Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 102 of 295
Found at i:32892529 original size:15 final size:17
Alignment explanation
Indices: 32892511--32892545 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
32892501 TTGCTTTTCA
32892511 TTTATTTA-CTT-TTAT
1 TTTATTTACCTTATTAT
32892526 TTTATTTACCTTATTAT
1 TTTATTTACCTTATTAT
32892543 TTT
1 TTT
32892546 TGGTGTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 3 0.17
17 7 0.39
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATTTACCTTATTAT
Found at i:32898497 original size:40 final size:40
Alignment explanation
Indices: 32898453--32898615 Score: 202
Period size: 40 Copynumber: 4.0 Consensus size: 40
32898443 ATTAGGGTTA
32898453 ATGAGATTACGTGTAAGACCATATCTGGGATATGGCATCT
1 ATGAGATTACGTGTAAGACCATATCTGGGATATGGCATCT
* *
32898493 ATGAGATTTCGTGTAAGACCATATCTGAGATATGGCATCGAT
1 ATGAGATTACGTGTAAGACCATATCTGGGATATGGCATC--T
* * * *
32898535 ATGAGATTTCGTGTAAGACCACT-GCTGGGTTATTGGCATTGAT
1 ATGAGATTACGTGTAAGACCA-TATCTGGGATA-TGGCA-T-CT
*
32898578 ATGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 ATGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
32898616 TGGTACGGTA
Statistics
Matches: 106, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
40 37 0.35
41 1 0.01
42 34 0.32
43 33 0.31
44 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (40 bp):
ATGAGATTACGTGTAAGACCATATCTGGGATATGGCATCT
Found at i:32898604 original size:85 final size:82
Alignment explanation
Indices: 32898453--32898615 Score: 220
Period size: 85 Copynumber: 2.0 Consensus size: 82
32898443 ATTAGGGTTA
* * * *
32898453 ATGAGATTACGTGTAAGACCATATCTGGGATATGGCATCTATGAGATTTCGTGTAAGACCATATC
1 ATGAGATTACGTGTAAGACCATAGCTGGGATATGGCATATATGAGATTACATGTAAGACCATATC
32898518 TGAGATATGGCATCGAT
66 TGAGATATGGCATCGAT
* *
32898535 ATGAGATTTCGTGTAAGACCACT-GCTGGGTTATTGGCATTGATATGAGATTACATGTAAGACCA
1 ATGAGATTACGTGTAAGACCA-TAGCTGGGATA-TGGCA-T-ATATGAGATTACATGTAAGACCA
*
32898599 TATCTGGGATATGGCAT
62 TATCTGAGATATGGCAT
32898616 TGGTACGGTA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
82 27 0.39
83 6 0.09
84 1 0.01
85 36 0.51
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (82 bp):
ATGAGATTACGTGTAAGACCATAGCTGGGATATGGCATATATGAGATTACATGTAAGACCATATC
TGAGATATGGCATCGAT
Found at i:32906500 original size:12 final size:12
Alignment explanation
Indices: 32906483--32906507 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32906473 ACTTAATCAC
32906483 TTTAATATTAAA
1 TTTAATATTAAA
32906495 TTTAATATTAAA
1 TTTAATATTAAA
32906507 T
1 T
32906508 CTTATTAAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:32906603 original size:11 final size:11
Alignment explanation
Indices: 32906546--32906603 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
32906536 CAAGATAAAT
32906546 TTAATTTAATA
1 TTAATTTAATA
32906557 TTAAGTTTAATA
1 TTAA-TTTAATA
32906569 CTT-ATCTTAATA
1 -TTAAT-TTAATA
*
32906581 GT-ATTT--TA
1 TTAATTTAATA
32906589 TTAATTTAATA
1 TTAATTTAATA
32906600 TTAA
1 TTAA
32906604 GATAATCACT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
8 3 0.08
9 4 0.10
10 2 0.05
11 14 0.36
12 14 0.36
13 2 0.05
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (11 bp):
TTAATTTAATA
Found at i:32906642 original size:25 final size:26
Alignment explanation
Indices: 32906587--32906642 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
32906577 AATAGTATTT
*
32906587 TATTAATTTAATATTAAGATAATCAC
1 TATTAATTTAATATTAAGAAAATCAC
*
32906613 T-TTAATATTAA-ATTAATAAAAT-AC
1 TATTAAT-TTAATATTAAGAAAATCAC
32906637 TATTAA
1 TATTAA
32906643 GATAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 3 0.12
25 18 0.69
26 5 0.19
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (26 bp):
TATTAATTTAATATTAAGAAAATCAC
Found at i:32906660 original size:20 final size:19
Alignment explanation
Indices: 32906635--32906672 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
32906625 TTAATAAAAT
*
32906635 ACTATTAAGATAAGTATTAA
1 ACTATTAAAATAA-TATTAA
32906655 ACTATTAAAATAATATTA
1 ACTATTAAAATAATATTA
32906673 TTTTTGGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (19 bp):
ACTATTAAAATAATATTAA
Found at i:32909132 original size:46 final size:45
Alignment explanation
Indices: 32908999--32909214 Score: 155
Period size: 46 Copynumber: 4.6 Consensus size: 45
32908989 GGTGGTATGT
* * ** *
32908999 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATCATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTGA-GATGA
* * * * * * * *
32909045 GTGCCAGTGCAAGACATGACTGGGAAATACATCGGTA-TTGAGACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-G-ACCTGAGATGA
*
32909091 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTTGAGATATA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACC-TGAGAT-GA
* * * *
32909138 CAAGCTAGTGTAAGACCTGTTTGGGACATGGCATCGACACCGATAGATGA
1 -GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGAC-CTG--AGATGA
* *
32909188 GAGCTAGTGTAAGACCTGTCTAGGACA
1 GAGCTAGTGTAAGACATGTCTGGGACA
32909215 CGACGTTGAC
Statistics
Matches: 132, Mismatches: 28, Indels: 17
0.75 0.16 0.10
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 63 0.48
47 3 0.02
48 25 0.19
49 33 0.25
50 2 0.02
51 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTGAGATGA
Found at i:32909194 original size:49 final size:48
Alignment explanation
Indices: 32909084--32909214 Score: 149
Period size: 49 Copynumber: 2.7 Consensus size: 48
32909074 CATCGGTATT
* * *
32909084 GAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTTGA
1 GAGATGAGAGCTAGTGTAAGACCTGTCTGGGACATGCATCGACCTCGA
* * *
32909132 GATAT-ACAAGCTAGTGTAAGACCTGTTTGGGACATGGCATCGACAC-CGA
1 GAGATGA-GAGCTAGTGTAAGACCTGTCTGGGACAT-GCATCGAC-CTCGA
* *
32909181 TAGATGAGAGCTAGTGTAAGACCTGTCTAGGACA
1 GAGATGAGAGCTAGTGTAAGACCTGTCTGGGACA
32909215 CGACGTTGAC
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
47 1 0.01
48 28 0.41
49 37 0.54
50 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (48 bp):
GAGATGAGAGCTAGTGTAAGACCTGTCTGGGACATGCATCGACCTCGA
Found at i:32909395 original size:31 final size:31
Alignment explanation
Indices: 32909360--32909422 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
32909350 AAAGTGAGAA
32909360 AAGTTATGACCATGTGGTGAGTGGTACAGGT
1 AAGTTATGACCATGTGGTGAGTGGTACAGGT
32909391 AAGTTATGACCATGTGGTGAGTGGTACAGGT
1 AAGTTATGACCATGTGGTGAGTGGTACAGGT
32909422 A
1 A
32909423 CCTACTTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.10, G:0.35, T:0.29
Consensus pattern (31 bp):
AAGTTATGACCATGTGGTGAGTGGTACAGGT
Found at i:32911554 original size:40 final size:40
Alignment explanation
Indices: 32911461--32911675 Score: 217
Period size: 40 Copynumber: 5.4 Consensus size: 40
32911451 AAGCCAAGTA
* * * *
32911461 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * * *
32911499 CCTTCGGGACATAGCCCGGATATAGTTACTCGCACCATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
32911539 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
32911579 CCTTCAGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
32911619 CCTTCGAGACTTAGCCCGGA-ACTAGTCACTAGCGTA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
32911660 CCTTCGGGACTT-GCCC
1 CCTTCGGGACTTAGCCC
32911676 CGGTTATCAT
Statistics
Matches: 149, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
38 12 0.08
39 17 0.11
40 101 0.68
41 16 0.11
42 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:32932330 original size:15 final size:15
Alignment explanation
Indices: 32932306--32932337 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32932296 TATGCATGCA
*
32932306 AAATATAAAAGACAT
1 AAATACAAAAGACAT
32932321 AAATACAAAAGACAT
1 AAATACAAAAGACAT
32932336 AA
1 AA
32932338 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:32933269 original size:69 final size:66
Alignment explanation
Indices: 32933075--32933269 Score: 187
Period size: 69 Copynumber: 2.9 Consensus size: 66
32933065 AAGAGGTTTA
* * *
32933075 AGGTGTAAGACCATAGCTCGACTATGGTAACCAATGA-AGT-CTGCAATGACATTAAACATAGGG
1 AGGTGTAAGACCATAGCTTGACTATGGCAACCAAT-ATAGTCCT-CAA-GACATTAAACACAGGG
32933138 TTAT
63 TTAT
* * * * * * * ** *
32933142 ATGGTGTAAGACCACAGCTTGGCTATGACAACCAGTATAGTCCACCGAGAAAGAAAACACGGGGA
1 A-GGTGTAAGACCATAGCTTGACTATGGCAACCAATATAGTCC-TCAAGACATTAAACACAGGG-
32933207 TTAT
63 TTAT
32933211 GAGGTGTAAGACCATAGCTTGACTATGGCAACCAATATAGTCCTCTAAGACATTAAACA
1 -AGGTGTAAGACCATAGCTTGACTATGGCAACCAATATAGTCCTC-AAGACATTAAACA
32933270 AGAAACCTGA
Statistics
Matches: 99, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
67 2 0.02
68 43 0.43
69 53 0.54
70 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (66 bp):
AGGTGTAAGACCATAGCTTGACTATGGCAACCAATATAGTCCTCAAGACATTAAACACAGGGTTA
T
Found at i:32943957 original size:30 final size:31
Alignment explanation
Indices: 32943901--32943962 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 31
32943891 TAAGCACATG
32943901 ATGAAAAGAAGAATCCAACACTAGG-AATAA
1 ATGAAAAGAAGAATCCAACACTAGGAAATAA
* * *
32943931 ATGAAAGGAAGAATGCAAGTAC-AGGAAATAA
1 ATGAAAAGAAGAATCCAA-CACTAGGAAATAA
32943962 A
1 A
32943963 GAGTTCGCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.56, C:0.10, G:0.21, T:0.13
Consensus pattern (31 bp):
ATGAAAAGAAGAATCCAACACTAGGAAATAA
Found at i:32961851 original size:43 final size:43
Alignment explanation
Indices: 32961678--32961839 Score: 261
Period size: 43 Copynumber: 3.8 Consensus size: 43
32961668 CATGAAAAAT
32961678 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * *
32961721 TGGTGATGTGTATTCGAGCCTTCATGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* *
32961764 CGGTGATGTGTATTCGGGCTTTCGTGCTTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* *
32961807 CGGTGTTGTGTATTCGGGTCTTCGTGCCTAGCA
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCA
32961840 AGTTTAATGC
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.10, C:0.23, G:0.33, T:0.33
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:32962108 original size:28 final size:27
Alignment explanation
Indices: 32962013--32962109 Score: 77
Period size: 29 Copynumber: 3.4 Consensus size: 27
32962003 ATGATTAGAG
* *
32962013 GCACTGTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCAAGTT-C-TTAACCGA
* * **
32962042 GCACTATGTGTGCAAGATCGGTAATTGA
1 GCACTATGTGTGCAAGTTC-TTAACCGA
* *
32962070 GGCACTGTGTGTGCGAGTTCTTCAACCGA
1 -GCACTATGTGTGCAAGTTCTT-AACCGA
