGGGTTTTTAAGTTAATGGTTAGAGTTTTTAAGTTA
1 AGGGTTTAGGGTTTTT--GTTAA-GATTAGAGTTTTTAAGCTA
20459211 AGGGTT
1 AGGGTT
20459217 AGAGTTTAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
39 4 0.09
40 11 0.26
42 5 0.12
43 23 0.53
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (40 bp):
AGGGTTTAGGGTTTTTGTTAAGATTAGAGTTTTTAAGCTA
Found at i:20459267 original size:7 final size:7
Alignment explanation
Indices: 20459255--20459294 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
20459245 GTTTGTCAAT
20459255 TAAATTA
1 TAAATTA
20459262 TAAATT-
1 TAAATTA
20459268 T-AATTA
1 TAAATTA
20459274 TAAATTA
1 TAAATTA
20459281 TAAATTTA
1 TAAA-TTA
20459289 TAAATT
1 TAAATT
20459295 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:20459531 original size:21 final size:21
Alignment explanation
Indices: 20459501--20459547 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
20459491 GCGGGGGTTG
*
20459501 TGGTTGCTCCGGCAGGG-ATTC
1 TGGTTCCTCCGGCAGGGCA-TC
*
20459522 TGGTTCCTCCGGTAGGGCATC
1 TGGTTCCTCCGGCAGGGCATC
20459543 TGGTT
1 TGGTT
20459548 GTCGGTGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.09, C:0.23, G:0.36, T:0.32
Consensus pattern (21 bp):
TGGTTCCTCCGGCAGGGCATC
Found at i:20459815 original size:18 final size:18
Alignment explanation
Indices: 20459789--20459831 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
20459779 GACTTGGAAA
* * *
20459789 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
20459807 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
20459825 AGGATAC
1 AGGATAC
20459832 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:20461660 original size:28 final size:28
Alignment explanation
Indices: 20461606--20461660 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
20461596 ATTTTTACGA
**
20461606 TTTAAAAAAAATTAAAAAAATTAATTTT
1 TTTAAAAAAAATTAAAAAAAGGAATTTT
* * *
20461634 TTTAAAAATAATTAAAAATAGGGATTT
1 TTTAAAAAAAATTAAAAAAAGGAATTT
20461661 AAGAGAAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (28 bp):
TTTAAAAAAAATTAAAAAAAGGAATTTT
Found at i:20461717 original size:51 final size:51
Alignment explanation
Indices: 20461649--20461746 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
20461639 AAATAATTAA
20461649 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAAATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAAATT
* * *
20461700 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGA
20461747 GAGGAAATTG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.26, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAAATT
Found at i:20461735 original size:22 final size:22
Alignment explanation
Indices: 20461710--20461772 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 22
20461700 AAATATGGAT
20461710 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
20461732 TTGAGAGCAAA-TTGAGAGGAAA
1 TTGAGAG-AAATTTGAGAGGAAA
20461754 TTGAGA-AAATAATTGAGAG
1 TTGAGAGAAAT--TTGAGAG
20461773 AGGATTAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
20 3 0.08
22 22 0.61
23 11 0.31
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.22
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:20468323 original size:23 final size:20
Alignment explanation
Indices: 20468276--20468323 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 20
20468266 TTATTCCATT
*
20468276 ATATAATAGTATATCACATA
1 ATATAATAGTATATTACATA
*
20468296 CTATAATAGTAGAGTATTACATA
1 ATATAATAGT--A-TATTACATA
20468319 ATATA
1 ATATA
20468324 TTAATTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 9 0.41
22 1 0.05
23 12 0.55
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.35
Consensus pattern (20 bp):
ATATAATAGTATATTACATA
Found at i:20468757 original size:231 final size:223
Alignment explanation
Indices: 20468336--20468762 Score: 548
Period size: 231 Copynumber: 1.9 Consensus size: 223
20468326 AATTATTATA
* *
20468336 ATATATTATTGTTTATTATACTGGTTGAAATATGCTCTGAGCCCCTATACATTTCGTACATCTGA
1 ATATATTATTGTTTATTATACTGGTTGAAATATGCTCTAAGCCCCTATACATTTCGTACATCTAA
* * * * *
20468401 AAGTTAGCCCTCCTACTATATTATATAAAGTTATGTCATATCATATATTAATAGTTTATATATAT
66 AAGTTAACCCTCCTACCATATTATATAAAGTTATATCATATAATATATTAATAGTTCATATATAT
* * * *
20468466 GCATCGATGATTAAACATTATAATATCATATAATACTATATCTTTTATTATAATCTATATTGTAA
131 GCATCGATGATCAAACATTATAATATCATATAATACTATATCTCTTATTAAAATCTATATTATAA
20468531 TTATAGTTATATATAATATTAGTACGTT
196 TTATAGTTATATATAATATTAGTACGTT
* * * ** * *
20468559 ATATATTATTGTTTACTATTATGCTTGTTGAAATATTCTCTAAGTTCCTATACTTTTCGTACATT
1 ATATATTATTG-TT--TATTATACTGGTTGAAATATGCTCTAAGCCCCTATACATTTCGTACATC
* * * * *
20468624 TAAAAGTTAACCCTCTTTCCATTTTATATAATGCTATAACATATCATATAATATCTTAATAGTTC
63 TAAAAGTTAACCCTCCTACCATATTATATAAAG-T-T---ATATCATATAATATATTAATAGTTC
* * *
20468689 ATATATATGCATTGATGATCAAACATTATAATATCGTGTAATACTATATCTCTTATTAAAATCTA
123 ATATATATGCATCGATGATCAAACATTATAATATCATATAATACTATATCTCTTATTAAAATCTA
20468754 TATTATAAT
188 TATTATAAT
20468763 AGTTATATAT
Statistics
Matches: 170, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
223 11 0.06
224 2 0.01
226 67 0.39
227 1 0.01
228 1 0.01
231 88 0.52
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (223 bp):
ATATATTATTGTTTATTATACTGGTTGAAATATGCTCTAAGCCCCTATACATTTCGTACATCTAA
AAGTTAACCCTCCTACCATATTATATAAAGTTATATCATATAATATATTAATAGTTCATATATAT
GCATCGATGATCAAACATTATAATATCATATAATACTATATCTCTTATTAAAATCTATATTATAA
TTATAGTTATATATAATATTAGTACGTT
Found at i:20469971 original size:24 final size:24
Alignment explanation
Indices: 20469939--20469986 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
20469929 CCCGCAAACC
*
20469939 AAAAATAAA-CCCAATTTTATAAAT
1 AAAAATAAAGCCAAATTTTA-AAAT
20469963 AAAAATAAAGCCAAATTTTAAAAT
1 AAAAATAAAGCCAAATTTTAAAAT
20469987 GTCCACAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.27
Consensus pattern (24 bp):
AAAAATAAAGCCAAATTTTAAAAT
Found at i:20472868 original size:180 final size:180
Alignment explanation
Indices: 20472566--20472922 Score: 696
Period size: 180 Copynumber: 2.0 Consensus size: 180
20472556 AAACCCTTTT
20472566 GAGAATAAACCACGGCAAGAGGAGAAAAAAATTCACTATGTCAAATTCGAATTATATAAGAGTAG
1 GAGAATAAACCACGGCAAGAGGAGAAAAAAATTCACTATGTCAAATTCGAATTATATAAGAGTAG
20472631 AGACGATTACGTCTATTTATAGGTTTAAAAACCTTATTCTAATCAAAGTCAAATAAAAGTAATGC
66 AGACGATTACGTCTATTTATAGGTTTAAAAACCTTATTCTAATCAAAGTCAAATAAAAGTAATGC
20472696 AGTAAGATTAAAACACCTTATTTTAATTAACATCAAATAGAGGAAGTTTA
131 AGTAAGATTAAAACACCTTATTTTAATTAACATCAAATAGAGGAAGTTTA
*
20472746 GAGAATAAACCACGGCAAGAGGAGAAAAAAATTCACTATGTCGAATTCGAATTATATAAGAGTAG
1 GAGAATAAACCACGGCAAGAGGAGAAAAAAATTCACTATGTCAAATTCGAATTATATAAGAGTAG
20472811 AGACGATTACGTCTATTTATAGGTTTAAAAACCTTATTCTAATCAAAGTCAAATAAAAGTAATGC
66 AGACGATTACGTCTATTTATAGGTTTAAAAACCTTATTCTAATCAAAGTCAAATAAAAGTAATGC
*
20472876 AGTAAGATTAAAACACTTTATTTTAATTAACATCAAATAGAGGAAGT
131 AGTAAGATTAAAACACCTTATTTTAATTAACATCAAATAGAGGAAGT
20472923 AAACTTCTAT
Statistics
Matches: 175, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
180 175 1.00
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (180 bp):
GAGAATAAACCACGGCAAGAGGAGAAAAAAATTCACTATGTCAAATTCGAATTATATAAGAGTAG
AGACGATTACGTCTATTTATAGGTTTAAAAACCTTATTCTAATCAAAGTCAAATAAAAGTAATGC
AGTAAGATTAAAACACCTTATTTTAATTAACATCAAATAGAGGAAGTTTA
Found at i:20484706 original size:12 final size:12
Alignment explanation
Indices: 20484689--20484718 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
20484679 CTCCACATGC
20484689 CCATGTGCTAGG
1 CCATGTGCTAGG
*
20484701 CCATGTGTTAGG
1 CCATGTGCTAGG
20484713 CCATGT
1 CCATGT
20484719 AACTCACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (12 bp):
CCATGTGCTAGG
Found at i:20504033 original size:13 final size:13
Alignment explanation
Indices: 20504015--20504041 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20504005 TTAATTTATA
20504015 TGTGTGAAAATTT
1 TGTGTGAAAATTT
20504028 TGTGTGAAAATTT
1 TGTGTGAAAATTT
20504041 T
1 T
20504042 ATCGTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:20507124 original size:31 final size:32
Alignment explanation
Indices: 20507079--20507163 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 32
20507069 ATAAACAGAA
20507079 TGGCTACAAA-CCATAAGTA-CAGTAATATGAT
1 TGGC-ACAAAGCCATAAGTAGCAGTAATATGAT
* * *
20507110 TGGCACAAAGCCATAAGGAGCAGTGATATGGT
1 TGGCACAAAGCCATAAGTAGCAGTAATATGAT
* * *
20507142 CGGCACACAGCCATCAGTAGCA
1 TGGCACAAAGCCATAAGTAGCA
20507164 TCGCAACAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
30 5 0.11
31 12 0.27
32 28 0.62
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (32 bp):
TGGCACAAAGCCATAAGTAGCAGTAATATGAT
Found at i:20507233 original size:27 final size:26
Alignment explanation
Indices: 20507198--20507267 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
20507188 TATCGCAGGA
* *
20507198 AAGCTACCAGTAATAGT-ATATGTGGCC
1 AAGCCACCAGTAACAGTGAT-TGTGG-C
20507225 AAGCCACCAGTAACAGTGATTGTGGC
1 AAGCCACCAGTAACAGTGATTGTGGC
20507251 AGAGCCACCAGT-ACAGT
1 A-AGCCACCAGTAACAGT
20507268 ACTTCCTCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.18
27 30 0.77
28 2 0.05
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (26 bp):
AAGCCACCAGTAACAGTGATTGTGGC
Found at i:20507359 original size:24 final size:24
Alignment explanation
Indices: 20507332--20507413 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
