Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 257 of 318
Found at i:82056913 original size:38 final size:38
Alignment explanation
Indices: 82056844--82056951 Score: 148
Period size: 38 Copynumber: 2.8 Consensus size: 38
82056834 ATCAAGTGTT
*
82056844 CATATAT--ATATACATACATATATGAATATATATACATA
1 CATATATGAATATATATACATATATG-A-ATATATACATA
* * *
82056882 TATATATGAATGTATATACATATATGAATATATATATA
1 CATATATGAATATATATACATATATGAATATATACATA
82056920 CATATATGAATATATATACATATATGAATATA
1 CATATATGAATATATATACATATATGAATATA
82056952 CTTTCTCGTC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
38 46 0.74
39 1 0.02
40 15 0.24
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (38 bp):
CATATATGAATATATATACATATATGAATATATACATA
Found at i:82072307 original size:22 final size:23
Alignment explanation
Indices: 82072275--82072317 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
82072265 CTGTCGAAAA
82072275 TTATCAAAATTAATCAAAATTTT
1 TTATCAAAATTAATCAAAATTTT
*
82072298 TTAT-AAAATTAATTAAAATT
1 TTATCAAAATTAATCAAAATT
82072318 CAACATGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (23 bp):
TTATCAAAATTAATCAAAATTTT
Found at i:82072909 original size:45 final size:45
Alignment explanation
Indices: 82072839--82073043 Score: 222
Period size: 44 Copynumber: 4.6 Consensus size: 45
82072829 AAACGAAAAT
* **
82072839 GACCAT-GATTGAAAGATA-TCGTGGCATTTTACCTGAAATGAGA-AA
1 GACCATAG-TTGAAAGATACT-ATGGCATTAAACCTGAAATGA-ATAA
*
82072884 GACCATAGTTGAAAGATACTATGGCATTAAA-CTGGAATGAATAA
1 GACCATAGTTGAAAGATACTATGGCATTAAACCTGAAATGAATAA
* * * * * *
82072928 AACCATGGTTGAAAGATACTATGACACTAAACCAGAAATGTATAA
1 GACCATAGTTGAAAGATACTATGGCATTAAACCTGAAATGAATAA
* * * *
82072973 AACCATAGTTGAAAGA-ACTATGGCATTAAATCTGATACGAATAA
1 GACCATAGTTGAAAGATACTATGGCATTAAACCTGAAATGAATAA
82073017 GACCATAGTTGAAAGATACTATGGCAT
1 GACCATAGTTGAAAGATACTATGGCAT
82073044 CACATCGGTA
Statistics
Matches: 135, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
43 1 0.01
44 73 0.54
45 59 0.44
46 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (45 bp):
GACCATAGTTGAAAGATACTATGGCATTAAACCTGAAATGAATAA
Found at i:82072939 original size:44 final size:44
Alignment explanation
Indices: 82072885--82073132 Score: 209
Period size: 45 Copynumber: 5.6 Consensus size: 44
82072875 AATGAGAAAG
82072885 ACCATAGTTGAAAGATACTATGGCATTAAACTGGAATGAATAAA
1 ACCATAGTTGAAAGATACTATGGCATTAAACTGGAATGAATAAA
* * * * * *
82072929 ACCATGGTTGAAAGATACTATGACACTAAACCAGAAATGTATAAA
1 ACCATAGTTGAAAGATACTATGGCATTAAA-CTGGAATGAATAAA
* *
82072974 ACCATAGTTGAAAGA-ACTATGGCATTAAATCT-GATACGAATAAG
1 ACCATAGTTGAAAGATACTATGGCATTAAA-CTGGA-ATGAATAAA
* * * *
82073018 ACCATAGTTGAAAGATACTATGGCATCACA-TCGGTAA-CAATCAAT
1 ACCATAGTTGAAAGATACTATGGCATTAAACT-GG-AATGAAT-AAA
* * *** * *
82073063 ACCATAGTTGGAAGACACTATGGCATTACTTTAGGAATGCATAAG
1 ACCATAGTTGAAAGATACTATGGCATTAAACT-GGAATGAATAAA
* *
82073108 ACCATGGTTGGAAGATAC-ATGGCAT
1 ACCATAGTTGAAAGATACTATGGCAT
82073133 CCTTTGAAAC
Statistics
Matches: 166, Mismatches: 29, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
43 2 0.01
44 71 0.43
45 87 0.52
46 6 0.04
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (44 bp):
ACCATAGTTGAAAGATACTATGGCATTAAACTGGAATGAATAAA
Found at i:82073067 original size:45 final size:44
Alignment explanation
Indices: 82072882--82073088 Score: 163
Period size: 44 Copynumber: 4.6 Consensus size: 44
82072872 TGAAATGAGA
* *
82072882 AAGACCATAGTTGAAAGATACTATGGCATTAAA-CTGGA-ATGAAT
1 AAGACCATAGTTGAAAGA-ACTATGGCATCAAATC-GGATACGAAT
* * * * * * * *
82072926 AAAACCATGGTTGAAAGATACTATGACA-CTAAACCAGAAATGTAT
1 AAGACCATAGTTGAAAGA-ACTATGGCATC-AAATCGGATACGAAT
* * *
82072971 AAAACCATAGTTGAAAGAACTATGGCATTAAATCTGATACGAAT
1 AAGACCATAGTTGAAAGAACTATGGCATCAAATCGGATACGAAT
*
82073015 AAGACCATAGTTGAAAGATACTATGGCATCACATCGG-TAAC-AAT
1 AAGACCATAGTTGAAAGA-ACTATGGCATCAAATCGGAT-ACGAAT
* *
82073059 CAATACCATAGTTGGAAGACACTATGGCAT
1 -AAGACCATAGTTGAAAGA-ACTATGGCAT
82073089 TACTTTAGGA
Statistics
Matches: 135, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
44 69 0.51
45 66 0.49
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (44 bp):
AAGACCATAGTTGAAAGAACTATGGCATCAAATCGGATACGAAT
Found at i:82073067 original size:89 final size:89
Alignment explanation
Indices: 82072885--82073090 Score: 231
Period size: 89 Copynumber: 2.3 Consensus size: 89
82072875 AATGAGAAAG
* * *
82072885 ACCATAGTTGAAAGATACTATGGCATTAAACTGGAATGAATAAAACCATGGTTGAAAGATACTAT
1 ACCATAGTTGAAAGACACTATGGCATTAAACTGGAACGAATAAAACCATAGTTGAAAGATACTAT
**
82072950 GACACTAAACCAGAAATGTATAAA
66 GACACTAAACCAGAAATCAATAAA
*
82072974 ACCATAGTTGAAAGA-ACTATGGCATTAAATCT-GATACGAATAAGACCATAGTTGAAAGATACT
1 ACCATAGTTGAAAGACACTATGGCATTAAA-CTGGA-ACGAATAAAACCATAGTTGAAAGATACT
* * * * * *
82073037 ATGGCA-TCACATCGGTAA-CAATCAAT
64 ATGACACT-AAACCAGAAATCAAT-AAA
*
82073063 ACCATAGTTGGAAGACACTATGGCATTA
1 ACCATAGTTGAAAGACACTATGGCATTA
82073091 CTTTAGGAAT
Statistics
Matches: 100, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
88 19 0.19
89 69 0.69
90 12 0.12
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (89 bp):
ACCATAGTTGAAAGACACTATGGCATTAAACTGGAACGAATAAAACCATAGTTGAAAGATACTAT
GACACTAAACCAGAAATCAATAAA
Found at i:82076113 original size:14 final size:14
Alignment explanation
Indices: 82076077--82076115 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
82076067 TTGTTTCACT
*
82076077 GAAAATGACTTCCA
1 GAAAATGATTTCCA
**
82076091 GAAAATGATTTCTG
1 GAAAATGATTTCCA
82076105 GAAAATGATTT
1 GAAAATGATTT
82076116 ATTTTTTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (14 bp):
GAAAATGATTTCCA
Found at i:82076666 original size:14 final size:15
Alignment explanation
Indices: 82076628--82076668 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
82076618 TATGTGAATA
*
82076628 ATATTATTTAAAATT
1 ATATTATTAAAAATT
82076643 ACTATT-TTAAAAATT
1 A-TATTATTAAAAATT
82076658 -TATTATTAAAA
1 ATATTATTAAAA
82076669 TAAAATTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 4 0.17
14 6 0.26
15 9 0.39
16 4 0.17
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATTATTAAAAATT
Found at i:82076699 original size:24 final size:24
Alignment explanation
Indices: 82076672--82076717 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
82076662 ATTAAAATAA
82076672 AATTGA-AATATTAAATAATTTATT
1 AATTGATAATATT-AATAATTTATT
* *
82076696 AATTTATTATATTAATAATTTA
1 AATTGATAATATTAATAATTTA
82076718 GTATATGACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
AATTGATAATATTAATAATTTATT
Found at i:82092446 original size:60 final size:60
Alignment explanation
Indices: 82092376--82092557 Score: 355
Period size: 60 Copynumber: 3.0 Consensus size: 60
82092366 AATGAAAAAG
82092376 ATGATAGTTTCTTTTCATCTTTTATTTAATTAACATTTAACTTAATTATCAAATTACTTA
1 ATGATAGTTTCTTTTCATCTTTTATTTAATTAACATTTAACTTAATTATCAAATTACTTA
*
82092436 ATGATAGTTTCTTTTCATCTTTTATTTAATTAAAATTTAACTTAATTATCAAATTACTTA
1 ATGATAGTTTCTTTTCATCTTTTATTTAATTAACATTTAACTTAATTATCAAATTACTTA
82092496 ATGATAGTTTCTTTTCATCTTTTATTTAATTAACATTTAACTTAATTATCAAATTACTTA
1 ATGATAGTTTCTTTTCATCTTTTATTTAATTAACATTTAACTTAATTATCAAATTACTTA
82092556 AT
1 AT
82092558 TAACTTTTAA
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 120 1.00
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.52
Consensus pattern (60 bp):
ATGATAGTTTCTTTTCATCTTTTATTTAATTAACATTTAACTTAATTATCAAATTACTTA
Found at i:82092542 original size:16 final size:16
Alignment explanation
Indices: 82092521--82092567 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
82092511 CATCTTTTAT
82092521 TTAATTAACATTTAAC
1 TTAATTAACATTTAAC
* *
82092537 TTAATTATCAAATT-AC
1 TTAATTAAC-ATTTAAC
*
82092553 TTAATTAACTTTTAA
1 TTAATTAACATTTAA
82092568 AAATGATCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
15 2 0.08
16 19 0.79
17 3 0.12
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAATTAACATTTAAC
Found at i:82101077 original size:27 final size:27
Alignment explanation
Indices: 82101039--82101092 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
82101029 GAAAAAGATG
82101039 ATAGTTTCTTTTCATCTTTTATTTAAT
1 ATAGTTTCTTTTCATCTTTTATTTAAT
82101066 ATAGTTTCTTTTCATCTTTTATTTAAT
1 ATAGTTTCTTTTCATCTTTTATTTAAT
82101093 TAGCATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.11, G:0.04, T:0.63
Consensus pattern (27 bp):
ATAGTTTCTTTTCATCTTTTATTTAAT
Found at i:82112808 original size:10 final size:12
Alignment explanation
Indices: 82112783--82112814 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
82112773 TGAGTTAACA
82112783 TTTTGGTGCATG
1 TTTTGGTGCATG
82112795 TTTTGGT-C-TG
1 TTTTGGTGCATG
82112805 TTTTGGTGCA
1 TTTTGGTGCA
82112815 ATTATAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.50
11 2 0.11
12 7 0.39
ACGTcount: A:0.06, C:0.09, G:0.31, T:0.53
Consensus pattern (12 bp):
TTTTGGTGCATG
Found at i:82119396 original size:15 final size:15
Alignment explanation
Indices: 82119376--82119431 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
82119366 GTATCTTGGG
82119376 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
82119391 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
* *
82119406 TTTCTCTA-TCTTGAA
1 TTTCTTTATTC-TGGA
82119421 TTTCTTTATTC
1 TTTCTTTATTC
82119432 AGTTTTCTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 2 0.06
15 30 0.88
16 2 0.06
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:82119408 original size:30 final size:30
Alignment explanation
Indices: 82119372--82119431 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
82119362 TATCGTATCT
* *
82119372 TGGGTTTCTTTAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTCTATCT-TGAATTTCTTTATTC
82119402 TGGGTTTCTCTATCTTGAATTTCTTTATTC
1 TGGGTTTCTCTATCTTGAATTTCTTTATTC
82119432 AGTTTTCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.12, C:0.15, G:0.15, T:0.58
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTGAATTTCTTTATTC
Found at i:82126018 original size:36 final size:35