32962099 GCACTATGTGT
1 GCACTATGTGT
32962110 ACGAGATCGG
Statistics
Matches: 52, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
28 17 0.33
29 35 0.67
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (27 bp):
GCACTATGTGTGCAAGTTCTTAACCGA
Found at i:32962108 original size:57 final size:58
Alignment explanation
Indices: 32962010--32962120 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 58
32962000 CGAATGATTA
* *
32962010 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCAAGATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCCTTCAACCGAGCACTATGTGTACAAGATCGGTAATT
* * *
32962068 GAGGCACTGTGTGTGCGAGTT-CTTCAACCGAGCACTATGTGTACGAGATCGGT
1 GAGGCACTGTGTGTGCAAATTCCTTCAACCGAGCACTATGTGTACAAGATCGGT
32962121 CAGTGGGCAC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 29 0.60
58 19 0.40
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCAAATTCCTTCAACCGAGCACTATGTGTACAAGATCGGTAATT
Found at i:32981982 original size:115 final size:120
Alignment explanation
Indices: 32981759--32981998 Score: 298
Period size: 115 Copynumber: 2.0 Consensus size: 120
32981749 CGGAATTTAA
** *
32981759 CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATG
1 CCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
* *
32981824 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTC-GG-CTTAGC
66 CCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGC
* *
32981877 CCGGAT-TAG-TACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAAT
1 CCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAAT
** * *
32981938 GCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
65 GCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGC
32981994 CCGGA
1 CCGGA
32981999 CATCATTCAA
Statistics
Matches: 106, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
114 4 0.04
115 52 0.49
116 30 0.28
117 14 0.13
118 6 0.06
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (120 bp):
CCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
CCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGC
Found at i:32981998 original size:40 final size:39
Alignment explanation
Indices: 32981759--32981998 Score: 278
Period size: 40 Copynumber: 6.1 Consensus size: 39
32981749 CGGAATTTAA
** *
32981759 CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
* *
32981799 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
*
32981839 CCGGATTTAGTAACTCGCACAAATGCCTTC-GG-CTTAGC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
32981877 CCGGAT-TAGTACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
*
32981914 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTA-CTCGCACAAATGCCTTCGGGA-CTTAGC
* *
32981954 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGC
32981994 CCGGA
1 CCGGA
32981999 CATCATTCAA
Statistics
Matches: 177, Mismatches: 12, Indels: 22
0.84 0.06 0.10
Matches are distributed among these distances:
36 18 0.10
37 17 0.10
38 18 0.10
39 20 0.11
40 91 0.51
41 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:32987940 original size:79 final size:79
Alignment explanation
Indices: 32987829--32988052 Score: 274
Period size: 79 Copynumber: 2.8 Consensus size: 79
32987819 GCTACTCGTT
* * *
32987829 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
32987894 ATTTAGTAACTCATA
65 AATTAGTAACTCACA
*
32987909 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
32987972 AATTAGTATCTCGCA
65 AATTAGTAACTCACA
* * * * *
32987987 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
32988051 GA
64 GA
32988053 CATCATTCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 34 0.27
79 57 0.46
80 34 0.27
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCACA
Found at i:32987951 original size:39 final size:40
Alignment explanation
Indices: 32987829--32988052 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
32987819 GCTACTCGTT
* *
32987829 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * **
32987869 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCATA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
32987909 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
32987948 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
32987987 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
32988028 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32988053 CATCATTCAA
Statistics
Matches: 162, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 72 0.44
40 75 0.46
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:32990966 original size:23 final size:23
Alignment explanation
Indices: 32990936--32990980 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
32990926 TGAATAGTAA
32990936 TTGTTATAAATTATCTAAAAATT
1 TTGTTATAAATTATCTAAAAATT
32990959 TTGTTATAAATTATCTAAAAAT
1 TTGTTATAAATTATCTAAAAAT
32990981 GTTCTAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (23 bp):
TTGTTATAAATTATCTAAAAATT
Found at i:32998369 original size:49 final size:47
Alignment explanation
Indices: 32998148--32998506 Score: 549
Period size: 47 Copynumber: 7.6 Consensus size: 47
32998138 CCCTTCGGGA
* * * * * *
32998148 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
32998194 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
32998242 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32998289 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32998336 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
32998385 CTTATCACATATATGTACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATA--TACACTTTCACATTCATCACATCGGCCATTAGGC
32998434 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
32998481 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
32998507 CACAGTTATC
Statistics
Matches: 289, Mismatches: 18, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
46 2 0.01
47 193 0.67
48 2 0.01
49 92 0.32
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:32998382 original size:96 final size:94
Alignment explanation
Indices: 32998148--32998506 Score: 549
Period size: 96 Copynumber: 3.8 Consensus size: 94
32998138 CCCTTCGGGA
* * * * * * *
32998148 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATACA
32998212 CTTTCACATTCATCACATCGGCCATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
* *
32998242 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
32998307 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
32998336 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA--T
* *
32998401 ACACTTTCACATTCATCACATTGGCCATTCGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
32998434 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
32998499 ATTCACAT
66 TTTCACAT
32998507 CACAGTTATC
Statistics
Matches: 245, Mismatches: 15, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
94 100 0.41
95 2 0.01
96 103 0.42
98 40 0.16
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:33002929 original size:43 final size:43
Alignment explanation
Indices: 33002879--33003067 Score: 258
Period size: 43 Copynumber: 4.4 Consensus size: 43
33002869 TATCCCTGAT
* * * * *
33002879 ATGGTCTTACATGTTATCAC-ATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACACGTAATCACAATA-CAATACCAATGTCCCAGAC
* *
33002922 AGGGTCTTACACG-AATCA-ATATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACA-ATACAATACCAATGTCCCAGAC
*
33002964 ATGGCCTTACACGTAATCACAATACAATACCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACAATACAATACCAATGTCCCAGAC
33003007 ATGGTCTTACACGTAATCACAATACAATACCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACAATACAATACCAATGTCCCAGAC
*
33003050 ATAGTCTTACACGTAATC
1 ATGGTCTTACACGTAATC
33003068 GCAACTCGAT
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
42 32 0.24
43 99 0.75
44 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.25
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACAATACAATACCAATGTCCCAGAC
Found at i:33003002 original size:85 final size:86
Alignment explanation
Indices: 33002860--33003067 Score: 262
Period size: 85 Copynumber: 2.4 Consensus size: 86
33002850 ATAAGCTCAA
* * * * * * * *
33002860 ACAATGCC-ATATCCCTGATATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAG
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCAATACCAATGTCCCAGACAG
33002924 GGTCTTACACG-AATCA-ATAT
66 GGTCTTACACGTAATCACA-AT
*
33002944 ACAATGCCAATGTCCCAGACATGGCCTTACACGTAATCACA-ATACAATACCAATGTCCCAGACA
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT-CAATACCAATGTCCCAGACA
*
33003008 TGGTCTTACACGTAATCACAAT
65 GGGTCTTACACGTAATCACAAT
* *
33003030 ACAATACCAATGTCCCAGACATAGTCTTACACGTAATC
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC
33003068 GCAACTCGAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
84 10 0.09
85 54 0.50
86 42 0.39
87 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (86 bp):
ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCAATACCAATGTCCCAGACAG
GGTCTTACACGTAATCACAAT
Found at i:33005948 original size:42 final size:42
Alignment explanation
Indices: 33005831--33005957 Score: 157
Period size: 43 Copynumber: 3.0 Consensus size: 42
33005821 CTCAGTACTG
* * * **
33005831 TATCAATGTCATATCCCAGATATGGTCTTACATGTAATCTTG
1 TATCGATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
*
33005873 TATCGATGCCAATAGCCCAGATATGGTCTTACACG-AAGTCTCA
1 TATCGATGCC-ATATCCCAGATATGGTCTTACACGTAA-TCTCA
* *
33005916 TATCGATGCCATATCCCAAATATGGTCCTACACGTAATCTCA
1 TATCGATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
33005958 GTAACTCTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 36 0.49
43 37 0.51
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (42 bp):
TATCGATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
Found at i:33010284 original size:25 final size:25
Alignment explanation
Indices: 33010253--33010320 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
33010243 AACTAAAATT
* *
33010253 AGAATCAAAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGGTAAC
*
33010278 AGAATCAGAATCAGAATCAGGTAAC
1 AGAATCAAAATCAGAATCAGGTAAC
33010303 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
33010321 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
25 28 0.74
26 10 0.26
ACGTcount: A:0.51, C:0.13, G:0.18, T:0.18
Consensus pattern (25 bp):
AGAATCAAAATCAGAATCAGGTAAC
Found at i:33010758 original size:27 final size:27
Alignment explanation
