Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 180 of 208
Found at i:56715088 original size:21 final size:20
Alignment explanation
Indices: 56715049--56715086 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
56715039 TAACGAGGTA
56715049 AATTTTATATTAGATTTTAC
1 AATTTTATATTAGATTTTAC
56715069 AATTTT-TATGTAGATTTT
1 AATTTTATAT-TAGATTTT
56715087 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (20 bp):
AATTTTATATTAGATTTTAC
Found at i:56716593 original size:22 final size:21
Alignment explanation
Indices: 56716580--56716823 Score: 154
Period size: 22 Copynumber: 11.2 Consensus size: 21
56716570 CCCTAAACCC
56716580 TAAAAACCCTAACCCTTAACT
1 TAAAAACCCTAACCCTTAACT
* *
56716601 TAAAAATCAC-AAACCTTGAAC-
1 TAAAAA-CCCTAACCCTT-AACT
* * *
56716622 CATAAAACCCTAAACCCTTATCC
1 TA-AAAACCCT-AACCCTTAACT
* * * *
56716645 TAAAAATCGTAACCATTTACT
1 TAAAAACCCTAACCCTTAACT
* * * *
56716666 TAAAAACTACAAACCCTAAACC
1 TAAAAAC-CCTAACCCTTAACT
*
56716688 TAAAAACCCTAAAACCTTAACT
1 TAAAAACCCT-AACCCTTAACT
* * *
56716710 TAAAAACCATAAACCCTAAACC
1 TAAAAACCCT-AACCCTTAACT
*
56716732 T-AAAACCCTAAAACCTTAACT
1 TAAAAACCCT-AACCCTTAACT
**
56716753 TAAAAACCAAAAACCC-TAACCT
1 TAAAAACC-CTAACCCTTAA-CT
56716775 TAAAAACCCTAAACCCTTAACT
1 TAAAAACCCT-AACCCTTAACT
* *
56716797 TAAAAACCCAAACCATTAACT
1 TAAAAACCCTAACCCTTAACT
56716818 ATAAAA
1 -TAAAA
56716824 CTTAAAAATC
Statistics
Matches: 168, Mismatches: 41, Indels: 27
0.71 0.17 0.11
Matches are distributed among these distances:
21 59 0.35
22 99 0.59
23 10 0.06
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.20
Consensus pattern (21 bp):
TAAAAACCCTAACCCTTAACT
Found at i:56716789 original size:16 final size:16
Alignment explanation
Indices: 56716761--56716794 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
56716751 CTTAAAAACC
56716761 AAAAACCCTAA-CCTT
1 AAAAACCCTAACCCTT
56716776 AAAAACCCTAAACCCTT
1 AAAAACCCT-AACCCTT
56716793 AA
1 AA
56716795 CTTAAAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 2 0.12
17 6 0.35
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAACCCTAACCCTT
Found at i:56716810 original size:43 final size:44
Alignment explanation
Indices: 56716663--56716810 Score: 230
Period size: 44 Copynumber: 3.4 Consensus size: 44
56716653 GTAACCATTT
*
56716663 ACTTAAAAACTACAAACCCTAAACCTAAAAACCCTAAAACCTTA
1 ACTTAAAAACCACAAACCCTAAACCTAAAAACCCTAAAACCTTA
*
56716707 ACTTAAAAACCATAAACCCTAAACCT-AAAACCCTAAAACCTTA
1 ACTTAAAAACCACAAACCCTAAACCTAAAAACCCTAAAACCTTA
* *
56716750 ACTTAAAAACCAAAAACCCT-AACCTTAAAAACCCTAAACCCTTA
1 ACTTAAAAACCACAAACCCTAAACC-TAAAAACCCTAAAACCTTA
56716794 ACTTAAAAACC-CAAACC
1 ACTTAAAAACCACAAACC
56716811 ATTAACTATA
Statistics
Matches: 97, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
42 4 0.04
43 42 0.43
44 51 0.53
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (44 bp):
ACTTAAAAACCACAAACCCTAAACCTAAAAACCCTAAAACCTTA
Found at i:56716824 original size:65 final size:63
Alignment explanation
Indices: 56716568--56716824 Score: 200
Period size: 65 Copynumber: 3.9 Consensus size: 63
56716558 ATAAATCCTC
* * **
56716568 AACCCTAAACCCTAAAAACCCTAACCCTTAACTTAAAAATCACAAACCTTGAACCATAAAACCCT
1 AACCCT-AACCTTAAAAACCCTAACCCTTAACTTAAAAA-CACAAACCTT-AACTATAAAACCAA
56716633 A
63 A
* * * * * *
56716634 AACCCTTATCC-TAAAAATCGTAACCATTTACTTAAAAACTACAAACCCTAAACCTA-AAAACCC
1 AACCC-TAACCTTAAAAACCCTAACCCTTAACTTAAAAAC-ACAAA-CCTTAA-CTATAAAA-CC
*