Alignment explanation
Indices: 82125891--82126019 Score: 147
Period size: 36 Copynumber: 3.6 Consensus size: 35
82125881 ATTCTCTATT
*
82125891 TTGGTGTGTTTC-GATTGGACTAGCTCTTCA-GAGCCA
1 TTGGTGTGTTTCGGA-TGGATTAGCTCTT-ATGAG-CA
*
82125927 TTGGTGTGTTTCGGATGGATTAGCTTTTATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
*
82125962 TTTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
1 -TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
*
82125998 TCTGGTGTGCTTT-GGTTGGATT
1 T-TGGTGTG-TTTCGGATGGATT
82126020 TTCGATGTAC
Statistics
Matches: 82, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
35 4 0.05
36 73 0.89
37 5 0.06
ACGTcount: A:0.16, C:0.12, G:0.30, T:0.42
Consensus pattern (35 bp):
TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
Found at i:82136411 original size:36 final size:36
Alignment explanation
Indices: 82136332--82136413 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 36
82136322 GAGTCATTAG
* * * **
82136332 TGTGTTTCGGATGGATTAGCTCTTATAAGCATTTTG
1 TGTGTTTTGGATGGATTAGATCTTATAAGCATCTAA
* *
82136368 TGCGTTTTGGATGGATTAGATCTTATGAGCATCTAA
1 TGTGTTTTGGATGGATTAGATCTTATAAGCATCTAA
82136404 TGTGTTTTGG
1 TGTGTTTTGG
82136414 TTAGGTGTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.20, C:0.10, G:0.27, T:0.44
Consensus pattern (36 bp):
TGTGTTTTGGATGGATTAGATCTTATAAGCATCTAA
Found at i:82147487 original size:39 final size:38
Alignment explanation
Indices: 82147412--82147505 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 38
82147402 AATTTACAAA
** *
82147412 ATATTTGGTTATAAAGTTGAGTTTCCAGTAAAAATTTT
1 ATATTTGGTTATAAAAATGAGTTTCCAATAAAAATTTT
* * **
82147450 GATATTTGATTATAAAAATGGGTTTCCAATAGTAATTTT
1 -ATATTTGGTTATAAAAATGAGTTTCCAATAAAAATTTT
*
82147489 AGTATTTGGTTACAAAA
1 A-TATTTGGTTATAAAA
82147506 TGTTTTTAAC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 1 0.02
39 44 0.98
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (38 bp):
ATATTTGGTTATAAAAATGAGTTTCCAATAAAAATTTT
Found at i:82148373 original size:19 final size:20
Alignment explanation
Indices: 82148356--82148421 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 20
82148346 AAAAAAATTT
82148356 AAATAATTTTTTAAAATTCA
1 AAATAATTTTTTAAAATTCA
*
82148376 AAATAA-TTTTTGAAATTCA
1 AAATAATTTTTTAAAATTCA
* * * *
82148395 AGAT-ATTTATAAAAATTCC
1 AAATAATTTTTTAAAATTCA
82148414 AAA-AATTT
1 AAATAATTT
82148422 ATATATATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
18 1 0.03
19 30 0.81
20 6 0.16
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (20 bp):
AAATAATTTTTTAAAATTCA
Found at i:82148477 original size:20 final size:17
Alignment explanation
Indices: 82148435--82148487 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 17
82148425 TATATATTTT
82148435 TTAAAAATTATAAAAAA
1 TTAAAAATTATAAAAAA
82148452 TCTAAAAGATATATAAAAAA
1 T-TAAAA-AT-TATAAAAAA
82148472 GTTAAAAATT-TAAAAA
1 -TTAAAAATTATAAAAA
82148488 TGTTCTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.22
18 6 0.19
19 4 0.12
20 14 0.44
21 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (17 bp):
TTAAAAATTATAAAAAA
Found at i:82149967 original size:14 final size:16
Alignment explanation
Indices: 82149948--82149980 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
82149938 AAAATTTTTA
82149948 TATCTAAA-A-ATATT
1 TATCTAAATATATATT
82149962 TATCTAAATATATATT
1 TATCTAAATATATATT
82149978 TAT
1 TAT
82149981 ATTTTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 1 0.06
16 8 0.47
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
TATCTAAATATATATT
Found at i:82155350 original size:22 final size:22
Alignment explanation
Indices: 82155306--82155369 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 22
82155296 AAAAATATTT
82155306 ATATTATTTTAATTGAATATATAATA
1 ATATTATTTTAA-TG--T-TATAATA
* *
82155332 AT-TTTTTTATAATGTTATACTA
1 ATATTATTT-TAATGTTATAATA
82155354 ATATTATTTTAATGTT
1 ATATTATTTTAATGTT
82155370 TGCATTAGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 15 0.45
23 6 0.18
25 7 0.21
26 5 0.15
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (22 bp):
ATATTATTTTAATGTTATAATA
Found at i:82155925 original size:14 final size:15
Alignment explanation
Indices: 82155901--82155932 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
82155891 TGTTAAATAA
82155901 ATTTTCTTAAAAATT
1 ATTTTCTTAAAAATT
82155916 ATTTTC-TAAAAATT
1 ATTTTCTTAAAAATT
82155930 ATT
1 ATT
82155933 CTTAGTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTCTTAAAAATT
Found at i:82160274 original size:14 final size:14
Alignment explanation
Indices: 82160255--82160289 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
82160245 TGCATATTCA
*
82160255 GATATGGGTATGTG
1 GATATGAGTATGTG
*
82160269 GATATGATTATGTG
1 GATATGAGTATGTG
82160283 GATATGA
1 GATATGA
82160290 TTTGGATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.34, T:0.37
Consensus pattern (14 bp):
GATATGAGTATGTG
Found at i:82160290 original size:14 final size:14
Alignment explanation
Indices: 82160263--82160291 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
82160253 CAGATATGGG
82160263 TATGTGGATATGAT
1 TATGTGGATATGAT
82160277 TATGTGGATATGAT
1 TATGTGGATATGAT
82160291 T
1 T
82160292 TGGATTCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (14 bp):
TATGTGGATATGAT
Found at i:82163620 original size:19 final size:20
Alignment explanation
Indices: 82163596--82163634 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
82163586 TATGATGGAG
*
82163596 GAGAGG-TGAAAATGTAAGA
1 GAGAGGATGAAAATGGAAGA
82163615 GAGAGGATGAAAATGGAAGA
1 GAGAGGATGAAAATGGAAGA
82163635 ATTTGAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.49, C:0.00, G:0.38, T:0.13
Consensus pattern (20 bp):
GAGAGGATGAAAATGGAAGA
Found at i:82163701 original size:26 final size:25
Alignment explanation
Indices: 82163670--82163720 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
82163660 TAATACTTTA
*
82163670 ATTTAATCTAATATATTTTATTTAAT
1 ATTTAATCTAA-ATATTTTATATAAT
* *
82163696 ATTTAATTTAAATTTTTTATATAAT
1 ATTTAATCTAAATATTTTATATAAT
82163721 TGAAATTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTAATCTAAATATTTTATATAAT
Found at i:82167367 original size:6 final size:6
Alignment explanation
Indices: 82167358--82167416 Score: 75
Period size: 6 Copynumber: 9.8 Consensus size: 6
82167348 GACATAGCTA
* *
82167358 TAGATG TAGATG TAGACG TAGATG TAGATG TAGATG TAGACG TAGAAT-
1 TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAG-ATG
*
82167406 TAGAAG TAGAT
1 TAGATG TAGAT
82167417 CCAAGCACTA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
5 1 0.02
6 43 0.96
7 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.31, T:0.29
Consensus pattern (6 bp):
TAGATG
Found at i:82169028 original size:46 final size:46
Alignment explanation
Indices: 82168872--82169047 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
82168862 TCACTTATGT
* * * * * *
82168872 GAGCTAGTGTAAGACATGTCTAGAACATGCATCAGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATGA
* * * * * *
82168918 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACATTGAGATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGTGATGA
* *
82168966 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATG-A
82169013 -AGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
82169048 TAATAGTTGT
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
46 58 0.55
47 27 0.25
48 21 0.20
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATGA
Found at i:82181863 original size:28 final size:28
Alignment explanation
Indices: 82181821--82181877 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
82181811 ATCTTCGATG
* *
82181821 TCTCGTACACTAAGTGCCATACTCAATA
1 TCTCGCACACCAAGTGCCATACTCAATA
* * *
82181849 TCTCGCACACCAAGTTCCATTCTTAATA
1 TCTCGCACACCAAGTGCCATACTCAATA
82181877 T
1 T
82181878 TTTGAACACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (28 bp):
TCTCGCACACCAAGTGCCATACTCAATA
Found at i:82191264 original size:46 final size:44
Alignment explanation
Indices: 82191211--82191378 Score: 174
Period size: 46 Copynumber: 3.6 Consensus size: 44
82191201 TATGTGTATG
82191211 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAACATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCACAACATGA-AGCC
* * *
82191257 AGTGTAAGACATGTCTGGGACATGCATCGCCCTCGAAATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-CCAC--AACA-TGAAGCC
* * ** * * *
82191305 AGAGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGCCA-CAACATG-AAGCC
82191351 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
82191379 AGGCTCACGA
Statistics
Matches: 103, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
45 1 0.01
46 64 0.62
47 1 0.01
48 35 0.34
49 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCACAACATGAAGCC
Found at i:82191406 original size:94 final size:94
Alignment explanation
Indices: 82191211--82191430 Score: 239
Period size: 94 Copynumber: 2.3 Consensus size: 94
82191201 TATGTGTATG
* *
82191211 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAACATGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAACACGAAAGCCAGTGTAAGACATGTCTGGG
**
82191276 ACATGCATCGCCCTCGAAATATTTAAGCC
66 ACATGCATCGCCCTCGAAATATACAAGCC
* * ** * *
82191305 AGAGTAAGACATGTCTGGGACATGCATC-GGCATTGAGACGAAAGCTAGTGTAAGACATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA-CAACACGAAAGCCAGTGTAAGACATGTCTGG
* * *
82191369 GACATGCATCAG-GCTC-ACGATATACAAGCT
65 GACATGCATC-GCCCTCGA-AATATACAAGCC
* * *
82191399 AGTGTAAGACCTGTTTGGGGCATGGCATCAGC
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGC
82191431 TTGTGGTGTG
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
93 4 0.04
94 92 0.89
95 6 0.06
96 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAACACGAAAGCCAGTGTAAGACATGTCTGGG
ACATGCATCGCCCTCGAAATATACAAGCC
Found at i:82200478 original size:49 final size:49
Alignment explanation
Indices: 82200406--82200593 Score: 241
Period size: 49 Copynumber: 3.8 Consensus size: 49