Indices: 33010728--33010816 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
33010718 GGGGCAAAAT
* *
33010728 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
33010755 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
33010782 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
33010809 GGTAATTT
1 GGTAATTT
33010817 CACAAATCAG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.06
27 46 0.87
28 4 0.08
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:33010858 original size:54 final size:54
Alignment explanation
Indices: 33010797--33010939 Score: 144
Period size: 54 Copynumber: 2.6 Consensus size: 54
33010787 TTCTACCCTA
*
33010797 CAAGGGTATTTTGGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTCACAAATCGA-GGGTATTTGGGTAATTTTACAAAC
* * * *** **
33010851 CAGGGGTATTTTGGTCATTTTATTGATCGAGGGTATTTGGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTCACAAATCGAGGGTATTTGGGTAATTTTACAAAC
** ***
33010905 CAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTA
1 CAAGGGTATTTTGGTAATTTCACAAATCGAGGGTA
33010940 AAATGGTAAT
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
54 71 0.99
55 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTCACAAATCGAGGGTATTTGGGTAATTTTACAAAC
Found at i:33010871 original size:27 final size:27
Alignment explanation
Indices: 33010800--33010925 Score: 119
Period size: 27 Copynumber: 4.7 Consensus size: 27
33010790 TACCCTACAA
* *
33010800 GGGTATTTTGGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
33010827 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *** *
33010854 GGGTATTTTGGTCATTTTATTGATC-G
1 GGGTATTTTGGTAATTTTACAAACCAG
* ** *
33010880 AGGGTATTTGGGTAATTTTGTAAACCAA
1 -GGGTATTTTGGTAATTTTACAAACCAG
**
33010908 GGGTATTTCAGTAATTTT
1 GGGTATTTTGGTAATTTT
33010926 GTAAATCGAG
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.01
27 80 0.99
ACGTcount: A:0.26, C:0.09, G:0.24, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:33010926 original size:27 final size:27
Alignment explanation
Indices: 33010880--33010939 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
33010870 TTATTGATCG
**
33010880 AGGGTATTTGGGTAATTTTGTAAACCA
1 AGGGTATTTCAGTAATTTTGTAAACCA
* *
33010907 AGGGTATTTCAGTAATTTTGTAAATCG
1 AGGGTATTTCAGTAATTTTGTAAACCA
33010934 AGGGTA
1 AGGGTA
33010940 AAATGGTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTGTAAACCA
Found at i:33010995 original size:27 final size:26
Alignment explanation
Indices: 33010965--33011051 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
33010955 CTTATTTCAT
* *
33010965 TAATTGTACAAATCGAGGATATTTGGG
1 TAATTTTACAAATCGAGGGTATTT-GG
* *
33010992 TAATTTTATAAATCGGGGGTACTTTGG
1 TAATTTTACAAATCGAGGGTA-TTTGG
* *
33011019 TAATTTTACAAGTCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTT-GG
33011046 TAATTT
1 TAATTT
33011052 GGTAAACTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.06
27 44 0.88
28 3 0.06
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (26 bp):
TAATTTTACAAATCGAGGGTATTTGG
Found at i:33012213 original size:567 final size:565
Alignment explanation
Indices: 33011156--33012843 Score: 2956
Period size: 567 Copynumber: 3.0 Consensus size: 565
33011146 TAGCCCAAAT
*
33011156 CTAGCCACAGATATGCGATTCACCTAGCCCAGTCCAATATTTACTACACAATCAAACAACTTATC
1 CTAGCCACAGATATGAGATTCACCTAGCCCAGTCCAATATTTACTACACAATCAAACAACTTATC
33011221 CAATTGGGCCC---A---CA-TGG----C----CCCTTTCGGCCCATCGCGGCCCGAAGTAGCCA
66 CAATTGGGCCCGTAAGCCCATTGGCCCACATGGCCCTTTCGGCCCATCGCGGCCCGAAGTAGCCA
* *
33011271 TCCTACAGCTAGAGTAGTAAGAAATACACACCTAATTGGAGACTGGAGTTAATCCACGCTCTGAG
131 TCCTACAGCTAGAGTAGTGAGAAATACACACCTAATTGGAGACTGGAGTTAATCCACGCTCCGAG
*
33011336 CACTCTTAGCCGACGCCCAACCCAAACGAGTACGCCATAAAGTGAAAGGGATCAGCCAAGAAAGG
196 CACTCTTAGCCGACGCCCAACCCAAACGAGCACGCCATAAAGTGAAAGGGATCAGCCAAGAAAGG
*
33011401 TACCTTACTCTCCTCATGGTTCTCTCTATTTAAAGCCAGCTTCGCATCCACTTTTATGTTAGCTT
261 TACCTTACTCTCCTCATGGTTCTCTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGCTT
* * *
33011466 CCCAATATGGGATCCCTCCATCATCAGACTTTAAATTCAACACCAACTCTTGCCACCCCCTGTTA
326 CCCGATGTGGGATCCCTCCATCATCAGACTTTAAATTCAACACCAACTCTTGCCGCCCCCTGTTA
*
33011531 GCAAAATAAATGCTCTTTGCTTGCCATAGGATTCGAACCCATGCCTCCCCTCAGATGCTCCATAC
391 GCAAAATAAATGCTCTTTGCTTGCCATAGGATTCGAACCCATGCCTCCCCTCAGATGCTCCACAC
* * *
33011596 ACTACTTGCCACTAAGCTACAAGGCTTTTTTTGTCACAATTTCTCCAACAATATTCTTAAGGCCT
456 GCTACTTGCCACTAAGCCACAAGGCTTTTTGTGTCACAATTTCTCCAACAATATTCTTAAGGCCT
* ** *
33011661 GCCTACTACACTAAGGGTTTGATTCACTTTAAACCAAAATTTTTG
521 ACCTACTACACCCAGGGTTTGATTCACTTTAAACCAAAATTTTTA
33011706 CTAGCCACAGATATGAGATTCACCTAGCCCAGTCCAATATTTACTACACAATCAAACAACTTATC
1 CTAGCCACAGATATGAGATTCACCTAGCCCAGTCCAATATTTACTACACAATCAAACAACTTATC
*
33011771 CAATTGGGCCCGTAAGCCCATTAGGCCCACATGGCCCTTTTCGGCCCATCACGGCCCGAAGTAGC
66 CAATTGGGCCCGTAAGCCCATT-GGCCCACATGGCCC-TTTCGGCCCATCGCGGCCCGAAGTAGC
33011836 CATCCTACAGCTAGAGTAGTGAGAAATACACACCTAATTGGAGACTGGAGTTAATCCACGCTCCG
129 CATCCTACAGCTAGAGTAGTGAGAAATACACACCTAATTGGAGACTGGAGTTAATCCACGCTCCG
33011901 AGCACTCTTAGCCGACGCCCAACCCAAACGAGCACGCCATAAAGTGAAAGGGATCAGCCAAGAAA
194 AGCACTCTTAGCCGACGCCCAACCCAAACGAGCACGCCATAAAGTGAAAGGGATCAGCCAAGAAA
*
33011966 GGTACCTTACTCTCCTCATAGTTCTCTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGC
259 GGTACCTTACTCTCCTCATGGTTCTCTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGC
33012031 TTCCCGATGTGGGATCCCTCCATCATCAGACTTTAAATTCAACACCAACTCTTGCCGCCCCCTGT
324 TTCCCGATGTGGGATCCCTCCATCATCAGACTTTAAATTCAACACCAACTCTTGCCGCCCCCTGT
* *
33012096 TAGCAAAATAAATGCTCTTTGCTTTCCATAGGATTTGAACCCATGCCTCCCCTCAGATGCTCCAC
389 TAGCAAAATAAATGCTCTTTGCTTGCCATAGGATTCGAACCCATGCCTCCCCTCAGATGCTCCAC
33012161 ACGCTACTTGCCACTAAGCCACAAGGCTTTTTGTGTCACAATTTCTCCAACAATATTCTTAAGGC
454 ACGCTACTTGCCACTAAGCCACAAGGCTTTTTGTGTCACAATTTCTCCAACAATATTCTTAAGGC
** *
33012226 CTACCTACTACACCCAGGGTTTGATTCACTTTAAACCAATTTTTTTC
519 CTACCTACTACACCCAGGGTTTGATTCACTTTAAACCAAAATTTTTA
33012273 CTAGCCACAGATATGAGATTCACCTAGCCCAGTCCAATATTTACTACACAATCAAACAACTTATC
1 CTAGCCACAGATATGAGATTCACCTAGCCCAGTCCAATATTTACTACACAATCAAACAACTTATC
* *
33012338 CAATTGGGCCCGTAGGCCCATTGGGCCCACATGGCCCCTTTCGGCCCATCGTGGCCCGAAGTAGC
66 CAATTGGGCCCGTAAGCCCATT-GGCCCACATGG-CCCTTTCGGCCCATCGCGGCCCGAAGTAGC
*
33012403 CATCCTACAGCTAGAGTAGTGAGAAATACACACCTGATTGGAGACTGGAGTTAATCCACGCTCCG
129 CATCCTACAGCTAGAGTAGTGAGAAATACACACCTAATTGGAGACTGGAGTTAATCCACGCTCCG
33012468 AGCACTCTTAGCCGACGCCCAACCCAAACGAGCACGCCATAAAGTGAAAGGGATCAGCCAAGAAA
194 AGCACTCTTAGCCGACGCCCAACCCAAACGAGCACGCCATAAAGTGAAAGGGATCAGCCAAGAAA
*
33012533 GGTACCTTACTCTCCTCATGGTTCTCTCTATTTAAAGCTAGCTTCGCATCCACTCTTATGTTAGC
259 GGTACCTTACTCTCCTCATGGTTCTCTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGC
* *
33012598 TTCCCGATGTGGGATCCCTCTATCATCAGACTTTAAATTCAACACCAACTCTTGACGCCCCCTGT
324 TTCCCGATGTGGGATCCCTCCATCATCAGACTTTAAATTCAACACCAACTCTTGCCGCCCCCTGT
* *
33012663 TAGCTAAATAAATGCTCTTTGCATGCCATAGGATTCGAACCCATGCCTCCCCTCAGATGCTCCAC
389 TAGCAAAATAAATGCTCTTTGCTTGCCATAGGATTCGAACCCATGCCTCCCCTCAGATGCTCCAC
33012728 ACGCTACTTGCCACTAAGCCACAAGGCTTTTTGTGTCACAATTTCTCCAACAATATTCTTAAGGC
454 ACGCTACTTGCCACTAAGCCACAAGGCTTTTTGTGTCACAATTTCTCCAACAATATTCTTAAGGC
33012793 CTACCTACTACACCCAGGGTTTGATTCACTTTAAACCAAAATTTTTA
519 CTACCTACTACACCCAGGGTTTGATTCACTTTAAACCAAAATTTTTA
33012840 CTAG
1 CTAG
33012844 AGTCCAGGTT
Statistics
Matches: 1082, Mismatches: 38, Indels: 19
0.95 0.03 0.02
Matches are distributed among these distances:
550 75 0.07
553 1 0.00
556 2 0.00
557 1 0.00
558 2 0.00
562 1 0.00
566 3 0.00
567 994 0.92
568 3 0.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (565 bp):
CTAGCCACAGATATGAGATTCACCTAGCCCAGTCCAATATTTACTACACAATCAAACAACTTATC
CAATTGGGCCCGTAAGCCCATTGGCCCACATGGCCCTTTCGGCCCATCGCGGCCCGAAGTAGCCA
TCCTACAGCTAGAGTAGTGAGAAATACACACCTAATTGGAGACTGGAGTTAATCCACGCTCCGAG
CACTCTTAGCCGACGCCCAACCCAAACGAGCACGCCATAAAGTGAAAGGGATCAGCCAAGAAAGG
TACCTTACTCTCCTCATGGTTCTCTCTATTTAAAGCCAGCTTCGCATCCACTCTTATGTTAGCTT
CCCGATGTGGGATCCCTCCATCATCAGACTTTAAATTCAACACCAACTCTTGCCGCCCCCTGTTA
GCAAAATAAATGCTCTTTGCTTGCCATAGGATTCGAACCCATGCCTCCCCTCAGATGCTCCACAC
GCTACTTGCCACTAAGCCACAAGGCTTTTTGTGTCACAATTTCTCCAACAATATTCTTAAGGCCT
ACCTACTACACCCAGGGTTTGATTCACTTTAAACCAAAATTTTTA
Found at i:33014134 original size:6 final size:6
Alignment explanation
Indices: 33014125--33014187 Score: 56
Period size: 6 Copynumber: 10.3 Consensus size: 6
33014115 TATTAGAACT
* * *
33014125 AGAATC AGAATC AGAATC AGAATT AG-GTGAC GGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
33014174 AGTATC AGTATC AG
1 AGAATC AGAATC AG
33014188 GTAACAGAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
5 1 0.02
6 44 0.94
7 1 0.02
8 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:33014167 original size:37 final size:37
Alignment explanation
Indices: 33014125--33014199 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
33014115 TATTAGAACT
* * *
33014125 AGAATCAGAATCAGAATCAGAATTAGGTGACGGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
* *
33014162 AGAATCAGAATCAGTATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
33014199 A
1 A
33014200 AAAATTAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:33014648 original size:27 final size:27
Alignment explanation
Indices: 33014618--33014733 Score: 162
Period size: 27 Copynumber: 4.3 Consensus size: 27
33014608 GGGGCAAAAT
* *
33014618 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
33014645 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
33014672 GAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
33014699 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
33014726 GGTAATTT
1 GGTAATTT
33014734 CATAAATTAG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 3 0.04
27 71 0.92
28 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:33014747 original size:27 final size:27
Alignment explanation
Indices: 33014717--33014787 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
33014707 TACCCTACAA
* * **
33014717 GGGTATTTCGGTAATTTCATAAATTAG
1 GGGTATTTTGGTAATTTCACAAACCAG
*
33014744 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTCACAAACCAG
*
33014771 GGGTATTTTGGTCATTT
1 GGGTATTTTGGTAATTT
33014788 TATTGATCGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.25, C:0.08, G:0.24, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTCACAAACCAG
Found at i:33014775 original size:54 final size:54