20507322 CCATGCTCAG
20507332 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* *
20507356 AATCAGTCATACCAATCACAAACA
1 AATCAGTCATACAAATCACAGACA
**
20507380 AATCAGTCATTTAAATCATC-GACA
1 AATCAGTCATACAAATCA-CAGACA
*
20507404 AATCAATCAT
1 AATCAGTCAT
20507414 TTAACCCCAA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
24 49 0.98
25 1 0.02
ACGTcount: A:0.48, C:0.24, G:0.06, T:0.22
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:20507486 original size:27 final size:27
Alignment explanation
Indices: 20507434--20507701 Score: 185
Period size: 27 Copynumber: 9.9 Consensus size: 27
20507424 GGGGCAAAAT
* *
20507434 AGTCATTTTACCGTAT-AGGGGCATTAC
1 AGTCATTTTACCCTATGA-GGGTATTAC
*
20507461 AGTCATTTTACTCTATGAGGGTATTAC
1 AGTCATTTTACCCTATGAGGGTATTAC
* *
20507488 GGTCATTTTACCCTA-CAGGGGTATTA-
1 AGTCATTTTACCCTATGA-GGGTATTAC
* *
20507514 GGATCATTTTACCCTATAAGGGTATTAC
1 AG-TCATTTTACCCTATGAGGGTATTAC
* * *
20507542 -GATTATTTTACCCTA-CAGAGGCATTAC
1 AG-TCATTTTACCCTATGAG-GGTATTAC
* * *
20507569 GGTCATTTTTCCCTAT-AGGAGTATTTC
1 AGTCATTTTACCCTATGAGG-GTATTAC
** *
20507596 -GATCATTTTACCCTACAAGGGCATTAC
1 AG-TCATTTTACCCTATGAGGGTATTAC
* * *
20507623 GGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGAGGGTATTAC
* *
20507650 AGTCATTTTACCCT-TCGAGGTTATTTC
1 AGTCATTTTACCCTAT-GAGGGTATTAC
* *
20507677 AGTAATTTTATCC-ATTGAGGGTATT
1 AGTCATTTTACCCTA-TGAGGGTATT
20507702 TTAGTAATTT
Statistics
Matches: 197, Mismatches: 29, Indels: 30
0.77 0.11 0.12
Matches are distributed among these distances:
26 8 0.04
27 181 0.92
28 8 0.04
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (27 bp):
AGTCATTTTACCCTATGAGGGTATTAC
Found at i:20507498 original size:54 final size:54
Alignment explanation
Indices: 20507435--20507663 Score: 282
Period size: 54 Copynumber: 4.2 Consensus size: 54
20507425 GGGCAAAATA
* * * *
20507435 GTCATTTTACCGTATAGGGGCATTACAGTCATTTTACTCTATGAGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATGAGGGTATTACG
* *
20507489 GTCATTTTACCCTACAGGGGTATTA-GGATCATTTTACCCTATAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACGG-TCATTTTACCCTATGAGGGTATTACG
* * * * *
20507543 ATTATTTTACCCTACAGAGGCATTACGGTCATTTTTCCCTAT-AGGAGTATTTCG
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATGAGG-GTATTACG
* * * * *
20507597 ATCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATGAGGGTATTACG
20507651 GTCATTTTACCCT
1 GTCATTTTACCCT
20507664 TCGAGGTTAT
Statistics
Matches: 152, Mismatches: 19, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
53 4 0.03
54 144 0.95
55 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (54 bp):
GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATGAGGGTATTACG
Found at i:20507525 original size:81 final size:80
Alignment explanation
Indices: 20507436--20507663 Score: 269
Period size: 81 Copynumber: 2.8 Consensus size: 80
20507426 GGCAAAATAG
* * *
20507436 TCATTTTACCGTATAGGGGCATTACAGTCATTTTACTCTATGAGGGTATTACGGTCATTTTACCC
1 TCATTTTACCCTATAAGGGCATTAC-GTCATTTTACCCTATGAGGGTATTACGGTCATTTTACCC
* *
20507501 TACAGGGGTATTAGGA
65 TACAGGAGTATTACGA
* * * * *
20507517 TCATTTTACCCTATAAGGGTATTACGATTATTTTACCCTA-CAGAGGCATTACGGTCATTTTTCC
1 TCATTTTACCCTATAAGGGCATTACG-TCATTTTACCCTATGAG-GGTATTACGGTCATTTTACC
* *
20507581 CTATAGGAGTATTTCGA
64 CTACAGGAGTATTACGA
* * * *
20507598 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCC
1 TCATTTTACCCTATAAGGGCATTAC-GTCATTTTACCCTATGAGGGTATTACGGTCATTTTACCC
20507663 T
65 T
20507664 TCGAGGTTAT
Statistics
Matches: 122, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
80 3 0.02
81 117 0.96
82 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (80 bp):
TCATTTTACCCTATAAGGGCATTACGTCATTTTACCCTATGAGGGTATTACGGTCATTTTACCCT
ACAGGAGTATTACGA
Found at i:20507702 original size:27 final size:27
Alignment explanation
Indices: 20507641--20507714 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
20507631 TACCCTATGG
* *
20507641 GGGTATTTCAGTCATTTTACCCTTCGA
1 GGGTATTTCAGTAATTTTACCATTCGA
*
20507668 GGTTATTTCAGTAATTTTATCCATT-GA
1 GGGTATTTCAGTAATTTTA-CCATTCGA
*
20507695 GGGTATTTTAGTAATTTTAC
1 GGGTATTTCAGTAATTTTAC
20507715 AAATTTTAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 36 0.88
28 4 0.10
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.46
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACCATTCGA
Found at i:20507990 original size:19 final size:17
Alignment explanation
Indices: 20507950--20507992 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
20507940 TTTATCCGTG
20507950 TGGCCCACAAGCCCACT
1 TGGCCCACAAGCCCACT
* *
20507967 GGGCCCACACAGCCCATTT
1 TGGCCCACA-AGCCCA-CT
20507986 TGGCCCA
1 TGGCCCA
20507993 ATGAGGCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 8 0.38
18 6 0.29
19 7 0.33
ACGTcount: A:0.21, C:0.44, G:0.21, T:0.14
Consensus pattern (17 bp):
TGGCCCACAAGCCCACT
Found at i:20514089 original size:12 final size:12
Alignment explanation
Indices: 20514068--20514097 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20514058 AACAATAATC
20514068 CAAAAA-ATTTT
1 CAAAAATATTTT
20514079 CAAAAATATTTT
1 CAAAAATATTTT
20514091 CAAAAAT
1 CAAAAAT
20514098 TTAATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (12 bp):
CAAAAATATTTT
Found at i:20521150 original size:25 final size:25
Alignment explanation
Indices: 20521116--20521478 Score: 128
Period size: 26 Copynumber: 14.3 Consensus size: 25
20521106 TTTTCTCATA
20521116 TATTATTTATTTTAAATTGTTTTAT
1 TATTATTTATTTTAAATTGTTTTAT
20521141 TATTATTTATTTT-AA--GTTTT-T
1 TATTATTTATTTTAAATTGTTTTAT
* * * ** ** *
20521162 CA-CATGTATTTTAAACTACTTCAAAC
1 TATTATTTATTTTAAA-TTGTT-TTAT
**
20521188 TATTATCCATTTTAAA-T-TTTTAT
1 TATTATTTATTTTAAATTGTTTTAT
* **
20521211 ATATTATTTATTTTTAAACTGTCATAT
1 -TATTATTTA-TTTTAAATTGTTTTAT
**
20521238 ATATTATTTATTTTTTTATTGTCTTT-T
1 -TATTATTTA-TTTTAAATTGT-TTTAT
* * *
20521265 TGTATATATCATTTTTAAACTGATTTT-T
1 TAT-TAT-TTA-TTTTAAATTG-TTTTAT
* *
20521293 ATATTATTTATTTTAAACTTCTTTTTACA
1 -TATTATTTATTTTAAA-TT-GTTTTA-T
* *
20521322 TATTATTTATTTT-AA--GCCTTTAA
1 TATTATTTATTTTAAATTG-TTTTAT
*
20521345 TA-TA-TTATTTTAAATTGTCTTAT
1 TATTATTTATTTTAAATTGTTTTAT
* * *
20521368 ATGTTATTTATTTTAAATCG-CTTAGT
1 -TATTATTTATTTTAAATTGTTTTA-T
* *
20521394 ATATTATTTATTTTAATTTGTTTTACA
1 -TATTATTTATTTTAAATTGTTTTA-T
* *
20521421 TATTATTTACTTTAGATTGTTTTA-
1 TATTATTTATTTTAAATTGTTTTAT
* * *
20521445 TATTATTTACTTCAAATTGTTCTAT
1 TATTATTTATTTTAAATTGTTTTAT
20521470 ATATTATTT
1 -TATTATTT
20521479 TGTTTTGCTT
Statistics
Matches: 254, Mismatches: 53, Indels: 61
0.69 0.14 0.17
Matches are distributed among these distances:
20 8 0.03
21 11 0.04
22 9 0.04
23 7 0.03
24 40 0.16
25 26 0.10
26 70 0.28
27 49 0.19
28 31 0.12
29 3 0.01
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (25 bp):
TATTATTTATTTTAAATTGTTTTAT
Found at i:20521305 original size:27 final size:27
Alignment explanation
Indices: 20521205--20521334 Score: 104
Period size: 27 Copynumber: 4.7 Consensus size: 27
20521195 CATTTTAAAT
20521205 TTTTATATATTATTTATTTTTAAACTG-
1 TTTT-TATATTATTTATTTTTAAACTGC
* * ** *
20521232 TCATATATATTATTTATTTTTTTATTGTC
1 T-TTTTATATTATTTATTTTTAAACTG-C
* * *
20521261 TTTTTGTA-TATATCATTTTTAAACTGA
1 TTTTTATATTAT-TTATTTTTAAACTGC
*
20521288 TTTTTATATTATTTA-TTTTAAACTTC
1 TTTTTATATTATTTATTTTTAAACTGC
20521314 TTTTTACATATTATTTATTTT
1 TTTTT--ATATTATTTATTTT
20521335 AAGCCTTTAA
Statistics
Matches: 78, Mismatches: 17, Indels: 14
0.72 0.16 0.13
Matches are distributed among these distances:
26 14 0.18
27 32 0.41
28 28 0.36
29 4 0.05
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (27 bp):
TTTTTATATTATTTATTTTTAAACTGC
Found at i:20521306 original size:26 final size:25
Alignment explanation
Indices: 20521196--20521478 Score: 150
Period size: 26 Copynumber: 11.0 Consensus size: 25
20521186 ACTATTATCC
*
20521196 ATTTTAAATT-TTTATATATTATTT
1 ATTTTAAATTGTTTTTATATTATTT
* * *
20521220 ATTTTTAAACTGTCATATATATTATTT
1 A-TTTTAAATTGT-TTTTATATTATTT
** * *
20521247 ATTTTTTTATTGTCTTTT-TGTATATATC
1 A-TTTTAAATTGT-TTTTATAT-TAT-TT
*
20521275 ATTTTTAAACTGATTTTTATATTATTT
1 A-TTTTAAATTG-TTTTTATATTATTT
*
20521302 ATTTTAAACTTCTTTTTACATATTATTT
1 ATTTTAAA-TTGTTTTT--ATATTATTT
**
20521330 ATTTT-AA--GCCTTTA-A-TATATT
1 ATTTTAAATTGTTTTTATATTAT-TT
* *
20521351 ATTTTAAATTGTCTTATATGTTATTT
1 ATTTTAAATTGT-TTTTATATTATTT
* **
20521377 ATTTTAAATCGCTTAGTATATTATTT
1 ATTTTAAATTG-TTTTTATATTATTT
* *
20521403 ATTTTAATTTGTTTTACATATTATTT
1 ATTTTAAATTGTTTT-TATATTATTT
* *
20521429 ACTTTAGATTG-TTTTATATTATTT
1 ATTTTAAATTGTTTTTATATTATTT
* * *
20521453 ACTTCAAATTGTTCTATATATTATTT
1 ATTTTAAATTGTT-TTTATATTATTT
20521479 TGTTTTGCTT
Statistics
Matches: 199, Mismatches: 39, Indels: 40
0.72 0.14 0.14
Matches are distributed among these distances:
20 3 0.02
21 8 0.04
22 3 0.02
24 23 0.12
25 17 0.09
26 74 0.37
27 37 0.19
28 31 0.16
29 3 0.02
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (25 bp):
ATTTTAAATTGTTTTTATATTATTT
Found at i:20521334 original size:55 final size:57
Alignment explanation
Indices: 20521204--20521334 Score: 146
Period size: 55 Copynumber: 2.4 Consensus size: 57
20521194 CCATTTTAAA
** *
20521204 TTTTTATATATTATTTATTTTTAAACTGTCATATATATTATTTATTTTTTTATTGTC
1 TTTTTATATATTATTTATTTTTAAACTGTCATATATATTATTTATTTTTAAACTGTC