82200396 TGAGGTCACG
* *
82200406 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
82200455 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
*
82200506 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * *
82200555 TGTGTAGTAATAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
82200594 GCTTCGGCTA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 75 0.64
50 2 0.02
51 40 0.34
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:82200574 original size:100 final size:100
Alignment explanation
Indices: 82200401--82200588 Score: 340
Period size: 100 Copynumber: 1.9 Consensus size: 100
82200391 TATTGTGAGG
* *
82200401 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTAAT
82200466 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
* *
82200501 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTAAT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTAAT
82200566 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
82200589 AGATAGCTTC
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTAAT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:82202235 original size:94 final size:94
Alignment explanation
Indices: 82202037--82202237 Score: 217
Period size: 94 Copynumber: 2.1 Consensus size: 94
82202027 TGATATGTGT
* * * * *
82202037 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAACATGAGAGTTAGTGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGACACAACACGAGAGCTAGTGCAAGACATGTCT
* **
82202102 GGGACATGCATCGACCTCGAGATATTTAA
66 GGGACATACATCGACCTCGAGATATACAA
* * ** * *
82202131 GCCAGAGTAAGACATGTCTAGGACATGCATC-GACATTGAGACGAGAGCTAGTGCAGGACATGT-
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGACA-CAACACGAGAGCTAGTGCAAGACATGTC
* * *
82202194 TCGGGACATACATCGGCTTCGTGATATACAA
65 T-GGGACATACATCGACCTCGAGATATACAA
82202225 GCTAGTGTAAGAC
1 GCTAGTGTAAGAC
82202238 CCGTTTGGGA
Statistics
Matches: 86, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
93 4 0.05
94 82 0.95
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCAGACACAACACGAGAGCTAGTGCAAGACATGTCT
GGGACATACATCGACCTCGAGATATACAA
Found at i:82202370 original size:49 final size:49
Alignment explanation
Indices: 82202275--82202391 Score: 137
Period size: 49 Copynumber: 2.4 Consensus size: 49
82202265 GTGTGTTAGT
* *
82202275 GTAAGACCTGTCTGGGACATGACATTGACACTGATAGATGAGAGCCAGG
1 GTAAGACCTGTCTGGGACATGACATCGACACTGATAGATGAAAGCCAGG
* * * * *
82202324 GTAAGACCTGTCTGGGACATGTCATCGGC-CTCGCTATATGAAAGCCAGT
1 GTAAGACCTGTCTGGGACATGACATCGACACT-GATAGATGAAAGCCAGG
*
82202373 GTAAGACCATGCCTGGGAC
1 GTAAGACC-TGTCTGGGAC
82202392 CTGGCGTCAG
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 2 0.03
49 47 0.81
50 9 0.16
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.21
Consensus pattern (49 bp):
GTAAGACCTGTCTGGGACATGACATCGACACTGATAGATGAAAGCCAGG
Found at i:82205179 original size:31 final size:31
Alignment explanation
Indices: 82205122--82205181 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
82205112 GGCTTATGTG
*
82205122 ATATATGTGGTAGTTTAAACATTTGAGATTT
1 ATATATGTGGTAGTTTAAAAATTTGAGATTT
82205153 ATATATGT-GTA-TGTTAAAAATATTGAGAT
1 ATATATGTGGTAGT-TTAAAAAT-TTGAGAT
82205182 CTATTACCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 1 0.04
30 10 0.38
31 15 0.58
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.43
Consensus pattern (31 bp):
ATATATGTGGTAGTTTAAAAATTTGAGATTT
Found at i:82205220 original size:20 final size:18
Alignment explanation
Indices: 82205192--82205235 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
82205182 CTATTACCTA
82205192 ATGTGAAAAGCATGTTTAAC
1 ATGTGAAAAG--TGTTTAAC
* *
82205212 ATGTTAAAAGTGTTTATC
1 ATGTGAAAAGTGTTTAAC
82205230 ATGTGA
1 ATGTGA
82205236 TATGTGATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 12 0.57
20 9 0.43
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.36
Consensus pattern (18 bp):
ATGTGAAAAGTGTTTAAC
Found at i:82205426 original size:49 final size:51
Alignment explanation
Indices: 82205350--82205491 Score: 171
Period size: 49 Copynumber: 2.8 Consensus size: 51
82205340 AGGTGGAAGT
* *
82205350 AGTGGCAGTATATTTGCAAATTTGTGGTGGCTTGTCCACAAAA-T-TTATC
1 AGTGGCAGTATATCTGCAAATTAGTGGTGGCTTGTCCACAAAAGTGTTATC
* *
82205399 AGTGGTAGTATATCTGCATATTAGTGGTGGCTTGTCCACAAAAGTGTTATC
1 AGTGGCAGTATATCTGCAAATTAGTGGTGGCTTGTCCACAAAAGTGTTATC
* * * * * * *
82205450 AGTGGCAATTTATCTACAAATCAGTCGTAGCTTGTCTACAAA
1 AGTGGCAGTATATCTGCAAATTAGTGGTGGCTTGTCCACAAA
82205492 TGGTGTTTCG
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 39 0.50
50 1 0.01
51 38 0.49
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (51 bp):
AGTGGCAGTATATCTGCAAATTAGTGGTGGCTTGTCCACAAAAGTGTTATC
Found at i:82205483 original size:51 final size:49
Alignment explanation
Indices: 82205379--82205491 Score: 127
Period size: 51 Copynumber: 2.3 Consensus size: 49
82205369 ATTTGTGGTG
* * * * * * *
82205379 GCTTGTCCACAAAATTTATCAGTGGTAGTATATCTGCATATTAGTGGTG
1 GCTTGTCCACAAAATTTATCAGTGGCAATATATCTACAAATCAGTCGTA
*
82205428 GCTTGTCCACAAAAGTGTTATCAGTGGCAATTTATCTACAAATCAGTCGTA
1 GCTTGTCCACAAAA-T-TTATCAGTGGCAATATATCTACAAATCAGTCGTA
*
82205479 GCTTGTCTACAAA
1 GCTTGTCCACAAA
82205492 TGGTGTTTCG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
49 14 0.26
50 1 0.02
51 38 0.72
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (49 bp):
GCTTGTCCACAAAATTTATCAGTGGCAATATATCTACAAATCAGTCGTA
Found at i:82210546 original size:23 final size:23
Alignment explanation
Indices: 82210516--82210561 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
82210506 GAAAAGAGAG
82210516 AATTTTGAACTCGGTTTACACTA
1 AATTTTGAACTCGGTTTACACTA
82210539 AATTTTGAACTCGGTTTACACTA
1 AATTTTGAACTCGGTTTACACTA
82210562 TAAACATAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (23 bp):
AATTTTGAACTCGGTTTACACTA
Found at i:82221299 original size:23 final size:22
Alignment explanation
Indices: 82221268--82221311 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
82221258 TTGATCGTAT
*
82221268 GTTTAGGTATGATTTTAGTTTAA
1 GTTTAGGTATGAATTTA-TTTAA
*
82221291 GTTTTGGTATGAATTTATTTA
1 GTTTAGGTATGAATTTATTTA
82221312 TGAATTGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (22 bp):
GTTTAGGTATGAATTTATTTAA
Found at i:82221534 original size:13 final size:13
Alignment explanation
Indices: 82221516--82221540 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82221506 CATGTGCAAC
82221516 ACACGGTCATGTT
1 ACACGGTCATGTT
82221529 ACACGGTCATGT
1 ACACGGTCATGT
82221541 GTCCCCCGGG
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:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (13 bp):
ACACGGTCATGTT
Found at i:82225598 original size:13 final size:15
Alignment explanation
Indices: 82225569--82225605 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
82225559 TTTTAATTTC
82225569 AATATTATTTGTATT
1 AATATTATTTGTATT
82225584 AATA-TATTT-TATT
1 AATATTATTTGTATT
*
82225597 AATGTTATT
1 AATATTATT
82225606 ATTATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 7 0.35
14 9 0.45
15 4 0.20
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (15 bp):
AATATTATTTGTATT
Found at i:82254566 original size:1 final size:1
Alignment explanation
Indices: 82254560--82254604 Score: 81
Period size: 1 Copynumber: 45.0 Consensus size: 1
82254550 GTTGTTATGA
*
82254560 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
82254605 GTATGCCTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.02, T:0.98
Consensus pattern (1 bp):
T
Found at i:82258167 original size:13 final size:15
Alignment explanation
Indices: 82258138--82258174 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
82258128 TTTTAATTTC
82258138 AATATTATTTGTATT
1 AATATTATTTGTATT
82258153 AATA-TATTT-TATT
1 AATATTATTTGTATT
*
82258166 AATGTTATT
1 AATATTATT
82258175 ATTATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 7 0.35
14 9 0.45
15 4 0.20
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (15 bp):
AATATTATTTGTATT
Found at i:82270174 original size:86 final size:86
Alignment explanation
Indices: 82270027--82270502 Score: 456
Period size: 86 Copynumber: 5.5 Consensus size: 86
82270017 ATGTTTTTAT
** * ** * *
82270027 TTTTC-AAAATCAACTCATATTGCGAGAAATGAGTTGAACCTCAGGATACGCTGAAGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGAATTTTCA
* *
82270091 ATTTCTGTTTTCAATTTATAT
66 ATTTCTGTTTTCAATTTCTAC
82270112 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGAATTTTC-
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGAATTTTCA
* *
82270176 ATTTTTGCTTTTCAATCTCTAC
66 ATTTCTG-TTTTCAATTTCTAC
* * *
82270198 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGGCA--
1 TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-GCAC--GCTGAGGAATT
* * *
82270260 TT---TTT-AGTTTT-TATTTATAC
62 TTCAATTTCTGTTTTCAATTTCTAC
* * * * *
82270280 TTTTCAAAAGTCAACTCATATTTCGAAAGATGAGTTGAGCCTC-GGGCCACATGCTGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CAC--GCTGAGGAATTT
**
82270344 TCAAAATTTCAT-TTTTCAATTTCTGT
63 TC--AATTTC-TGTTTTCAATTTCTAC
* *
82270370 TTCTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCATAAGCTGAGGTAA-
1 TT-TT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC--ACGCTGAGG-AAT
*
82270434 TTTCAATTTCTGTTTTTCAATTTCTGC
61 TTTCAATTTCTG-TTTTCAATTTCTAC
*
82270461 TTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
82270503 TGGCTCACGT
Statistics
Matches: 327, Mismatches: 38, Indels: 48
0.79 0.09 0.12
Matches are distributed among these distances:
81 48 0.15
82 11 0.03
83 6 0.02
84 1 0.00
85 14 0.04
86 69 0.21
87 42 0.13
88 3 0.01
89 50 0.15
90 15 0.05
91 17 0.05
92 47 0.14
93 3 0.01
94 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (86 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGAATTTTCA
ATTTCTGTTTTCAATTTCTAC
Found at i:82270316 original size:168 final size:171
Alignment explanation
Indices: 82270104--82270502 Score: 441
Period size: 173 Copynumber: 2.3 Consensus size: 171
