Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 218 of 333
Found at i:71868379 original size:28 final size:28
Alignment explanation
Indices: 71868316--71868441 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
71868306 ATATTAAGTC
*
71868316 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
71868343 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
71868371 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
71868399 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
71868428 CGCACACTTAGTGC
1 CGCACACTTAGTGC
71868442 CAATCTCATG
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.24
28 49 0.54
29 19 0.21
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:71872504 original size:21 final size:21
Alignment explanation
Indices: 71872475--71872544 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
71872465 CTACACACCA
*
71872475 CAGAAATTGCAGCGAGGCTGC
1 CAGATATTGCAGCGAGGCTGC
** * **
71872496 CAGATATTGTGGCTAGGCCAC
1 CAGATATTGCAGCGAGGCTGC
71872517 CAG--ATTGCAGCGAGGCTGC
1 CAGATATTGCAGCGAGGCTGC
71872536 CAGATATTG
1 CAGATATTG
71872545 TGGCGAAGTC
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
19 14 0.39
21 22 0.61
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (21 bp):
CAGATATTGCAGCGAGGCTGC
Found at i:71872538 original size:19 final size:19
Alignment explanation
Indices: 71872480--71872540 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
71872470 CACCACAGAA
71872480 ATTGCAGCGAGGCTGCCAG
1 ATTGCAGCGAGGCTGCCAG
** * **
71872499 ATATTGTGGCTAGGCCACCAG
1 --ATTGCAGCGAGGCTGCCAG
71872520 ATTGCAGCGAGGCTGCCAG
1 ATTGCAGCGAGGCTGCCAG
71872539 AT
1 AT
71872541 ATTGTGGCGA
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
19 16 0.53
21 14 0.47
ACGTcount: A:0.23, C:0.25, G:0.33, T:0.20
Consensus pattern (19 bp):
ATTGCAGCGAGGCTGCCAG
Found at i:71872558 original size:40 final size:40
Alignment explanation
Indices: 71872480--71872560 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
71872470 CACCACAGAA
* *
71872480 ATTGCAGCGAGGCTGCCAGATATTGTGGCTAGGCCACCAG
1 ATTGCAGCGAGGCTGCCAGATATTGTGGCGAAGCCACCAG
*
71872520 ATTGCAGCGAGGCTGCCAGATATTGTGGCGAAGTCACCAG
1 ATTGCAGCGAGGCTGCCAGATATTGTGGCGAAGCCACCAG
71872560 A
1 A
71872561 ACAGATATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.25, C:0.23, G:0.32, T:0.20
Consensus pattern (40 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGGCGAAGCCACCAG
Found at i:71872576 original size:27 final size:26
Alignment explanation
Indices: 71872536--71872587 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
71872526 GCGAGGCTGC
*
71872536 CAGATATTGTGGCGAAGTCACCAGAA
1 CAGATATTGTGGCGAAGCCACCAGAA
*
71872562 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGGCGAAGCCACCAGA
71872588 TTGTAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGGCGAAGCCACCAGAA
Found at i:71876737 original size:37 final size:37
Alignment explanation
Indices: 71876694--71876801 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
71876684 GCTCGGACGT
* *
71876694 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
71876731 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
71876768 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
71876802 ATATATTTCC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:71877016 original size:47 final size:47
Alignment explanation
Indices: 71876964--71877384 Score: 628
Period size: 47 Copynumber: 9.0 Consensus size: 47
71876954 TTTCACACTA
* * * * * *
71876964 GCCATTCGGCTTTACCGCATATATGCATTTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
71877011 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
71877058 GCCATTCGGCCTTGTCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
71877105 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
71877152 GCCATTTGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
71877199 GCCATTCGG-CTTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTT-ATCACATATATGCATGTTCACATTCATCACATTG
* *
71877246 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
71877293 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
71877340 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
71877385 AAAATCCTAA
Statistics
Matches: 337, Mismatches: 35, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
46 3 0.01
47 331 0.98
48 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:71877163 original size:141 final size:141
Alignment explanation
Indices: 71876981--71877385 Score: 713
Period size: 141 Copynumber: 2.9 Consensus size: 141
71876971 GGCTTTACCG
*
71876981 CATATATGCATTTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
1 CATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
* * * *
71877046 TTCATCACATTGGCCATTCGGCCTTGTCACATATATGCATGCTCACATTTATCACATTGGCCATT
66 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATAGGCCATT
71877111 CGGCCTCATCA
131 CGGCCTCATCA
* *
71877122 CATATATGCATGTTCACATTCACCACATTGGCCATTTGGCCTTATCACACATATGCATGCTCACA
1 CATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
71877187 TTCATCACATTGGCCATTCGG-CTTCATCACATATATGCATGTTCACATTCATCACATAGGCCAT
66 TTCATCACATTGGCCATTCGGCCTT-ATCACATATATGCATGTTCACATTCATCACATAGGCCAT
*
71877251 TCGGCCTTATCA
130 TCGGCCTCATCA
71877263 CATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
1 CATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
*
71877328 TTCATCACATTGGCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATA
66 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATA
71877386 AAATCCTAAA
Statistics
Matches: 251, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
140 3 0.01
141 246 0.98
142 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (141 bp):
CATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATAGGCCATT
CGGCCTCATCA
Found at i:71883095 original size:68 final size:68
Alignment explanation
Indices: 71883023--71883206 Score: 259
Period size: 68 Copynumber: 2.7 Consensus size: 68
71883013 CATCATGTGT
* * *
71883023 ACAAGAAG-GCTA-TGAGATACTATATAGTAGCTAGGTCACATTTGTGATACGGGATGTATCCCA
1 ACAAGAAGAGCTACTGAGAGA-TAAAT-GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCA
71883086 TGTAG
64 TGTAG
71883091 ACAAG-AGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
1 ACAAGAAGAGCTAC-TGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
71883155 GTAG
65 GTAG
* *
71883159 ACAAG-AGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGAT
1 ACAAGAAGAGCTAC-TGAGAGATAAATGTAGCTAGGTCACATGTGTGAT
71883207 TCCAAGTGAA
Statistics
Matches: 108, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
67 2 0.02
68 96 0.89
69 4 0.04
70 6 0.06
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.24
Consensus pattern (68 bp):
ACAAGAAGAGCTACTGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
TAG
Found at i:71886924 original size:27 final size:26
Alignment explanation
Indices: 71886876--71886935 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
71886866 GCGAGGCTGC
* *
71886876 CAGATATTGTGACGATGTCACCAGATA
1 CAGATATTGTGACGACGCCACCAGA-A
* *
71886903 CAGATATTGTGGCTACGCCACCAGAA
1 CAGATATTGTGACGACGCCACCAGAA
*
71886929 CGGATAT
1 CAGATAT
71886936 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGACGCCACCAGAA
Found at i:71890969 original size:9 final size:9
Alignment explanation
Indices: 71890955--71890979 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
71890945 CATATTTCAT
71890955 AAATTCACA
1 AAATTCACA
71890964 AAATTCACA
1 AAATTCACA
71890973 AAATTCA
1 AAATTCA
71890980 ATTCAACCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATTCACA
Found at i:71891429 original size:46 final size:48
Alignment explanation
Indices: 71891362--71891640 Score: 201
Period size: 47 Copynumber: 6.0 Consensus size: 48
71891352 CTTCAAGCTT
71891362 CATTATGAGAACCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA
1 CATTATGAGAACCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
*
71891408 CATTATGAGAACCAGTGTAAGACCATGTCTGAGACATGGCATCGG---
1 CATTATGAGAACCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * *
71891453 CATTGAGATGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCT
1 CATT---ATGAGAACCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * * *
71891502 C--GA-GACGTAAGCCAATGTAAGA-CATGTGTGGGACAT-GAATCAGCTA
1 CATTATGA-G-AA-CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * ** * * **
71891548 CGA-GATGATAGTCAATGTAAGACCATGTCTGGGACATGGCATCGACTT
1 C-ATTATGAGAACCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* *
71891596 GATATATGAG--TCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 CAT-TATGAGAACCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
71891641 ACCTTGCCCA
Statistics
Matches: 189, Mismatches: 26, Indels: 35
0.76 0.10 0.14
Matches are distributed among these distances:
43 2 0.01
44 2 0.01
45 5 0.03
46 68 0.36
47 74 0.39
48 31 0.16
49 7 0.04
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (48 bp):
CATTATGAGAACCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
Found at i:71891482 original size:47 final size:47
Alignment explanation
Indices: 71891366--71891641 Score: 239
Period size: 46 Copynumber: 5.9 Consensus size: 47
71891356 AAGCTTCATT
*
71891366 ATGAGAACCAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACATT---
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGG---CATTGAG
* *
71891412 ATGAGAACCAGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGAG
* * *