* * * *
20521261 TTTTTGTATA-TA-TCATTTTTAAACTGAT-TTTTATATTATTTA-TTTTAAACT-TC
1 TTTTTATATATTATTTATTTTTAAACTG-TCATATATATTATTTATTTTTAAACTGTC
*
20521314 TTTTTACATATTATTTATTTT
1 TTTTTATATATTATTTATTTT
20521335 AAGCCTTTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
53 10 0.16
54 8 0.13
55 31 0.51
56 3 0.05
57 9 0.15
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (57 bp):
TTTTTATATATTATTTATTTTTAAACTGTCATATATATTATTTATTTTTAAACTGTC
Found at i:20533847 original size:51 final size:50
Alignment explanation
Indices: 20533788--20533926 Score: 172
Period size: 51 Copynumber: 2.7 Consensus size: 50
20533778 AGTGAAAGAG
20533788 ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGAGTACCGAATAGCT
1 ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGAGTACCGAATAG-T
* * * * * *
20533839 -TCGATCACGTGTATAGTACTATATGCAGGCTACTACGTGTATCGGATAGT
1 AT-GATCACGTGTGTAGTACTATGTGCAGGCTACTATGAGTACCGAATAGT
* *
20533889 GATGGTCACATGTGTAGTACTATGTGCAGGCTACTATG
1 -ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATG
20533927 TGAACCGGTA
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
50 2 0.03
51 71 0.96
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGAGTACCGAATAGT
Found at i:20534005 original size:46 final size:43
Alignment explanation
Indices: 20533930--20534027 Score: 117
Period size: 46 Copynumber: 2.2 Consensus size: 43
20533920 TACTATGTGA
*
20533930 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CC
* *
20533973 ACCGGATATCATTGATTACAAAGGATGGTTGCTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAAGG-TGGTTGCTATGTGCTGAATCC
20534019 ACCGTGTAT
1 ACCG-GTAT
20534028 TTGTTATTAG
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 4 0.09
46 24 0.51
47 3 0.06
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:20534173 original size:16 final size:16
Alignment explanation
Indices: 20534152--20534183 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20534142 TGATTGAAAG
*
20534152 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
20534168 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
20534184 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:20535982 original size:46 final size:45
Alignment explanation
Indices: 20535915--20536209 Score: 201
Period size: 46 Copynumber: 6.6 Consensus size: 45
20535905 GGGTGTTACA
* *
20535915 TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACC
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGGAT-AAAATACACAAATC
* ** *
20535961 TTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTAC-CAATTC
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGGAT-AAAATACACAAATC
* * * ** *
20536006 TTATCTCCTTGAAGTTCCAGCGGAGTA-GATCGAA-GCTACAAATC
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGGATAAAATAC-ACAAATC
* * * * * ** **
20536050 TCT-TCTCCCTGAAATTACATTGCAGCA-GATCGAAGCCAC-AATCC
1 T-TATCTCCTTGAAGTTGCAGTGGAGCAGGATAAAATACACAAAT-C
* *
20536094 TTATCTCCTTGAAGTTGCAGTGGAGCAGGATAAAAATACCCAAAAC
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGGAT-AAAATACACAAATC
* * * *
20536140 TTATCT-CTCTAAAGTTGCAGTGGAGCAGGTTGAAATTAC-CAATTC
1 TTATCTCCT-TGAAGTTGCAGTGGAGCAGGAT-AAAATACACAAATC
* *
20536185 TTATCTCCTTGAAGTTACAGCGGAG
1 TTATCTCCTTGAAGTTGCAGTGGAG
20536210 TAGATCAAAG
Statistics
Matches: 193, Mismatches: 45, Indels: 23
0.74 0.17 0.09
Matches are distributed among these distances:
42 1 0.01
43 4 0.02
44 55 0.28
45 58 0.30
46 73 0.38
47 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (45 bp):
TTATCTCCTTGAAGTTGCAGTGGAGCAGGATAAAATACACAAATC
Found at i:20536121 original size:44 final size:44
Alignment explanation
Indices: 20535915--20536121 Score: 175
Period size: 44 Copynumber: 4.6 Consensus size: 44
20535905 GGGTGTTACA
* ** ** *
20535915 TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACC
1 TTATCTCCTTGAAGTTGCAGTGGAGCA-GAT-CGAAGCCACAATCC
* * ** *
20535961 TTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACCAATTC
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGATCGAAGCCA-CAATCC
* * * *
20536006 TTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAAT-C
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGATCGAAGCCAC-AATCC
* * * * *
20536050 TCT-TCTCCCTGAAATTACATTGCAGCAGATCGAAGCCACAATCC
1 T-TATCTCCTTGAAGTTGCAGTGGAGCAGATCGAAGCCACAATCC
20536094 TTATCTCCTTGAAGTTGCAGTGGAGCAG
1 TTATCTCCTTGAAGTTGCAGTGGAGCAG
20536122 GATAAAAATA
Statistics
Matches: 128, Mismatches: 28, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
43 4 0.03
44 56 0.44
45 42 0.33
46 26 0.20
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (44 bp):
TTATCTCCTTGAAGTTGCAGTGGAGCAGATCGAAGCCACAATCC
Found at i:20536215 original size:179 final size:179
Alignment explanation
Indices: 20535915--20536250 Score: 568
Period size: 179 Copynumber: 1.9 Consensus size: 179
20535905 GGGTGTTACA
* *
20535915 TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCTCCTTGAAGTTGCA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAAACTTATCTCCTTAAAGTTGCA
* * *
20535980 GTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTAC
66 GTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGAAGTTACAGCGGAGTAGATCAAAGCTAC
20536045 AAATCTCTTCTCCCT-GAAATTACATTGCAGCAGATCGAAGCCACAATCC
131 AAATCTCTTCTCCCTAG-AATTACATTGCAGCAGATCGAAGCCACAATCC
* *
20536094 TTATCTCCTTGAAGTTGCAGTGGAGCAGGATAAAAATACCCAAAACTTATCT-CTCTAAAGTTGC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAAACTTATCTCCT-TAAAGTTGC
20536158 AGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGAAGTTACAGCGGAGTAGATCAAAGCTA
65 AGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGAAGTTACAGCGGAGTAGATCAAAGCTA
*
20536223 CAAGTCTCTTCTCCCTAGAATTACATTG
130 CAAATCTCTTCTCCCTAGAATTACATTG
20536251 GAGCGGACCG
Statistics
Matches: 147, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
178 2 0.01
179 144 0.98
180 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (179 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAAACTTATCTCCTTAAAGTTGCA
GTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGAAGTTACAGCGGAGTAGATCAAAGCTAC
AAATCTCTTCTCCCTAGAATTACATTGCAGCAGATCGAAGCCACAATCC
Found at i:20536685 original size:20 final size:22
Alignment explanation
Indices: 20536650--20536689 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
20536640 GTTGCCTCCT
20536650 CCACGTCAGCACCTCCGTACCG
1 CCACGTCAGCACCTCCGTACCG
20536672 CCACGTC-G-ACCTCCGTAC
1 CCACGTCAGCACCTCCGTAC
20536690 ATAGCTGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.17, C:0.50, G:0.17, T:0.15
Consensus pattern (22 bp):
CCACGTCAGCACCTCCGTACCG
Found at i:20537773 original size:25 final size:27
Alignment explanation
Indices: 20537745--20537802 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
20537735 TACTTCAAAC
* *
20537745 TATTATCCA-TTTTAAA-TTTTTTATA
1 TATTATCCATTTTTAAACTGTTATATA
**
20537770 TATTATTTATTTTTAAACTGTTATATA
1 TATTATCCATTTTTAAACTGTTATATA
20537797 TATTAT
1 TATTAT
20537803 TTATTATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 7 0.26
26 7 0.26
27 13 0.48
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
TATTATCCATTTTTAAACTGTTATATA
Found at i:20537877 original size:26 final size:29
Alignment explanation
Indices: 20537837--20537900 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 29
20537827 TATATATCAT
20537837 TTATTT-TTTTAAAACTGATTTTT-C-TA
1 TTATTTATTTTAAAACTGATTTTTACATA
**
20537863 TTATTTATTTT-AAACTTCTTTTTACATA
1 TTATTTATTTTAAAACTGATTTTTACATA
20537891 TTATTTATTT
1 TTATTTATTT
20537901 CAAGCCTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 16 0.48
27 5 0.15
28 12 0.36
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.64
Consensus pattern (29 bp):
TTATTTATTTTAAAACTGATTTTTACATA
Found at i:20537945 original size:26 final size:25
Alignment explanation
Indices: 20537861--20538045 Score: 137
Period size: 26 Copynumber: 7.3 Consensus size: 25
20537851 CTGATTTTTC
* *
20537861 TATTATTTATTTTAAACTTCTTTTTACA
1 TATTATTTATTTTAAA--T-TGTTTATA
* ***
20537889 TATTATTTA-TTTCAAGCCTTT-TA
1 TATTATTTATTTTAAATTGTTTATA
20537912 TA-TA-TTATTTTAAATTGTCTTATA
1 TATTATTTATTTTAAATTGT-TTATA
* * *
20537936 TGTTATTTATTTTAAATCGCTTTGTA
1 TATTATTTATTTTAAATTG-TTTATA
* *
20537962 TATTATTTATTTTAATTTGTTTTACA
1 TATTATTTATTTTAAATTG-TTTATA
* *
20537988 TATTATTTACTTTAGATTGTTT-TA
1 TATTATTTATTTTAAATTGTTTATA
* *
20538012 TATTATTTACTTCAAATTGTTCTATA
1 TATTATTTATTTTAAATTGTT-TATA
20538038 TATTATTT
1 TATTATTT
20538046 TGTTTCGTTT
Statistics
Matches: 125, Mismatches: 24, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
21 3 0.02
22 8 0.06
23 5 0.04
24 26 0.21
25 6 0.05
26 62 0.50
27 6 0.05
28 9 0.07
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.60
Consensus pattern (25 bp):
TATTATTTATTTTAAATTGTTTATA
Found at i:20538032 original size:50 final size:48
Alignment explanation
Indices: 20537856--20538045 Score: 168
Period size: 50 Copynumber: 3.8 Consensus size: 48
20537846 TAAAACTGAT
* * * *
20537856 TTTTCTATTATTTATTTTAAACTTCTTTTTACATATTATTTATTTCAAGCC
1 TTTTATATTATTTATTTTAAA-TT-GTTTTACATATTATTTATTT-AATCG
* * *
20537907 TTTTATA-TA-TTATTTTAAATTGTCTTATATGTTATTTATTTTAAATCG
1 TTTTATATTATTTATTTTAAATTGTTTTACATATTATTTA-TTT-AATCG
* *
20537955 CTTTGTATATTATTTATTTTAATTTGTTTTACATATTATTTACTTTAGATTG