82270094 TCTGTTTTCA
* * *
82270104 ATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CAC-GCTGA
1 ATTTATACTTTTCAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTC-GGGCCACAGCTGA
**
82270167 GGAATTTTC-ATTTTTGC-TTTTCAATCTCTACTT-TTCAAAAAATCAACTCATATTGCGAGAGG
65 GGAATTTTCAAAATTT-CATTTTCAATCTCTACTTCTTCAAAAAATCAACTCATATTGCGAGAGG
82270229 TGAGTTGAGCCTTGGCTCACATGCTGAGGCATTTTTAGTTTTT
129 TGAGTTGAGCCTTGGCTCACATGCTGAGGCATTTTTAGTTTTT
* *
82270272 ATTTATACTTTTCAAAAGTCAACTCATATTTCGAAAGATGAGTTGAGCCTCGGGCCACATGCTGA
1 ATTTATACTTTTCAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCGGGCCACA-GCTGA
* * ** *
82270337 GGTATTTTCAAAATTTCATTTTTCAATTTCTGTTTCTTCCAAAAATCAACTCATATTGCGAGAGG
65 GGAATTTTCAAAATTTCA-TTTTCAATCTCTACTTCTTCAAAAAATCAACTCATATTGCGAGAGG
* * * * *
82270402 TGAGTTGAGCCTCAGG-TCATAAGCTGAGGTAATTTCAATTTCTGTTTTT
129 TGAGTTGAGCCT-TGGCTCACATGCTGAGG-CA-TT---TTT-AGTTTTT
* * * * *
82270451 CAATTTCTGCTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCT
1 --ATTTATACTTTTCAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCT
82270503 TGGCTCACGT
Statistics
Matches: 191, Mismatches: 24, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
167 3 0.02
168 49 0.26
170 14 0.07
171 4 0.02
172 13 0.07
173 51 0.27
174 3 0.02
175 2 0.01
178 3 0.02
179 6 0.03
181 43 0.23
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (171 bp):
ATTTATACTTTTCAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCGGGCCACAGCTGAG
GAATTTTCAAAATTTCATTTTCAATCTCTACTTCTTCAAAAAATCAACTCATATTGCGAGAGGTG
AGTTGAGCCTTGGCTCACATGCTGAGGCATTTTTAGTTTTT
Found at i:82270331 original size:81 final size:82
Alignment explanation
Indices: 82270098--82270669 Score: 352
Period size: 87 Copynumber: 6.7 Consensus size: 82
82270088 TCAATTTCTG
*
82270098 TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CAC
1 TTTTCAATTTATACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCCAC
82270162 --GCTGAGGAATTTTCATTTTTGC
65 ATGCTGAGG------CATTTTTGC
* * *
82270184 TTTTCAATCTCTACTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCA
1 TTTTCAATTTATACTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGC-CA
82270248 CATGCTGAGGCATTTTTAG-
64 CATGCTGAGGCATTTTT-GC
* * * * *
82270267 TTTT-TATTTATACTTTTCAAAAGTCAACTCATATTTCGAAAGATGAGTTGAGCCTCGGGCCACA
1 TTTTCAATTTATACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCCACA
* *
82270331 TGCTGAGGTATTTTCAAAATTTC
66 TGCTGAGGCA-TTT-----TTGC
* ** * *
82270354 ATTTTTCAATTTCTGTTTCTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
1 --TTTTCAATTTATACTT-TT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGC
* * * *
82270419 CATAAGCTGAGGTAATTTCAATTTCTGT
62 CACATGCTGAGG------C-ATTTTTGC
* * * *
82270447 TTTTCAATTTCTGCTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCT-TGGCTCAC
1 TTTTCAATTTATACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGC-CAC
* *
82270511 GTGCTGA-GC-----TAC
65 ATGCTGAGGCATTTTTGC
* * *** *
82270523 -TTTCAATTTCTA-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAAG--AAA
1 TTTTCAATTTATACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCCACA
* * * *
82270584 CGTTGAGGTATTTTCAATTTC
66 TGCTGAGGCA-TTT---TTGC
*
82270605 TATTTTTCAATTTATA-TCTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGG
1 ---TTTTCAATTTATACT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGG
82270669 C
61 C
82270670 ACGCTGCAGT
Statistics
Matches: 385, Mismatches: 56, Indels: 87
0.73 0.11 0.16
Matches are distributed among these distances:
72 5 0.01
73 1 0.00
74 40 0.10
75 12 0.03
76 1 0.00
81 46 0.12
82 20 0.05
83 11 0.03
84 1 0.00
85 2 0.01
86 28 0.07
87 81 0.21
88 4 0.01
89 55 0.14
90 9 0.02
91 17 0.04
92 47 0.12
93 1 0.00
98 3 0.01
99 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (82 bp):
TTTTCAATTTATACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCCACA
TGCTGAGGCATTTTTGC
Found at i:82270387 original size:173 final size:168
Alignment explanation
Indices: 82270104--82270764 Score: 447
Period size: 161 Copynumber: 3.9 Consensus size: 168
82270094 TCTGTTTTCA
* * *
82270104 ATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
1 ATTTATACTTTTCAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCAGGGCACGCTGAGG
**
82270169 AATTTTCATTTTTGCTTTTCAATCTCTACTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGT
66 AATTTTCAAATTTGCTTTTCAATCTCTACTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGT
82270234 TGAGCCTTGGCTCACATGCTGAGGCATTTTTAGTTTTT
131 TGAGCCTTGGCTCACATGCTGAGGCATTTTTAGTTTTT
* *
82270272 ATTTATACTTTTCAAAAGTCAACTCATATTTCGAAAGATGAGTTGAGCCTC-GGGCCACATGCTG
1 ATTTATACTTTTCAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCAGGG-CAC--GCTG
* * ** *
82270336 AGGTATTTTCAAAATTT-CATTTTTCAATTTCTGTTTCTTCCAAAAATCAACTCATATTGCGAGA
63 AGGAATTTTC-AAATTTGC--TTTTCAATCTCTACTT-TTCAAAAAATCAACTCATATTGCGAGA
* * * * *
82270400 GGTGAGTTGAGCCTCAGG-TCATAAGCTGAGGTAATTTCAATTTCTGTTTTT
124 GGTGAGTTGAGCCT-TGGCTCACATGCTGAGG-CA-TT---TTT-AGTTTTT
* * * * * * *
82270451 CAATTTCTGCTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACG-TG
1 --ATTTATACTTTTCAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCAGG-GCACGCTG
** * * * *
82270514 CTG-A---GC-----TAC-TTTCAATTTCTA-TTTTC-AAAAATCAACTCATATTGCGAGAAGTG
63 AGGAATTTTCAAATTTGCTTTTCAATCTCTACTTTTCAAAAAATCAACTCATATTGCGAGAGGTG
* * * * *
82270567 AGTTGAGCCTTAAG---AAACGTTGAGGTATTTTCAATTTCTA-TTTTT
128 AGTTGAGCCTT-GGCTCACATGCTGAGG------C-ATTTTTAGTTTTT
* * *
82270612 CAATTTATA-TCTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCACGCTG
1 --ATTTATACT-TTTCAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCAGGGCACGCTG
* * * * ** * *
82270676 CA-GTATTTTCAAAATCTGCTTTCCAA-AT-TAAGTTTC-AAAAACCAACTCACATTGCGAGAGG
63 -AGGAATTTTC-AAATTTGCTTTTCAATCTCTACTTTTCAAAAAATCAACTCATATTGCGAGAGG
*
82270737 TGAGTTGAGCCTTGGCTCACGTGCTGAG
126 TGAGTTGAGCCTTGGCTCACATGCTGAG
82270765 TTATTTTCAA
Statistics
Matches: 390, Mismatches: 58, Indels: 84
0.73 0.11 0.16
Matches are distributed among these distances:
160 1 0.00
161 63 0.16
162 5 0.01
163 40 0.10
164 3 0.01
165 2 0.01
166 15 0.04
167 4 0.01
168 50 0.13
169 1 0.00
170 14 0.04
171 7 0.02
172 55 0.14
173 56 0.14
174 10 0.03
175 2 0.01
177 1 0.00
178 6 0.02
179 7 0.02
181 48 0.12
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (168 bp):
ATTTATACTTTTCAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCAGGGCACGCTGAGG
AATTTTCAAATTTGCTTTTCAATCTCTACTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTTGGCTCACATGCTGAGGCATTTTTAGTTTTT
Found at i:82270453 original size:14 final size:14
Alignment explanation
Indices: 82270434--82270467 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
82270424 GCTGAGGTAA
*
82270434 TTTCAATTTCTGTT
1 TTTCAATTTCTGCT
82270448 TTTCAATTTCTGCT
1 TTTCAATTTCTGCT
82270462 TTTCAA
1 TTTCAA
82270468 AAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (14 bp):
TTTCAATTTCTGCT
Found at i:82270517 original size:89 final size:90
Alignment explanation
Indices: 82270027--82270538 Score: 503
Period size: 89 Copynumber: 5.9 Consensus size: 90
82270017 ATGTTTTTAT
** * * * *
82270027 TTTTC-AAAATCAACTCATATTGCGAGAAATGAGTTGAACCTCAGGAT-AC--GCTGAAGTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACATGCTGAGGTAATT
* *
82270088 TCAATTTCTG-TTTTCAATTTATAT
66 TCAATTTCTGTTTTTCAATTTCTAC
*
82270112 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-GCAC--GCTGAGG-AATT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACATGCTGAGGTAA-T
* * *
82270173 TTC-ATTTTTGCTTTTCAATCTCTAC
65 TTCAATTTCTGTTTTTCAATTTCTAC
* *
82270198 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGG-CA-
1 TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACATGCTGAGGTAAT
* *
82270260 TT---TTT-AGTTTTT--ATTTATAC
65 TTCAATTTCTGTTTTTCAATTTCTAC
* * * * * *
82270280 TTTTCAAAAGTCAACTCATATTTCGAAAGATGAGTTGAGCCTCGGGC-CACATGCTGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACATGCTGAGGTAATT
* **
82270344 TCAAAATTTC-ATTTTTCAATTTCTGT
66 TC--AATTTCTGTTTTTCAATTTCTAC
* *
82270370 TTCTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCATAAGCTGAGGTAA
1 TT-TT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACATGCTGAGGTAA
*
82270434 TTTCAATTTCTGTTTTTCAATTTCTGC
64 TTTCAATTTCTGTTTTTCAATTTCTAC
* * * * *
82270461 TTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGTGCTGAGCTACTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACATGCTGAGGTAATT
*
82270525 TCAATTTCTATTTT
66 TCAATTTCTGTTTT
82270539 CAAAAATCAA
Statistics
Matches: 357, Mismatches: 46, Indels: 44
0.80 0.10 0.10
Matches are distributed among these distances:
81 45 0.13
82 14 0.04
83 2 0.01
84 5 0.01
85 15 0.04
86 67 0.19
87 42 0.12
88 10 0.03
89 71 0.20
90 15 0.04
91 18 0.05
92 53 0.15
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (90 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACATGCTGAGGTAATT
TCAATTTCTGTTTTTCAATTTCTAC
Found at i:82270613 original size:14 final size:14
Alignment explanation
Indices: 82270594--82270628 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
82270584 CGTTGAGGTA
*
82270594 TTTTCAATTTCTAT
1 TTTTCAATTTATAT
82270608 TTTTCAATTTATAT
1 TTTTCAATTTATAT
*
82270622 CTTTCAA
1 TTTTCAA
82270629 AAATCAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:82270682 original size:87 final size:86
Alignment explanation
Indices: 82270519--82270748 Score: 268
Period size: 87 Copynumber: 2.7 Consensus size: 86
82270509 ACGTGCTGAG
* * *
82270519 CTAC-TTTCAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAAGAA
1 CTACTTTTCAATTTATATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAA
* **
82270583 ACGTTGAGGTATTTTCAATTT
66 ACGCTGAGGTATTTTCAAAAT
* * * *
82270604 CTATTTTTCAATTTATATCTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGG
1 CTACTTTTCAATTTATAT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
*
82270669 CACGCTGCA-GTATTTTCAAAAT
65 AACGCTG-AGGTATTTTCAAAAT
* * * * * *
82270691 CTGCTTTCCAAATTA-AGTTTCAAAAACCAACTCACATTGCGAGAGGTGAGTTGAGCCT
1 CTACTTTTCAATTTATATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
82270749 TGGCTCACGT
Statistics
Matches: 123, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
85 41 0.33
86 13 0.11
87 68 0.55
88 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (86 bp):
CTACTTTTCAATTTATATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAA
ACGCTGAGGTATTTTCAAAAT
Found at i:82272272 original size:46 final size:46
Alignment explanation
Indices: 82272113--82272326 Score: 184
Period size: 46 Copynumber: 4.6 Consensus size: 46
82272103 TTTGTGTGCT
* *
82272113 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATGAGAGCC
* ** * * * *
82272159 AGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGAGAGCC
* * * * *
82272207 AGTGTACGACATGTTTGGGACATGCATTAGCCTCGAGATAAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGAGAGCC
* * * *
82272253 AGTGTAAGACATGTCTGGGACATGCATC-GGCT--ACATGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGA-GAGCC
82272297 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
82272327 GACACAAATA
Statistics
Matches: 132, Mismatches: 30, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
43 4 0.03
44 11 0.08
45 17 0.13
46 52 0.39
47 27 0.20
48 20 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGAGAGCC
Found at i:82277600 original size:18 final size:19
Alignment explanation
Indices: 82277577--82277620 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
82277567 AACTCAACTT
* *
82277577 ATTTATACATATTTAA-TA
1 ATTTATACATATCTAACGA
82277595 ATTTATACATATCTAACGA
1 ATTTATACATATCTAACGA
82277614 ATTTATA
1 ATTTATA
82277621 TTGCCATGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.45
Consensus pattern (19 bp):
ATTTATACATATCTAACGA
Found at i:82290957 original size:19 final size:19
Alignment explanation
Indices: 82290933--82290970 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
82290923 ATTTTGCAAC
82290933 TTATTCAATTTAGTCTTTA
1 TTATTCAATTTAGTCTTTA
82290952 TTATTCAATTTAGTCTTTA
1 TTATTCAATTTAGTCTTTA
82290971 AACCAGAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.58
Consensus pattern (19 bp):
TTATTCAATTTAGTCTTTA
Found at i:82297785 original size:16 final size:17
Alignment explanation
Indices: 82297761--82297793 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
82297751 ATTTTACTTG
*
82297761 TATACTTAAA-TTAATT
1 TATAATTAAACTTAATT
82297777 TATAATTAAACTTAATT
1 TATAATTAAACTTAATT
82297794 CATTTACTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (17 bp):
TATAATTAAACTTAATT
Found at i:82298052 original size:21 final size:23
Alignment explanation
Indices: 82298026--82298067 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
82298016 ATTACTTAAC
82298026 TAAATTT-T-AATATCAATATAA
1 TAAATTTGTAAATATCAATATAA
*
82298047 TAAATTTGTAAATATCCATAT
1 TAAATTTGTAAATATCAATAT
82298068 TTAATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (23 bp):
TAAATTTGTAAATATCAATATAA
Found at i:82298808 original size:17 final size:17
Alignment explanation
Indices: 82298786--82298819 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
82298776 CATGAGAAAG
82298786 TGTAATGAAATGGTTAT
1 TGTAATGAAATGGTTAT
82298803 TGTAATGAAATGGTTAT
1 TGTAATGAAATGGTTAT
82298820 AACTAAATCA
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:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (17 bp):
TGTAATGAAATGGTTAT
Found at i:82303078 original size:49 final size:50
Alignment explanation
Indices: 82303000--82303232 Score: 283
Period size: 49 Copynumber: 4.7 Consensus size: 50
82302990 ATCTATTGTG
* *
82303000 AGGTCATGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * **
82303050 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCAATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * * *
82303100 CGATCATGTGTGTAGCACTAAGTGCAGGCTACTACGTGTATCAGATGATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
82303150 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATCATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
82303200 -GGTCGTC-TGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTC-ACGTGTGTAGTACTAAGTGCAGGCTACTA
82303233 TGCATACCAG
Statistics
Matches: 155, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
49 70 0.45
50 48 0.31
51 37 0.24
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:82303211 original size:101 final size:100
Alignment explanation
Indices: 82303003--82303232 Score: 311
Period size: 100 Copynumber: 2.3 Consensus size: 100
82302993 TATTGTGAGG
* * *
82303003 TCATGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
*
82303068 AAGTGCAGGCTACTATGTGTACCCAATAACTTCGA
66 AAGTGCAGGCTACTACGTGTACCCAATAACTTCGA
* * * *
82303103 TCATGTGTGTAGCACTAAGTGCAGGCTACTACGTGTATCAGATGATTAGGTCACGTGTGTAGTAC
1 TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTAC
** * *
82303168 TAAGTGCAGGCTACTACGTGTACCGGATCA-TT-GG
65 TAAGTGCAGGCTACTACGTGTACCCAATAACTTCGA
* *
82303202 TCGTCTGTGTAGTACTAAGTGCAGGCTACTA
1 TCATGTGTGTAGTACTAAGTGCAGGCTACTA
82303233 TGCATACCAG
Statistics
Matches: 114, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
99 29 0.25
100 44 0.39
101 41 0.36
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (100 bp):
TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGTGTACCCAATAACTTCGA
Found at i:82316346 original size:13 final size:13
Alignment explanation
Indices: 82316328--82316354 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
82316318 ACTGATGATC
82316328 AGTCTGAGCGGGT
1 AGTCTGAGCGGGT
82316341 AGTCTGAGCGGGT
1 AGTCTGAGCGGGT
82316354 A
1 A
82316355 ATTCAGATTC
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:0.19, C:0.15, G:0.44, T:0.22
Consensus pattern (13 bp):
AGTCTGAGCGGGT
Found at i:82326578 original size:29 final size:27
Alignment explanation
Indices: 82326530--82326607 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
82326520 GAAACCACCA
*
82326530 TATAACATA-AATGC-AGAAAATCTACC
1 TATAACATATAATGCGATAAAAT-TACC
* *
82326556 GTATAGCATATAATGCGATAAAATTGCC
1 -TATAACATATAATGCGATAAAATTACC
* *
82326584 AATATCATATAATGCGATAAAATT
1 TATAACATATAATGCGATAAAATT
82326608 GTAACACCCC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
27 30 0.68
28 8 0.18
29 6 0.14
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (27 bp):
TATAACATATAATGCGATAAAATTACC
Found at i:82334756 original size:28 final size:28
Alignment explanation
Indices: 82334724--82334814 Score: 112
Period size: 28 Copynumber: 3.2 Consensus size: 28
82334714 AAGATTTTCC
82334724 ACCTTTAATAGGTTTGCCACAAAGGCTT
1 ACCTTTAATAGGTTTGCCACAAAGGCTT
*
82334752 ACCTTT-CTAGAGTTTTGCCACAAAGGCTT
1 ACCTTTAATAG-G-TTTGCCACAAAGGCTT
* * * *
82334781 TCCTTTAACAGGATTGCCACAGAGGCTT
1 ACCTTTAATAGGTTTGCCACAAAGGCTT
82334809 ACCTTT
1 ACCTTT
82334815 CCAGAGTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 3 0.06
28 26 0.49
29 22 0.42
30 2 0.04
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (28 bp):
ACCTTTAATAGGTTTGCCACAAAGGCTT
Found at i:82334801 original size:57 final size:57
Alignment explanation
Indices: 82334725--82334842 Score: 173
Period size: 57 Copynumber: 2.1 Consensus size: 57
82334715 AGATTTTCCA
* * * *
82334725 CCTTTAATAGGTTTGCCACAAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGCTTT
1 CCTTTAACAGGATTGCCACAAAGGCTTACCTTTCCAGAGTTTTGCCACAAAGGCTAT
* **
82334782 CCTTTAACAGGATTGCCACAGAGGCTTACCTTTCCAGAGTTTTTTCACAAAGGCTAT
1 CCTTTAACAGGATTGCCACAAAGGCTTACCTTTCCAGAGTTTTGCCACAAAGGCTAT
82334839 CCTT
1 CCTT
82334843 CCACAAATGC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (57 bp):
CCTTTAACAGGATTGCCACAAAGGCTTACCTTTCCAGAGTTTTGCCACAAAGGCTAT
Found at i:82334842 original size:29 final size:29
Alignment explanation
Indices: 82334736--82334836 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
82334726 CTTTAATAGG
*
82334736 TTTGCCACAAAGGCTTACCTTTCTAGAGT
1 TTTGCCACAAAGGCTTACCTTTCCAGAGT
* *
82334765 TTTGCCACAAAGGCTTTCCTTTAACAG-G-
1 TTTGCCACAAAGGCTTACCTTT-CCAGAGT
* *
82334793 ATTGCCACAGAGGCTTACCTTTCCAGAGT
1 TTTGCCACAAAGGCTTACCTTTCCAGAGT
**
82334822 TTTTTCACAAAGGCT
1 TTTGCCACAAAGGCT
82334837 ATCCTTCCAC
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
27 3 0.05
28 20 0.34
29 33 0.57
30 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (29 bp):
TTTGCCACAAAGGCTTACCTTTCCAGAGT
Found at i:82335117 original size:53 final size:53
Alignment explanation
Indices: 82335032--82335241 Score: 278
Period size: 53 Copynumber: 4.0 Consensus size: 53
82335022 AATTTTTCCC
* * *
82335032 ATATGATGCCATAACCCACCAATTATGGTCTTACACAATATGGTCTTATTTCT
1 ATATGATGCCATAACCCACCAGTTATGATCTTACACAATATGGTCTTCTTTCT
* * *
82335085 ATATGATGCCATAACCCACTAGTTATGATCTTACATAGTATGGTCTTCTTTCT
1 ATATGATGCCATAACCCACCAGTTATGATCTTACACAATATGGTCTTCTTTCT
* * * * *
82335138 ATATGATGCCATAACCCACCAGTTA-CAGTCATACACGATATGTTCTTCTTTCC
1 ATATGATGCCATAACCCACCAGTTATGA-TCTTACACAATATGGTCTTCTTTCT
* * *
82335191 ATATGATGTCATAACCCACCAGTTACGGTCTTACACAATATGGTCTTCTTT
1 ATATGATGCCATAACCCACCAGTTATGATCTTACACAATATGGTCTTCTTT
82335242 AATGCTATGG
Statistics
Matches: 135, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
52 1 0.01
53 134 0.99
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (53 bp):
ATATGATGCCATAACCCACCAGTTATGATCTTACACAATATGGTCTTCTTTCT
Found at i:82342324 original size:17 final size:17
Alignment explanation
Indices: 82342302--82342334 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
82342292 TAGAATTAGG
82342302 TTGAGAAGATT-ATTTAA
1 TTGAGAA-ATTAATTTAA
82342319 TTGAGAAATTAATTTA
1 TTGAGAAATTAATTTA
82342335 TTAACTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (17 bp):
TTGAGAAATTAATTTAA
Found at i:82352298 original size:46 final size:46
Alignment explanation
Indices: 82352248--82352423 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
82352238 TGTTTGGGCA
82352248 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
82352294 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
82352339 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