56716697 TAA
61 AAA
* * * * *
56716700 AACCTTAA-CTTAAAAACCATAAACCCTAAACCT-AAAACCCTAAAACCTTAACT-TAAAAACCA
1 AACCCTAACCTTAAAAACCCT-AACCCTTAACTTAAAAACAC--AAACCTTAACTAT-AAAACCA
56716762 AA
62 AA
*
56716764 AACCCTAACCTTAAAAACCCTAAACCCTTAACTTAAAAACCCAAACCATTAACTATAAAAC
1 AACCCTAACCTTAAAAACCCT-AACCCTTAACTTAAAAACACAAACC-TTAACTATAAAAC
56716825 TTAAAAATCC
Statistics
Matches: 152, Mismatches: 24, Indels: 31
0.73 0.12 0.15
Matches are distributed among these distances:
64 21 0.14
65 91 0.60
66 39 0.26
67 1 0.01
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.20
Consensus pattern (63 bp):
AACCCTAACCTTAAAAACCCTAACCCTTAACTTAAAAACACAAACCTTAACTATAAAACCAAA
Found at i:56717099 original size:114 final size:115
Alignment explanation
Indices: 56716886--56717155 Score: 479
Period size: 114 Copynumber: 2.4 Consensus size: 115
56716876 CTTAAGTTAA
* *
56716886 ATATAATTTGATAACTCTACTAACCATTAATACAATTATCAGTTAATATTTTTTACATTCACATA
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAGTTAATATTTTTTACATTCACATA
56716951 ATGTTAGATTTGAAAACATGTTTTGACTGGTACTAACAAATAATAATTTG
66 ATGTTAGATTTGAAAACATGTTTTGACTGGTACTAACAAATAATAATTTG
*
56717001 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAGTTAATA-TTTTTACGTTCACATA
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAGTTAATATTTTTTACATTCACATA
*
56717065 ATGTTAGATTTGAAAACATGTTTTGACTGGTACTAACAATTAATAATTTG
66 ATGTTAGATTTGAAAACATGTTTTGACTGGTACTAACAAATAATAATTTG
**
56717115 ATATAATTTGATAATTTTACTAAAAATTAATACAATTATCA
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCA
56717156 ATAAATAGCC
Statistics
Matches: 149, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
114 103 0.69
115 46 0.31
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (115 bp):
ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAGTTAATATTTTTTACATTCACATA
ATGTTAGATTTGAAAACATGTTTTGACTGGTACTAACAAATAATAATTTG
Found at i:56720424 original size:125 final size:124
Alignment explanation
Indices: 56720178--56720456 Score: 427
Period size: 125 Copynumber: 2.2 Consensus size: 124
56720168 CATACATGCT
*
56720178 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTA
*
56720243 GAAGCGATTTTATACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTGCCAGGACCA
66 GAAGCGATTTTATACTATTTGCTCAAAAACGTCAACTCAAAATAATTTTT-CCAGGACCA
* *
56720303 ACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCT
* * *
56720367 TGAAGCGTTTTTTATACTATTTGCTCAAAAACGTCAACTCGAAATAATTTCTT-CAGGACCA
65 AGAAGCG-ATTTTATACTATTTGCTCAAAAACGTCAACTCAAAATAATTT-TTCCAGGACCA
* *
56720428 ACTATAGCAAAAGCGCGTCCACGTGGGCG
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCG
56720457 AAGTCAGAAC
Statistics
Matches: 141, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
124 2 0.01
125 98 0.70
126 39 0.28
127 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (124 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTA
GAAGCGATTTTATACTATTTGCTCAAAAACGTCAACTCAAAATAATTTTTCCAGGACCA
Found at i:56723462 original size:21 final size:21
Alignment explanation
Indices: 56723438--56723490 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
56723428 CATTGTTTCT
*
56723438 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
56723459 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
56723480 AATCTCACCGC
1 AATCTCACCGC
56723491 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:56729651 original size:24 final size:20
Alignment explanation