1 -TTT-TATATTATTTATTTTAAATTGTTTTACATATTATTTA-TTTA-ATCG
* * * *
20538007 TTTTATATTATTTACTTCAAATTGTTCTATATATTATTT
1 TTTTATATTATTTATTTTAAATTGTTTTACATATTATTT
20538046 TGTTTCGTTT
Statistics
Matches: 114, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
47 13 0.11
48 8 0.07
49 13 0.11
50 37 0.32
51 12 0.11
52 31 0.27
ACGTcount: A:0.27, C:0.08, G:0.05, T:0.61
Consensus pattern (48 bp):
TTTTATATTATTTATTTTAAATTGTTTTACATATTATTTATTTAATCG
Found at i:20542412 original size:28 final size:30
Alignment explanation
Indices: 20542375--20542444 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
20542365 TTTTTTTATA
* *
20542375 ATTTTATAAAATAA-ATTATG-ATTTTTAG
1 ATTTTTTAAAATAATATTATGAATATTTAG
* *
20542403 ATTTTTT-AAATAATTTTTTGACATATTTAG
1 ATTTTTTAAAATAATATTATGA-ATATTTAG
20542433 ATTTTTTAAAAT
1 ATTTTTTAAAAT
20542445 TATCATTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
27 6 0.18
28 10 0.29
30 14 0.41
31 4 0.12
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (30 bp):
ATTTTTTAAAATAATATTATGAATATTTAG
Found at i:20542472 original size:27 final size:28
Alignment explanation
Indices: 20542441--20542513 Score: 67
Period size: 31 Copynumber: 2.5 Consensus size: 28
20542431 AGATTTTTTA
20542441 AAATTATCATTAATTTT-TTAAAACATC
1 AAATTATCATTAATTTTATTAAAACATC
* * *
20542468 AAATTGATCTTTTAATTTTAATTAAGAGATC
1 AAATT-ATC-ATTAATTTT-ATTAAAACATC
*
20542499 AAATTAGTTATTAAT
1 AAATTA-TCATTAAT
20542514 CTTTGAGTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
27 5 0.14
28 3 0.08
29 8 0.22
30 6 0.17
31 14 0.39
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (28 bp):
AAATTATCATTAATTTTATTAAAACATC
Found at i:20545809 original size:26 final size:26
Alignment explanation
Indices: 20545778--20545830 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
20545768 AGAGATAAGC
20545778 GGTTAGAAAATACAGAGCGCAAGTAT
1 GGTTAGAAAATACAGAGCGCAAGTAT
* *
20545804 GGTTAGAAAATACAGAGTGCATGTAT
1 GGTTAGAAAATACAGAGCGCAAGTAT
20545830 G
1 G
20545831 CCTTTTTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.23
Consensus pattern (26 bp):
GGTTAGAAAATACAGAGCGCAAGTAT
Found at i:20555024 original size:17 final size:18
Alignment explanation
Indices: 20554970--20555037 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
20554960 TAGATCGCAT
*
20554970 AGTTGTGAGCTCATCCAA
1 AGTTGTGAGCTCAGCCAA
** *
20554988 A-TATGCAAGCTGAGCCAA
1 AGT-TGTGAGCTCAGCCAA
20555006 AGTTGTGAGCTCA-CCAA
1 AGTTGTGAGCTCAGCCAA
*
20555023 AGATGTGAGCTCAGC
1 AGTTGTGAGCTCAGC
20555038 ATTGATGCGA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
17 17 0.44
18 21 0.54
19 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (18 bp):
AGTTGTGAGCTCAGCCAA
Found at i:20557310 original size:26 final size:24
Alignment explanation
Indices: 20557281--20557335 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
20557271 ATATGGAAAA
*
20557281 AAATAACAAATATTTTTTATACTAAT
1 AAATAACAAATA--TATTATACTAAT
* *
20557307 AAATGATAAATATATTATACTAAT
1 AAATAACAAATATATTATACTAAT
20557331 AAATA
1 AAATA
20557336 CTAAATCTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 15 0.60
26 10 0.40
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATAACAAATATATTATACTAAT
Found at i:20576758 original size:50 final size:50
Alignment explanation
Indices: 20576686--20576823 Score: 159
Period size: 50 Copynumber: 2.8 Consensus size: 50
20576676 TATTGAGGTT
* * * * *
20576686 ATGAGATGTCCCACAAAAGACCATGTCTTGGACATGGCGTTGGCACCGAG
1 ATGAGAAGTCCCACATAAGACCATGTCTAGGACATGGCATGGGCACCGAG
* * * *
20576736 ATGAGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAAGTCCCACATAAGACCATGTCTAGGACATGGCATGGGCACCGAG
* * **
20576786 TTGAGAACTCCCATGTAAGACCATGTCTAGGACATGGC
1 ATGAGAAGTCCCACATAAGACCATGTCTAGGACATGGC
20576824 TTTGACATGT
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.20
Consensus pattern (50 bp):
ATGAGAAGTCCCACATAAGACCATGTCTAGGACATGGCATGGGCACCGAG
Found at i:20595587 original size:68 final size:68
Alignment explanation
Indices: 20595478--20595616 Score: 215
Period size: 68 Copynumber: 2.0 Consensus size: 68
20595468 TGTGGGCCAC
** *
20595478 TCAGTCGGTTATATGAATATAGAAAATTTGATCTCTTTCATTATCTTCTTACCCGAATGGATGAT
1 TCAGTCGGTTATATGAATATAGAAAATTCCATCACTTTCATTATCTTCTTACCCGAATGGATGAT
20595543 TAA
66 TAA
***
20595546 TCAGTCGGTTATATGAATATAGAAAATTCCATCACTTTCATTATCTTCTTAGTTGAATGGATGAT
1 TCAGTCGGTTATATGAATATAGAAAATTCCATCACTTTCATTATCTTCTTACCCGAATGGATGAT
*
20595611 TGA
66 TAA
20595614 TCA
1 TCA
20595617 TGAGCAGTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (68 bp):
TCAGTCGGTTATATGAATATAGAAAATTCCATCACTTTCATTATCTTCTTACCCGAATGGATGAT
TAA
Found at i:20598230 original size:38 final size:38
Alignment explanation
Indices: 20598158--20598309 Score: 135
Period size: 38 Copynumber: 4.0 Consensus size: 38
20598148 ATCATGGAAC
* *
20598158 GATTATCTA-AAGTCCTTTGGGGCGACGCCATGTAAAT
1 GATTATCTACTAGTCCTTTGGGGCGACACCATGTAAAT
* * *
20598195 GATTATCTACTAGTCCTTTTGGGCAACACCTTGTAAAT
1 GATTATCTACTAGTCCTTTGGGGCGACACCATGTAAAT
** * * * *
20598233 GGCTATCTATTGGTCCTTCGGGGCGACACAATGTAAAT
1 GATTATCTACTAGTCCTTTGGGGCGACACCATGTAAAT
* * * * * **
20598271 AATTTTCTACTGGTCCTTTTGCGCGACACTGTGTAAAT
1 GATTATCTACTAGTCCTTTGGGGCGACACCATGTAAAT
20598309 G
1 G
20598310 GTATATAGGT
Statistics
Matches: 89, Mismatches: 25, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
37 9 0.10
38 80 0.90
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (38 bp):
GATTATCTACTAGTCCTTTGGGGCGACACCATGTAAAT
Found at i:20598306 original size:76 final size:73
Alignment explanation
Indices: 20598169--20598334 Score: 190
Period size: 76 Copynumber: 2.2 Consensus size: 73
20598159 ATTATCTAAA
* * * * *
20598169 GTCCTTTGGGGCGACGCCATGTAAATGATTATCTACTAGTCCTTTTGGGCAACACCTTGTAAATG
1 GTCCTTCGGGGCGACACAATGTAAATAATTATCTACTAGTCCTTTTGCGCAACACCTTGTAAATG
*
20598234 GCTATCTATTG
66 G-TA--TATAG
* * *
20598245 GTCCTTCGGGGCGACACAATGTAAATAATTTTCTACTGGTCCTTTTGCGCGACA-CTGTGTAAAT
1 GTCCTTCGGGGCGACACAATGTAAATAATTATCTACTAGTCCTTTTGCGCAACACCT-TGTAAAT
20598309 GGTATATAG
65 GGTATATAG
* *
20598318 GTCCTTCGAGGTGACAC
1 GTCCTTCGGGGCGACAC
20598335 CTCAAAAGGG
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
73 19 0.24
75 4 0.05
76 55 0.71
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (73 bp):
GTCCTTCGGGGCGACACAATGTAAATAATTATCTACTAGTCCTTTTGCGCAACACCTTGTAAATG
GTATATAG
Found at i:20608370 original size:28 final size:28
Alignment explanation
Indices: 20608339--20608400 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
20608329 GACATGCAAA
*
20608339 AACAGTCTGGGCCTGAGCCCTAAGTAGT
1 AACAGTCTGGGCCTGAGCCCTAAGCAGT
*
20608367 AACAGTCTGGGCCTTAGCCCTAAGCAGT
1 AACAGTCTGGGCCTGAGCCCTAAGCAGT
20608395 AACAGT
1 AACAGT
20608401 GTAATGTGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.27, C:0.26, G:0.26, T:0.21
Consensus pattern (28 bp):
AACAGTCTGGGCCTGAGCCCTAAGCAGT
Found at i:20608459 original size:28 final size:28
Alignment explanation
Indices: 20608405--20608461 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
20608395 AACAGTGTAA
* * *
20608405 TGTGGGCCTTAGCCCATTTCAGTAATAG
1 TGTGGGCCTTAGCCCAATACAGAAATAG
20608433 TGTGGGCCTTAGCCCAATACAGAAATAG
1 TGTGGGCCTTAGCCCAATACAGAAATAG
20608461 T
1 T
20608462 ATAGTGCAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGAAATAG
Found at i:20608839 original size:27 final size:27
Alignment explanation
Indices: 20608790--20609095 Score: 364
Period size: 27 Copynumber: 11.3 Consensus size: 27
20608780 AGGGGTATAA
* *
20608790 CGGTAATTTTACCCTAT-GGGGGTATTT
1 CGGTTATTTTACCCT-TCGAGGGTATTT
*
20608817 CGGTTATTTTACCTTTCGAGGGTATTT
1 CGGTTATTTTACCCTTCGAGGGTATTT
* * *
20608844 CAGTCATTTTACCCTTCGGGGGTATTT
1 CGGTTATTTTACCCTTCGAGGGTATTT
*
20608871 CAGTTATTTTACCCTTC-AGGGGTATTT
1 CGGTTATTTTACCCTTCGA-GGGTATTT
*
20608898 CGATTATTTTACCCTTCGAGGGTATTT
1 CGGTTATTTTACCCTTCGAGGGTATTT
*
20608925 CGGTTATTTTACCCTTTGAGGGTATTT
1 CGGTTATTTTACCCTTCGAGGGTATTT
* * * * *
20608952 TGGTCATTTTAACCTTTGAAGGTATTT
1 CGGTTATTTTACCCTTCGAGGGTATTT
*
20608979 CGGTTATTTTACCCTTTGAGGGTATTT
1 CGGTTATTTTACCCTTCGAGGGTATTT
* *
20609006 CAGTCATTTTACCCTTCGAGGGTATTT
1 CGGTTATTTTACCCTTCGAGGGTATTT
* *
20609033 CAGTTATTTTACCATTCGAGGGTATTT
1 CGGTTATTTTACCCTTCGAGGGTATTT
* * * *
20609060 TGATCATTTTACCCTTCGAGGATATTT
1 CGGTTATTTTACCCTTCGAGGGTATTT
*
20609087 CGGTCATTT
1 CGGTTATTT
20609096 GCCCATGAAT
Statistics
Matches: 242, Mismatches: 34, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.00
27 240 0.99
28 1 0.00
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.45
Consensus pattern (27 bp):
CGGTTATTTTACCCTTCGAGGGTATTT
Found at i:20617488 original size:64 final size:65
Alignment explanation
Indices: 20617418--20617544 Score: 213
Period size: 65 Copynumber: 2.0 Consensus size: 65
20617408 GTTGTTCCGA
20617418 GTGTTAGTTAAGTTAATTATTATTGTA-ATTAGGCTT-TTTTGCACTTTTAGTCCCTATACCTTA
1 GTGTTAGTTAAGTTAATTATTATTGTAGATTAGGCTTATTTT-CACTTTTAGTCCCTATACCTTA
20617481 G
65 G
* *
20617482 GTGTTAGTTAAGTTAATTATTATTGTAGCTTAGGCTTATTTTCACTTTTAGTCCCTGTACCTT
1 GTGTTAGTTAAGTTAATTATTATTGTAGATTAGGCTTATTTTCACTTTTAGTCCCTATACCTT
20617545 GGTTGTAAGA
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
64 27 0.46
65 28 0.47
66 4 0.07
ACGTcount: A:0.22, C:0.13, G:0.16, T:0.49
Consensus pattern (65 bp):