82352387 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
82352424 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:82352403 original size:93 final size:93
Alignment explanation
Indices: 82352244--82352416 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
82352234 AGGATGTTTG
* * *
82352244 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
*
82352309 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
*
82352337 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
82352402 TTGAGTCCAAGTTCG
66 TTGAGTCCAAGTTCG
82352417 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:82355517 original size:90 final size:90
Alignment explanation
Indices: 82355359--82355527 Score: 221
Period size: 90 Copynumber: 1.9 Consensus size: 90
82355349 ACCAAATAGG
* * **
82355359 GTGCCAAAGCCATGTCCTAGACATAGTCTTACATGGGACCACACATCAATGCCATATCCCAGGTA
1 GTGCCAAAGCCATGTCCCAGACATAGTCTTACACGGGACCACACATCAATGCCATATCCCAGACA
82355424 TGGTCTTATACGAAGTCTCAAATCA
66 TGGTCTTATACGAAGTCTCAAATCA
* * * * * ** * *
82355449 GTGCCAACGCCATGTCCCAGACATGGTCTTATACGGGACCTCATATTGATGCCATGTCCTAGACA
1 GTGCCAAAGCCATGTCCCAGACATAGTCTTACACGGGACCACACATCAATGCCATATCCCAGACA
82355514 TGGTCTTATACGAA
66 TGGTCTTATACGAA
82355528 ATCACTTACC
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
90 66 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (90 bp):
GTGCCAAAGCCATGTCCCAGACATAGTCTTACACGGGACCACACATCAATGCCATATCCCAGACA
TGGTCTTATACGAAGTCTCAAATCA
Found at i:82355543 original size:90 final size:89
Alignment explanation
Indices: 82355358--82355576 Score: 213
Period size: 90 Copynumber: 2.4 Consensus size: 89
82355348 CACCAAATAG
* * * **
82355358 GGTGCCAAAGCCATGTCCTAGACATAGTCTTACATGGGACCACACATCAATGCCATATCCCAGGT
1 GGTGCC-AAGCCATGTCCCAGACATGGTCTTACACGGGACCACACATCAATGCCATATCCCAGAC
* * *
82355423 ATGGTCTTATACGAAGTCTCAAATC
65 ATGGTCTTATACGAAATCACAAACC
* * * * ** * *
82355448 AGTGCCAACGCCATGTCCCAGACATGGTCTTATACGGGACCTCATATTGATGCCATGTCCTAGAC
1 GGTGCCAA-GCCATGTCCCAGACATGGTCTTACACGGGACCACACATCAATGCCATATCCCAGAC
**
82355513 ATGGTCTTATACGAAATCACTTACC
65 ATGGTCTTATACGAAATCACAAACC
* * * *
82355538 GGTGCCGAAGCCATATCCCTGATAAGGTCTTACACGGGA
1 GGTGCC-AAGCCATGTCCCAGACATGGTCTTACACGGGA
82355577 TCGCGTATCG
Statistics
Matches: 103, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
89 2 0.02
90 99 0.96
91 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (89 bp):
GGTGCCAAGCCATGTCCCAGACATGGTCTTACACGGGACCACACATCAATGCCATATCCCAGACA
TGGTCTTATACGAAATCACAAACC
Found at i:82358216 original size:25 final size:25
Alignment explanation
Indices: 82358188--82358251 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
82358178 TAATTTAGAC
*
82358188 AAATAA-AACTTAAATTTTAATATAA
1 AAATAATAA-TTAAATTTAAATATAA
* *
82358213 AAATAATTATTAAGTTTAAATATAA
1 AAATAATAATTAAATTTAAATATAA
*
82358238 AAATAATTATTAAA
1 AAATAATAATTAAA
82358252 ACCCAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
AAATAATAATTAAATTTAAATATAA
Found at i:82367606 original size:33 final size:33
Alignment explanation
Indices: 82367513--82367606 Score: 77
Period size: 33 Copynumber: 2.8 Consensus size: 33
82367503 TTCCAACTAA
* **
82367513 CTTGGATGAAGAAACTCC-TACTGATCCTGTGAC
1 CTTGGATGAAGAAACTCCAT-CTGTTCCTGAAAC
* * * *
82367546 CTTGGCA-GAGGAAAGCCCCA-GTATTCCTGAAAC
1 CTTGG-ATGAAGAAA-CTCCATCTGTTCCTGAAAC
82367579 CTTGGATGAAGAAACTCCATCTGTTCCT
1 CTTGGATGAAGAAACTCCATCTGTTCCT
82367607 CCAACATTCA
Statistics
Matches: 45, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
32 5 0.11
33 36 0.80
34 4 0.09
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (33 bp):
CTTGGATGAAGAAACTCCATCTGTTCCTGAAAC
Found at i:82370806 original size:13 final size:13
Alignment explanation
Indices: 82370788--82370814 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
82370778 TGCTACATGA
82370788 ACATCATATATAT
1 ACATCATATATAT
82370801 ACATCATATATAT
1 ACATCATATATAT
82370814 A
1 A
82370815 TAAAATAAAG
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:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
ACATCATATATAT
Found at i:82377813 original size:21 final size:22
Alignment explanation
Indices: 82377769--82377813 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
82377759 TTAAACTTAG
* *
82377769 TTAATCATGTTTATGTCATTAA
1 TTAACCATATTTATGTCATTAA
*
82377791 TTAACCATATTTAT-TCTTTAA
1 TTAACCATATTTATGTCATTAA
82377812 TT
1 TT
82377814 GTAACTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.31, C:0.11, G:0.04, T:0.53
Consensus pattern (22 bp):
TTAACCATATTTATGTCATTAA
Found at i:82393123 original size:21 final size:21
Alignment explanation
Indices: 82393099--82393141 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
82393089 TCCAAATATC
*
82393099 TCCAAACACATACCAATCATT
1 TCCAAACACAAACCAATCATT
* *
82393120 TCCATACATAAACCAATCATT
1 TCCAAACACAAACCAATCATT
82393141 T
1 T
82393142 AAGGCCATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAAACACAAACCAATCATT
Found at i:82399897 original size:43 final size:42
Alignment explanation
Indices: 82399818--82399931 Score: 156
Period size: 43 Copynumber: 2.7 Consensus size: 42
82399808 ACTAAGATTA
* *
82399818 CGTGTAAGACCATATCTGGGATATGGCATCGATACGAGACTT
1 CGTGTAAGACCATAACTAGGATATGGCATCGATACGAGACTT
* *
82399860 CGTGTAAGACCATAACTAGGCTATTGGCATCGATACGAGATTT
1 CGTGTAAGACCATAACTAGGATA-TGGCATCGATACGAGACTT
* * *
82399903 CATGTAAGACCATATCTGGGATATGGCAT
1 CGTGTAAGACCATAACTAGGATATGGCAT
82399932 TGGTATGGTA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 26 0.41
43 37 0.59
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (42 bp):
CGTGTAAGACCATAACTAGGATATGGCATCGATACGAGACTT
Found at i:82412453 original size:21 final size:21
Alignment explanation
Indices: 82412429--82412470 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
82412419 GTATGGTAAG
*
82412429 TAAAATTATAAGGTCAGTATC
1 TAAAATTATAAGGTAAGTATC
82412450 TAAAATTATAAGGTAAGTATC
1 TAAAATTATAAGGTAAGTATC
82412471 AATATTGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.33
Consensus pattern (21 bp):
TAAAATTATAAGGTAAGTATC
Found at i:82414092 original size:20 final size:20
Alignment explanation
Indices: 82414054--82414101 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
82414044 TAAATTCTAA
**
82414054 AAAGATAAATACATTTAATT
1 AAAGATAAATACAGATAATT
*
82414074 AAAGATAAATAGAGATAATT
1 AAAGATAAATACAGATAATT
82414094 AAA-ATAAA
1 AAAGATAAA
82414102 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.27
Consensus pattern (20 bp):
AAAGATAAATACAGATAATT
Found at i:82414112 original size:19 final size:18
Alignment explanation
Indices: 82414088--82414131 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
82414078 ATAAATAGAG
82414088 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
82414108 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
82414125 ATAATTA
1 ATAATTA
82414132 TCCTAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:82414147 original size:15 final size:15
Alignment explanation
Indices: 82414127--82414159 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
82414117 TAATCCTAAT
82414127 AATTATCCTAATATA
1 AATTATCCTAATATA
82414142 AATTATCCTAATATA
1 AATTATCCTAATATA
82414157 AAT
1 AAT
82414160 AAAATGGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (15 bp):
AATTATCCTAATATA
Found at i:82415752 original size:7 final size:7
Alignment explanation
Indices: 82415740--82415799 Score: 56
Period size: 7 Copynumber: 8.6 Consensus size: 7
82415730 TAATATCTGA
82415740 AAATAAT
1 AAATAAT
82415747 AAATAAT
1 AAATAAT
82415754 AAATAAT
1 AAATAAT
82415761 AAAATAAT
1 -AAATAAT
82415769 AAGAT-A-
1 AA-ATAAT
82415775 AAATAAAT
1 AAAT-AAT
82415783 AAA-ATAT
1 AAATA-AT
82415790 AAAT-AT
1 AAATAAT
82415796 AAAT
1 AAAT
82415800 TGGGTTGCCT
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
5 2 0.04
6 9 0.20
7 23 0.50
8 12 0.26
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (7 bp):
AAATAAT
Found at i:82415759 original size:14 final size:14
Alignment explanation
Indices: 82415740--82415799 Score: 56
Period size: 15 Copynumber: 4.3 Consensus size: 14
82415730 TAATATCTGA
82415740 AAATAATAAATAAT
1 AAATAATAAATAAT
82415754 AAATAATAAAATAAT
1 AAATAAT-AAATAAT
82415769 AAGAT-A-AAATAAAT
1 AA-ATAATAAAT-AAT
82415783 AAA-ATATAAAT-AT
1 AAATA-ATAAATAAT
82415796 AAAT
1 AAAT
82415800 TGGGTTGCCT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 10 0.26
14 13 0.33
15 14 0.36
16 2 0.05
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (14 bp):
AAATAATAAATAAT
Found at i:82415765 original size:22 final size:22
Alignment explanation
Indices: 82415739--82415799 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 22
82415729 TTAATATCTG
82415739 AAAATAATAAATAATAAAT-AAT
1 AAAATAATAAAT-ATAAATAAAT
82415761 AAAATAATAAGATA-AAATAAAT
1 AAAATAATAA-ATATAAATAAAT
82415783 AAAAT-ATAAATATAAAT
1 AAAATAATAAATATAAAT
82415800 TGGGTTGCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.08
21 12 0.33
22 19 0.53
23 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAATAATAAATATAAATAAAT
Found at i:82417630 original size:46 final size:46
Alignment explanation
Indices: 82417577--82417749 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
82417567 TATTTGGACA
*
82417577 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * * *
82417623 TCCGAACTCGTTGAGTTCAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
82417668 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
82417716 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
82417750 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 59 0.57
47 27 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:82417738 original size:93 final size:93
Alignment explanation
Indices: 82417575--82417744 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
82417565 GATATTTGGA
* * *
82417575 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTT
82417640 CAGTCCGAGTTCGTGAAATGTAACTAGG