71891460 ATGAGAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAG
* * * * * *
71891506 ACGTA-AGCCAATGTAAGA-CATGTGTGGGACATGAATCAGC-TACGAG
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCAT-TGAG
* * * * *
71891552 ATGATAGTCAATGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGAG
*
71891599 AT-ATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 ATGA-GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCA
71891642 CCTTGCCCAT
Statistics
Matches: 195, Mismatches: 23, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
45 6 0.03
46 81 0.42
47 79 0.41
48 29 0.15
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (47 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAG
Found at i:71898170 original size:18 final size:19
Alignment explanation
Indices: 71898136--71898173 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
71898126 ATTAGGCTCA
71898136 TTTTGGCGTAGTTTTGGTT
1 TTTTGGCGTAGTTTTGGTT
71898155 TTTTGG-GT-GTTCTTGGTT
1 TTTTGGCGTAGTT-TTGGTT
71898173 T
1 T
71898174 GTGCATCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.17
18 9 0.50
19 6 0.33
ACGTcount: A:0.03, C:0.05, G:0.32, T:0.61
Consensus pattern (19 bp):
TTTTGGCGTAGTTTTGGTT
Found at i:71923500 original size:15 final size:15
Alignment explanation
Indices: 71923482--71923515 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
71923472 TTTATTTTAC
71923482 TTTCATTTCCTTTCA
1 TTTCATTTCCTTTCA
*
71923497 TTTCATTTCCTTTCC
1 TTTCATTTCCTTTCA
71923512 TTTC
1 TTTC
71923516 CTTAGGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.29, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTCATTTCCTTTCA
Found at i:71923518 original size:10 final size:10
Alignment explanation
Indices: 71923481--71923515 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
71923471 ATTTATTTTA
71923481 CTTTCATTTC
1 CTTTCATTTC
71923491 CTTTCATTTC
1 CTTTCATTTC
* *
71923501 ATTTCCTTTC
1 CTTTCATTTC
71923511 CTTTC
1 CTTTC
71923516 CTTAGGAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.09, C:0.31, G:0.00, T:0.60
Consensus pattern (10 bp):
CTTTCATTTC
Found at i:71925817 original size:13 final size:12
Alignment explanation
Indices: 71925791--71925823 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
71925781 GTTATTAATG
71925791 TTTTATTA-AAA
1 TTTTATTATAAA
71925802 TTTTATTATGAAA
1 TTTTATTAT-AAA
71925815 TTTTATTAT
1 TTTTATTAT
71925824 TTAGATAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
13 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (12 bp):
TTTTATTATAAA
Found at i:71932063 original size:13 final size:13
Alignment explanation
Indices: 71932045--71932069 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71932035 TGGAAAATGA
71932045 TTGGGGTTGGGGG
1 TTGGGGTTGGGGG
71932058 TTGGGGTTGGGG
1 TTGGGGTTGGGG
71932070 TTGAGATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (13 bp):
TTGGGGTTGGGGG
Found at i:71932108 original size:12 final size:12
Alignment explanation
Indices: 71932091--71932115 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71932081 GGTGTTCATT
71932091 CGGTTAACCGAC
1 CGGTTAACCGAC
71932103 CGGTTAACCGAC
1 CGGTTAACCGAC
71932115 C
1 C
71932116 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:71932262 original size:9 final size:9
Alignment explanation
Indices: 71932248--71932299 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
71932238 TTTGGTTAAA
71932248 AATTACCCG
1 AATTACCCG
71932257 AATTACCCG
1 AATTACCCG
71932266 AATTACCCG
1 AATTACCCG
*
71932275 AATTAACCG
1 AATTACCCG
*
71932284 AATTAACCG
1 AATTACCCG
71932293 AATTACC
1 AATTACC
71932300 GAAAAATACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:71935362 original size:19 final size:20
Alignment explanation
Indices: 71935338--71935384 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
71935328 TATTGTTATT
*
71935338 ATATTTATAATTATAATA-A
1 ATATTTATAATTAAAATATA
*
71935357 ATATTTATTATTAAAATATTA
1 ATATTTATAATTAAAATA-TA
71935378 ATATTTA
1 ATATTTA
71935385 ATATTTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 16 0.67
21 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTTATAATTAAAATATA
Found at i:71935434 original size:15 final size:17
Alignment explanation
Indices: 71935409--71935445 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
71935399 ATGTAAAGAA
71935409 TATTATTTAAAATT-AT
1 TATTATTTAAAATTCAT
71935425 TATT-TTTAAAATTCAT
1 TATTATTTAAAATTCAT
71935441 TATTA
1 TATTA
71935446 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTATTTAAAATTCAT
Found at i:71937986 original size:25 final size:24
Alignment explanation
Indices: 71937942--71937988 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
71937932 TATTATATAT
71937942 AATAAAACAAATAAAGAAAGAATA
1 AATAAAACAAATAAAGAAAGAATA
*
71937966 AATAAATAGAAATAGAA-AAAGAA
1 AATAAA-ACAAATA-AAGAAAGAA
71937989 AGCCAAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 6 0.30
25 12 0.60
26 2 0.10
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (24 bp):
AATAAAACAAATAAAGAAAGAATA
Found at i:71938045 original size:17 final size:17
Alignment explanation
Indices: 71938019--71938051 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
71938009 AGAGAAGGAA
*
71938019 AGAAATAAAAGAGAAAG
1 AGAAAGAAAAGAGAAAG
71938036 AGAAAGAAAAGAGAAA
1 AGAAAGAAAAGAGAAA
71938052 AGGTTAGGAT
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:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (17 bp):
AGAAAGAAAAGAGAAAG
Found at i:71942295 original size:24 final size:24
Alignment explanation
Indices: 71942250--71942296 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
71942240 TATATATACC
71942250 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
71942274 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
71942297 CCATTTCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:71943054 original size:5 final size:5
Alignment explanation
Indices: 71943044--71943087 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
71943034 TTGTTTTTAT
*
71943044 TATAA TATAA TATAA TATAA TATAG TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
71943088 CTTAATTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:71944879 original size:63 final size:63
Alignment explanation
Indices: 71944718--71944888 Score: 164
Period size: 63 Copynumber: 2.7 Consensus size: 63
71944708 ATCCCTAAAG
* ** * * ** *
71944718 AATGTGTTGATGTAGGGAATAATTACGCGTGC-TGTGGTGCTTATGTAAAATAAACTAGTGCTG
1 AATGTGTTGATGCAGGGAATAATTGTGCGT-CTTGTGGTGCTTGTGTAAAATAAACCAAAGCTA
** * * * * * *
71944781 GTTATGTTGATGCAGAGAATGATTGTGCATGTTGTGGTACTTGTGTAAAATAAACCAAAGCTA
1 AATGTGTTGATGCAGGGAATAATTGTGCGTCTTGTGGTGCTTGTGTAAAATAAACCAAAGCTA
* *
71944844 AATGTGTTGATGCAGGGAATAAGTGTGCGTCTTGTGATGCTTGTG
1 AATGTGTTGATGCAGGGAATAATTGTGCGTCTTGTGGTGCTTGTG
71944889 ACAAAAAAAT
Statistics
Matches: 81, Mismatches: 26, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
63 81 1.00
ACGTcount: A:0.27, C:0.09, G:0.29, T:0.34
Consensus pattern (63 bp):
AATGTGTTGATGCAGGGAATAATTGTGCGTCTTGTGGTGCTTGTGTAAAATAAACCAAAGCTA
Found at i:71946850 original size:19 final size:19
Alignment explanation
Indices: 71946828--71946864 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
71946818 CATAAAACCT
*
71946828 TTGACATGACATGAAAATC
1 TTGACATGAAATGAAAATC
*
71946847 TTGAGATGAAATGAAAAT
1 TTGACATGAAATGAAAAT
71946865 GACTTGAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (19 bp):
TTGACATGAAATGAAAATC
Found at i:71946932 original size:17 final size:17
Alignment explanation
Indices: 71946910--71946946 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
71946900 GTTACTTGAT
71946910 TGATATGAAGATTTTGG
1 TGATATGAAGATTTTGG
71946927 TGATATGAAGATTTTGG
1 TGATATGAAGATTTTGG
71946944 TGA
1 TGA
71946947 CTAACATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (17 bp):
TGATATGAAGATTTTGG
Found at i:71947942 original size:22 final size:21
Alignment explanation
Indices: 71947892--71947944 Score: 81
Period size: 20 Copynumber: 2.5 Consensus size: 21
71947882 GTTCTAGGGT
71947892 CACACGGGCGTTTCCCTTGGA
1 CACACGGGCGTTTCCCTTGGA
*
71947913 C-CACGGGCGTTTCTCTTGGA
1 CACACGGGCGTTTCCCTTGGA
71947933 CCACACGGGCGT
1 -CACACGGGCGT
71947945 GTAAACCCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 18 0.62
21 2 0.07
22 9 0.31
ACGTcount: A:0.13, C:0.34, G:0.30, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTTTCCCTTGGA
Found at i:71949695 original size:34 final size:34
Alignment explanation
Indices: 71949652--71949719 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
71949642 ATATTACTGT
71949652 ATAGATTAATCATGATTCCACACATTCATACATA
1 ATAGATTAATCATGATTCCACACATTCATACATA
71949686 ATAGATTAATCATGATTCCACACATTCATACATA
1 ATAGATTAATCATGATTCCACACATTCATACATA
71949720 TGTACAAACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (34 bp):
ATAGATTAATCATGATTCCACACATTCATACATA
Found at i:71953761 original size:5 final size:5
Alignment explanation
Indices: 71953753--71953806 Score: 56
Period size: 5 Copynumber: 10.6 Consensus size: 5
71953743 TGGTAACTTA
* * *
71953753 TTTAT TTTAGA TTTAT TTTAT TTTATT TTTAT TTGAT TGT-T TTTAT TTTAT
1 TTTAT TTTA-T TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT
71953804 TTT
1 TTT
71953807 TGGAAGTGAC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
4 3 0.08
5 28 0.70
6 9 0.22
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:71953790 original size:25 final size:27
Alignment explanation