GTGTTAGTTAAGTTAATTATTATTGTAGATTAGGCTTATTTTCACTTTTAGTCCCTATACCTTAG
Found at i:20619084 original size:12 final size:12
Alignment explanation
Indices: 20619056--20619091 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
20619046 GCAAATGAAT
*
20619056 CATTTCTCATTTT
1 CATTTC-CATTTC
20619069 CATTTCCATTTC
1 CATTTCCATTTC
20619081 CATTTCCATTT
1 CATTTCCATTT
20619092 TGAGAAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (12 bp):
CATTTCCATTTC
Found at i:20619090 original size:18 final size:19
Alignment explanation
Indices: 20619056--20619091 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
20619046 GCAAATGAAT
*
20619056 CATTTCTCATTTTCATTTC
1 CATTTCTCATTTCCATTTC
20619075 CATTTC-CATTTCCATTT
1 CATTTCTCATTTCCATTT
20619092 TGAGAAAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (19 bp):
CATTTCTCATTTCCATTTC
Found at i:20620984 original size:23 final size:22
Alignment explanation
Indices: 20620952--20620994 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
20620942 TTTATAACAT
* *
20620952 AAAAAAATTATTTCAAATTATC
1 AAAAAAATTAATTAAAATTATC
20620974 AAAACAAATTAATTAAAATTA
1 AAAA-AAATTAATTAAAATTA
20620995 ACATAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAAAATTAATTAAAATTATC
Found at i:20621172 original size:16 final size:16
Alignment explanation
Indices: 20621138--20621173 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
20621128 GATAATTAAA
* *
20621138 AAATAAGAATATTTTT
1 AAATAAGAATATCTAT
20621154 AAATAAGAATATCTAT
1 AAATAAGAATATCTAT
20621170 AAAT
1 AAAT
20621174 TTAGAACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.36
Consensus pattern (16 bp):
AAATAAGAATATCTAT
Found at i:20627626 original size:65 final size:65
Alignment explanation
Indices: 20627545--20627684 Score: 235
Period size: 65 Copynumber: 2.2 Consensus size: 65
20627535 GACGAATCAG
* *
20627545 CCAGTTCAAGTTAAGAATCCTCCACAACCCTACCCTCAAAGACTTTAGAAGCAGAAGCAAGAAGT
1 CCAGTTCAAGTTAAGAATCCTCCACAACCCTACCCTCAAAGACTTCAAAAGCAGAAGCAAGAAGT
* * *
20627610 CCAGTTCAAGTTAAGAATCCTTCACAACCCTACCCTCAAAGACTTCAAAAGCAGAAGTAGGAAGT
1 CCAGTTCAAGTTAAGAATCCTCCACAACCCTACCCTCAAAGACTTCAAAAGCAGAAGCAAGAAGT
20627675 CCAGTTCAAG
1 CCAGTTCAAG
20627685 AAATTCCTAG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 70 1.00
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.19
Consensus pattern (65 bp):
CCAGTTCAAGTTAAGAATCCTCCACAACCCTACCCTCAAAGACTTCAAAAGCAGAAGCAAGAAGT
Found at i:20629241 original size:20 final size:20
Alignment explanation
Indices: 20629203--20629241 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20629193 CTAACTGGAA
** *
20629203 AAATAAATGTTTAATTTTTC
1 AAATAAATGGATAAATTTTC
20629223 AAATAAATGGATAAATTTT
1 AAATAAATGGATAAATTTT
20629242 GATCCAAGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (20 bp):
AAATAAATGGATAAATTTTC
Found at i:20633270 original size:16 final size:17
Alignment explanation
Indices: 20633249--20633283 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20633239 AAACATAATT
*
20633249 AATTAA-CTAATTATAA
1 AATTAATCTAAGTATAA
20633265 AATTAATCTAAGTATAA
1 AATTAATCTAAGTATAA
20633282 AA
1 AA
20633284 AGTTGGAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (17 bp):
AATTAATCTAAGTATAA
Found at i:20641789 original size:17 final size:17
Alignment explanation
Indices: 20641767--20641799 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20641757 GTTAGTGCAC
*
20641767 ATTGTCTTTGCATTTTT
1 ATTGTCATTGCATTTTT
20641784 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
20641800 AATGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.12, T:0.61
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:20648866 original size:16 final size:15
Alignment explanation
Indices: 20648833--20648866 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
20648823 GGAGTTTCAC
*
20648833 TATATTGGTAATCAT
1 TATATTGGTAAGCAT
20648848 TATATTGGTAAGGCAT
1 TATATTGGTAA-GCAT
20648864 TAT
1 TAT
20648867 GTGATTTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (15 bp):
TATATTGGTAAGCAT
Found at i:20656799 original size:42 final size:42
Alignment explanation
Indices: 20656740--20656823 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
20656730 TATCAACAGG
20656740 CAAAAGCCAAGCACCAAGTTCCCACTGGGTTGTTATAGCCTA
1 CAAAAGCCAAGCACCAAGTTCCCACTGGGTTGTTATAGCCTA
20656782 CAAAAGCCAAGCACCAAGTTCCCACTGGGTTGTTATAGCCTA
1 CAAAAGCCAAGCACCAAGTTCCCACTGGGTTGTTATAGCCTA
20656824 TCTCTATTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (42 bp):
CAAAAGCCAAGCACCAAGTTCCCACTGGGTTGTTATAGCCTA
Found at i:20658038 original size:54 final size:54
Alignment explanation
Indices: 20657980--20658094 Score: 230
Period size: 54 Copynumber: 2.1 Consensus size: 54
20657970 ATAGATTTTT
20657980 AATTAGAAAATGGCTTAGGGACTTAAATTGCAATTAGGCAAAGGTTTAGATAGC
1 AATTAGAAAATGGCTTAGGGACTTAAATTGCAATTAGGCAAAGGTTTAGATAGC
20658034 AATTAGAAAATGGCTTAGGGACTTAAATTGCAATTAGGCAAAGGTTTAGATAGC
1 AATTAGAAAATGGCTTAGGGACTTAAATTGCAATTAGGCAAAGGTTTAGATAGC
20658088 AATTAGA
1 AATTAGA
20658095 CTATGTATAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (54 bp):
AATTAGAAAATGGCTTAGGGACTTAAATTGCAATTAGGCAAAGGTTTAGATAGC
Found at i:20660955 original size:16 final size:17
Alignment explanation
Indices: 20660934--20660967 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
20660924 CCACATTTAT
*
20660934 ACCAAAA-ACATCAATA
1 ACCAAAACAAATCAATA
20660950 ACCAAAACAAATCAATA
1 ACCAAAACAAATCAATA
20660967 A
1 A
20660968 AGCCATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.65, C:0.24, G:0.00, T:0.12
Consensus pattern (17 bp):
ACCAAAACAAATCAATA
Found at i:20667641 original size:20 final size:21
Alignment explanation
Indices: 20667616--20667654 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
20667606 CTTAATGTAT
*
20667616 TATGTTGATA-TTATTTGATA
1 TATGTTGAGATTTATTTGATA
20667636 TATGTTGAGATTTATTTGA
1 TATGTTGAGATTTATTTGA
20667655 AATTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (21 bp):
TATGTTGAGATTTATTTGATA
Found at i:20667959 original size:78 final size:77
Alignment explanation
Indices: 20667774--20667956 Score: 282
Period size: 77 Copynumber: 2.4 Consensus size: 77
20667764 ATGTTGTATA
* *
20667774 TAAAA-GGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCAT
1 TAAAAGGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCAT
20667838 ATCTTTGAAATG
66 ATCTTTGAAATG
* *
20667850 TGAAAGGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGAT-ATCCACC
1 TAAAAGGGGGTTGCTATGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCG-TGATCCACC
*
20667914 GTATCTTTGAAATG
64 ATATCTTTGAAATG
20667928 -AAAAGGGGGTTGCTATGTGCTGATTCCCC
1 TAAAAGGGGGTTGCTATGTGCTGATTCCCC
20667957 CGAGGGGTTG
Statistics
Matches: 97, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
76 4 0.04
77 51 0.53
78 41 0.42
79 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (77 bp):
TAAAAGGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCAT
ATCTTTGAAATG
Found at i:20668062 original size:103 final size:104
Alignment explanation
Indices: 20667856--20668060 Score: 367
Period size: 104 Copynumber: 2.0 Consensus size: 104
20667846 AATGTGAAAG
20667856 GGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTT
* *
20667921 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCGA
66 CGAAATGAAAAGGGGGTTGCTAAGTGCTGATTCCCCCGA
*
20667960 GGGGTTGCTAAGTGTTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTT
20668024 CGAAATGAAAAAGGGGGTTGCTAAGTGCTGATTCCCC
66 CGAAATG-AAAAGGGGGTTGCTAAGTGCTGATTCCCC
20668061 GATTCAGTGG
Statistics
Matches: 97, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
103 44 0.45
104 53 0.55
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (104 bp):
GGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTT
CGAAATGAAAAGGGGGTTGCTAAGTGCTGATTCCCCCGA
Found at i:20680408 original size:72 final size:72
Alignment explanation
Indices: 20680315--20681310 Score: 728
Period size: 72 Copynumber: 13.9 Consensus size: 72
20680305 TTGGCATCAT
* * * * *
20680315 ATAAGGCTC-CTAGGTTCAATACCCCAACCTCCAAAAATAGTTAGCGCAAGTCTACACTCCCAGC
1 ATAAGGCTCGC-AGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGT
20680379 TGTATATC
65 TGTATATC
* * * ** * * ** ** **
20680387 GTAAGGCTTGCAGATTCAATACTTCAGCCACCAAAAACAGTT-GAAACGAGTTTATGCTCCCAGT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAG-CGCGAGCCTACACTCCCAGT
20680451 TGTATATC
65 TGTATATC
* * * * * * * *
20680459 ATAAGGCTCGTAGATTCAATACCGCGGCCTCTAAAAATATTTATCGCGAGCATACACTCCTAGTT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGTT
20680524 GTATATC
66 GTATATC
* * * * * * *
20680531 ATAAGGTTCACAAGTTCAATACCG-TGACCTCCAAAAATAGTTAGCACGAGCCTACGCTCTCAGT
1 ATAAGGCTCGCAGGTTCAATACCGCAG-CCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGT
20680595 TGTATATC
65 TGTATATC
* * * * * * * * *
20680603 ATATGGCCCTCAGGTTCAATACTGTAGCCTCCAAAAATAGTTATCGTGAGCCTACACTCCTAGCT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGTT
20680668 GTATATC
66 GTATATC
* * * * * * * * *
20680675 ATAAGGCTTGTAGGTTCAATACTGCAACCACCAAAAACAGTTAGAGCGAGCTTACACTCCCAATT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGTT
20680740 GTATATC
66 GTATATC
* * * * * * * * ** ** *
20680747 ATAAAGCTCACAGGTTCAATATCACAACGTCTAAAAATAGTTATCAAGAGTATACACTCCTAGTT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGTT
20680812 GTATATC
66 GTATATC
* * ** * ** * * *
20680819 ATATGGTTTACAGGTTCAAAATTGCAACCTCCAAAAATAAG-TAGCGCGAGCCTACGCTCTCAGT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAAT-AGTTAGCGCGAGCCTACACTCCCAGT
20680883 TGTATATC
65 TGTATATC
* * * * * * * *
20680891 ATAAGGCTCGTAGGTTCAATACCACAGCCTCTAAAAATAGTTAACGTGTGCCTACGCTCCCAGCT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGTT
20680956 GTATATC
66 GTATATC
* * * * * ** *
20680963 ATAAGGCTCACAGGTTCAATACCGCATCCTTCAAAAATAGTTAGTGCGAACCTATGCTCCCAGCT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGTT
20681028 GTATATC
66 GTATATC
* * * * * * * **
20681035 ATAAAGCTCGCAGGTTCATTATCGTAGCCTCTAAAAATAGTTAGTGCGAGCCTACACTCTCAACT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGTT
* *
20681100 ATATTTC
66 GTATATC
* * * * * * *
20681107 ATAAAGCTCGTAGGTTTAATACC-CTAGCCTCCAAAAATTGTTAGTGCGAGCCTACGCTCCTAGT
1 ATAAGGCTCGCAGGTTCAATACCGC-AGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGT
20681171 TGTATATC
65 TGTATATC
* * * * * * ** * **
20681179 ATAAGGCTCGCAGGTTTAATACCGC-GGCTTCTAAAATAGTTAACGCAAGCCTATGCTTCCAACT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGTT
**
20681243 AAATATC
66 GTATATC
* * * * * * * * *
20681250 TTAAGGCTCACAGGTTCAATATCGCAACCT-CTAAAACAGTTAGCTCAAGCTTACACTCCCA
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCA
20681311 ACTAATATTC
Statistics
Matches: 715, Mismatches: 199, Indels: 21
0.76 0.21 0.02
Matches are distributed among these distances:
71 81 0.11
72 629 0.88
73 5 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (72 bp):
ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGTT
GTATATC
Found at i:20680851 original size:288 final size:288
Alignment explanation
Indices: 20680315--20681077 Score: 929
Period size: 288 Copynumber: 2.6 Consensus size: 288
20680305 TTGGCATCAT
* * * ** *
20680315 ATAAGGCTCCTAGGTTCAATACCCCAACCTCCAAAAATAGTTAGCGCAAGTCTACACTCCCAGCT
1 ATAAGGCTCCTAGGTTCAATACCACAGCCTCCAAAAATAGTTAACGTGAGCCTACACTCCCAGCT
* * * * * *
20680380 GTATATCGTAAGGCTTGCAGATTCAATACTTCAGCCACCAAAAACAGTT-GAAACGAGTTTATGC
66 GTATATCATAAGGCTTGCAGGTTCAATACTGCAACCACCAAAAACAGTTAG-AGCGAGCTTATGC
* * * * * * **
20680444 TCCCAGTTGTATATCATAAGGCTCGTAGATTCAATACCGCGGCCTCTAAAAATATTTATCGCGAG
130 TCCCAGTTGTATATCATAAAGCTCGCAGGTTCAATATCGCAGCCTCTAAAAATAGTTATCAAGAG
* **
20680509 CATACACTCCTAGTTGTATATCATAAGGTTCACAAGTTCAATACCGTGACCTCCAAAAAT-AGTT
195 CATACACTCCTAGTTGTATATCATAAGGTTCACAAGTTCAAAACCGCAACCTCCAAAAATAAG-T
20680573 AGCACGAGCCTACGCTCTCAGTTGTATATC
259 AGCACGAGCCTACGCTCTCAGTTGTATATC
* *** * *
20680603 ATATGGC-CCTCAGGTTCAATACTGTAGCCTCCAAAAATAGTTATCGTGAGCCTACACTCCTAGC
1 ATAAGGCTCCT-AGGTTCAATACCACAGCCTCCAAAAATAGTTAACGTGAGCCTACACTCCCAGC
* **
20680667 TGTATATCATAAGGCTTGTAGGTTCAATACTGCAACCACCAAAAACAGTTAGAGCGAGCTTACAC
65 TGTATATCATAAGGCTTGCAGGTTCAATACTGCAACCACCAAAAACAGTTAGAGCGAGCTTATGC
* * * * *
20680732 TCCCAATTGTATATCATAAAGCTCACAGGTTCAATATCACAACGTCTAAAAATAGTTATCAAGAG
130 TCCCAGTTGTATATCATAAAGCTCGCAGGTTCAATATCGCAGCCTCTAAAAATAGTTATCAAGAG
* * * * **
20680797 TATACACTCCTAGTTGTATATCATATGGTTTACAGGTTCAAAATTGCAACCTCCAAAAATAAGTA
195 CATACACTCCTAGTTGTATATCATAAGGTTCACAAGTTCAAAACCGCAACCTCCAAAAATAAGTA
*
20680862 GCGCGAGCCTACGCTCTCAGTTGTATATC
260 GCACGAGCCTACGCTCTCAGTTGTATATC
* * * *
20680891 ATAAGGCTCGTAGGTTCAATACCACAGCCTCTAAAAATAGTTAACGTGTGCCTACGCTCCCAGCT
1 ATAAGGCTCCTAGGTTCAATACCACAGCCTCCAAAAATAGTTAACGTGAGCCTACACTCCCAGCT
** * * ** * * * *
20680956 GTATATCATAAGGCTCACAGGTTCAATACCGCATCCTTCAAAAATAGTTAGTGCGAACCTATGCT
66 GTATATCATAAGGCTTGCAGGTTCAATACTGCAACCACCAAAAACAGTTAGAGCGAGCTTATGCT
* * *
20681021 CCCAGCTGTATATCATAAAGCTCGCAGGTTCATTATCGTAGCCTCTAAAAATAGTTA
131 CCCAGTTGTATATCATAAAGCTCGCAGGTTCAATATCGCAGCCTCTAAAAATAGTTA
20681078 GTGCGAGCCT
Statistics
Matches: 398, Mismatches: 73, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
287 3 0.01
288 390 0.98
289 5 0.01
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (288 bp):
ATAAGGCTCCTAGGTTCAATACCACAGCCTCCAAAAATAGTTAACGTGAGCCTACACTCCCAGCT
GTATATCATAAGGCTTGCAGGTTCAATACTGCAACCACCAAAAACAGTTAGAGCGAGCTTATGCT
CCCAGTTGTATATCATAAAGCTCGCAGGTTCAATATCGCAGCCTCTAAAAATAGTTATCAAGAGC
ATACACTCCTAGTTGTATATCATAAGGTTCACAAGTTCAAAACCGCAACCTCCAAAAATAAGTAG
CACGAGCCTACGCTCTCAGTTGTATATC
Found at i:20689942 original size:16 final size:16
Alignment explanation
Indices: 20689921--20689961 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
20689911 TATGTTTATG
20689921 ATATTTTTAATT-TTGA
1 ATATTTTT-ATTCTTGA
20689937 ATATTTTT-TTCTTGA
1 ATATTTTTATTCTTGA
20689952 ATATTTTTAT
1 ATATTTTTAT
20689962 AAATTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.09
15 12 0.52
16 9 0.39
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (16 bp):
ATATTTTTATTCTTGA
Found at i:20693296 original size:28 final size:28
Alignment explanation
Indices: 20693264--20693328 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
20693254 CAGTAACAAT
* *
20693264 ACAGTGTGGGCCTTAGCCCAATACAGAA
1 ACAGTATGGGCCTAAGCCCAATACAGAA
* *
20693292 ACAGTATGGGCCTAAGCCCGATACAGTA
1 ACAGTATGGGCCTAAGCCCAATACAGAA
*
20693320 TCAGTATGG
1 ACAGTATGG
20693329 TACAAGTACG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (28 bp):
ACAGTATGGGCCTAAGCCCAATACAGAA
Found at i:20693663 original size:64 final size:64
Alignment explanation
Indices: 20693555--20693769 Score: 231
Period size: 64 Copynumber: 3.4 Consensus size: 64
20693545 TACAGTAATG
* * *
20693555 TGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGGTACACAACCATCAGTAACGGTAACA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATTGGCACACAACCATCAGTAACGGTAACA
* * * * *
20693619 TGATCGGCACAAAGCCATCAGTAGCAGTGATAGGATTGGCACACAGCCTTCAGAAACAGTGAA-A
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATTGGCACACAACCATCAGTAACGGT-AACA
* * * * * *
20693683 TGATCGGCACACAGCCATC-GATAACAGTAATATGATTGACACA-AAGCCATCAATGACGGT-AC
1 TGATCGGCACAAAGCCATCAG-TAGCAGTGATATGATTGGCACACAA-CCATCAGTAACGGTAAC
20693745 TA
64 -A
*
20693747 TGATCGACACAAAGCCATCAGTA
1 TGATCGGCACAAAGCCATCAGTA
20693770 ACGGTACTAT
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 118 0.95
65 3 0.02
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (64 bp):
TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATTGGCACACAACCATCAGTAACGGTAACA
Found at i:20693726 original size:96 final size:96
Alignment explanation
Indices: 20693556--20693734 Score: 243
Period size: 96 Copynumber: 1.9 Consensus size: 96
20693546 ACAGTAATGT
* * * * *
20693556 GATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGGTACACAACCATCAGTAACGGTAACATG
1 GATTGGCACAAAGCCATCAGAAACAGTGAAATGATCGGCACACAACCATCAGTAACAGTAACATG
*
20693621 ATCGGCACAAAGCCATCAGTAGCAGTGATAG
66 ATCGACACAAAGCCATCAGTAGCAGTGATAG
* * * *
20693652 GATTGGCACACAGCCTTCAGAAACAGTGAAATGATCGGCACACAGCCATC-GATAACAGTAATAT
1 GATTGGCACAAAGCCATCAGAAACAGTGAAATGATCGGCACACAACCATCAG-TAACAGTAACAT
*
20693716 GATTGACACAAAGCCATCA
65 GATCGACACAAAGCCATCA
20693735 ATGACGGTAC
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 1 0.01
96 70 0.99
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (96 bp):
GATTGGCACAAAGCCATCAGAAACAGTGAAATGATCGGCACACAACCATCAGTAACAGTAACATG
ATCGACACAAAGCCATCAGTAGCAGTGATAG
Found at i:20693774 original size:32 final size:32
Alignment explanation
Indices: 20693562--20693789 Score: 178
Period size: 32 Copynumber: 7.1 Consensus size: 32
20693552 ATGTGATTGG
*
20693562 CACAAAGCCATCAGTAGCAGTGATATGATCGGTA
1 CACAAAGCCATCAGTAACAGTGATATGATC-G-A
* * * *
20693596 CAC-AA-CCATCAGTAACGGTAACATGATCGG
1 CACAAAGCCATCAGTAACAGTGATATGATCGA
* * * *
20693626 CACAAAGCCATCAGTAGCAGTGATAGGATTGG
1 CACAAAGCCATCAGTAACAGTGATATGATCGA
* * * * *
20693658 CACACAGCCTTCAGAAACAGTGAAATGATCGG
1 CACAAAGCCATCAGTAACAGTGATATGATCGA
* * *
20693690 CACACAGCCATC-GATAACAGTAATATGATTGA
1 CACAAAGCCATCAG-TAACAGTGATATGATCGA
* * *
20693722 CACAAAGCCATCAATGACGGT-ACTATGATCGA
1 CACAAAGCCATCAGTAACAGTGA-TATGATCGA
* *
20693754 CACAAAGCCATCAGTAACGGT-ACTATGATAGA
1 CACAAAGCCATCAGTAACAGTGA-TATGATCGA
20693786 CACA
1 CACA
20693790 TTGCCATTAG
Statistics
Matches: 157, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
30 3 0.02
31 5 0.03
32 144 0.92
33 2 0.01
34 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (32 bp):
CACAAAGCCATCAGTAACAGTGATATGATCGA
Found at i:20693874 original size:27 final size:26
Alignment explanation
Indices: 20693839--20693908 Score: 63
Period size: 27 Copynumber: 2.7 Consensus size: 26
20693829 TATCGTAGCA
* *
20693839 AAGCTACCAGTAATAGT-ATATGTGGCC
1 AAGCCACCAGTAACAGTGAT-TGTGG-C
*
20693866 AAGCCACCACTAACAGTGATTGTGGC
1 AAGCCACCAGTAACAGTGATTGTGGC
*
20693892 AGAGCGACCAGT-ACAGT
1 A-AGCCACCAGTAACAGT
20693909 ACTTCTTCCA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
26 7 0.19
27 27 0.75
28 2 0.06
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (26 bp):
AAGCCACCAGTAACAGTGATTGTGGC
Found at i:20694086 original size:27 final size:27
Alignment explanation
Indices: 20694048--20694550 Score: 354
Period size: 27 Copynumber: 18.7 Consensus size: 27
20694038 CCACTAGGGC
*
20694048 ATTACGATCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * *
20694075 ATTACGGTCATTTTACCTTATAAGGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
* *
20694102 ATTACAGTTATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
*