66 CAGTCCGAGTTCGTGAAATGTAACTAGG
* *
82417668 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTT
*
82417733 GAGTCCGAGTTC
66 CAGTCCGAGTTC
82417745 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTT
CAGTCCGAGTTCGTGAAATGTAACTAGG
Found at i:82425209 original size:46 final size:45
Alignment explanation
Indices: 82425156--82425328 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 45
82425146 TATTTGGACA
82425156 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * * * *
82425202 TCCGAACTCGTTGAGCTGAGTCAGAGTTC-GTGCAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAAG
*
82425249 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
82425295 -CATGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
82425329 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 59 0.58
47 30 0.29
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:82425315 original size:93 final size:93
Alignment explanation
Indices: 82425154--82425323 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
82425144 GATATTTGGA
*
82425154 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGCT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGCT
82425219 GAGTCAGAGTTCGTGCAATGTAACTAGG
66 GAGTCAGAGTTCGTGCAATGTAACTAGG
* * * *
82425247 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CATGAGCTCGTTGAGT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGAGC
*
82425311 TGAGTCCGAGTTC
65 TGAGTCAGAGTTC
82425324 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGCT
GAGTCAGAGTTCGTGCAATGTAACTAGG
Found at i:82428037 original size:40 final size:40
Alignment explanation
Indices: 82427993--82428180 Score: 308
Period size: 40 Copynumber: 4.7 Consensus size: 40
82427983 GCTACTTGCT
82427993 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
82428033 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
82428073 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
82428113 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
82428152 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
82428181 CATCCGAATA
Statistics
Matches: 138, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.25
40 102 0.74
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:82428171 original size:119 final size:119
Alignment explanation
Indices: 82427960--82428180 Score: 331
Period size: 119 Copynumber: 1.9 Consensus size: 119
82427950 AAACCAAGTA
* * * *
82427960 CCTTCGGAATTTAGCCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGT
1 CCTTCGGAACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
82428025 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATG
66 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATG
*
82428079 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGAACTTAG-CCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
82428141 AGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
63 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
82428181 CATCCGAATA
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
118 1 0.01
119 62 0.67
120 29 0.32
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (119 bp):
CCTTCGGAACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATG
Found at i:82428782 original size:24 final size:24
Alignment explanation
Indices: 82428755--82428803 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
82428745 CGCCTATAAC
82428755 CGAATACATGCAACACCAATCTAT
1 CGAATACATGCAACACCAATCTAT
82428779 CGAATACATGCAACACCAATCTAT
1 CGAATACATGCAACACCAATCTAT
82428803 C
1 C
82428804 TCATGTGGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.31, G:0.08, T:0.20
Consensus pattern (24 bp):
CGAATACATGCAACACCAATCTAT
Found at i:82433114 original size:20 final size:20
Alignment explanation
Indices: 82433072--82433119 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
82433062 TAAATTCTAA
** *
82433072 AAAGATAAATACATTTAATT
1 AAAGATAAATACAGATAACT
*
82433092 AAAGATAAATAGAGATAACT
1 AAAGATAAATACAGATAACT
82433112 AAA-ATAAA
1 AAAGATAAA
82433120 ATCCTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.25
Consensus pattern (20 bp):
AAAGATAAATACAGATAACT
Found at i:82433165 original size:15 final size:15
Alignment explanation
Indices: 82433145--82433177 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
82433135 TAATCCTAAT
82433145 AATTATCCTAATATA
1 AATTATCCTAATATA
82433160 AATTATCCTAATATA
1 AATTATCCTAATATA
82433175 AAT
1 AAT
82433178 AAAATGGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (15 bp):
AATTATCCTAATATA
Found at i:82443362 original size:78 final size:78
Alignment explanation
Indices: 82443208--82443406 Score: 224
Period size: 77 Copynumber: 2.6 Consensus size: 78
82443198 GATTGTATTA
* * * * *
82443208 TGTTTCAAACAAAAATTCAATTGAACAATCTTGTTTCAAGG-TTTATTCCTACTGTTTGATAGGA
1 TGTTTCAAACAAAAAATCAATTGAAAAATTTTGTTTC-AGGATTTATTCCTACTGTTTAAAAGGA
**
82443272 TTTGTTTGA-TTTT
65 TTTGTTCAATTTTT
* * **
82443285 TGTTTCAAACAAAAAAGCAATTGAAAAATTTTGTTTCAGGATGTTATTCTTGTTGTTTAAAAGGA
1 TGTTTCAAACAAAAAATCAATTGAAAAATTTTGTTTCAGGAT-TTATTCCTACTGTTTAAAAGGA
82443350 TTTGTTCAATTTTTT
65 TTTGTTCAA-TTTTT
* * *
82443365 TGTTTCAAAC-AGAAATCAATTGAATAATTATGTTTCAGGATT
1 TGTTTCAAACAAAAAATCAATTGAAAAATTTTGTTTCAGGATT
82443407 CTTTTCCTGT
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
76 3 0.03
77 34 0.33
78 25 0.24
79 27 0.26
80 14 0.14
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (78 bp):
TGTTTCAAACAAAAAATCAATTGAAAAATTTTGTTTCAGGATTTATTCCTACTGTTTAAAAGGAT
TTGTTCAATTTTT
Found at i:82443418 original size:79 final size:75
Alignment explanation
Indices: 82443208--82443418 Score: 217
Period size: 79 Copynumber: 2.7 Consensus size: 75
82443198 GATTGTATTA
* ** * *
82443208 TGTTTCAAACAAAAATTCAATTGAACAATCTTGTTTCAAGG-TTTATTCCTACTGTTTGATAGGA
1 TGTTTCAAACAAAAA-TCAATTGAAAAAT-TTGTTTC-AGGATTTATTCCTGTTGTTTAAAAGGA
**
82443272 TTTGTTTGATTTT
63 TTTGTTCAATTTT
* *
82443285 TGTTTCAAACAAAAAAGCAATTGAAAAATTTTGTTTCAGGATGTTATTCTTGTTGTTTAAAAGGA
1 TGTTTCAAAC-AAAAATCAATTGAAAAA-TTTGTTTCAGGAT-TTATTCCTGTTGTTTAAAAGGA
82443350 TTTGTTCAATTTTTT
63 TTTGTTCAA--TTTT
* * *
82443365 TGTTTCAAACAGAAATCAATTGAATAATTATGTTTCAGGATTCTTTTCCTGTTG
1 TGTTTCAAACAAAAATCAATTGAAAAATT-TGTTTCAGGATT-TATTCCTGTTG
82443419 CTCAATAGAA
Statistics
Matches: 112, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
76 3 0.03
77 28 0.25
78 33 0.29
79 34 0.30
80 14 0.12
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (75 bp):
TGTTTCAAACAAAAATCAATTGAAAAATTTGTTTCAGGATTTATTCCTGTTGTTTAAAAGGATTT
GTTCAATTTT
Found at i:82443441 original size:79 final size:80
Alignment explanation
Indices: 82443281--82443441 Score: 191
Period size: 79 Copynumber: 2.0 Consensus size: 80
82443271 ATTTGTTTGA
* * * *
82443281 TTTTTGTTTCAAACAAAAAAGCAATTGAAAAATTTTGTTTCAGGATGTTATTCTTGTTGTTTAAA
1 TTTTTGTTTCAAACAAAAAAGCAATTGAAAAATTATGTTTCAGGATGTTATTCCTGTTGCTCAAA
* *
82443346 AGGATTTGTTCAATT
66 AGAATTTATTCAATT
* * * *
82443361 TTTTTGTTTCAAAC-AGAAATCAATTGAATAATTATGTTTCAGGAT-TCTTTTCCTGTTGCTCAA
1 TTTTTGTTTCAAACAAAAAAGCAATTGAAAAATTATGTTTCAGGATGT-TATTCCTGTTGCTCAA
* *
82443424 TAGAATTTATTCGATT
65 AAGAATTTATTCAATT
82443440 TT
1 TT
82443442 GTTAACAAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
78 1 0.01
79 53 0.78
80 14 0.21
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (80 bp):
TTTTTGTTTCAAACAAAAAAGCAATTGAAAAATTATGTTTCAGGATGTTATTCCTGTTGCTCAAA
AGAATTTATTCAATT
Found at i:82445547 original size:40 final size:40
Alignment explanation
Indices: 82445492--82445572 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
82445482 ACCTACCATT
*
82445492 CCTTTGAACATCAACATGTACACATGAAACCAACTGTATG
1 CCTTTGAACATCAACATATACACATGAAACCAACTGTATG
82445532 CCTTTGAACATCAACATATACACATGAAACCAACTGTATG
1 CCTTTGAACATCAACATATACACATGAAACCAACTGTATG
82445572 C
1 C
82445573 ATTTCCTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.26, G:0.11, T:0.25
Consensus pattern (40 bp):
CCTTTGAACATCAACATATACACATGAAACCAACTGTATG
Found at i:82452102 original size:18 final size:17
Alignment explanation
Indices: 82452075--82452108 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
82452065 ATGTATTTTG
*
82452075 AAATTAAAAAATATATT
1 AAATTAAAAAAAATATT
82452092 AAATGTAAAAAAAATAT
1 AAAT-TAAAAAAAATAT
82452109 GCTTTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATTAAAAAAAATATT
Found at i:82452390 original size:26 final size:26
Alignment explanation
Indices: 82452361--82452416 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
82452351 GTAAAAGGAA
* *
82452361 AAAAAAATTGGGGGTTTGAGGGAAGT
1 AAAAAAATTGAGGGTTTGAGGAAAGT
***
82452387 AAAAGTTTTGAGGGTTTGAGGAAAGT
1 AAAAAAATTGAGGGTTTGAGGAAAGT
82452413 AAAA
1 AAAA
82452417 GTTTTAGGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.34, T:0.25
Consensus pattern (26 bp):
AAAAAAATTGAGGGTTTGAGGAAAGT
Found at i:82452417 original size:26 final size:25
Alignment explanation
Indices: 82452372--82452425 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 25
82452362 AAAAAATTGG
*
82452372 GGGTTTGAGGGAAGTAAAAGTTTTGA
1 GGGTTTGAGGAAAGTAAAAGTTTT-A
82452398 GGGTTTGAGGAAAGTAAAAGTTTTA
1 GGGTTTGAGGAAAGTAAAAGTTTTA
82452423 GGG
1 GGG
82452426 GAAGTAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.31, C:0.00, G:0.39, T:0.30
Consensus pattern (25 bp):
GGGTTTGAGGAAAGTAAAAGTTTTA
Found at i:82452432 original size:18 final size:18
Alignment explanation
Indices: 82452409--82452446 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
82452399 GGTTTGAGGA
82452409 AAGTAAAAGTTTTAGGGG
1 AAGTAAAAGTTTTAGGGG
82452427 AAGTAAAAGTTTTAGGGG
1 AAGTAAAAGTTTTAGGGG
82452445 AA
1 AA
82452447 AATAAGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (18 bp):
AAGTAAAAGTTTTAGGGG
Found at i:82457824 original size:114 final size:113
Alignment explanation
Indices: 82457624--82458029 Score: 442
Period size: 115 Copynumber: 3.5 Consensus size: 113
82457614 TAATTTTTCC
* * * * *
82457624 TCATTTTTTGAAAACATAAAAGCCTAAATTGGTATCGATACCAACTATGGGTATCAATAGTTATG