Indices: 71953753--71953807 Score: 80
Period size: 25 Copynumber: 2.1 Consensus size: 27
71953743 TGGTAACTTA
71953753 TTTATTTTAGATT-TATTTTATTTTATT
1 TTTATTTTAGATTGT-TTTTATTTTATT
71953780 TTTA-TTT-GATTGTTTTTATTTTATT
1 TTTATTTTAGATTGTTTTTATTTTATT
71953805 TTT
1 TTT
71953808 GGAAGTGACG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 19 0.70
26 4 0.15
27 4 0.15
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (27 bp):
TTTATTTTAGATTGTTTTTATTTTATT
Found at i:71956609 original size:20 final size:20
Alignment explanation
Indices: 71956584--71956628 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
71956574 AGGGACTAAA
* *
71956584 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
71956604 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
71956624 ATGAA
1 ATGAA
71956629 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:71975468 original size:4 final size:4
Alignment explanation
Indices: 71975454--71975486 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
71975444 TTTATATTAT
71975454 ATAA CATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA -ATAA ATAA ATAA ATAA ATAA ATAA ATAA
71975487 GGGAAAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:71977935 original size:45 final size:46
Alignment explanation
Indices: 71977838--71977946 Score: 141
Period size: 45 Copynumber: 2.3 Consensus size: 46
71977828 AGCTTAAGAT
**
71977838 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAG-GTAAATATGTGATAAGGC
*
71977885 CGAATGGCCAATGTGAT-ATATGTGTAA-GTAAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGGTAAATATGTGATAAGGC
*
71977930 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
71977947 AAAGTGTGCA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 26 0.46
46 6 0.11
47 24 0.43
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (46 bp):
CGAATGGCCAATGTGATGAATGTGAAAGGTAAATATGTGATAAGGC
Found at i:71978099 original size:40 final size:39
Alignment explanation
Indices: 71978017--71978101 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 39
71978007 AAATGAATTG
* ** * *
71978017 TGCTGAGATTGCATCCGGGTTAGGGACCCGCTGGCTTCA
1 TGCTGGGATTGCATCCGGGTTAAAGACCCGCAGGCTTAA
* *
71978056 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGCATCCGGG-TTAAAGACCCGCAGGCTTAA
71978096 TGCTGG
1 TGCTGG
71978102 TGAATTAAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 17 0.45
40 21 0.55
ACGTcount: A:0.16, C:0.22, G:0.33, T:0.28
Consensus pattern (39 bp):
TGCTGGGATTGCATCCGGGTTAAAGACCCGCAGGCTTAA
Found at i:71981937 original size:46 final size:45
Alignment explanation
Indices: 71981886--71982148 Score: 237
Period size: 46 Copynumber: 5.7 Consensus size: 45
71981876 GGCATCTGAA
* * *
71981886 CTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCGAG
*** * *
71981932 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCGAG
*
71981979 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCGAG
*** * * *
71982025 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCCAAG
1 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCGAG
* *
71982072 CTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCGAG
*
71982118 CTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71982149 GCGGGTTACA
Statistics
Matches: 172, Mismatches: 31, Indels: 28
0.74 0.13 0.12
Matches are distributed among these distances:
43 2 0.01
44 6 0.03
45 2 0.01
46 90 0.52
47 62 0.36
48 2 0.01
49 6 0.03
50 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCGAG
Found at i:71981992 original size:47 final size:47
Alignment explanation
Indices: 71981932--71982094 Score: 215
Period size: 47 Copynumber: 3.5 Consensus size: 47
71981922 AATGTCCAAA
71981932 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
*** * * * *
71981979 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGC--CCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGCATCCGAG
*
71982025 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCAAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
71982072 CTCGTTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
71982095 ACTTGTGGAT
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
45 3 0.03
46 34 0.35
47 56 0.58
48 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
Found at i:71982035 original size:93 final size:93
Alignment explanation
Indices: 71981876--71982141 Score: 451
Period size: 93 Copynumber: 2.9 Consensus size: 93
71981866 AGGATATTTG
* * * * * * *
71981876 GGCATCTGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
71981941 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
71981969 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
71982034 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
71982062 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
71982127 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
71982142 CTTATGGGCG
Statistics
Matches: 164, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 164 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:71984519 original size:22 final size:21
Alignment explanation
Indices: 71984469--71984520 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
71984459 AAATAATAAA
* *
71984469 AAATAATCAAAATTTATTATT
1 AAATAATTAAAATTCATTATT
71984490 AAATTAATTAAAATTCATTATGT
1 AAA-TAATTAAAATTCATTAT-T
*
71984513 TAATAATT
1 AAATAATT
71984521 TAAGTACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 3 0.12
22 20 0.77
23 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (21 bp):
AAATAATTAAAATTCATTATT
Found at i:71986092 original size:39 final size:39
Alignment explanation
Indices: 71986033--71986111 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
71986023 ACAAGTTAGT
*
71986033 CACAGAATCTTATATGAATATCAAGTAAACATAGATGAG
1 CACAGAATCTCATATGAATATCAAGTAAACATAGATGAG
*
71986072 CACATAATCTCATATGAATATCAAGTAAACATAGATGAG
1 CACAGAATCTCATATGAATATCAAGTAAACATAGATGAG
71986111 C
1 C
71986112 CCAGCACATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (39 bp):
CACAGAATCTCATATGAATATCAAGTAAACATAGATGAG
Found at i:71986109 original size:21 final size:21
Alignment explanation
Indices: 71986046--71986109 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
71986036 AGAATCTTAT
71986046 ATGAATATCAAGTAAACATAG
1 ATGAATATCAAGTAAACATAG
** * *
71986067 ATGAGCA-C-A-TAATC-TCAT
1 ATGAATATCAAGTAAACAT-AG
71986085 ATGAATATCAAGTAAACATAG
1 ATGAATATCAAGTAAACATAG
71986106 ATGA
1 ATGA
71986110 GCCCAGCACA
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
17 1 0.03
18 10 0.33
19 2 0.07
20 2 0.07
21 14 0.47
22 1 0.03
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.25
Consensus pattern (21 bp):
ATGAATATCAAGTAAACATAG
Found at i:71986743 original size:40 final size:38
Alignment explanation
Indices: 71986675--71986758 Score: 105
Period size: 40 Copynumber: 2.2 Consensus size: 38
71986665 AGTCTTGGGC
* * *
71986675 TTAGTATCAGTAGCGTTGGGCCTTAGCCCAACTCAGTA
1 TTAGTATCAGTAGCCTAGGGCCTTAGCCCAACACAGTA
*
71986713 TTAGTATCAGTATGCACTAGGGCCTTAGCCCATCACAGTA
1 TTAGTATCAGTA-GC-CTAGGGCCTTAGCCCAACACAGTA
*
71986753 TCAGTA
1 TTAGTA
71986759 ACAAATATAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 12 0.31
39 2 0.05
40 25 0.64
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (38 bp):
TTAGTATCAGTAGCCTAGGGCCTTAGCCCAACACAGTA
Found at i:71989700 original size:49 final size:49
Alignment explanation
Indices: 71989644--71989888 Score: 274
Period size: 49 Copynumber: 4.9 Consensus size: 49
71989634 TAGCCAAAGC
* * *
71989644 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
71989693 TATCTGGTACACGTAGTAGCCTGCATTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * *
71989743 CATCTGATACACGTAGGAGCCTGCACTTAGTACTACACACGTGATCAAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * *
71989794 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACGCATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * * *
71989843 AATCCGATACACGTAGTAGCTTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
71989889 TCACAATAGA
Statistics
Matches: 162, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 79 0.49
50 47 0.29
51 36 0.22
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:71989884 original size:100 final size:99
Alignment explanation
Indices: 71989657--71989887 Score: 302
Period size: 100 Copynumber: 2.3 Consensus size: 99
71989647 CTGGTACGCA
* * * * * *
71989657 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCATTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCGGGTACACATAGTAGCCTGCACTTA
* * *
71989722 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACAATCCGATACACG
* *
71989756 TAGGAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TTATCGGGTACACATAGTAGCCTGCACT
* * *
71989821 TAGTACTACGCATGCGACC-AATAATCCGATACACG
64 TAGTACTACACACGCGACCTAACAATCCGATACACG
*
71989856 TAGTAGCTTGCACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
71989888 CTCACAATAG
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
99 29 0.25
100 45 0.39
101 40 0.35
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACAATCCGATACACG
Found at i:71997855 original size:292 final size:292
Alignment explanation
Indices: 71997331--71997917 Score: 1111
Period size: 292 Copynumber: 2.0 Consensus size: 292
71997321 ACGAGCTTAC
71997331 AAATGTTATAACTCAATCAAATTAAACTCAATCAAGTTATTTCCATGCTTAATCATGTTTGGCTA
1 AAATGTTATAACTCAATCAAATTAAACTCAATCAAGTTATTTCCATGCTTAATCATGTTTGGCTA
*