20694129 ATTACGGTCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
* ** * * *
20694156 ACTACGACCATTTTGCCCTACAAGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* *
20694183 ATTACGGTTATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
* * *
20694210 ATTATGGCCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * *
20694237 ATTACGGTCATTTTACCCTACAAGGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
* * * * * *
20694264 ATTACAGTTATTCTACCTTAAACGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* ** * *
20694291 GTTACAATCA-TTTACCCTACAGAGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
*
20694317 ATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * *
20694344 ATTACTGTCATTTTACCTTATAGAGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* **
20694371 ATT-CTGGT-ATTCTACCCTACGGGGGT
1 ATTAC-GGTCATTTTACCCTATAGGGGT
* * * * * *
20694397 ATTTCGATCATTTTACCCTGTTGAGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
*** * *
20694424 ATTTTAGTCATTTTACCC-ATCGAGAGT
1 ATTACGGTCATTTTACCCTATAG-GGGT
* **
20694451 ATTTCGGTCATTTTACCC-ATCAAAGGT
1 ATTACGGTCATTTTACCCTAT-AGGGGT
* * *
20694478 ATTTCGGTTATTTTACCCT-TCGAGGGT
1 ATTACGGTCATTTTACCCTATAG-GGGT
** *
20694505 ATTTTGGTCATTTTACCCT-TCGAGGGT
1 ATTACGGTCATTTTACCCTATAG-GGGT
* **
20694532 ATTTCAATCATTTTACCCT
1 ATTACGGTCATTTTACCCT
20694551 TCGGGGGTAT
Statistics
Matches: 373, Mismatches: 95, Indels: 16
0.77 0.20 0.03
Matches are distributed among these distances:
26 39 0.10
27 334 0.90
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.37
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTATAGGGGT
Found at i:20694146 original size:81 final size:81
Alignment explanation
Indices: 20694048--20694415 Score: 409
Period size: 81 Copynumber: 4.6 Consensus size: 81
20694038 CCACTAGGGC
* * * *
20694048 ATTACGATCATTTTACCCTATAGGGGTATTACGGTCATTTTACCTTATAAGGGCATTACAGTTAT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAAGGGCATTACAGTTAT
20694113 TTTACCCTATAGGGGT
66 TTTACCCTATAGGGGT
* * * ** * * *
20694129 ATTACGGTCATTTTACCCTATAGGGGCACTACGACCATTTTGCCCTACAAGGGTATTACGGTTAT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAAGGGCATTACAGTTAT
*
20694194 TTTACCCTATAGGGGC
66 TTTACCCTATAGGGGT
* *
20694210 ATTATGGCCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAAGGGCATTACAGTTAT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAAGGGCATTACAGTTAT
* * * *
20694275 TCTACCTTAAACGGGT
66 TTTACCCTATAGGGGT
* ** * * * * *
20694291 GTTACAATCA-TTTACCCTACAGAGGTATTACGGTCATTTTACCCTACAGGGGTATTACTGTCAT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAAGGGCATTACAGTTAT
* *
20694355 TTTACCTTATAGAGGT
66 TTTACCCTATAGGGGT
* * * *
20694371 ATT-CTGGT-ATTCTACCCTACGGGGGTATTTCGATCATTTTACCCT
1 ATTAC-GGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCT
20694416 GTTGAGGCAT
Statistics
Matches: 237, Mismatches: 48, Indels: 5
0.82 0.17 0.02
Matches are distributed among these distances:
79 2 0.01
80 94 0.40
81 141 0.59
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (81 bp):
ATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAAGGGCATTACAGTTAT
TTTACCCTATAGGGGT
Found at i:20713526 original size:27 final size:27
Alignment explanation
Indices: 20713495--20713742 Score: 245
Period size: 27 Copynumber: 9.2 Consensus size: 27
20713485 TTAATTTTTA
20713495 TCATTTTACCCTTCAGGGGTATTTCAG
1 TCATTTTACCCTTCAGGGGTATTTCAG
* *
20713522 TCATTTTACCTTTC-GAGGGTATTTCGG
1 TCATTTTACCCTTCAG-GGGTATTTCAG
* *
20713549 TCACTTTACCCTT-AGGGGGTATTTCGG
1 TCATTTTACCCTTCA-GGGGTATTTCAG
* *
20713576 TCATTTTACCCTT-TGAGGGTATTTTAG
1 TCATTTTACCCTTCAG-GGGTATTTCAG
* ** *
20713603 TCATTTTACCTTTCAAAGGTATTTTAG
1 TCATTTTACCCTTCAGGGGTATTTCAG
*
20713630 TCGTTTTACCCTTCAGGGGTATTTCAG
1 TCATTTTACCCTTCAGGGGTATTTCAG
* * *
20713657 TCATTTTACCCTTTAAGGGAATTTC-G
1 TCATTTTACCCTTCAGGGGTATTTCAG
* * * *
20713683 ATCATTTTACCGTTTAAGGGTATTTCGG
1 -TCATTTTACCCTTCAGGGGTATTTCAG
* *
20713711 TCATTTTACCCTTCA-AGGTATTTTAG
1 TCATTTTACCCTTCAGGGGTATTTCAG
20713737 TCATTT
1 TCATTT
20713743 GCCCAAGAAT
Statistics
Matches: 186, Mismatches: 28, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
26 17 0.09
27 167 0.90
28 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTTCAGGGGTATTTCAG
Found at i:20713638 original size:81 final size:81
Alignment explanation
Indices: 20713495--20713742 Score: 306
Period size: 81 Copynumber: 3.1 Consensus size: 81
20713485 TTAATTTTTA
* * * * *
20713495 TCATTTTACCCTTCAGGGGTATTTCAGTCATTTTACCTTTCGAGGGTATTTCGGTCACTTTACCC
1 TCATTTTACCCTTTAAGGGTATTTTAGTCATTTTACCTTTCAAGGGTATTTCGGTCATTTTACCC
*
20713560 TT-AGGGGGTATTTCGG
66 TTCA-GGGGTATTTCAG
* * ** *
20713576 TCATTTTACCCTTTGAGGGTATTTTAGTCATTTTACCTTTCAAAGGTATTTTAGTCGTTTTACCC
1 TCATTTTACCCTTTAAGGGTATTTTAGTCATTTTACCTTTCAAGGGTATTTCGGTCATTTTACCC
20713641 TTCAGGGGTATTTCAG
66 TTCAGGGGTATTTCAG
* *
20713657 TCATTTTACCCTTTAAGGG-AATTTCGATCATTTTACCGTTT-AAGGGTATTTCGGTCATTTTAC
1 TCATTTTACCCTTTAAGGGTATTTTAG-TCATTTTACC-TTTCAAGGGTATTTCGGTCATTTTAC
* *
20713720 CCTTCA-AGGTATTTTAG
64 CCTTCAGGGGTATTTCAG
20713737 TCATTT
1 TCATTT
20713743 GCCCAAGAAT
Statistics
Matches: 144, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
80 20 0.14
81 120 0.83
82 4 0.03
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (81 bp):
TCATTTTACCCTTTAAGGGTATTTTAGTCATTTTACCTTTCAAGGGTATTTCGGTCATTTTACCC
TTCAGGGGTATTTCAG
Found at i:20716776 original size:21 final size:21
Alignment explanation
Indices: 20716751--20716801 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
20716741 GATGTTGAGA
* **
20716751 AGGAAGTTGTTGCTGCAGAAG
1 AGGAAGTTGTTGATAAAGAAG
20716772 AGGAAGTTGTTGATAAAGAAG
1 AGGAAGTTGTTGATAAAGAAG
*
20716793 AAGAAGTTG
1 AGGAAGTTG
20716802 CTAAAAATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.35, T:0.24
Consensus pattern (21 bp):
AGGAAGTTGTTGATAAAGAAG
Found at i:20717261 original size:17 final size:17
Alignment explanation
Indices: 20717239--20717272 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
20717229 GATAAGTATA
20717239 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
20717256 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
20717273 CATGCTAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:20724892 original size:19 final size:19
Alignment explanation
Indices: 20724868--20724944 Score: 118
Period size: 19 Copynumber: 4.1 Consensus size: 19
20724858 TCAATTCATA
*
20724868 AATGTCAACTTGTGTGAGC
1 AATGTCAGCTTGTGTGAGC
*
20724887 AATGTCAGCTAGTGTGAGC
1 AATGTCAGCTTGTGTGAGC
*
20724906 AATGTTAGCTTGTGTGAGC
1 AATGTCAGCTTGTGTGAGC
*
20724925 AATGTTAGCTTGTGTGAGC
1 AATGTCAGCTTGTGTGAGC
20724944 A
1 A
20724945 CTATAATCCC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 54 1.00
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (19 bp):
AATGTCAGCTTGTGTGAGC
Found at i:20727871 original size:22 final size:23
Alignment explanation
Indices: 20727846--20727889 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
20727836 TAACATGTTG
20727846 AATTTCAATTAATTTT-ATAATA
1 AATTTCAATTAATTTTGATAATA
**
20727868 AATTTTGATTAATTTTGATAAT
1 AATTTCAATTAATTTTGATAAT
20727890 TTTCAACAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (23 bp):
AATTTCAATTAATTTTGATAATA
Found at i:20734560 original size:25 final size:26
Alignment explanation
Indices: 20734518--20734571 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
20734508 TTCTCCTAAA
**
20734518 TTTCAATTTTATTTAATTATTTAAT-T
1 TTTCAATTTTATAGAATTA-TTAATAT
20734544 TTTCAA-TTTATAGAATTATTAATAT
1 TTTCAATTTTATAGAATTATTAATAT
20734569 TTT
1 TTT
20734572 ATACTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 14 0.56
26 6 0.24
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTCAATTTTATAGAATTATTAATAT
Found at i:20742957 original size:23 final size:23
Alignment explanation
Indices: 20742930--20742983 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
20742920 ATGACAATGA
20742930 CACTTCGGTGCAAAAGAAAGTGG
1 CACTTCGGTGCAAAAGAAAGTGG
** * *
20742953 CACTTTAGTGCAAATGATAGTGG
1 CACTTCGGTGCAAAAGAAAGTGG
*
20742976 CTCTTCGG
1 CACTTCGG
20742984 AGCATTTCAG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (23 bp):
CACTTCGGTGCAAAAGAAAGTGG
Found at i:20746502 original size:23 final size:23
Alignment explanation
Indices: 20746476--20746595 Score: 168
Period size: 23 Copynumber: 5.2 Consensus size: 23
20746466 AGTGTTATTG
20746476 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
20746499 ATCAGTGGTACCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
20746522 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
20746545 TTCAGTGGTAGCTACAGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
* *
20746568 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTACGGCTACAT
20746591 ATCAG
1 ATCAG
20746596 AGTGGCACTT
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 85 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:20747836 original size:49 final size:49
Alignment explanation
Indices: 20747781--20747920 Score: 217
Period size: 49 Copynumber: 2.9 Consensus size: 49
20747771 CAATAAGTGA
* * *
20747781 TATGTGATTCCGTGTAAGACCGTGGTTGGGCTATGGCATCGATATATGT
1 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGT
* *
20747830 TATGTGATTACGTGTAAGGCCATAGTTGGGCTATGGCATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGT
* *
20747879 TATGTGATTATGTGTAAGACCATAGTTGGACTATGGCATCGA
1 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGA
20747921 GAAAATAAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 82 1.00
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (49 bp):
TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGT
Found at i:20750460 original size:25 final size:25
Alignment explanation
Indices: 20750432--20750533 Score: 113
Period size: 25 Copynumber: 4.1 Consensus size: 25
20750422 GCTTGTACAT
20750432 GTATGCTCAT-ACGAGCTATGAATCG
1 GTATGCTC-TCACGAGCTATGAATCG
* * *
20750457 GTATGCTCTCACAAGCTGTAAATCG
1 GTATGCTCTCACGAGCTATGAATCG
20750482 GTATGCTCTCACGAGCTGA-GAATCG
1 GTATGCTCTCACGAGCT-ATGAATCG
*
20750507 GTAAGCTCTCACGAG-T-TGCAATCG
1 GTATGCTCTCACGAGCTATG-AATCG
20750531 GTA
1 GTA
20750534 ATCCGTAATG
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
23 1 0.02
24 10 0.15
25 55 0.83
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTATGAATCG
Found at i:20759540 original size:21 final size:21
Alignment explanation
Indices: 20759516--20759557 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20759506 ATTAGAGTAG
20759516 AAAGAAATTGGAAAGATGAAA
1 AAAGAAATTGGAAAGATGAAA
20759537 AAAGAAATTGGAAAGATGAAA
1 AAAGAAATTGGAAAGATGAAA
20759558 TTTTGAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.14
Consensus pattern (21 bp):
AAAGAAATTGGAAAGATGAAA
Found at i:20759650 original size:24 final size:22
Alignment explanation
Indices: 20759603--20759650 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
20759593 TAAGTGTGTA
*
20759603 TTTTTTTTTATTTATTTGTGAT
1 TTTTTTTTTATTTATTTCTGAT
20759625 TTTTTTTGTCTATTTATATTCT-AT
1 TTTTTTT-T-TATTTAT-TTCTGAT
20759649 TT
1 TT
20759651 ATTATTATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 7 0.32
23 1 0.05
24 11 0.50
25 3 0.14
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.75
Consensus pattern (22 bp):
TTTTTTTTTATTTATTTCTGAT
Found at i:20761133 original size:21 final size:21
Alignment explanation
Indices: 20761109--20761177 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
20761099 AAGAGTAATC
20761109 ATTTTTTCAAAACTAATTTGG
1 ATTTTTTCAAAACTAATTTGG
* *
20761130 ATTTTATTACAAAAGAGTAA--T-A
1 ATTTT-TT-C-AAA-ACTAATTTGG
20761152 ATTTTTTCAAAACTAATTTGG
1 ATTTTTTCAAAACTAATTTGG
20761173 ATTTT
1 ATTTT
20761178 ATTACAAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
18 4 0.11
19 3 0.08
20 2 0.05
21 12 0.32
22 7 0.19
23 2 0.05
24 3 0.08
25 4 0.11
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (21 bp):
ATTTTTTCAAAACTAATTTGG
Found at i:20761146 original size:43 final size:43
Alignment explanation
Indices: 20761098--20761185 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
20761088 TCTCCTTTGT
*
20761098 AAAGAGTAATCATTTTTTCAAAACTAATTTGGATTTTATTACA
1 AAAGAGTAATAATTTTTTCAAAACTAATTTGGATTTTATTACA
20761141 AAAGAGTAATAATTTTTTCAAAACTAATTTGGATTTTATTACA
1 AAAGAGTAATAATTTTTTCAAAACTAATTTGGATTTTATTACA
20761184 AA
1 AA
20761186 CTTGTTTTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (43 bp):
AAAGAGTAATAATTTTTTCAAAACTAATTTGGATTTTATTACA
Found at i:20761186 original size:22 final size:22
Alignment explanation
Indices: 20761118--20761187 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
20761108 CATTTTTTCA
20761118 AAACTAATTTGGATTTTATTAC
1 AAACTAATTTGGATTTTATTAC
** * * *
20761140 AAAAGAGTAAT-AATTTT-TT-C
1 AAACTAAT-TTGGATTTTATTAC
20761160 AAAACTAATTTGGATTTTATTAC
1 -AAACTAATTTGGATTTTATTAC
20761183 AAACT
1 AAACT
20761188 TGTTTTTCAA
Statistics
Matches: 33, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
20 2 0.06
21 12 0.36
22 17 0.52
23 2 0.06
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (22 bp):
AAACTAATTTGGATTTTATTAC
Found at i:20761783 original size:40 final size:40
Alignment explanation
Indices: 20761719--20761835 Score: 135
Period size: 40 Copynumber: 2.9 Consensus size: 40
20761709 CACCAGTTTG
* * **
20761719 TGGACAAGCCACCAATAATGCAGATAAACTGTTAGTATTA
1 TGGACAAGCCACCAGTAATACAGATAAACTACTAGTATTA
* * *
20761759 TGGACAAGTCACTAGTAATACAGATAAACTACTAGTATTG
1 TGGACAAGCCACCAGTAATACAGATAAACTACTAGTATTA
* * * *
20761799 TGGACAAGCCACCAGTATTGCAGACAAGCTACTAGTA
1 TGGACAAGCCACCAGTAATACAGATAAACTACTAGTA
20761836 ATTCCTCCAT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (40 bp):
TGGACAAGCCACCAGTAATACAGATAAACTACTAGTATTA
Found at i:20761835 original size:20 final size:20
Alignment explanation
Indices: 20761787--20761835 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
20761777 TACAGATAAA
**
20761787 CTACTAGTATTGTGGACAAG
1 CTACTAGTATTGCAGACAAG
* *
20761807 CCACCAGTATTGCAGACAAG
1 CTACTAGTATTGCAGACAAG
20761827 CTACTAGTA
1 CTACTAGTA
20761836 ATTCCTCCAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (20 bp):
CTACTAGTATTGCAGACAAG
Found at i:20765515 original size:19 final size:19
Alignment explanation
Indices: 20765483--20765525 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
20765473 TACAACATAT
*
20765483 TTCAC-ATCTAATTTTCAA
1 TTCACTATCTAATTTCCAA
* *
20765501 TTCACTATCTCATTTCCAT
1 TTCACTATCTAATTTCCAA
20765520 TTCACT
1 TTCACT
20765526 TACCATGTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.47
Consensus pattern (19 bp):
TTCACTATCTAATTTCCAA
Found at i:20775034 original size:22 final size:23
Alignment explanation
Indices: 20774984--20775039 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
20774974 TTTATATGAA
**
20774984 AATATGTGAGTATGCATATTGTAT
1 AATATGTGA-TATAAATATTGTAT
20775008 AATATGTGATATAAATA-TGTAT
1 AATATGTGATATAAATATTGTAT
* *
20775030 GATATATGAT
1 AATATGTGAT
20775040 TATGATATGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 13 0.46
23 6 0.21
24 9 0.32
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (23 bp):
AATATGTGATATAAATATTGTAT
Found at i:20775312 original size:25 final size:25
Alignment explanation
Indices: 20775284--20775352 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
20775274 GACTTGATAT
*
20775284 GATAAGATATGTTATGTTATGATTC
1 GATAAGATATGATATGTTATGATTC
*
20775309 GATATA-ATATGATATGTTATGCTTC
1 GATA-AGATATGATATGTTATGATTC
* * *
20775334 AATATGATATGATAAGTTA
1 GATAAGATATGATATGTTA
20775353 AGATATGATC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 36 0.97
26 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.17, T:0.42
Consensus pattern (25 bp):
GATAAGATATGATATGTTATGATTC
Found at i:20789230 original size:24 final size:25
Alignment explanation
Indices: 20789178--20789253 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 25
20789168 TATAAATTTG
*
20789178 TAAAA-AAATATTAAAATTTATAAA-
1 TAAAATAAATATTAAAAATTA-AAAT
20789202 T-AAATAAAT-TTAAAAATTAAAAT
1 TAAAATAAATATTAAAAATTAAAAT
* **
20789225 TAAAATTAATAAAAAAAATTAAAAGT
1 TAAAATAAATATTAAAAATTAAAA-T
20789251 TAA
1 TAA
20789254 GCCCATAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
22 3 0.07
23 13 0.30
24 12 0.28
25 11 0.26
26 4 0.09
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (25 bp):
TAAAATAAATATTAAAAATTAAAAT
Found at i:20789233 original size:19 final size:19
Alignment explanation
Indices: 20789178--20789253 Score: 68
Period size: 19 Copynumber: 4.0 Consensus size: 19
20789168 TATAAATTTG
*
20789178 TAAAAAAATATTAAAATTTA
1 TAAAAAAA-ATTAAAATTAA
* *
20789198 T-AAATAAA-TAAATTTAA
1 TAAAAAAAATTAAAATTAA
*
20789215 -AAATTAAAATTAAAATTAA
1 TAAA-AAAAATTAAAATTAA
20789234 TAAAAAAAATTAAAAGTTAA
1 TAAAAAAAATTAAAA-TTAA
20789254 GCCCATAATG
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
17 9 0.20
18 4 0.09
19 23 0.52
20 8 0.18
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (19 bp):
TAAAAAAAATTAAAATTAA
Found at i:20789706 original size:19 final size:19
Alignment explanation
Indices: 20789678--20789723 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
20789668 TATTTAATAT
*
20789678 TTTTATAATTTTATGAA-TG
1 TTTTAAAATTTTAT-AAGTG
*
20789697 TTTTAAAATTTTATAAGTT
1 TTTTAAAATTTTATAAGTG
20789716 TTTTAAAA
1 TTTTAAAA
20789724 AATATTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 2 0.08
19 22 0.92
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (19 bp):
TTTTAAAATTTTATAAGTG
Found at i:20791102 original size:67 final size:67
Alignment explanation
Indices: 20791019--20791152 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
20791009 ATGGATTAAG
20791019 GAACAGTTTGAAGAAACAATGTTGATGATAGAGAATCCAAATGAATGCGTCTCCATACAACACAT
1 GAACAGTTTGAAGAAACAATGTTGATGATAGAGAATCCAAATGAATGCGTCTCCATACAACACAT
20791084 AT
66 AT
20791086 GAACAGTTTGAAGAAACAATGTTGATGATAGAGAATCCAAATGAATGCGTCTCCATACAACACAT
1 GAACAGTTTGAAGAAACAATGTTGATGATAGAGAATCCAAATGAATGCGTCTCCATACAACACAT
20791151 AT
66 AT
20791153 AATCATATCA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (67 bp):
GAACAGTTTGAAGAAACAATGTTGATGATAGAGAATCCAAATGAATGCGTCTCCATACAACACAT
AT
Found at i:20795759 original size:18 final size:18
Alignment explanation
Indices: 20795718--20795759 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
20795708 TTTTAAAGAG
**
20795718 TTATTTTTAGGATTTTCC
1 TTATTTTTAGGATTTAAC
20795736 TGTATTTTTAGGATTTAAC
1 T-TATTTTTAGGATTTAAC
20795755 TTATT
1 TTATT
20795760 AATAGTTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.21, C:0.07, G:0.12, T:0.60
Consensus pattern (18 bp):
TTATTTTTAGGATTTAAC
Done.