Alignment explanation
Indices: 33014714--33014856 Score: 135
Period size: 54 Copynumber: 2.6 Consensus size: 54
33014704 TTCTACCCTA
* *
33014714 CAAGGGTATTTCGGTAATTTCATAAATTAG-GGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTCATAAA-TAGAGGGTATGTGGGTAATTTTACAAAC
* * * * ** * **
33014768 CAGGGGTATTTTGGTCATTTTATTGATCGAGGGTATGTGGGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTCATAAATAGAGGGTATGTGGGTAATTTTACAAAC
* ** *
33014822 CAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTA
1 CAAGGGTATTTCGGTAATTTCATAAATAGAGGGTA
33014857 AAATGGTAAT
Statistics
Matches: 70, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
53 2 0.03
54 68 0.97
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTCGGTAATTTCATAAATAGAGGGTATGTGGGTAATTTTACAAAC
Found at i:33014827 original size:27 final size:27
Alignment explanation
Indices: 33014797--33014856 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
33014787 TTATTGATCG
**
33014797 AGGGTATGTGGGTAATTTTGTAAACCA
1 AGGGTATGTCAGTAATTTTGTAAACCA
* * *
33014824 AGGGTATTTCAGTAATTTTGTAAATCG
1 AGGGTATGTCAGTAATTTTGTAAACCA
33014851 AGGGTA
1 AGGGTA
33014857 AAATGGTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (27 bp):
AGGGTATGTCAGTAATTTTGTAAACCA
Found at i:33014904 original size:27 final size:27
Alignment explanation
Indices: 33014874--33014968 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 27
33014864 AATTCTATTT
*
33014874 TATTTTAGTAATTTTACAAATCGAGGA
1 TATTTTAGTAATTTTACAAATCGAGGG
** * *
33014901 TATTTGGGTAATTTTATAAATCGGGGG
1 TATTTTAGTAATTTTACAAATCGAGGG
* * *
33014928 TACTTTGGTAATTTTACAAGTCGAGGG
1 TATTTTAGTAATTTTACAAATCGAGGG
*
33014955 TATTTCAGTAATTT
1 TATTTTAGTAATTT
33014969 GGTAAACTAA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
TATTTTAGTAATTTTACAAATCGAGGG
Found at i:33026450 original size:18 final size:18
Alignment explanation
Indices: 33026396--33026450 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
33026386 GGACTTGCAT
* *
33026396 ACTGCTTACTGTTACTGT
1 ACTGTTTACTGTTACTGC
*
33026414 ACTGTTTACTGTTATTGC
1 ACTGTTTACTGTTACTGC
*
33026432 ACTGTTTACTGTTGCTGC
1 ACTGTTTACTGTTACTGC
33026450 A
1 A
33026451 ATGGGCCAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.45
Consensus pattern (18 bp):
ACTGTTTACTGTTACTGC
Found at i:33031641 original size:30 final size:31
Alignment explanation
Indices: 33031562--33031644 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
33031552 TCAGTCTCGG
* *
33031562 CATAT-ACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
33031592 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
*
33031623 CATATCACT-GGTCGAAGCCTTT
1 CATATCACTAGGCCGAAGCCTTT
33031645 ACTGTAAGTG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 17 0.35
31 32 0.65
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTTTTCATAAAT
Found at i:33031892 original size:25 final size:25
Alignment explanation
Indices: 33031864--33031933 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
33031854 CTCTTTTAAT
*
33031864 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
33031889 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
33031914 AACTGGGGCATAA-CCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
33031934 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 40 0.95
26 2 0.05
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:33032804 original size:27 final size:26
Alignment explanation
Indices: 33032743--33032806 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
33032733 GGGCATATTC
33032743 GTCATTTTACCATACAGGGGTATACG
1 GTCATTTTACCATACAGGGGTATACG
* * *
33032769 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGG-TATACG
*
33032796 GTCTTTTTACC
1 GTCATTTTACC
33032807 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 18 0.56
27 14 0.44
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (26 bp):
GTCATTTTACCATACAGGGGTATACG
Found at i:33032808 original size:26 final size:25
Alignment explanation
Indices: 33032743--33032818 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 25
33032733 GGGCATATTC
33032743 GTCATTTTACCATACAGGGGTATACG
1 GTCATTTTACC-TACAGGGGTATACG
* *
33032769 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTA-CCTACAGGGG-TATACG
* *
33032796 GTCTTTTTACCTATTAGGGGTAT
1 GTCATTTTACCTA-CAGGGGTAT
33032819 TTTAGTCATT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
26 22 0.54
27 19 0.46
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (25 bp):
GTCATTTTACCTACAGGGGTATACG
Found at i:33032890 original size:27 final size:27
Alignment explanation
Indices: 33032864--33032993 Score: 111
Period size: 27 Copynumber: 4.7 Consensus size: 27
33032854 ATCTACAAAC
*
33032864 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* *
33032891 CAATGGCATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
*
33032920 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
33032947 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
**
33032974 TGAGGGTATTTCAGTAATTT
1 CAAGGGTATTTCAGTAATTT
33032994 CACAAACCAG
Statistics
Matches: 81, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.01
27 55 0.68
28 7 0.09
29 17 0.21
30 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:33032965 original size:56 final size:55
Alignment explanation
Indices: 33032857--33033026 Score: 175
Period size: 54 Copynumber: 3.1 Consensus size: 55
33032847 TTGGTAAATC
* * * *
33032857 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGCATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTT-TGGTAATTTT
* * * *
33032912 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
** *** *
33032967 TACAAATTGAGGGTATTTCAGTAATTTCACAAACCAGTTGTATTTTGGTAA-TTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
33033021 TACAAA
1 TACAAA
33033027 CTAGGGGTAT
Statistics
Matches: 95, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
54 45 0.47
55 14 0.15
56 36 0.38
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (55 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
Found at i:33033036 original size:27 final size:26
Alignment explanation
Indices: 33032923--33033046 Score: 115
Period size: 27 Copynumber: 4.6 Consensus size: 26
33032913 AGAAAGTCAA
**
33032923 GGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAAT-AG
*
33032950 GGGTATTTTGGTAATTTTACAAATTG
1 GGGTATTTTGGTAATTTTACAAATAG
** * *
33032976 AGGGTATTTCAGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAA-TAG
**
33033004 TTGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAA-TAG
33033031 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
33033047 CTACCCTATA
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.03
27 75 0.96
28 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAATAG
Found at i:33033114 original size:27 final size:27
Alignment explanation
Indices: 33033078--33033165 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 27
33033068 GTAATTTCAC
* *
33033078 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
33033105 AATCGAGGGTAAAACAATAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* * *
33033132 AATCAAGGGTAACACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
33033159 AATCGAG
1 AATCGAG
33033166 CGTACTTTGG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:33034962 original size:17 final size:17
Alignment explanation
Indices: 33034940--33034978 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
33034930 CATGTCCTGA
33034940 GGCTGTATCCTTCACAC
1 GGCTGTATCCTTCACAC
33034957 GGCTGTATCCTTCACAC
1 GGCTGTATCCTTCACAC
33034974 GGCTG
1 GGCTG
33034979 AGACACACGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.33, G:0.23, T:0.28
Consensus pattern (17 bp):
GGCTGTATCCTTCACAC
Found at i:33042902 original size:18 final size:18
Alignment explanation
Indices: 33042879--33042931 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
33042869 AGGCCGTGTA
33042879 GTCACACACACCCATGTG
1 GTCACACACACCCATGTG
*
33042897 GTCACACA-AGCCCGTGTG
1 GTCACACACA-CCCATGTG
*
33042915 GTCACACACGCCCATGT
1 GTCACACACACCCATGT
33042932 CCCCAGCCCG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 1 0.03
18 29 0.97
ACGTcount: A:0.25, C:0.38, G:0.21, T:0.17
Consensus pattern (18 bp):
GTCACACACACCCATGTG
Found at i:33052557 original size:133 final size:138
Alignment explanation
Indices: 33052382--33052782 Score: 576
Period size: 133 Copynumber: 2.9 Consensus size: 138
33052372 AAGCAAATAT
* *
33052382 AATATCATAATAATATTAAAATAAAGTAATTAAAAATAATACTGTATAT-AA-ATATAT-ATATA
1 AATATAATAA-AATATTAAAATAAAGTAA-TAAAAA-AATACTATATATAAATATATATCATATA
33052444 CATATATAAT-AAAAA-TATACACTAATATTAATAATAATAATGATAATAGTAATAATATTGAAA
63 CATATATAATAAAAAAGTATACACTAATATTAATAATAATAATGATAATA-TAATAATATTGAAA
33052507 TAC-AAAAAGCA
127 TACAAAAAAGCA
33052518 AATATAATAAAATATTAAAATAAAGTAATAAAAAAATACTATATATAAATATATATACATATACA
1 AATATAATAAAATATTAAAATAAAGTAATAAAAAAATACTATATATAAATATATAT-CATATACA
33052583 TATATAATAAAAAAGTATACACTAATA-T-ATAATAAT-A--AT-A-ATAATAATATTGAAATAC
65 TATATAATAAAAAAGTATACACTAATATTAATAATAATAATGATAATATAATAATATTGAAATAC
33052641 AAAAAAGCA
130 AAAAAAGCA
*
33052650 AATATAATAAAAATATTAAAATAAAGTAATAAAAAAATATTATATATAAATATATATGCATATAC
1 AATATAAT-AAAATATTAAAATAAAGTAATAAAAAAATACTATATATAAATATATAT-CATATAC
* *
33052715 ACATATAATAAAAAAGTATACACTAATATATAATAATAATAGTGATAATATTAATAATATTAGAA
64 ATATATAATAAAAAAGTATACACTAATAT-TAATAATAATAATGATAATA-TAATAATATT-GAA
33052780 ATA
126 ATA
33052783 ATAATAATAT
Statistics
Matches: 241, Mismatches: 6, Indels: 29
0.87 0.02 0.11
Matches are distributed among these distances:
131 17 0.07
132 17 0.07
133 93 0.39
134 10 0.04
135 25 0.10
136 18 0.07
137 23 0.10
138 6 0.02
139 14 0.06
140 1 0.00
141 1 0.00
142 10 0.04
143 6 0.02
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (138 bp):
AATATAATAAAATATTAAAATAAAGTAATAAAAAAATACTATATATAAATATATATCATATACAT
ATATAATAAAAAAGTATACACTAATATTAATAATAATAATGATAATATAATAATATTGAAATACA
AAAAAGCA
Found at i:33052771 original size:9 final size:9
Alignment explanation
Indices: 33052738--33052799 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
33052728 AAGTATACAC
*
33052738 TAATATATAA
1 TAATA-ATAT
*
33052748 TAATAATAG
1 TAATAATAT
*
33052757 TGATAATAT
1 TAATAATAT
33052766 TAATAATAT
1 TAATAATAT
*
33052775 TAGA-AATAA
1 TA-ATAATAT
33052784 TAATAATATT
1 TAATAATA-T
33052794 TAATAA