71997396 ACTCTACTATAAATCCATAAATTTCAATTCAGCATATTAAACCAATTTACATTTAAAATTAATGA
66 ACTCTACTATAAATCCATAAATTTCAATTCAGCATATTAAACCAATTTACATTCAAAATTAATGA
*
71997461 TGTTTAATTGCTTAAAGACTTACCTCGGACGTTATAAAACGGAACAGGGCAGCTAGTCGACAACT
131 TGTTTAATTGCTTAAAGACTTACCACGGACGTTATAAAACGGAACAGGGCAGCTAGTCGACAACT
71997526 TTCATCTTTCCCTGATCCAAATTCGATTTCTTTGGTTCTTGATCTAAACATATCCAAATTAAGCT
196 TTCATCTTTCCCTGATCCAAATTCGATTTCTTTGGTTCTTGATCTAAACATATCCAAATTAAGCT
*
71997591 CATTCAAACATATTTTCATTCCATTTAGTCCA
261 CATTCAAACATATTTTCATTCAATTTAGTCCA
71997623 AAATGTTATAACTCAATCAAATTAAACTCAATCAAGTTATTTCCATGCTTAATCATGTTTGGCTA
1 AAATGTTATAACTCAATCAAATTAAACTCAATCAAGTTATTTCCATGCTTAATCATGTTTGGCTA
*
71997688 ACTCTACTATAAATCCATAAATTTCAATTTAGCATATTAAACCAATTTACATTCAAAATTAATGA
66 ACTCTACTATAAATCCATAAATTTCAATTCAGCATATTAAACCAATTTACATTCAAAATTAATGA
*
71997753 TGTTTAATTGCTTAAAGACTTACCACGGATGTTATAAAACGGAACAGGGCAGCTAGTCGACAACT
131 TGTTTAATTGCTTAAAGACTTACCACGGACGTTATAAAACGGAACAGGGCAGCTAGTCGACAACT
* *
71997818 TTCGTCTTTCCCTGATCCAAATTTGATTTCTTTGGTTCTTGATCTAAACATATCCAAATTAAGCT
196 TTCATCTTTCCCTGATCCAAATTCGATTTCTTTGGTTCTTGATCTAAACATATCCAAATTAAGCT
71997883 CATTCAAACATATTTTCATTCAATTTAGTCCA
261 CATTCAAACATATTTTCATTCAATTTAGTCCA
71997915 AAA
1 AAA
71997918 ACACATAAAT
Statistics
Matches: 288, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
292 288 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (292 bp):
AAATGTTATAACTCAATCAAATTAAACTCAATCAAGTTATTTCCATGCTTAATCATGTTTGGCTA
ACTCTACTATAAATCCATAAATTTCAATTCAGCATATTAAACCAATTTACATTCAAAATTAATGA
TGTTTAATTGCTTAAAGACTTACCACGGACGTTATAAAACGGAACAGGGCAGCTAGTCGACAACT
TTCATCTTTCCCTGATCCAAATTCGATTTCTTTGGTTCTTGATCTAAACATATCCAAATTAAGCT
CATTCAAACATATTTTCATTCAATTTAGTCCA
Found at i:72001285 original size:6 final size:6
Alignment explanation
Indices: 72001268--72001466 Score: 173
Period size: 6 Copynumber: 32.8 Consensus size: 6
72001258 AACCAAAATG
*
72001268 AGAATC AAAATC AGAATC AGTAA-C AGAATC AGAATC AGAAT- A-AATGTTC
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAA---TC
* *
72001317 -GTAAT- AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
72001365 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
72001413 AGAATC AGAATC AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
72001462 AGAAT
1 AGAAT
72001467 GTGAATGCAA
Statistics
Matches: 159, Mismatches: 14, Indels: 40
0.75 0.07 0.19
Matches are distributed among these distances:
4 2 0.01
5 12 0.08
6 131 0.82
7 10 0.06
8 2 0.01
9 2 0.01
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:72001367 original size:85 final size:85
Alignment explanation
Indices: 72001268--72001429 Score: 270
Period size: 85 Copynumber: 1.9 Consensus size: 85
72001258 AACCAAAATG
* * *
72001268 AGAATCAAAATCAGAATCAGTAACAGAATCAGAATCAGAATAAATGTTCGTAATAGAATCAGAAT
1 AGAATCAAAATCAGAATCAGTAACAGAATCAGAATCAGAATAAATATTAGTAACAGAATCAGAAT
72001333 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
* * *
72001353 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAAAATCAGAATCAGTAACAGAATCAGAATCAGAATAAATATTAGTAACAGAATCAGAAT
72001418 CAGAATCAGAAT
66 CAGAATCAGAAT
72001430 CAGAATCAGA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (85 bp):
AGAATCAAAATCAGAATCAGTAACAGAATCAGAATCAGAATAAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGAC
Found at i:72001621 original size:27 final size:26
Alignment explanation
Indices: 72001584--72001649 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
72001574 AGCATGGCTG
* *
72001584 CCAGAACAGATATCGTGATAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
72001610 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
72001637 CCAGAATCAGATA
1 CCAGAA-CAGATA
72001650 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:72001654 original size:27 final size:27
Alignment explanation
Indices: 72001603--72001657 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
72001593 ATATCGTGAT
* *
72001603 AGAGTCACCAGATACAGATATTGTGGC
1 AGAGCCACCAGATACAGATAATGTGGC
72001630 AGAGCCACCAGA-ATCAGATAATGTGGC
1 AGAGCCACCAGATA-CAGATAATGTGGC
72001657 A
1 A
72001658 AACCCACCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (27 bp):
AGAGCCACCAGATACAGATAATGTGGC
Found at i:72001664 original size:27 final size:27
Alignment explanation
Indices: 72001608--72001665 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
72001598 GTGATAGAGT
* * *
72001608 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
72001635 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
72001662 CACC
1 CACC
72001666 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:72001870 original size:22 final size:22
Alignment explanation
Indices: 72001822--72001880 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
72001812 GTAAATACGT
*
72001822 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
72001844 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
72001866 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
72001881 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:72002047 original size:27 final size:26
Alignment explanation
Indices: 72001968--72002050 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
72001958 TCGATCGGTC
* * *
72001968 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
72001994 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
72002021 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
72002048 AAC
1 AAC
72002051 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:72002393 original size:81 final size:81
Alignment explanation
Indices: 72002252--72002460 Score: 260
Period size: 81 Copynumber: 2.6 Consensus size: 81
72002242 GCAAAATGGT
* * * * * *
72002252 AATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGAGGTATTTCGGTATTTCTACCCT
1 AATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGAGGTATTTCAGTAATTCTACCCT
*
72002317 ACAAGGGTATTTCGAT
66 ACAAGGGTATTTCGAA
* *
72002333 AATTCTACCCTATAGGGGTATTTTGGTAATTCTATCCTATA-AG-GGTATTTCAGTAATTCTACC
1 AATTCTACCCTACAGGGGTATTTCGGTAATTCTA-CCT-TACAGAGGTATTTCAGTAATTCTACC
* *
72002396 CTATAGGGGTATTTCGAA
64 CTACAAGGGTATTTCGAA
* * *
72002414 AATTCTACCCTACAGGGGTATTTCAGTAATTCTACATTACAGGGGTA
1 AATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGAGGTA
72002461 AAATGATAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
79 2 0.02
80 4 0.04
81 96 0.88
82 5 0.05
83 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (81 bp):
AATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGAGGTATTTCAGTAATTCTACCCT
ACAAGGGTATTTCGAA
Found at i:72002454 original size:27 final size:27
Alignment explanation
Indices: 72002249--72002460 Score: 235
Period size: 27 Copynumber: 7.9 Consensus size: 27
72002239 GGGGCAAAAT
* * * *
72002249 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
72002276 GGTAATTCTACCTTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
72002303 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
72002330 GATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
72002357 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
72002384 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
72002411 GAAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
72002438 AGTAATTCTACATTACAGGGGTA
1 GGTAATTCTACCCTACAGGGGTA
72002461 AAATGATAAT
Statistics
Matches: 154, Mismatches: 31, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 154 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:72002486 original size:27 final size:27
Alignment explanation
Indices: 72002456--72002777 Score: 393
Period size: 27 Copynumber: 12.0 Consensus size: 27
72002446 TACATTACAG
* *
72002456 GGGTAAAATGATAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* *
72002483 GGGTAAAACGATAATTTTGTAAA-CTGA
1 GGGTAAAACGGTAATTCTGTAAATC-GA
* **
72002510 GGGT-AAACTAGTAATTCTGTAAATTAA
1 GGGTAAAAC-GGTAATTCTGTAAATCGA
* **
72002537 GGGTAAAACGGTAATTTTACAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
*
72002564 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
*
72002591 GGGTAAAACAGTAATTCTGTAAA-CTGA
1 GGGTAAAACGGTAATTCTGTAAATC-GA
* *
72002618 GGGTAAAACGGTAATTCTATAAATTGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
72002645 GGGTAAAAC-GTAATTCTGTAAA-CTGA
1 GGGTAAAACGGTAATTCTGTAAATC-GA
*
72002671 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* * ** *
72002698 GGGTAAAACGATAATTTTAAAAATCAA
1 GGGTAAAACGGTAATTCTGTAAATCGA
72002725 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
72002752 GGGTAAAACGGTAATTCTGTAAATCG
1 GGGTAAAACGGTAATTCTGTAAATCG
72002778 GGAGTACTTT
Statistics
Matches: 250, Mismatches: 36, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
26 28 0.11
27 217 0.87
28 5 0.02
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
GGGTAAAACGGTAATTCTGTAAATCGA
Found at i:72004078 original size:46 final size:45
Alignment explanation
Indices: 72004011--72004128 Score: 157
Period size: 46 Copynumber: 2.6 Consensus size: 45
72004001 TATGTGTGCT
* * *
72004011 AGTGTAAGACATGTTTGGGACATGCATTAGCCA-CAGCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CATCAG-ACGAGAGCC
* *
72004057 AGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCA-TCAGACGAGAGCC
72004103 AGTGTAAGACATGTCTGGGACATGCA
1 AGTGTAAGACATGTCTGGGACATGCA
72004129 CCGTCTGGGA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
45 2 0.03
46 61 0.94
47 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.30, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCATCAGACGAGAGCC
Found at i:72004136 original size:16 final size:16
Alignment explanation
Indices: 72004115--72004147 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
72004105 TGTAAGACAT
72004115 GTCTGGGACATGCACC
1 GTCTGGGACATGCACC
72004131 GTCTGGGACATGCACC
1 GTCTGGGACATGCACC
72004147 G
1 G
72004148 GCCTCGCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.30, G:0.33, T:0.18
Consensus pattern (16 bp):
GTCTGGGACATGCACC
Found at i:72006876 original size:47 final size:47
Alignment explanation
Indices: 72006798--72007036 Score: 379
Period size: 47 Copynumber: 5.1 Consensus size: 47
72006788 CCCTTCGGGA
* * * * * * *
72006798 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
72006845 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72006892 CTTATCACATATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72006939 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72006986 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72007033 CTTA
1 CTTA
72007037 CTATCATTTC
Statistics
Matches: 177, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 177 1.00
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:72010513 original size:40 final size:40
Alignment explanation
Indices: 72010456--72010638 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
72010446 CCAGCATGAT
* *
72010456 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
72010496 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
72010536 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
72010577 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
72010617 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
72010639 CATCATTCGA
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 96 0.81
41 20 0.17
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:72010987 original size:29 final size:29
Alignment explanation
Indices: 72010948--72011026 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
72010938 CTTAATAATC
*
72010948 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
72010978 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
72011007 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
72011027 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:72011069 original size:43 final size:43
Alignment explanation
Indices: 72011008--72011110 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
72010998 TGCATTTCAA
72011008 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
72011051 GCCCGCACACTTAGTGCCAATCTCTCAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
72011094 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
72011111 TGAAAACCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.25, C:0.36, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:72013203 original size:47 final size:47
Alignment explanation
Indices: 72013125--72013457 Score: 549
Period size: 47 Copynumber: 7.1 Consensus size: 47
72013115 CCCTTCGGGA
* * * * * * *
72013125 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
72013172 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72013219 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
72013266 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTATGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72013313 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72013360 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72013407 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72013454 CTTA
1 CTTA
72013458 CTATCATTTC
Statistics
Matches: 269, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 269 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:72023414 original size:13 final size:13
Alignment explanation
Indices: 72023381--72023414 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
72023371 GTGTTACATA
72023381 GGCATGTCACACG
1 GGCATGTCACACG
*
72023394 GGCGTGTCACACG
1 GGCATGTCACACG
*
72023407 TGCATGTC
1 GGCATGTC
72023415 CCTGCCGAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.18, C:0.29, G:0.32, T:0.21
Consensus pattern (13 bp):
GGCATGTCACACG
Found at i:72026727 original size:26 final size:25
Alignment explanation
Indices: 72026694--72026773 Score: 65
Period size: 27 Copynumber: 3.0 Consensus size: 25
72026684 TCATATGGAA
72026694 CATAAGGGCATAATCGTCATTTTAC
1 CATAAGGGCATAATCGTCATTTTAC
*
72026719 CATACAGGG-ATATTATGGTCATTTTACC
1 CATA-AGGGCATA--ATCGTCATTTTA-C
* *
72026747 CTATAGGGGCATTA-CGGTCATTTTAC
1 C-ATAAGGGCATAATC-GTCATTTTAC
72026773 C
1 C
72026774 CTGCAGGGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
25 7 0.16
26 6 0.14
27 21 0.48
28 5 0.11
29 5 0.11
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (25 bp):
CATAAGGGCATAATCGTCATTTTAC
Found at i:72026740 original size:27 final size:27
Alignment explanation
Indices: 72026709--72026798 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
72026699 GGGCATAATC
* *
72026709 GTCATTTTACCATACAGGGATATTATG
1 GTCATTTTACCCTACAGGGGTATTATG
* * *
72026736 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTATG
*
72026763 GTCATTTTACCCTGCAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTATG
72026790 GTCATTTTA
1 GTCATTTTA
72026799 ACTATTTTGG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTATG
Found at i:72079375 original size:40 final size:40
Alignment explanation
Indices: 72079268--72079484 Score: 185
Period size: 40 Copynumber: 5.5 Consensus size: 40
72079258 CGGATGATAA
* * * * * *
72079268 CCGGGCTAAGTGCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATA-T
* * *
72079308 TCGGGCTAA-GCCCGAAGGCAATT-GTGCGAGTTATTATAC
1 CCGGGCTAATTCCCGAAGGC-ATTCGTGCGAGTTATTATAT
* *
72079347 CCGGGCTAATTCCAGAAGGCATTCGTGCGAGTTATTATGT
1 CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATAT
* * *
72079387 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATAT
* * *
72079427 CCAGGCT-ATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAT-TCCCGAAGGCATTCGTGCGAGTTA-TTATAT
* *
72079467 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAATTCCCGAAGG
72079485 TACTTGGCTT
Statistics
Matches: 147, Mismatches: 23, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
39 44 0.30
40 103 0.70
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATAT
Found at i:72079434 original size:80 final size:79
Alignment explanation
Indices: 72079309--72079458 Score: 214
Period size: 80 Copynumber: 1.9 Consensus size: 79
72079299 TGACTAATTT
* * *
72079309 CGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATTATACCCGGGCTAAT-TCCAGAAGGCATTCGT
1 CGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATACCCAGGCT-ATGTCCAGAAGGCATTCGA
72079373 GCGAGTTATTATGTC
65 GCGAGTTATTATGTC
* *
72079388 CGGGCTAAGTCCCGAAGGC-ATTGGTGCGAGTTACTATATCCAGGCTATGTCCCGAAGGCATTCG
1 CGGGCTAAG-CCCGAAGGCAATT-GTGCGAGTTACTATACCCAGGCTATGTCCAGAAGGCATTCG
72079452 AGCGAGT
64 AGCGAGT
72079459 AGCTATATCC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
79 14 0.22
80 49 0.78
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (79 bp):
CGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATACCCAGGCTATGTCCAGAAGGCATTCGAG
CGAGTTATTATGTC
Found at i:72079470 original size:80 final size:80
Alignment explanation
Indices: 72079309--72079484 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
72079299 TGACTAATTT
* * *
72079309 CGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTATTATACCCGGGCTAATTCCAGAAGGCATTCGT
1 CGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATACCCAGGCTAATTCCAGAAGGCATTCGA
* *
72079373 GCGAGTTATTATGTC
66 GCGAGTTACTATATC
* *
72079388 CGGGCTAAGTCCCGAAGGC-ATTGGTGCGAGTTACTATATCCAGGCT-ATGTCCCGAAGGCATTC
1 CGGGCTAAGTCCCGAAGGCAATT-GTGCGAGTTACTATACCCAGGCTAAT-TCCAGAAGGCATTC
72079451 GAGCGAG-TAGCTATATC
64 GAGCGAGTTA-CTATATC
* *
72079468 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
72079485 TACTTGGCTT
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
79 30 0.36
80 54 0.64
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATACCCAGGCTAATTCCAGAAGGCATTCGA
GCGAGTTACTATATC
Found at i:72079484 original size:119 final size:119
Alignment explanation
Indices: 72079268--72079484 Score: 253
Period size: 119 Copynumber: 1.8 Consensus size: 119
72079258 CGGATGATAA
* * * * * *
72079268 CCGGGCTAAGTGCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCAATTGT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATTCCAGGCTAAGCCCGAAGGCAATTGA
* *
72079333 GCGAGTTATTATACCCGGGCTAATTCCAGAAGGCATTCGTGCGAGTTATTATGT
66 GCGAGTTACTATACCCGGGCTAAATCCAGAAGGCATTCGTGCGAGTTATTATGT
* *
72079387 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT-ATATCCAGGCTATGTCCCGAAGGC-ATT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAAT-TCCAGGCTAAG-CCCGAAGGCAATT
* * *
72079450 CGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
64 -GAGCGAGTTA-CTATACCCGGGCTAAATCCAGAAGG
72079485 TACTTGGCTT
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
118 2 0.02
119 58 0.72
120 21 0.26
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATTCCAGGCTAAGCCCGAAGGCAATTGA
GCGAGTTACTATACCCGGGCTAAATCCAGAAGGCATTCGTGCGAGTTATTATGT
Found at i:72083319 original size:46 final size:46
Alignment explanation
Indices: 72083263--72083435 Score: 212
Period size: 46 Copynumber: 3.7 Consensus size: 46
72083253 TGGTTGAGCA
*
72083263 TCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
72083309 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