1 TCATTTTTTCAAAACATCAAAGCCGAAATTGGTATCGATACCAGCTATGGGTATCAATACTTATG
* *
82457689 G-CTTGATATTGATACATTGGTGATGGTATCGATACTTAGGATTTATTTT
66 GTC-TGGTATCGATACATTGGTGAT-GTATCGATACTTAGGATTTATTTT
* * * * **
82457738 TCATTTTTTGAAAACATCGAAGTCGAAATTGGTATTGATACCAGCTATGGGTATTGATACTTATG
1 TCATTTTTTCAAAACATCAAAGCCGAAATTGGTATCGATACCAGCTATGGGTATCAATACTTATG
* *
82457803 GTCTGGTATCAATACTTTGGTGATTGTATCGATACTTAGGATTTATTTT
66 GTCTGGTATCGATACATTGGTGA-TGTATCGATACTTAGGATTTATTTT
** * * * ** *
82457852 TCATTTTCCCTAAACATCAAAAGACAAAATTGGTATCGATAATAGCTATGGGTATCAATTCTTA-
1 TCATTTTTTCAAAACATC-AAAGCCGAAATTGGTATCGATACCAGCTATGGGTATCAATACTTAT
* *
82457916 -GTCCCTGGTATCGATACCTTGGTGAATGTATCGATACTTAGTATTTATTTT
65 GGT--CTGGTATCGATACATTGGTG-ATGTATCGATACTTAGGATTTATTTT
* * * *
82457967 TCATATTTTTCAAAACATCGAAGCCGAATTTAGTATCGATACAAGC-ATTGGGTATCAATACTT
1 TCAT-TTTTTCAAAACATCAAAGCCGAAATTGGTATCGATACCAGCTA-TGGGTATCAATACTT
82458030 TTGGCACTGG
Statistics
Matches: 244, Mismatches: 40, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
113 2 0.01
114 112 0.46
115 118 0.48
116 12 0.05
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (113 bp):
TCATTTTTTCAAAACATCAAAGCCGAAATTGGTATCGATACCAGCTATGGGTATCAATACTTATG
GTCTGGTATCGATACATTGGTGATGTATCGATACTTAGGATTTATTTT
Found at i:82461163 original size:29 final size:29
Alignment explanation
Indices: 82461131--82461237 Score: 119
Period size: 29 Copynumber: 3.7 Consensus size: 29
82461121 GCTATCTTTG
* *
82461131 TTATAAGAAAGCCTTTGTAGCTATCTCAA
1 TTATAAGAAAGCCTTTGTGGCAATCTCAA
* * * *
82461160 TTATAAGGAAGTCTTTTTGGCGATCTCAA
1 TTATAAGAAAGCCTTTGTGGCAATCTCAA
*
82461189 TTATAATG-AAGCCTTT-TCGGCAATCTCTA
1 TTATAA-GAAAGCCTTTGT-GGCAATCTCAA
82461218 TTATAAGAAAGCCTTTGTGG
1 TTATAAGAAAGCCTTTGTGG
82461238 TGACCTTTGT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
28 2 0.03
29 62 0.94
30 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (29 bp):
TTATAAGAAAGCCTTTGTGGCAATCTCAA
Found at i:82465987 original size:31 final size:31
Alignment explanation
Indices: 82465952--82466021 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
82465942 ATACAATTTG
82465952 TTTTCTCTTCTATTTAACACAAATCTTTTCT
1 TTTTCTCTTCTATTTAACACAAATCTTTTCT
*
82465983 TTTTCTCTTCTATTTAATACAAATCTTTTCT
1 TTTTCTCTTCTATTTAACACAAATCTTTTCT
*
82466014 TTCTCTCT
1 TTTTCTCT
82466022 CTCTCTCTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (31 bp):
TTTTCTCTTCTATTTAACACAAATCTTTTCT
Found at i:82473023 original size:30 final size:30
Alignment explanation
Indices: 82472989--82473056 Score: 73
Period size: 33 Copynumber: 2.2 Consensus size: 30
82472979 TGTTTATGAG
82472989 GAAACAACCATTCCTGCAACCTTAGGTCAA
1 GAAACAACCATTCCTGCAACCTTAGGTCAA
* * * *
82473019 GAAACTCCCACCTTTCCTGCAACCTTGGGTGAA
1 GAAA---CAACCATTCCTGCAACCTTAGGTCAA
82473052 GAAAC
1 GAAAC
82473057 TTGTAGCACT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
30 5 0.16
33 26 0.84
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (30 bp):
GAAACAACCATTCCTGCAACCTTAGGTCAA
Found at i:82473278 original size:33 final size:33
Alignment explanation
Indices: 82473206--82473278 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 33
82473196 GTTCCTCTGA
** * * *
82473206 CTTTCAGTGAAGAAACTCCTGCCATTCTTCCAT
1 CTTTCAGCAAAGAAACTCCTACAATTCCTCCAT
*
82473239 CATTCAGCAAAGAAACTCCTACAATTCCT-CAT
1 CTTTCAGCAAAGAAACTCCTACAATTCCTCCAT
82473271 CCTTTCAG
1 -CTTTCAG
82473279 TGAGGGAACT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.30
Consensus pattern (33 bp):
CTTTCAGCAAAGAAACTCCTACAATTCCTCCAT
Found at i:82473353 original size:33 final size:33
Alignment explanation
Indices: 82473316--82473386 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
82473306 ATCGGGTCCA
* *
82473316 GAAACT-CAGACCATTTCTACAACCATGGGTGAG
1 GAAACTACA-ACCATTCCTACAAACATGGGTGAG
* *
82473349 GAAACTACAACCATTCCTGCAAACTTGGGTGAG
1 GAAACTACAACCATTCCTACAAACATGGGTGAG
82473382 GAAAC
1 GAAAC
82473387 AACTGCTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (33 bp):
GAAACTACAACCATTCCTACAAACATGGGTGAG
Found at i:82475451 original size:31 final size:31
Alignment explanation
Indices: 82475415--82475478 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
82475405 TTTCCAAATG
82475415 AATAATTCAGGGG-AAAATTTTGATTTAACCA
1 AATAATTCAGGGGCAAAA-TTTGATTTAACCA
82475446 AATAATTCAGGGGCAAAATTTGATTTAACCA
1 AATAATTCAGGGGCAAAATTTGATTTAACCA
82475477 AA
1 AA
82475479 GAATGGATCC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 28 0.88
32 4 0.12
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.30
Consensus pattern (31 bp):
AATAATTCAGGGGCAAAATTTGATTTAACCA
Found at i:82480524 original size:51 final size:51
Alignment explanation
Indices: 82480469--82480570 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
82480459 GATGTGAAAA
82480469 CACTTTCTTTCAAAGTGTAATTTCCTATTAAAAAAGGTGTCATTTAGTAGT
1 CACTTTCTTTCAAAGTGTAATTTCCTATTAAAAAAGGTGTCATTTAGTAGT
82480520 CACTTTCTTTCAAAGTGTAATTTCCTATTAAAAAAGGTGTCATTTAGTAGT
1 CACTTTCTTTCAAAGTGTAATTTCCTATTAAAAAAGGTGTCATTTAGTAGT
82480571 ACATAACTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (51 bp):
CACTTTCTTTCAAAGTGTAATTTCCTATTAAAAAAGGTGTCATTTAGTAGT
Found at i:82484017 original size:11 final size:11
Alignment explanation
Indices: 82483926--82484017 Score: 64
Period size: 11 Copynumber: 8.5 Consensus size: 11
82483916 TGCAAAAAAA
82483926 ATTATTTT-TT
1 ATTATTTTGTT
*
82483936 ATTATTCTGTT
1 ATTATTTTGTT
* *
82483947 GTTATTTTTTT
1 ATTATTTTGTT
*
82483958 ATTGTTTT-TCT
1 ATTATTTTGT-T
82483969 -TTATTTTGTT
1 ATTATTTTGTT
* ***
82483979 ACTATTTCACT
1 ATTATTTTGTT
* *
82483990 ATTATATTATT
1 ATTATTTTGTT
82484001 ATTATTTTGTT
1 ATTATTTTGTT
82484012 ATTATT
1 ATTATT
82484018 GTATAACTCT
Statistics
Matches: 61, Mismatches: 17, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
10 15 0.25
11 46 0.75
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (11 bp):
ATTATTTTGTT
Found at i:82500641 original size:15 final size:15
Alignment explanation
Indices: 82500621--82500651 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
82500611 TTTTAGTTAG
82500621 TAGTTTTATTTAATT
1 TAGTTTTATTTAATT
82500636 TAGTTTTATTTAATT
1 TAGTTTTATTTAATT
82500651 T
1 T
82500652 TTACAAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TAGTTTTATTTAATT
Found at i:82502869 original size:64 final size:64
Alignment explanation
Indices: 82502788--82502971 Score: 187
Period size: 67 Copynumber: 2.8 Consensus size: 64
82502778 AGACATTATG
* *
82502788 ATGTAGCTAGGTTGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTTGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
82502852 ATGTAGCTAGGTTGCATGCGT-AGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTTGCATGGGTGA-TACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
82502916 TAA
62 TAA
** * *
82502919 AT-TAGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTTGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
82502972 CGAACTATAT
Statistics
Matches: 97, Mismatches: 16, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 20 0.21
64 24 0.25
66 19 0.20
67 33 0.34
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTTGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:82510638 original size:15 final size:15
Alignment explanation
Indices: 82510618--82510648 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
82510608 CACTAAGTAT
82510618 AACATTAATAATAAA
1 AACATTAATAATAAA
*
82510633 AACATTATTAATAAA
1 AACATTAATAATAAA
82510648 A
1 A
82510649 TAACTACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AACATTAATAATAAA
Found at i:82511164 original size:13 final size:14
Alignment explanation
Indices: 82511136--82511164 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
82511126 TTTAATTATT
82511136 ATCATATTTAATAA
1 ATCATATTTAATAA
82511150 ATCATATTT-ATAA
1 ATCATATTTAATAA
82511163 AT
1 AT
82511165 AAAAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (14 bp):
ATCATATTTAATAA
Found at i:82511418 original size:19 final size:17
Alignment explanation
Indices: 82511377--82511419 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
82511367 CATGAAATTT
82511377 TATTATAAAATAAAATCA
1 TATT-TAAAATAAAATCA
*
82511395 TATTTAAAGATAAAAGTTA
1 TATTTAAA-ATAAAA-TCA
82511414 TATTTA
1 TATTTA
82511420 TTTAATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 4 0.18
18 10 0.45
19 8 0.36
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (17 bp):
TATTTAAAATAAAATCA
Found at i:82513920 original size:47 final size:47
Alignment explanation
Indices: 82513817--82513911 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
82513807 TGATAACATC
82513817 ATATAACCTTTTTGTTTGTTAAACATAGAGTTAATGAAAACATTAGT
1 ATATAACCTTTTTGTTTGTTAAACATAGAGTTAATGAAAACATTAGT
*
82513864 ATATAACCTTTTTGTTTGTTAAACATAGAGTTAATGAAAATATTAGT
1 ATATAACCTTTTTGTTTGTTAAACATAGAGTTAATGAAAACATTAGT
82513911 A
1 A
82513912 CTTGACCTTG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (47 bp):
ATATAACCTTTTTGTTTGTTAAACATAGAGTTAATGAAAACATTAGT
Found at i:82514680 original size:32 final size:32
Alignment explanation
Indices: 82514639--82514701 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
82514629 ACACAGAACT
82514639 AGAAAAATGTTTTCTCTCTTTTATTTAGGGTA
1 AGAAAAATGTTTTCTCTCTTTTATTTAGGGTA
82514671 AGAAAAATGTTTTCTCTCTTTTATTTAGGGT
1 AGAAAAATGTTTTCTCTCTTTTATTTAGGGT
82514702 GAAAACAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.48
Consensus pattern (32 bp):
AGAAAAATGTTTTCTCTCTTTTATTTAGGGTA
Found at i:82516054 original size:24 final size:24
Alignment explanation
Indices: 82516027--82516075 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
82516017 ATTAGTTGAC
82516027 TAATAGACAACCAATAAGCAACAT
1 TAATAGACAACCAATAAGCAACAT
82516051 TAATAGACAACCAATAAGCAACAT
1 TAATAGACAACCAATAAGCAACAT
82516075 T
1 T
82516076 TGCTTACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.20, G:0.08, T:0.18
Consensus pattern (24 bp):
TAATAGACAACCAATAAGCAACAT
Done.