1 TAATAA
33052800 AGAAACGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
8 1 0.02
9 30 0.70
10 12 0.28
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (9 bp):
TAATAATAT
Found at i:33052792 original size:18 final size:18
Alignment explanation
Indices: 33052744--33052793 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
33052734 ACACTAATAT
*
33052744 ATAATAATAATAGTGATA
1 ATAATAATAATATTGATA
*
33052762 ATATTAATAATATTAGA-A
1 ATAATAATAATATT-GATA
33052780 ATAATAATAATATT
1 ATAATAATAATATT
33052794 TAATAAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 26 0.93
19 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
ATAATAATAATATTGATA
Found at i:33054227 original size:45 final size:43
Alignment explanation
Indices: 33054153--33054320 Score: 110
Period size: 51 Copynumber: 3.7 Consensus size: 43
33054143 ATCCGCTCCA
* * *
33054153 CTGCTTCACTACAACTTCAGGGA-ACTAAGATTTGCTATCTTCAGT
1 CTGCTCCACTGCAACTTCAGAGAGA-TAAGATTTG-TATCTTCA-T
*
33054198 CTGCTCCACTGCAACTTCAGAGAGATAAGATCTATAATTTATAGCTTCAAT
1 CTGCTCCACTGCAACTTCAGAGAGATAAGA--T-T--TGTAT--CTTC-AT
* * * * *
33054249 CTGTTCAACTGCAACTTTAGGGAGATAA-AGTTTGT-T-TTGAT
1 CTGCTCCACTGCAACTTCAGAGAGATAAGA-TTTGTATCTTCAT
*
33054290 CTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 CTGCTCCACTGCAACTTCAGAGAGATAAGAT
33054321 CTATGATTTA
Statistics
Matches: 98, Mismatches: 15, Indels: 24
0.72 0.11 0.18
Matches are distributed among these distances:
41 27 0.28
42 3 0.03
45 26 0.27
46 3 0.03
47 1 0.01
48 2 0.02
49 4 0.04
50 2 0.02
51 29 0.30
52 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (43 bp):
CTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTATCTTCAT
Found at i:33054260 original size:51 final size:50
Alignment explanation
Indices: 33054191--33054342 Score: 144
Period size: 51 Copynumber: 3.2 Consensus size: 50
33054181 GATTTGCTAT
* *
33054191 CTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATAATTTATAG
1 CTTCAATCTGCTCAACTGCAACTTCAGAGAGATAAGATCTAT-ATTTATAG
* * * *
33054242 CTTCAATCTGTTCAACTGCAACTTTAGGGAGATAA-AGT-T-TGTTT-T-G
1 CTTCAATCTGCTCAACTGCAACTTCAGAGAGATAAGA-TCTATATTTATAG
*
33054288 -----ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTATAG
1 CTTCAATCTGCTCAACTGCAACTTCAGAGAGATAAGATCTAT-ATTTATAG
33054334 CTTCAATCT
1 CTTCAATCT
33054343 ATATATTCGA
Statistics
Matches: 78, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
41 27 0.35
42 2 0.03
43 1 0.01
44 3 0.04
45 1 0.01
46 2 0.03
47 1 0.01
48 3 0.04
49 1 0.01
50 2 0.03
51 35 0.45
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (50 bp):
CTTCAATCTGCTCAACTGCAACTTCAGAGAGATAAGATCTATATTTATAG
Found at i:33054604 original size:64 final size:64
Alignment explanation
Indices: 33054471--33054590 Score: 213
Period size: 64 Copynumber: 1.9 Consensus size: 64
33054461 TAAAAAATTG
* * *
33054471 AAAATACCTTAGTGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAGAAACTA
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAGAAACTA
33054535 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
33054591 TTTTTTGAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (64 bp):
AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAGAAACTA
Found at i:33054721 original size:77 final size:77
Alignment explanation
Indices: 33054525--33054844 Score: 486
Period size: 77 Copynumber: 4.2 Consensus size: 77
33054515 ATATGAGTTG
*
33054525 ATAGAAACTAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 ATAGAAACTAAAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
33054590 TTTTTTTGAAAA
66 TTTTTTTGAAAA
* *
33054602 ATAGAAAATAAAAATACCTCA-CGTGTGACCCAAGGCTCAACTCACCTCTCGTAATATGAGTTGA
1 ATAGAAACTAAAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
33054666 TTTTTTTGAAAA
66 TTTTTTTGAAAA
*
33054678 ATAGAAACTAAAAATACCTCAGTGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 ATAGAAACTAAAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
33054743 TTTTTTTGAAAA
66 TTTTTTTGAAAA
* * * * * * * *
33054755 ACAGAAATTGAAAATACCTCGGTGTGTGACCCGAGGCTCAGCTCACCTCTCGCAACATGAGTTGA
1 ATAGAAACTAAAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
33054820 --TTCTTGAAAA
66 TTTTTTTGAAAA
*
33054830 ACAGAAA-TAAAAATA
1 ATAGAAACTAAAAATA
33054845 TCAGAATACC
Statistics
Matches: 227, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
74 7 0.03
75 16 0.07
76 73 0.32
77 131 0.58
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (77 bp):
ATAGAAACTAAAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTTGAAAA
Found at i:33057046 original size:46 final size:46
Alignment explanation
Indices: 33056996--33057171 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
33056986 TGGTTGAGCA
33056996 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
33057042 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
33057087 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
33057135 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33057172 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:33057152 original size:93 final size:93
Alignment explanation
Indices: 33056993--33057164 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
33056983 GGATGGTTGA
* *
33056993 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33057058 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
33057086 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33057151 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
33057165 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:33069923 original size:134 final size:135
Alignment explanation
Indices: 33069661--33070071 Score: 625
Period size: 135 Copynumber: 3.0 Consensus size: 135
33069651 CAATACTAGC
* *
33069661 AATAATAATGGAATACAAAAAAGCAAATATAATATCATAATAATATTAAAATAAAGTAATTAAAA
1 AATAATATTGAAATACAAAAAAGCAAATA-AA-AT-A-AA-AATATTAAAATAAAGTAA-T-AAA
*
33069726 ATAATACTGTATATAAATATATAT--ATATACATATATAAT-AAAAA-TATACACTAATATTAAT
59 A-AATACTATATATAAATATATATACATATACATATATAATAAAAAAGTATACACTAATA-T-AT
* *
33069787 AATAATGATAATAGT
121 AATAATAATAATAAT
33069802 AATAATATTGAAATAC-AAAAAGCAAATAAAATAAAAATATTAAAATAAAGTAATAAAAAATACT
1 AATAATATTGAAATACAAAAAAGCAAATAAAATAAAAATATTAAAATAAAGTAATAAAAAATACT
33069866 ATATATAAATATATATACATATACATATATAATAAAAAAGTATACACTAATATATAATAATAATA
66 ATATATAAATATATATACATATACATATATAATAAAAAAGTATACACTAATATATAATAATAATA
33069931 ATAAT
131 ATAAT
* *
33069936 AATAATATTGAAATACAAAAAAGAAAATATAATAAAAATATTAAAATAAAGTAATAAAAAATACT
1 AATAATATTGAAATACAAAAAAGCAAATAAAATAAAAATATTAAAATAAAGTAATAAAAAATACT
*
33070001 ATATATAAATATATATACATATACACATATAATAAAAAAGTATACACTAATATATAATAATAATA
66 ATATATAAATATATATACATATACATATATAATAAAAAAGTATACACTAATATATAATAATAATA
33070066 ATAAT
131 ATAAT
33070071 A
1 A
33070072 GTGATAATAT
Statistics
Matches: 257, Mismatches: 8, Indels: 16
0.91 0.03 0.06
Matches are distributed among these distances:
132 21 0.08
133 4 0.02
134 47 0.18
135 140 0.54
136 14 0.05
137 1 0.00
138 2 0.01
139 2 0.01
140 12 0.05
141 14 0.05
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (135 bp):
AATAATATTGAAATACAAAAAAGCAAATAAAATAAAAATATTAAAATAAAGTAATAAAAAATACT
ATATATAAATATATATACATATACATATATAATAAAAAAGTATACACTAATATATAATAATAATA
ATAAT
Found at i:33069927 original size:3 final size:3
Alignment explanation
Indices: 33069913--33069942 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
33069903 AAGTATACAC
33069913 TAA TATA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA
33069943 TTGAAATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:33070062 original size:3 final size:3
Alignment explanation
Indices: 33070048--33070107 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
33070038 AAGTATACAC
* * * *
33070048 TAA TATA TAA TAA TAA TAA TAA TAG TGA TAA TAT TAA TAA TAT TAGA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
33070095 -AA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
33070108 TTTAATAAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 1 0.02
3 42 0.91
4 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:33070108 original size:18 final size:18
Alignment explanation
Indices: 33070057--33070109 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
33070047 CTAATATATA
*
33070057 ATAATAATAATAATAGTG
1 ATAATAATAATAATATTG
*
33070075 ATAATATTAATAATATTAG
1 ATAATAATAATAATATT-G
33070094 A-AATAATAATAATATT
1 ATAATAATAATAATATT
33070110 TAATAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 29 0.94
19 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
ATAATAATAATAATATTG
Found at i:33071196 original size:15 final size:15
Alignment explanation
Indices: 33071160--33071197 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
33071150 GTTTTTTAAT
33071160 TTTGGGTTTAGGTAG
1 TTTGGGTTTAGGTAG
*
33071175 TTGGGGTTTAGGTTA-
1 TTTGGGTTTAGG-TAG
33071190 TTTGGGTT
1 TTTGGGTT
33071198 AGCTTTAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 18 0.90
16 2 0.10
ACGTcount: A:0.11, C:0.00, G:0.39, T:0.50
Consensus pattern (15 bp):
TTTGGGTTTAGGTAG
Found at i:33080352 original size:62 final size:62
Alignment explanation
Indices: 33080257--33080374 Score: 227
Period size: 62 Copynumber: 1.9 Consensus size: 62
33080247 ACATAACACT
*
33080257 CATTAAGCTCATTAATTGGTACACCATGTGCAAATATCTTCTAATCGTTAAGAATTATAACA
1 CATTAAGCTCATTAATTGGTACACCATGCGCAAATATCTTCTAATCGTTAAGAATTATAACA
33080319 CATTAAGCTCATTAATTGGTACACCATGCGCAAATATCTTCTAATCGTTAAGAATT
1 CATTAAGCTCATTAATTGGTACACCATGCGCAAATATCTTCTAATCGTTAAGAATT
33080375 CTAGGAAATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.34
Consensus pattern (62 bp):
CATTAAGCTCATTAATTGGTACACCATGCGCAAATATCTTCTAATCGTTAAGAATTATAACA
Found at i:33082129 original size:26 final size:28
Alignment explanation
Indices: 33082092--33082147 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 28
33082082 TCACATATAA
* *
33082092 CTTCCTATTTTTTCCTATTTTATT-TTT
1 CTTCCTATTTTTTCCAATTGTATTGTTT
33082119 CTTCCTA-TTTTTCCAATTGTATTGTTT
1 CTTCCTATTTTTTCCAATTGTATTGTTT
33082146 CT
1 CT
33082148 ATTTTCAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.12, C:0.20, G:0.04, T:0.64
Consensus pattern (28 bp):
CTTCCTATTTTTTCCAATTGTATTGTTT
Found at i:33084827 original size:20 final size:20
Alignment explanation
Indices: 33084804--33084857 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
33084794 AGTTTTTCCC
*