72083354 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
72083402 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
72083436 GGGGCGGGTT
Statistics
Matches: 110, Mismatches: 7, Indels: 20
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.54
47 30 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:72083419 original size:93 final size:93
Alignment explanation
Indices: 72083260--72083431 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
72083250 GGATGGTTGA
*
72083260 GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
72083325 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* *
72083353 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
72083417 TTGAGTCCGAGTTCA
65 TTGAGTCCGAGTTCA
72083432 CTTAGGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:72085924 original size:36 final size:36
Alignment explanation
Indices: 72085871--72085967 Score: 103
Period size: 34 Copynumber: 2.8 Consensus size: 36
72085861 CTTTCAGTTT
* * * * **
72085871 CAGTTTGGGCCTGAGCCCCTTTTTTAGTAACAGTCG
1 CAGTCTGGGCCTAAGCCCCTTTTTCAGTAACAATAA
*
72085907 CAGTCTGGGCCTAAG-CCC-ATTTCAGTAACAATAA
1 CAGTCTGGGCCTAAGCCCCTTTTTCAGTAACAATAA
72085941 CAGTCTGGGCCTAA-CCCC-TTTTCAGTA
1 CAGTCTGGGCCTAAGCCCCTTTTTCAGTA
72085968 CAGTATGCAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
34 36 0.69
35 3 0.06
36 13 0.25
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (36 bp):
CAGTCTGGGCCTAAGCCCCTTTTTCAGTAACAATAA
Found at i:72092605 original size:46 final size:46
Alignment explanation
Indices: 72092523--72092642 Score: 177
Period size: 46 Copynumber: 2.6 Consensus size: 46
72092513 CGCCCCTAAG
* * ** *
72092523 TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAA
* *
72092569 TGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAA
72092615 TGAACTCGGACTCAACTCAACGAGTTCG
1 TGAACTCGGACTCAACTCAACGAGTTCG
72092643 GATGATCAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAA
Found at i:72092663 original size:46 final size:46
Alignment explanation
Indices: 72092519--72092657 Score: 138
Period size: 46 Copynumber: 3.0 Consensus size: 46
72092509 AACCCGCCCC
* * * * *
72092519 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTC-GCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGAGATCACCATCCA
* * * * *
72092565 TAAATGAACTCGGACTCAACTCAACGAGTTCGAACATTC-GCATCCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGA-TCACCATCCA
72092611 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGATCAACCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-GATC-ACCATCC
72092658 TAGTGACATG
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
45 1 0.01
46 70 0.91
47 1 0.01
48 5 0.06
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGATCACCATCCA
Found at i:72107543 original size:82 final size:82
Alignment explanation
Indices: 72107406--72107574 Score: 239
Period size: 82 Copynumber: 2.1 Consensus size: 82
72107396 CCACAGTACT
* * * * * *
72107406 GTGTGGTGGGCCGTGTGGTAGGTCGTGTGTGACGAGACGATCGTGTGATCGACGAAGGCTAGGTT
1 GTGTGGTGGGCCGTGTGGTAGGCCGTGTGTGACGACACGACCGTATGATCGACGAAGGCCAGGCT
*
72107471 GTGCGTAAGACACGGTC
66 GTGCGTAAGAAACGGTC
* * *
72107488 GTGTGGTGGGCCGTGTGTTAGGCCGTGTGTGATGACACGGCCGTATGATCGACGAAGGCCAGGCT
1 GTGTGGTGGGCCGTGTGGTAGGCCGTGTGTGACGACACGACCGTATGATCGACGAAGGCCAGGCT
72107553 GTGCGTAAGAAACGGTC
66 GTGCGTAAGAAACGGTC
*
72107570 ATGTG
1 GTGTG
72107575 ATGGCCAGAG
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.18, C:0.17, G:0.41, T:0.24
Consensus pattern (82 bp):
GTGTGGTGGGCCGTGTGGTAGGCCGTGTGTGACGACACGACCGTATGATCGACGAAGGCCAGGCT
GTGCGTAAGAAACGGTC
Found at i:72107889 original size:25 final size:24
Alignment explanation
Indices: 72107861--72107912 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
72107851 AGCTGTGGGC
* *
72107861 CTATCGTAGGGTCGGTGAATGCTAT
1 CTATCGTAGGGTCGATAAAT-CTAT
72107886 CTATCGTAGGGTCGATAAATCTAT
1 CTATCGTAGGGTCGATAAATCTAT
72107910 CTA
1 CTA
72107913 ACCCTATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (24 bp):
CTATCGTAGGGTCGATAAATCTAT
Found at i:72112253 original size:3 final size:3
Alignment explanation
Indices: 72112245--72112499 Score: 87
Period size: 3 Copynumber: 85.0 Consensus size: 3
72112235 GAATTAAAAT
* * * * * ** *
72112245 TAA TAA TAA CAA AAA TAA TAA TAA TAA CAG TAA TAA AAA TGC TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
72112293 TGA TAT TAG TAA TAA TAA TAA TAG GAA -AA -AA TAA T-A TACA TAC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * *
72112336 TAA TAA CAA CAA TAA T-A TGA TAAA TAGGA -AA TAA TAA TACA CTAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TA--A TAA TAA TAA TA-A -TAA
* * * * *
72112381 TAA GAA TAA TAA TAGA TTAC TAA TAA GAA -AA TAC TAA T-A TAT TAA
1 TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*** * * * * * *
72112426 TAA GGG TAA TGA TAA TAA AAA TAC TAG TAA T-G TAT TAA TAA -AGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
72112470 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
72112500 AGTAGAAAAT
Statistics
Matches: 182, Mismatches: 53, Indels: 34
0.68 0.20 0.13
Matches are distributed among these distances:
2 15 0.08
3 152 0.84
4 10 0.05
5 5 0.03
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:72112658 original size:3 final size:3
Alignment explanation
Indices: 72112650--72112686 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
72112640 AGCATAATGG
*
72112650 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
72112687 TTGGCCAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:72115989 original size:37 final size:37
Alignment explanation
Indices: 72115947--72116039 Score: 102
Period size: 36 Copynumber: 2.5 Consensus size: 37
72115937 TATTTCATAC
*
72115947 TAATTTTTAAATTTTTTATGAGTTTTTT-TATATTTTTA
1 TAATTTTTGAATTTTTTATGA-TTTTTTAT-TATTTTTA
* *
72115985 -AA-TTTTGACTTGTTTTATTATTTTTTATTATTTTTA
1 TAATTTTTGAATT-TTTTATGATTTTTTATTATTTTTA
*
72116021 TAATTTTTGAATTGTTTAT
1 TAATTTTTGAATTTTTTAT
72116040 TAACTTGACA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
36 21 0.46
37 17 0.37
38 8 0.17
ACGTcount: A:0.25, C:0.01, G:0.06, T:0.68
Consensus pattern (37 bp):
TAATTTTTGAATTTTTTATGATTTTTTATTATTTTTA
Found at i:72116040 original size:37 final size:38
Alignment explanation
Indices: 72115947--72116041 Score: 108
Period size: 37 Copynumber: 2.6 Consensus size: 38
72115937 TATTTCATAC
* * *
72115947 TAATTTTTAAATTTTTTATGAGTTTTTTTATATTTTTA
1 TAATTTTTGAATTGTTTATTAGTTTTTTTATATTTTTA
*
72115985 -AA-TTTTGACTTGTTTTATTA--TTTTTTATTATTTTTA
1 TAATTTTTGAATTG-TTTATTAGTTTTTTTA-TATTTTTA
72116021 TAATTTTTGAATTGTTTATTA
1 TAATTTTTGAATTGTTTATTA
72116042 ACTTGACATA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
35 7 0.15
36 15 0.31
37 17 0.35
38 9 0.19
ACGTcount: A:0.25, C:0.01, G:0.06, T:0.67
Consensus pattern (38 bp):
TAATTTTTGAATTGTTTATTAGTTTTTTTATATTTTTA
Found at i:72117596 original size:16 final size:15
Alignment explanation
Indices: 72117572--72117623 Score: 77
Period size: 16 Copynumber: 3.3 Consensus size: 15
72117562 CTCCATCATT
72117572 TTTTTCTTTCTTTTC
1 TTTTTCTTTCTTTTC
72117587 TTTCTTCTTTCTTTCTC
1 TTT-TTCTTTCTTT-TC
*
72117604 TTTTTTTTTCTTTTC
1 TTTTTCTTTCTTTTC
72117619 TTTTT
1 TTTTT
72117624 GGCTTTTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
15 10 0.29
16 19 0.56
17 5 0.15
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTCTTTCTTTTC
Found at i:72117599 original size:20 final size:21
Alignment explanation
Indices: 72117573--72117621 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
72117563 TCCATCATTT
72117573 TTTTCTTTCT-TTTCTTTCTTC
1 TTTTCTTTCTCTTT-TTTCTTC
*
72117594 -TTTCTTTCTCTTTTTTTTTC
1 TTTTCTTTCTCTTTTTTCTTC
72117614 TTTTCTTT
1 TTTTCTTT
72117622 TTGGCTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTCTTTCTCTTTTTTCTTC
Found at i:72117623 original size:13 final size:13
Alignment explanation
Indices: 72117570--72117633 Score: 55
Period size: 12 Copynumber: 5.2 Consensus size: 13
72117560 TTCTCCATCA
72117570 TTTTTTTC-TTTC
1 TTTTTTTCTTTTC
72117582 TTTTCTTTC--TTC
1 TTTT-TTTCTTTTC
* *
72117594 TTTCTTTCTCTT-
1 TTTTTTTCTTTTC
72117606 TTTTTTTCTTTTC
1 TTTTTTTCTTTTC
**
72117619 TTTTTGGCTTTTC
1 TTTTTTTCTTTTC
72117632 TT
1 TT
72117634 GTGTCTTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
11 4 0.09
12 20 0.47
13 19 0.44
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (13 bp):
TTTTTTTCTTTTC
Found at i:72120095 original size:11 final size:12
Alignment explanation
Indices: 72120078--72120121 Score: 65
Period size: 11 Copynumber: 3.8 Consensus size: 12
72120068 TTTTTTCCTC
72120078 TCTTTTCTTTCT
1 TCTTTTCTTTCT
72120090 TC-TTTCTTTC-
1 TCTTTTCTTTCT
*
72120100 TCTTTTTTTTCT
1 TCTTTTCTTTCT
72120112 TCTTTTCTTT
1 TCTTTTCTTT
72120122 TTGGTTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 2 0.07
11 15 0.54
12 11 0.39
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TCTTTTCTTTCT
Found at i:72120104 original size:22 final size:23
Alignment explanation
Indices: 72120076--72120121 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
72120066 ATTTTTTTCC
72120076 TCTCTTTTCTTTCTTC-TTTCTT
1 TCTCTTTTCTTTCTTCTTTTCTT
*
72120098 TCTCTTTTTTTTCTTCTTTTCTT
1 TCTCTTTTCTTTCTTCTTTTCTT
72120121 T
1 T
72120122 TTGGTTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (23 bp):
TCTCTTTTCTTTCTTCTTTTCTT
Found at i:72120129 original size:23 final size:22
Alignment explanation
Indices: 72120076--72120130 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
72120066 ATTTTTTTCC
72120076 TCTC-TTTTCTTTCTTCTTTCTT
1 TCTCGTTTT-TTTCTTCTTTCTT
*
72120098 TCTCTTTTTTTTCTTCTTTTCTT
1 TCTCGTTTTTTTCTTC-TTTCTT
* *
72120121 TTTGGTTTTT
1 TCTCGTTTTT
72120131 CTTATGTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.00, C:0.20, G:0.04, T:0.76
Consensus pattern (22 bp):
TCTCGTTTTTTTCTTCTTTCTT
Found at i:72120132 original size:18 final size:17
Alignment explanation
Indices: 72120078--72120133 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
72120068 TTTTTTCCTC
* *
72120078 TCTTT-TCTTTCTTCTT
1 TCTTTCTCTTTTTTTTT
72120094 TCTTTCTCTTTTTTTTCT
1 TCTTTCTCTTTTTTTT-T
72120112 TCTTT-TCTTTTTGGTTTT
1 TCTTTCTCTTTTT--TTTT
72120130 TCTT
1 TCTT
72120134 ATGTCTTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 5 0.15
17 15 0.44
18 11 0.32
19 3 0.09
ACGTcount: A:0.00, C:0.20, G:0.04, T:0.77
Consensus pattern (17 bp):
TCTTTCTCTTTTTTTTT
Found at i:72138036 original size:12 final size:12
Alignment explanation
Indices: 72138019--72138044 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
72138009 ATTTAGTAAT
72138019 ATATCATGTTTC
1 ATATCATGTTTC
72138031 ATATCATGTTTC
1 ATATCATGTTTC
72138043 AT
1 AT
72138045 GTGTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (12 bp):
ATATCATGTTTC
Found at i:72138091 original size:29 final size:31
Alignment explanation
Indices: 72138049--72138112 Score: 114
Period size: 29 Copynumber: 2.1 Consensus size: 31
72138039 TTTCATGTGT
72138049 TTTTAAAATAATTATTTTTTTA-TTT-TTAC
1 TTTTAAAATAATTATTTTTTTATTTTCTTAC
72138078 TTTTAAAATAATTATTTTTTTATTTTCTTAC
1 TTTTAAAATAATTATTTTTTTATTTTCTTAC
72138109 TTTT
1 TTTT
72138113 TTAATTTCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 22 0.67
30 3 0.09
31 8 0.24
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (31 bp):
TTTTAAAATAATTATTTTTTTATTTTCTTAC
Found at i:72138177 original size:20 final size:20
Alignment explanation
Indices: 72138152--72138190 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
72138142 TTTAAAAATA
72138152 TATATAATTTCTGAATTTTT
1 TATATAATTTCTGAATTTTT
* *
72138172 TATATATTTTTTGAATTTT
1 TATATAATTTCTGAATTTT
72138191 AATATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (20 bp):
TATATAATTTCTGAATTTTT
Found at i:72138197 original size:17 final size:18
Alignment explanation
Indices: 72138169--72138205 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
72138159 TTTCTGAATT
72138169 TTTTATATATTTTTTGAA
1 TTTTATATATTTTTTGAA
*
72138187 TTTTA-ATATTTTTTTAA
1 TTTTATATATTTTTTGAA
72138204 TT
1 TT
72138206 GAAAAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTTATATATTTTTTGAA
Found at i:72139953 original size:3 final size:3
Alignment explanation
Indices: 72139945--72139970 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
72139935 GTTAACCTTT
72139945 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
72139971 AAACCCTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:72140962 original size:17 final size:18
Alignment explanation
Indices: 72140937--72140976 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
72140927 ACCCATCCAG
*
72140937 CCAACACACCATCTCCGT
1 CCAACACACAATCTCCGT
72140955 CCAA-ACACAATCTCCGT
1 CCAACACACAATCTCCGT
72140972 CCAAC
1 CCAAC
72140977 CCTACACTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.33, C:0.47, G:0.05, T:0.15
Consensus pattern (18 bp):
CCAACACACAATCTCCGT
Found at i:72142536 original size:15 final size:15
Alignment explanation
Indices: 72142524--72142558 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
72142514 AAAAAATAGA
72142524 AATAAAAGTAATAAT
1 AATAAAAGTAATAAT
* *
72142539 AATAAAATTAATAAC
1 AATAAAAGTAATAAT
72142554 AATAA
1 AATAA
72142559 CTAAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (15 bp):
AATAAAAGTAATAAT
Found at i:72142542 original size:21 final size:20
Alignment explanation
Indices: 72142507--72142546 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
72142497 GAAAATAAAG
72142507 AAAGTAAAAAAAATAGAAATA
1 AAAGTAAAAAAAATA-AAATA
* *
72142528 AAAGTAATAATAATAAAAT
1 AAAGTAAAAAAAATAAAAT
72142547 TAATAACAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAGTAAAAAAAATAAAATA
Found at i:72144815 original size:19 final size:19
Alignment explanation
Indices: 72144745--72144815 Score: 56
Period size: 19 Copynumber: 3.8 Consensus size: 19
72144735 AAAAATTGTA
**
72144745 AAAAATATTAAAACCCAA-
1 AAAAATATTAAAAATCAAT
* * **
72144763 AAAAATAATGAAAATTTAT
1 AAAAATATTAAAAATCAAT
*
72144782 AAAAAT-TCAACAAATCAAT
1 AAAAATATTAA-AAATCAAT
72144801 AAAAATATTAAAAAT
1 AAAAATATTAAAAAT
72144816 TATATTTTAA
Statistics
Matches: 38, Mismatches: 12, Indels: 5
0.69 0.22 0.09
Matches are distributed among these distances:
18 13 0.34
19 22 0.58
20 3 0.08
ACGTcount: A:0.66, C:0.08, G:0.01, T:0.24
Consensus pattern (19 bp):
AAAAATATTAAAAATCAAT
Found at i:72144906 original size:14 final size:14
Alignment explanation
Indices: 72144887--72144929 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
72144877 TTTGTTTCAC
* *
72144887 TGAAAATTATTTCT
1 TGAAAATGATTTAT
72144901 TGAAAATGATTTAT
1 TGAAAATGATTTAT
*
72144915 AGAAAATGATTTAT
1 TGAAAATGATTTAT
72144929 T
1 T
72144930 TTTCTGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (14 bp):
TGAAAATGATTTAT
Found at i:72145490 original size:16 final size:16
Alignment explanation
Indices: 72145459--72145495 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
72145449 ATGTGAATAA
72145459 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
72145475 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
72145491 TATTA
1 TATTA
72145496 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:72154400 original size:57 final size:58
Alignment explanation
Indices: 72154312--72154446 Score: 130
Period size: 57 Copynumber: 2.3 Consensus size: 58
72154302 CGTATTACGA
* ** * * * * *
72154312 GATTACTAGTCCAGGCTAAATTCTTTATGTAACGTATGCTCAAAAGAGCTCA-ATTAG
1 GATTACCAGTCCAGGCTAAACCCTATATGTAACATATACTCAAAAGAGATCATATCAG
* * *
72154369 GATTACCAGTCCAGGCTAAACCCTA-ATTGTAACATATACTCGAGAGAGATTATATCAG
1 GATTACCAGTCCAGGCTAAACCCTATA-TGTAACATATACTCAAAAGAGATCATATCAG
* *
72154427 GATTACCCGTCCGGGCTAAA
1 GATTACCAGTCCAGGCTAAA
72154447 TCCTTTGCAT
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 1 0.02
57 40 0.63
58 22 0.35
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (58 bp):
GATTACCAGTCCAGGCTAAACCCTATATGTAACATATACTCAAAAGAGATCATATCAG
Found at i:72156275 original size:28 final size:28
Alignment explanation
Indices: 72156224--72156282 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
72156214 TGCCCGTGTA
* **
72156224 GCCTCATGGCCTAACACAGGCCCGTATG
1 GCCTCACGGCCTAACACACACCCGTATG
* *
72156252 GCCTCACGGCCTAACATACACCCGTGTG
1 GCCTCACGGCCTAACACACACCCGTATG
72156280 GCC
1 GCC
72156283 CACACAACCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.39, G:0.24, T:0.17
Consensus pattern (28 bp):
GCCTCACGGCCTAACACACACCCGTATG
Found at i:72156468 original size:7 final size:7
Alignment explanation
Indices: 72156456--72156481 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
72156446 CAACAACTCC
72156456 AAAACCT
1 AAAACCT
72156463 AAAACCT
1 AAAACCT
72156470 AAAACCT
1 AAAACCT
72156477 AAAAC
1 AAAAC
72156482 AACACCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.27, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAACCT
Found at i:72160486 original size:21 final size:21
Alignment explanation
Indices: 72160457--72160499 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
72160447 CACAAATACA
*
72160457 TAGTGAAATGAGCAATTCTTC
1 TAGTAAAATGAGCAATTCTTC
72160478 TAGTAAAATGAGCAATTCTTC
1 TAGTAAAATGAGCAATTCTTC
72160499 T
1 T
72160500 CTTAACAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (21 bp):
TAGTAAAATGAGCAATTCTTC
Found at i:72163167 original size:47 final size:47
Alignment explanation
Indices: 72163087--72163197 Score: 150
Period size: 47 Copynumber: 2.4 Consensus size: 47
72163077 CACAGTAATG
* * *
72163087 CAGATAAACTGCCACTTAATAATATTGTAGACAAGCCACCACTTTTC
1 CAGATAAACTGCCACTTAATAAAATTATAGACAAGCCACCACTTTTA
* * *
72163134 CAGATAAACTACCACTTAATAAAATTATGGACAAGCCACCATTTTTA
1 CAGATAAACTGCCACTTAATAAAATTATAGACAAGCCACCACTTTTA
* *
72163181 CATATAAATTGCCACTT
1 CAGATAAACTGCCACTT
72163198 CTTCCTCCTT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (47 bp):
CAGATAAACTGCCACTTAATAAAATTATAGACAAGCCACCACTTTTA
Found at i:72163395 original size:22 final size:23
Alignment explanation
Indices: 72163356--72163400 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
72163346 TGCTAATAAC
*
72163356 ATATTTACACAATATATATATCA
1 ATATTTACACAATATATAAATCA
* *
72163379 ATATTT-CACATTTTATAAATCA
1 ATATTTACACAATATATAAATCA
72163401 TCACATTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.42
Consensus pattern (23 bp):
ATATTTACACAATATATAAATCA
Found at i:72163406 original size:17 final size:17
Alignment explanation
Indices: 72163384--72163417 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
72163374 TATCAATATT
* *
72163384 TCACATTTTATAAATCA
1 TCACATTATACAAATCA
72163401 TCACATTATACAAATCA
1 TCACATTATACAAATCA
72163418 CAAAAACAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (17 bp):
TCACATTATACAAATCA
Found at i:72164070 original size:12 final size:12
Alignment explanation
Indices: 72164053--72164079 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
72164043 ACTTAGAACT
72164053 TGAGAAACTAAG
1 TGAGAAACTAAG
72164065 TGAGAAACTAAG