33084804 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
33084824 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
33084844 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
33084858 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:33084839 original size:30 final size:30
Alignment explanation
Indices: 33084804--33084877 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
33084794 AGTTTTTCCC
33084804 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
33084834 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
33084864 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
33084878 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:33084867 original size:20 final size:20
Alignment explanation
Indices: 33084804--33084868 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
33084794 AGTTTTTCCC
* * * *
33084804 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
33084824 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
33084843 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
33084864 AGCTC
1 AGCTC
33084869 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:33086605 original size:40 final size:40
Alignment explanation
Indices: 33086512--33086590 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
33086502 AAAAAAAATT
**
33086512 CAAAAAAATCGA-AAAAAAAAAAGAAAAAAAAAGAAGTGA
1 CAAAAAAATCGAGTTAAAAAAAAGAAAAAAAAAGAAGTGA
33086551 CAAAAAAATCGAGTTAAAAAAAAGAAGAAAAAAA-AAGTGA
1 CAAAAAAATCGAGTTAAAAAAAAGAA-AAAAAAAGAAGTGA
33086591 AAAGTCTTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 12 0.33
40 17 0.47
41 7 0.19
ACGTcount: A:0.73, C:0.05, G:0.14, T:0.08
Consensus pattern (40 bp):
CAAAAAAATCGAGTTAAAAAAAAGAAAAAAAAAGAAGTGA
Found at i:33087604 original size:12 final size:11
Alignment explanation
Indices: 33087588--33087674 Score: 50
Period size: 12 Copynumber: 7.0 Consensus size: 11
33087578 AGAAAGAGAT
33087588 TGAAAAAGAAA
1 TGAAAAAGAAA
*
33087599 TCGAAAAAGTGAGA
1 T-GAAAAA--GAAA
33087613 -GAAAAAGAAAA
1 TGAAAAAG-AAA
33087624 TGAAGAAAAGAAAA
1 TG-A-AAAAG-AAA
33087638 TGAAAAAGAAA
1 TGAAAAAGAAA
*
33087649 TTGAGAAAAAAAAA
1 -T--GAAAAAGAAA
33087663 TTGAAAAAGAAA
1 -TGAAAAAGAAA
33087675 AAGCGAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
10 1 0.02
11 6 0.10
12 28 0.45
13 2 0.03
14 25 0.40
ACGTcount: A:0.69, C:0.01, G:0.20, T:0.10
Consensus pattern (11 bp):
TGAAAAAGAAA
Found at i:33087634 original size:14 final size:12
Alignment explanation
Indices: 33087613--33087675 Score: 72
Period size: 13 Copynumber: 4.9 Consensus size: 12
33087603 AAAAGTGAGA
33087613 GAAAAAGAAAAT
1 GAAAAAGAAAAT
33087625 GAAGAAAAGAAAAT
1 G-A-AAAAGAAAAT
*
33087639 GAAAAAGAAATT
1 GAAAAAGAAAAT
*
33087651 GAGAAAAAAAAATT
1 GA-AAAAGAAAA-T
33087665 GAAAAAGAAAA
1 GAAAAAGAAAA
33087676 AGCGAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
12 12 0.28
13 17 0.40
14 14 0.33
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (12 bp):
GAAAAAGAAAAT
Found at i:33087643 original size:25 final size:26
Alignment explanation
Indices: 33087613--33087695 Score: 105
Period size: 26 Copynumber: 3.2 Consensus size: 26
33087603 AAAAGTGAGA
*
33087613 GAAAAAGAAAATGAAGAAAAGAAAA-T
1 GAAAAAGAAAATG-AGAAAAAAAAATT
*
33087639 GAAAAAGAAATTGAGAAAAAAAAATT
1 GAAAAAGAAAATGAGAAAAAAAAATT
* *
33087665 GAAAAAGAAAAAGCGAAAAAAGAAATT
1 GAAAAAGAAAATGAGAAAAAA-AAATT
33087692 GAAA
1 GAAA
33087696 GAGAGCTTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
25 10 0.20
26 31 0.62
27 9 0.18
ACGTcount: A:0.71, C:0.01, G:0.18, T:0.10
Consensus pattern (26 bp):
GAAAAAGAAAATGAGAAAAAAAAATT
Found at i:33087676 original size:14 final size:13
Alignment explanation
Indices: 33087613--33087695 Score: 64
Period size: 14 Copynumber: 6.3 Consensus size: 13
33087603 AAAAGTGAGA
*
33087613 GAAAAAGAAAA-T
1 GAAAAAAAAAATT
33087625 GAAGAAAAGAAAA-T
1 GAA-AAAA-AAAATT
*
33087639 G-AAAAAGAAATT
1 GAAAAAAAAAATT
33087651 GAGAAAAAAAAATT
1 GA-AAAAAAAAATT
**
33087665 GAAAAAGAAAAAGC
1 GAAAAA-AAAAATT
*
33087679 GAAAAAAGAAATT
1 GAAAAAAAAAATT
33087692 GAAA
1 GAAA
33087696 GAGAGCTTGA
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
11 3 0.05
12 9 0.16
13 16 0.28
14 29 0.51
ACGTcount: A:0.71, C:0.01, G:0.18, T:0.10
Consensus pattern (13 bp):
GAAAAAAAAAATT
Found at i:33087729 original size:33 final size:33
Alignment explanation
Indices: 33087692--33087754 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
33087682 AAAAGAAATT
33087692 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTAT-AAAAGAAA-CAAGTGAAAAA
*
33087725 GAAAGAGAGTCTATAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTATAAAAGAAACAAGTGAA
33087755 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.25, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTATAAAAGAAACAAGTGAAAAA
Found at i:33089552 original size:20 final size:20
Alignment explanation
Indices: 33089529--33089582 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
33089519 AGTTTTTCCC
*
33089529 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
33089549 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
33089569 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
33089583 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:33089564 original size:30 final size:30
Alignment explanation
Indices: 33089529--33089602 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
33089519 AGTTTTTCCC
33089529 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
33089559 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
33089589 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
33089603 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:33089592 original size:20 final size:20
Alignment explanation
Indices: 33089529--33089593 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
33089519 AGTTTTTCCC
* * * *
33089529 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
33089549 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
33089568 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
33089589 AGCTC
1 AGCTC
33089594 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:33092007 original size:22 final size:23
Alignment explanation
Indices: 33091974--33092017 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
33091964 TTTTACATGA
33091974 ATTTTATATAAAT-T-TATTTTG
1 ATTTTATATAAATATATATTTTG
*
33091995 ATTTATATTTAAATATATATTTT
1 ATTT-TATATAAATATATATTTT
33092018 TTGGTTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 8 0.42
23 1 0.05
24 6 0.32
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
ATTTTATATAAATATATATTTTG
Found at i:33096013 original size:104 final size:104
Alignment explanation
Indices: 33095829--33096071 Score: 283
Period size: 104 Copynumber: 2.3 Consensus size: 104
33095819 TTCATATGCC
* *
33095829 ACACGGCCTGGACACACGCCCATGTCCTTGCCCGTGTGGCTCACACGTCTTGAGCACACGTCCTT
1 ACACGGCCTGGACACACGCCCATGTCCTTGCCCGTATGGCTCACACGTCTTGAGCACAAGTCCTT
** * * *
33095894 GTCCCTTCCCGTATGGTTCTAAATCATAAACAATGAGTT
66 GTCCCTAACCATATGGTTCTAAAGCATAAACAATAAGTT
* * * * *
33095933 ACACGGCCTAGACACACGCTCATGTCCTTGTCCGTATGGCTCACATGGTC-TGGGCACAAG-CCT
1 ACACGGCCTGGACACACGCCCATGTCCTTGCCCGTATGGCTCACA-CGTCTTGAGCACAAGTCCT
* * *
33095996 ATGTCCCTAACCATATGGTTCTCAAGCATAAATAGTAAGTT
65 -TGTCCCTAACCATATGGTTCTAAAGCATAAACAATAAGTT
* ** *
33096037 ACAAGGCCTGGACACACGCCTTTGTCCTTACCCGT
1 ACACGGCCTGGACACACGCCCATGTCCTTGCCCGT
33096072 GTGAGCCACA
Statistics
Matches: 115, Mismatches: 22, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
103 3 0.03
104 109 0.95
105 3 0.03
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (104 bp):
ACACGGCCTGGACACACGCCCATGTCCTTGCCCGTATGGCTCACACGTCTTGAGCACAAGTCCTT
GTCCCTAACCATATGGTTCTAAAGCATAAACAATAAGTT
Found at i:33096090 original size:104 final size:104
Alignment explanation
Indices: 33095833--33096104 Score: 271
Period size: 104 Copynumber: 2.6 Consensus size: 104
33095823 TATGCCACAC
* * * * *
33095833 GGCCTGGACACACGCCCATGTCCTTGCCCGTGTGGCTCACACGTCTTGAGCACACGTCCTTGTCC
1 GGCCTGGACACACGCCTATGTCCTTGCCCGTGTGGCTCACACGACCTGGGCACAAGTCCTTGTCC
** * * * *
33095898 CTTCCCGTATGGTTCTAAATCATAAACAATGAGTTACAC
66 CTAACCATATGGTTCTAAAGCATAAACAATAAGTTACAA
* * * * **
33095937 GGCCTAGACACACG-CTCATGTCCTTGTCCGTATGGCTCACATGGTCTGGGCACAAG-CCTATGT
1 GGCCTGGACACACGCCT-ATGTCCTTGCCCGTGTGGCTCACACGACCTGGGCACAAGTCCT-TGT
* * *
33096000 CCCTAACCATATGGTTCTCAAGCATAAATAGTAAGTTACAA
64 CCCTAACCATATGGTTCTAAAGCATAAACAATAAGTTACAA
* * * * *
33096041 GGCCTGGACACACGCCTTTGTCCTTACCCGTGTGAGC-CACACAACCTGGGCACACGTCCATGTC
1 GGCCTGGACACACGCCTATGTCCTTGCCCGTGTG-GCTCACACGACCTGGGCACAAGTCCTTGTC
33096105 TTTGCCCACA
Statistics
Matches: 133, Mismatches: 30, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
103 4 0.03
104 123 0.92
105 6 0.05
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.25
Consensus pattern (104 bp):
GGCCTGGACACACGCCTATGTCCTTGCCCGTGTGGCTCACACGACCTGGGCACAAGTCCTTGTCC
CTAACCATATGGTTCTAAAGCATAAACAATAAGTTACAA
Found at i:33098082 original size:17 final size:18
Alignment explanation
Indices: 33098062--33098096 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
33098052 AAAATAAAAA
33098062 AAATATAAAATTT-TTAT
1 AAATATAAAATTTATTAT
*
33098079 AAATTTAAAATTTATTAT
1 AAATATAAAATTTATTAT
33098097 TTTAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATATAAAATTTATTAT
Found at i:33101783 original size:20 final size:19
Alignment explanation
Indices: 33101736--33101792 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 19
33101726 GATGACAAGG
*
33101736 ATGAGAAATGG-ATATGAG
1 ATGAGAAATGGAATATGAA
*
33101754 ATGGGAAATGGAATATGAA
1 ATGAGAAATGGAATATGAA
*
33101773 ATGATGAAATGAAATATGAA
1 ATGA-GAAATGGAATATGAA
33101793 TATTGAAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.30
19 9 0.27
20 14 0.42
ACGTcount: A:0.49, C:0.00, G:0.28, T:0.23
Consensus pattern (19 bp):
ATGAGAAATGGAATATGAA
Found at i:33101801 original size:19 final size:19
Alignment explanation
Indices: 33101758--33101804 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
33101748 TATGAGATGG
*
33101758 GAAATGGAATATGAAATGAT
1 GAAATGAAATATGAAAT-AT
33101778 GAAATGAAATATG-AATATT
1 GAAATGAAATATGAAATA-T
33101797 GAAATGAA
1 GAAATGAA
33101805 TTCATGTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 1 0.04
19 12 0.48
20 12 0.48
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (19 bp):
GAAATGAAATATGAAATAT
Found at i:33107492 original size:31 final size:27
Alignment explanation
Indices: 33107434--33107487 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
33107424 GGTTTCCACG
33107434 TAAAATCTGTATGTTCTATTTTTCTTT
1 TAAAATCTGTATGTTCTATTTTTCTTT
33107461 TAAAATCTGTATGTTCTATTTTTCTTT
1 TAAAATCTGTATGTTCTATTTTTCTTT
33107488 CTTTTCTTTG
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:0.07, T:0.59
Consensus pattern (27 bp):
TAAAATCTGTATGTTCTATTTTTCTTT
Found at i:33117306 original size:18 final size:18
Alignment explanation
Indices: 33117280--33117343 Score: 103
Period size: 18 Copynumber: 3.6 Consensus size: 18
33117270 CTTAATGCGG
*
33117280 GCCCATGTGGGTCCACAC
1 GCCCGTGTGGGTCCACAC
33117298 GCCCGTGTGGGTCCACAC
1 GCCCGTGTGGGTCCACAC
33117316 GCCCGTGTGGG-CCTACAC
1 GCCCGTGTGGGTCC-ACAC
33117334 GCCCGTGTGG
1 GCCCGTGTGG
33117344 CCCAAATAGC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
17 2 0.05
18 42 0.95
ACGTcount: A:0.11, C:0.38, G:0.34, T:0.17
Consensus pattern (18 bp):
GCCCGTGTGGGTCCACAC
Found at i:33123415 original size:37 final size:37
Alignment explanation
Indices: 33123356--33123464 Score: 155
Period size: 37 Copynumber: 2.9 Consensus size: 37
33123346 AGCTCAGACG
*
33123356 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
*
33123393 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
* * * * *
33123430 TACTCTCCACATGCAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGA
33123465 ATATATTTCC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:33123746 original size:47 final size:47
Alignment explanation
Indices: 33123667--33123813 Score: 213
Period size: 47 Copynumber: 3.1 Consensus size: 47
33123657 TATATATATT
* * * * *
33123667 TCACATTGACCATTCGGCTTTACCATATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
33123714 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTTA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
33123761 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
33123808 TCACAT
1 TCACAT
33123814 AAAATCCTAA
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 87 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:33128027 original size:40 final size:40
Alignment explanation
Indices: 33127983--33128374 Score: 577
Period size: 40 Copynumber: 9.8 Consensus size: 40
33127973 CCAGCATGAT
* * * * *
33127983 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * * *
33128023 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
33128063 TGCTCTTCGGAACTTAGCCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
33128103 TGCTCTTCGAGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
33128143 TGCTCTTCGGGACTTAGCCCAGATACATCACTAGCACTAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33128183 TGCTCTTCGGGACTTAGCCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
33128223 TGCTCTTCGAGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
33128263 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
33128303 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
33128343 TGCTCTTCGGGACTTAGCCCGGGTATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
33128375 CTAAATTCTC
Statistics
Matches: 316, Mismatches: 36, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 316 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:33129702 original size:37 final size:37
Alignment explanation
Indices: 33129643--33129748 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
33129633 AGCTCAGACG
* *
33129643 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
33129680 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
33129717 TAATCTCCACACGTAGTCATCGGGTCTCACCC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC
33129749 AGAATATATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:33129966 original size:47 final size:47
Alignment explanation
Indices: 33129914--33130052 Score: 215
Period size: 47 Copynumber: 3.0 Consensus size: 47
33129904 TTTCACACTA
* * * *
33129914 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
33129961 GCCATTCGGCCTTATCACACATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
33130008 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
33130053 AAAATCCTAA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 82 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:33139964 original size:27 final size:28
Alignment explanation
Indices: 33139855--33139977 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
33139845 GAGATTGGCG
* * * *
33139855 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
33139884 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
33139912 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
33139940 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
33139967 CTGAGTGTGCG
1 CTAAGTGTGCG
33139978 GACTTAATAT
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.27
28 50 0.56
29 15 0.17
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:33139988 original size:27 final size:27
Alignment explanation
Indices: 33139880--33139990 Score: 143
Period size: 28 Copynumber: 4.0 Consensus size: 27
33139870 TAAATTGTAC
*
33139880 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
33139908 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
33139936 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
33139963 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGATTATAT
33139990 A
1 A
33139991 CTTTTGAATC
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
27 30 0.38
28 48 0.62
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:33144375 original size:28 final size:29
Alignment explanation
Indices: 33144343--33144403 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 29
33144333 TTGTTGCGTT
33144343 TTTTAACATAAATTT-TA-ATATTTT-AATA
1 TTTTAA-A-AAATTTATATATATTTTAAATA
*
33144371 TTTTAAAAAATTTATATTTATTTTAAATA
1 TTTTAAAAAATTTATATATATTTTAAATA
33144400 TTTT
1 TTTT
33144404 TTAGAATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.21
27 3 0.10
28 12 0.41
29 8 0.28
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (29 bp):
TTTTAAAAAATTTATATATATTTTAAATA
Found at i:33146211 original size:40 final size:40
Alignment explanation
Indices: 33146159--33146239 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
33146149 TTGCAATAGT
* *
33146159 TTAATCATATAAACCTAAAAACTATGCGAGATAATAGAGC
1 TTAATCACATAAACCTAAAAACTATGCAAGATAATAGAGC
33146199 TTAATCACATAAACCTAAAAACTATGCAAGATAATAGAGC
1 TTAATCACATAAACCTAAAAACTATGCAAGATAATAGAGC
33146239 T
1 T
33146240 AACTAAAGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (40 bp):
TTAATCACATAAACCTAAAAACTATGCAAGATAATAGAGC
Found at i:33150626 original size:216 final size:216
Alignment explanation
Indices: 33150252--33150686 Score: 816
Period size: 216 Copynumber: 2.0 Consensus size: 216
33150242 AAAAAAATCT
33150252 GTAGATGGACATATGAGCCTAGTTTCAGGGAAAAATTATGAAACTGATTTTCAAGTTTTGGAACT
1 GTAGATGGACATATGAGCCTAGTTTCAGGGAAAAATTATGAAACTGATTTTCAAGTTTTGGAACT
33150317 CAAGATATGATTTTTAATGTGACAGTGACGCAGTTAGCCAACTGCCTGGAAATTTTTAAAATGAA
66 CAAGATATGATTTTTAATGTGACAGTGACGCAGTTAGCCAACTGCCTGGAAATTTTTAAAATGAA
* *
33150382 CTGTGCAAGTAAATAAATTAAGTCGGTCAGCACCTCGTGTTTGACTCCGGCAACGGTCTCGGGCA
131 CTGTGCAAGTAAATAAATTAAGTCGGTCAGCACCTCGTGTTCGACTCCGGCAACGCTCTCGGGCA
33150447 CGGGGTGTTACAATTTTACTG
196 CGGGGTGTTACAATTTTACTG
* *
33150468 GTAGATGGACATATGAGTCTAGTTTCAGGGAAAAATTATGAAACTGATTTTCGAGTTTTGGAACT
1 GTAGATGGACATATGAGCCTAGTTTCAGGGAAAAATTATGAAACTGATTTTCAAGTTTTGGAACT
33150533 CAAGATATGATTTTTAATGTGACAGTGACGCAGTTAGCCAACTGCCTGGAAATTTTTAAAATGAA
66 CAAGATATGATTTTTAATGTGACAGTGACGCAGTTAGCCAACTGCCTGGAAATTTTTAAAATGAA
*
33150598 CTGTGCAAGTAAATGAATTAAGTCGGTCAGCACCTCGTGTTCGACTCCGGCAACGCTCTCGGGCA
131 CTGTGCAAGTAAATAAATTAAGTCGGTCAGCACCTCGTGTTCGACTCCGGCAACGCTCTCGGGCA
*
33150663 CGGGGTGTTACAATTTTATTG
196 CGGGGTGTTACAATTTTACTG
33150684 GTA
1 GTA
33150687 TCAGAGCTAC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
216 213 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (216 bp):
GTAGATGGACATATGAGCCTAGTTTCAGGGAAAAATTATGAAACTGATTTTCAAGTTTTGGAACT
CAAGATATGATTTTTAATGTGACAGTGACGCAGTTAGCCAACTGCCTGGAAATTTTTAAAATGAA
CTGTGCAAGTAAATAAATTAAGTCGGTCAGCACCTCGTGTTCGACTCCGGCAACGCTCTCGGGCA
CGGGGTGTTACAATTTTACTG
Found at i:33157227 original size:39 final size:40
Alignment explanation
Indices: 33157126--33157308 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
33157116 TCGAATGATG
* * *
33157126 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
33157165 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
33157206 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
33157245 TCCGGGTTAAGTCCCGAAGGCATTTGT-CGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
** * *
33157283 AACGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33157309 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 22 0.18
39 44 0.36
40 47 0.38
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:33157262 original size:79 final size:79
Alignment explanation
Indices: 33157126--33157303 Score: 202
Period size: 79 Copynumber: 2.3 Consensus size: 79
33157116 TCGAATGATG
* *
33157126 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
33157191 GTGCGAGTTACTAAT
66 GT-CGAGTTACTAAT
* * * **
33157206 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
33157268 TTGTCGAGTTACT-AT
64 TTGTCGAGTTACTAAT
** * *
33157283 AACGGGCTATGTCCCAAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
33157304 ATTTGAACGA
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
77 10 0.12
78 18 0.21
79 39 0.46
80 17 0.20
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTCGAGTTACTAAT
Found at i:33157315 original size:78 final size:78
Alignment explanation
Indices: 33157179--33157341 Score: 188
Period size: 78 Copynumber: 2.1 Consensus size: 78
33157169 GGACTAAGAT
** * **
33157179 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTA-CTA
1 CCGAAGGCATTTGTGCGAGTTACTAATAACGGGCTAAGCCCAAAGGCATTGGAACGAG-TAGCTA
*
33157243 AATCCGGGTTAAGTC
65 AATCC-GGTTAAATC
* *
33157258 CCGAAGGCATTTGT-CGAGTTACT-ATAACGGGCTATGTCCCAAAGGCATTTGAACGAGTAGCTA
1 CCGAAGGCATTTGTGCGAGTTACTAATAACGGGCTAAG-CCCAAAGGCATTGGAACGAGTAGCTA
* *
33157321 TATCCGGTTAAATT
65 AATCCGGTTAAATC
33157335 CCGAAGG
1 CCGAAGG
33157342 TACGTGATTC