1 TGAGAAACTAAG
72164077 TGA
1 TGA
72164080 AATAAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.26, T:0.19
Consensus pattern (12 bp):
TGAGAAACTAAG
Found at i:72167582 original size:49 final size:49
Alignment explanation
Indices: 72167510--72167632 Score: 158
Period size: 49 Copynumber: 2.5 Consensus size: 49
72167500 TGCCGACGCT
* *
72167510 ATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGTGAG-GCCAATGCC
1 ATGTCCCAGACA-GGTCTTACACTGGCTCTCATATA-TCAGTGCCAATGCC
* * * * *
72167560 ATGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCAGTGTCGATGCT
1 ATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCAGTGCCAATGCC
72167609 ATGTCCCAGACAGGTCTTACACTG
1 ATGTCCCAGACAGGTCTTACACTG
72167633 ACACACAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
48 3 0.05
49 50 0.78
50 11 0.17
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
ATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCAGTGCCAATGCC
Found at i:72167776 original size:46 final size:47
Alignment explanation
Indices: 72167567--72167815 Score: 133
Period size: 46 Copynumber: 5.3 Consensus size: 47
72167557 GCCATGTCCT
* ** *
72167567 AGACAGGTCTTACACTG-GCTCTCATCTATCAGTG-TCGATGCTATGTCCC
1 AGACATGTCTTACACTGAGCTCTCA--TATCAACGCT-GATGC-ATGCCCC
* * * * *
72167616 AGACAGGTCTTACACTGA-CACACA-AT-AA-GCTGACGCCATGTCCC
1 AGACATGTCTTACACTGAGCTCTCATATCAACGCTGATG-CATGCCCC
* * * * *
72167660 AGACAGGTCTTACACT-AGCTTGTCTATCTCGAGAC-C-GATGCATGTCCT
1 AGACATGTCTTACACTGAGC-TCTC-ATATC-A-ACGCTGATGCATGCCCC
* * * *
72167708 AGACATGTCTTACA-TTAGCTCTCGTCTCAACGCTGATGTATGCCCC
1 AGACATGTCTTACACTGAGCTCTCATATCAACGCTGATGCATGCCCC
**** *
72167754 AGACATGTCTTACACTGA-CTCTCATATTGTGGCTGATGCATGTCCC
1 AGACATGTCTTACACTGAGCTCTCATATCAACGCTGATGCATGCCCC
72167800 AGACATGTCTTACACT
1 AGACATGTCTTACACT
72167816 AGCACACATA
Statistics
Matches: 160, Mismatches: 25, Indels: 33
0.73 0.11 0.15
Matches are distributed among these distances:
43 1 0.01
44 30 0.19
45 6 0.04
46 66 0.41
47 7 0.04
48 23 0.14
49 25 0.16
50 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
AGACATGTCTTACACTGAGCTCTCATATCAACGCTGATGCATGCCCC
Found at i:72167826 original size:46 final size:46
Alignment explanation
Indices: 72167739--72167826 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
72167729 TCGTCTCAAC
* * *
72167739 GCTGATGTATGCCCCAGACATGTCTTACACTGACTCTCATATTGTG
1 GCTGATGCATGCCCCAGACATGTCTTACACTGACACACATATTGTG
*
72167785 GCTGATGCATGTCCCAGACATGTCTTACACT-AGCACACATAT
1 GCTGATGCATGCCCCAGACATGTCTTACACTGA-CACACATAT
72167827 CTCCCAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 1 0.03
46 36 0.97
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (46 bp):
GCTGATGCATGCCCCAGACATGTCTTACACTGACACACATATTGTG
Found at i:72169129 original size:47 final size:47
Alignment explanation
Indices: 72169058--72169462 Score: 677
Period size: 47 Copynumber: 8.6 Consensus size: 47
72169048 CCCTTCGGGA
* * * * * *
72169058 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
72169105 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72169152 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72169199 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72169246 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72169293 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72169340 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
72169389 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72169436 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
72169463 TATTCAAATA
Statistics
Matches: 342, Mismatches: 12, Indels: 8
0.94 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 296 0.87
49 44 0.13
50 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:72169136 original size:25 final size:25
Alignment explanation
Indices: 72169108--72169186 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
72169098 ACTCGGCCCT
72169108 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
72169133 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
72169155 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
72169180 ATCACAT
1 ATCACAT
72169187 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:72172694 original size:119 final size:112
Alignment explanation
Indices: 72172472--72172685 Score: 275
Period size: 119 Copynumber: 1.8 Consensus size: 112
72172462 AAAATACATG
* * * ** *
72172472 ATACATACTTTAACATTTCATGCAAATATAATATAGAAAATGATAAATAACGACATAAATTACAT
1 ATACATACATTAACATTTCATGCAAATACAACATAGAAAACAATAAATAACAACATAAATTACAT
* *
72172537 AATATACATTAACATTTCATGCAGATATAATCATAAATAACATAAAT
66 AATATACAATAACATTTCATGCAAATATAATCATAAATAACATAAAT
*
72172584 ATACATACATTAACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAATATAAATTA
1 ATACATACATTAACATTTCATGC-AAATACAACATAGAAAACAAT-AA-ATAACAACATAAATTA
*
72172649 CATAATATATATACAATAATATTTCATGCAAATATAA
63 C---ATA-ATATACAATAACATTTCATGCAAATATAA
72172686 CTTAAAATAT
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
112 22 0.26
113 17 0.20
114 2 0.02
115 15 0.18
118 3 0.04
119 26 0.31
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.30
Consensus pattern (112 bp):
ATACATACATTAACATTTCATGCAAATACAACATAGAAAACAATAAATAACAACATAAATTACAT
AATATACAATAACATTTCATGCAAATATAATCATAAATAACATAAAT
Found at i:72172750 original size:18 final size:18
Alignment explanation
Indices: 72172727--72172761 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
72172717 ATGCAAATAT
72172727 ATAAAAACAATAAATAAC
1 ATAAAAACAATAAATAAC
*
72172745 ATAAAAATAATAAATAA
1 ATAAAAACAATAAATAA
72172762 TTTATGAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (18 bp):
ATAAAAACAATAAATAAC
Found at i:72173173 original size:23 final size:23
Alignment explanation
Indices: 72173133--72173298 Score: 115
Period size: 23 Copynumber: 6.7 Consensus size: 23
72173123 AATTATACAT
72173133 AATAATA-AATA-ATAAATAATAA
1 AATAATATAATATAT-AATAATAA
72173155 AATAATATAATATATAATAAAATAAA
1 AATAATATAATATATAAT--AAT-AA
72173181 AATAATATAATGAATAATATATATAATAA
1 AAT-A-AT-AT-AAT-ATATA-ATAATAA
*
72173210 AATGATATAATATATAATAA-AA
1 AATAATATAATATATAATAATAA
* *
72173232 TATAAATAAAATATATAATAAAATATA
1 AAT-AATATAATATATAAT--AATA-A
*
72173259 AATAATATAATAAATAATACAT-A
1 AATAATATAATATATAATA-ATAA
*
72173282 AATAAAAATAATATATA
1 AAT-AATATAATATATA
72173299 GAATAAATTT
Statistics
Matches: 117, Mismatches: 9, Indels: 34
0.73 0.06 0.21
Matches are distributed among these distances:
22 11 0.09
23 28 0.24
24 19 0.16
25 10 0.09
26 21 0.18
27 6 0.05
28 2 0.02
29 7 0.06
30 6 0.05
31 5 0.04
32 2 0.02
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (23 bp):
AATAATATAATATATAATAATAA
Found at i:72173210 original size:55 final size:55
Alignment explanation
Indices: 72173134--72173304 Score: 205
Period size: 55 Copynumber: 3.2 Consensus size: 55
72173124 ATTATACATA
*
72173134 ATAATAAATAATA-A-ATAATAAAATAATATAATATATAATAAAATAAAAATAAT
1 ATAATGAATAATATATATAATAAAATAATATAATATATAATAAAATAAAAATAAT
* * *
72173187 ATAATGAATAATATATATAATAAAATGATATAATATATAATAAAATATAAATAAA
1 ATAATGAATAATATATATAATAAAATAATATAATATATAATAAAATAAAAATAAT
* *
72173242 ATATAT-AATAAAATATA-AATAATATAATA-AATA-ATACAT-AAATAAAAATAAT
1 ATA-ATGAATAATATATATAATAAAATAATATAATATATA-ATAAAATAAAAATAAT
72173294 AT-ATAGAATAA
1 ATAAT-GAATAA
72173305 ATTTTTACAT
Statistics
Matches: 103, Mismatches: 9, Indels: 13
0.82 0.07 0.10
Matches are distributed among these distances:
50 2 0.02
52 21 0.20
53 18 0.17
54 11 0.11
55 49 0.48
56 2 0.02
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.31
Consensus pattern (55 bp):
ATAATGAATAATATATATAATAAAATAATATAATATATAATAAAATAAAAATAAT
Found at i:72173290 original size:78 final size:75
Alignment explanation
Indices: 72173126--72173304 Score: 220
Period size: 78 Copynumber: 2.3 Consensus size: 75
72173116 TTTTTAAAAT
*
72173126 TATACATAATAATAA-ATAATAAATAATAAAATAATATAATATATAATAAAATAAAAATAATATA
1 TATA-ATAA-AATAATATAATAAATAATAAAATAATAAAATATATAATAAAATAAAAATAATATA
* *
72173190 ATGAATAATATA
64 ATAAATAATACA
* * *
72173202 TATAATAAAATGATATAATATATAATAAAATATAAATAAAATATATAATAAAATATAAATAATAT
1 TATAATAAAATAATATAATAAATAAT-AAA-AT-AATAAAATATATAATAAAATAAAAATAATAT
72173267 AATAAATAATACA
63 AATAAATAATACA
72173280 TA-AATAAAAATAATAT-ATAGAATAA
1 TATAAT-AAAATAATATAATA-AATAA
72173305 ATTTTTACAT
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
74 4 0.04
75 15 0.17
76 7 0.08
77 8 0.09
78 55 0.62
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (75 bp):
TATAATAAAATAATATAATAAATAATAAAATAATAAAATATATAATAAAATAAAAATAATATAAT
AAATAATACA
Found at i:72173330 original size:19 final size:21
Alignment explanation
Indices: 72173292--72173330 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
72173282 AATAAAAATA
*
72173292 ATATATAGAATAAATTTTTAC
1 ATATATAGAATAAATGTTTAC
72173313 ATATATA-AAT-AATGTTTA
1 ATATATAGAATAAATGTTTA
72173331 TAGTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 3 0.18
21 7 0.41
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (21 bp):
ATATATAGAATAAATGTTTAC
Found at i:72173393 original size:29 final size:29
Alignment explanation
Indices: 72173337--72173392 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
72173327 TTTATAGTAA
72173337 AAATAAATAATATATAAAATATTTAAAAT
1 AAATAAATAATATATAAAATATTTAAAAT
*
72173366 AAATAAATTATATATAAAA-ATTTAAAA
1 AAATAAATAATATATAAAATATTTAAAA
72173393 AGGATTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (29 bp):
AAATAAATAATATATAAAATATTTAAAAT
Done.