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
77 26 0.36
78 32 0.44
79 14 0.19
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAATAACGGGCTAAGCCCAAAGGCATTGGAACGAGTAGCTAA
ATCCGGTTAAATC
Found at i:33169402 original size:21 final size:22
Alignment explanation
Indices: 33169373--33169413 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
33169363 TTATTAATAA
* *
33169373 TTAATACTT-ATTGAAATGTAG
1 TTAAAACTTAATTAAAATGTAG
33169394 TTAAAACTTAATTAAAATGT
1 TTAAAACTTAATTAAAATGT
33169414 TTATATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (22 bp):
TTAAAACTTAATTAAAATGTAG
Found at i:33184870 original size:48 final size:50
Alignment explanation
Indices: 33184745--33184886 Score: 186
Period size: 48 Copynumber: 2.9 Consensus size: 50
33184735 TTGGGTAAGG
* **
33184745 TGCCGATGCCATGTCCCAGACATGGTCTTACACAAG-ATCTAGCATATCTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCATCTA-CATATCAA
* * *
33184795 TGCCAATGCCGTGTCCCAGACATGGTCTTACACTAGCA-CT-CATCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCATCTACATATCAA
33184843 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TC-ACATA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCATCTACATA
33184887 AGTGACCCAA
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
48 44 0.55
50 35 0.44
51 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (50 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCATCTACATATCAA
Found at i:33188500 original size:23 final size:23
Alignment explanation
Indices: 33188474--33188629 Score: 149
Period size: 23 Copynumber: 6.8 Consensus size: 23
33188464 TACTCAACAC
*
33188474 AGCTCGTAAGAGCTTACTGTTTT
1 AGCTCGTAAGAGCTTACTATTTT
33188497 AGCTCGTAAGAGCTTACTATTTT
1 AGCTCGTAAGAGCTTACTATTTT
*
33188520 AGCTCGTAAGAGCTTACTATTTC
1 AGCTCGTAAGAGCTTACTATTTT
* * *
33188543 AGCTTGTAAGAGTTTACCGA-TTT
1 AGCTCGTAAGAGCTTA-CTATTTT
** *
33188566 AGCTCAAAAGAGCTTACTA-TTC
1 AGCTCGTAAGAGCTTACTATTTT
* *
33188588 AGCTC-AATAGAGCTTACCATTTT
1 AGCTCGTA-AGAGCTTACTATTTT
*
33188611 CAGCTC-AATAGAGCTTACT
1 -AGCTCGTA-AGAGCTTACT
33188630 GTTTATCAGC
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
21 2 0.02
22 19 0.17
23 74 0.65
24 19 0.17
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (23 bp):
AGCTCGTAAGAGCTTACTATTTT
Found at i:33188612 original size:69 final size:69
Alignment explanation
Indices: 33188473--33188616 Score: 175
Period size: 69 Copynumber: 2.1 Consensus size: 69
33188463 GTACTCAACA
* * ** * * *
33188473 CAGCTCGTAAGAGCTTACTGTTTTAGCTCGTAAGAGCTTACTATTTTAGCTCGTAAGAGCTTACT
1 CAGCTCGTAAGAGCTTACCGATTTAGCTCAAAAGAGCTTACTATTTCAGCTCATAAGAGCTTACC
33188538 ATTT
66 ATTT
* *
33188542 CAGCTTGTAAGAGTTTACCGATTTAGCTCAAAAGAGCTTACTA-TTCAGCTCA-ATAGAGCTTAC
1 CAGCTCGTAAGAGCTTACCGATTTAGCTCAAAAGAGCTTACTATTTCAGCTCATA-AGAGCTTAC
33188605 CATTTT
65 CA-TTT
33188611 CAGCTC
1 CAGCTC
33188617 AATAGAGCTT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
67 1 0.02
68 17 0.27
69 45 0.71
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (69 bp):
CAGCTCGTAAGAGCTTACCGATTTAGCTCAAAAGAGCTTACTATTTCAGCTCATAAGAGCTTACC
ATTT
Found at i:33188617 original size:24 final size:23
Alignment explanation
Indices: 33188566--33188642 Score: 93
Period size: 24 Copynumber: 3.3 Consensus size: 23
33188556 TTACCGATTT
* *
33188566 AGCTCAAAAGAGCTTA-CTATTC
1 AGCTCAATAGAGCTTACCTTTTC
33188588 AGCTCAATAGAGCTTACCATTTTC
1 AGCTCAATAGAGCTTACC-TTTTC
*
33188612 AGCTCAATAGAGCTTACTGTTTATC
1 AGCTCAATAGAGCTTAC-CTTT-TC
33188637 AGCTCA
1 AGCTCA
33188643 GGAGGAGCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.31
23 1 0.02
24 24 0.50
25 8 0.17
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (23 bp):
AGCTCAATAGAGCTTACCTTTTC
Found at i:33201259 original size:36 final size:36
Alignment explanation
Indices: 33201203--33201282 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
33201193 TGGGTCACAT
*
33201203 GGCCGTGTTGCAGGTCGTGTGATAGCCTATGTCCCA
1 GGCCGTGTTGCAGGTCGTGTGACAGCCTATGTCCCA
* * *
33201239 GGCTGTGTTGCAGG-CTGTGTGACGGCCTGTGTCCCA
1 GGCCGTGTTGCAGGTC-GTGTGACAGCCTATGTCCCA
33201275 GGCCGTGT
1 GGCCGTGT
33201283 GTGCTCAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
35 1 0.03
36 37 0.97
ACGTcount: A:0.10, C:0.25, G:0.38, T:0.28
Consensus pattern (36 bp):
GGCCGTGTTGCAGGTCGTGTGACAGCCTATGTCCCA
Found at i:33214496 original size:19 final size:19
Alignment explanation
Indices: 33214466--33214525 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
33214456 GCCCCCTCCA
*
33214466 TTTCTCTTCTTTCTTTTCTT-
1 TTTCT-TTCTTTC-TCTCTTC
33214486 TTTCTTTCTTTCTCTCTTC
1 TTTCTTTCTTTCTCTCTTC
*
33214505 TTTCCTTCTTTC-CTCCTTC
1 TTTCTTTCTTTCTCT-CTTC
33214524 TT
1 TT
33214526 CCCCTTTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
18 7 0.19
19 24 0.67
20 5 0.14
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTCTTTCTTTCTCTCTTC
Found at i:33214505 original size:15 final size:15
Alignment explanation
Indices: 33214468--33214513 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
33214458 CCCCTCCATT
33214468 TCTCTTCTTTCTTT-
1 TCTCTTCTTTCTTTC
*
33214482 TCTTTTTCTTTCTTTC
1 TC-TCTTCTTTCTTTC
*
33214498 TCTCTTCTTTCCTTC
1 TCTCTTCTTTCTTTC
33214513 T
1 T
33214514 TTCCTCCTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 2 0.07
15 23 0.85
16 2 0.07
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
TCTCTTCTTTCTTTC
Found at i:33219351 original size:30 final size:30
Alignment explanation
Indices: 33219316--33219373 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
33219306 TAGGCATTTC
*
33219316 CACACGGGTGAT-CCACACGCCCGTGTGTGA
1 CACACGGGT-ATACCACACGCCCATGTGTGA
33219346 CACACGGGTATACCACACGCCCATGTGT
1 CACACGGGTATACCACACGCCCATGTGT
33219374 CATGACCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.22, C:0.34, G:0.26, T:0.17
Consensus pattern (30 bp):
CACACGGGTATACCACACGCCCATGTGTGA
Found at i:33230107 original size:18 final size:18
Alignment explanation
Indices: 33230072--33230110 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33230062 TTAAAGATCC
*
33230072 TTTAACAAAAGTTGTTTA
1 TTTAACAAAAGTTATTTA
33230090 TTTAACAACAAG-TATTTA
1 TTTAACAA-AAGTTATTTA
33230108 TTT
1 TTT
33230111 TCTTCCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (18 bp):
TTTAACAAAAGTTATTTA
Found at i:33235460 original size:49 final size:47
Alignment explanation
Indices: 33235239--33235501 Score: 359
Period size: 47 Copynumber: 5.6 Consensus size: 47
33235229 CCCTTCGGGA
* * * *
33235239 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTT-GG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* *
33235285 CTCTGTCACATATATACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33235333 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33235380 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
33235427 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33235476 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
33235502 CAAAATTATC
Statistics
Matches: 195, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
46 4 0.02
47 145 0.74
48 2 0.01
49 44 0.23
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33242926 original size:17 final size:17
Alignment explanation
Indices: 33242904--33242945 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
33242894 TTTATGCCAT
33242904 AATCGGAATTCACATTC
1 AATCGGAATTCACATTC
33242921 AATCGGAATTCACATTC
1 AATCGGAATTCACATTC
33242938 AATCGGAA
1 AATCGGAA
33242946 CATTCAATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (17 bp):
AATCGGAATTCACATTC
Found at i:33242950 original size:13 final size:13
Alignment explanation
Indices: 33242932--33242957 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33242922 ATCGGAATTC
33242932 ACATTCAATCGGA
1 ACATTCAATCGGA
33242945 ACATTCAATCGGA
1 ACATTCAATCGGA
33242958 TGCAAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (13 bp):
ACATTCAATCGGA
Found at i:33245179 original size:19 final size:20
Alignment explanation
Indices: 33245147--33245191 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
33245137 TGATTCAAGG
33245147 GACAT-AAAACTCTTGACAT
1 GACATGAAAACTCTTGACAT
*
33245166 GACATGAAAA-TCTTGATAT
1 GACATGAAAACTCTTGACAT
*
33245185 GATATGA
1 GACATGA
33245192 TATGATAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (20 bp):
GACATGAAAACTCTTGACAT
Found at i:33250484 original size:19 final size:19
Alignment explanation
Indices: 33250449--33250486 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
33250439 TTGCAATTTA
*
33250449 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
33250468 AATTTTTCA-TTTATTTTCT
1 AATTTTT-ATTTTATTTTCT
33250487 TCTGACAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:33251696 original size:17 final size:19
Alignment explanation
Indices: 33251654--33251699 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
33251644 ATGAAATTTT
*
33251654 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
33251673 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
33251691 AA-TATTATT
1 AATTATTATT
33251700 GTATGTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.28
18 4 0.16
19 14 0.56
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:33251807 original size:12 final size:12
Alignment explanation
Indices: 33251770--33251815 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
33251760 TTTGAAATTT
33251770 TTATTATTA-AA
1 TTATTATTATAA
*
33251781 TATATT-TATAAAA
1 T-TATTAT-TATAA
33251794 TTATTATTATAA
1 TTATTATTATAA
33251806 TTATTATTAT
1 TTATTATTAT
33251816 TAGATAGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 2 0.07
12 24 0.80
13 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTATTATTATAA
Found at i:33252746 original size:5 final size:5
Alignment explanation
Indices: 33252736--33252764 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
33252726 GTTTTTTTTC
33252736 TTCTT TTCTT TTCTT TTCTT TTCTT TTCT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCT
33252765 CTTCATCTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTCTT
Found at i:33258653 original size:3 final size:3
Alignment explanation
Indices: 33258645--33258670 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33258635 AGAGAAAAAT
33258645 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
33258671 TCATTGCATA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Done.