Indices: 56729599--56729639 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
56729589 TATGCATGTG
*
56729599 TTAGTGTTTCTCGTATTAAT
1 TTAGTGTTTCTCATATTAAT
56729619 TTAGTGTTTCTCATATTAAT
1 TTAGTGTTTCTCATATTAAT
56729639 T
1 T
56729640 ATTCATGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.10, G:0.12, T:0.56
Consensus pattern (20 bp):
TTAGTGTTTCTCATATTAAT
Found at i:56730731 original size:18 final size:18
Alignment explanation
Indices: 56730705--56730769 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
56730695 TGAGGGTAGG
56730705 ATCTGTATCTACATCTAT
1 ATCTGTATCTACATCTAT
* ** **
56730723 ATATGTATCTGTATCTGC
1 ATCTGTATCTACATCTAT
* *
56730741 ATCTGTATCTGCACCTAT
1 ATCTGTATCTACATCTAT
56730759 ATCTGTATCTA
1 ATCTGTATCTA
56730770 TATATGTATT
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.43
Consensus pattern (18 bp):
ATCTGTATCTACATCTAT
Found at i:56730744 original size:12 final size:12
Alignment explanation
Indices: 56730705--56730768 Score: 65
Period size: 12 Copynumber: 5.3 Consensus size: 12
56730695 TGAGGGTAGG
*
56730705 ATCTGTATCTAC
1 ATCTGTATCTGC
* * *
56730717 ATCTATATATGT
1 ATCTGTATCTGC
56730729 ATCTGTATCTGC
1 ATCTGTATCTGC
56730741 ATCTGTATCTGC
1 ATCTGTATCTGC
* * *
56730753 ACCTATATCTGT
1 ATCTGTATCTGC
56730765 ATCT
1 ATCT
56730769 ATATATGTAT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (12 bp):
ATCTGTATCTGC
Found at i:56730770 original size:12 final size:12
Alignment explanation
Indices: 56730717--56730910 Score: 127
Period size: 12 Copynumber: 16.2 Consensus size: 12
56730707 CTGTATCTAC
56730717 ATCTATATATGT
1 ATCTATATATGT
* * *
56730729 ATCTGTATCTGC
1 ATCTATATATGT
* * *
56730741 ATCTGTATCTGC
1 ATCTATATATGT
* *
56730753 ACCTATATCTGT
1 ATCTATATATGT
56730765 ATCTATATATGT
1 ATCTATATATGT
*
56730777 ATTTATATATGT
1 ATCTATATATGT
* *
56730789 ATATGTATATGT
1 ATCTATATATGT
*
56730801 ATATATATATGT
1 ATCTATATATGT
* * *
56730813 ATATGTAGATGT
1 ATCTATATATGT
* *
56730825 ATATGTATATGT
1 ATCTATATATGT
* *
56730837 ATATGTATATGT
1 ATCTATATATGT
* *
56730849 ATATGTATATGT
1 ATCTATATATGT
* *
56730861 ATATGTATATGT
1 ATCTATATATGT
* *
56730873 ATATGTATATGT
1 ATCTATATATGT
* *
56730885 ATATGTATATGT
1 ATCTATATATGT
* *
56730897 ATATGTATATGT
1 ATCTATATATGT
56730909 AT
1 AT
56730911 ATGTATTTAT
Statistics
Matches: 167, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 167 1.00
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.48
Consensus pattern (12 bp):
ATCTATATATGT
Found at i:56730793 original size:6 final size:6
Alignment explanation
Indices: 56730770--56730916 Score: 258
Period size: 6 Copynumber: 24.5 Consensus size: 6
56730760 TCTGTATCTA
* * *
56730770 TATATG TATTTA TATATG TATATG TATATG TATATA TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
56730818 TAGATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
56730866 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
56730914 TAT
1 TAT
56730917 TTATATCTGT
Statistics
Matches: 133, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 133 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:56732876 original size:40 final size:41
Alignment explanation
Indices: 56732820--56732913 Score: 104
Period size: 40 Copynumber: 2.3 Consensus size: 41
56732810 AAGAAAATAG
* *
56732820 ATAAAAATTATAAAATATAAAAA-TATATATGTATGTATAT
1 ATAAAAATTATAAAATACAAAAATTATATAAGTATGTATAT
* * * *
56732860 TTAAAATTTATTAAATACAAAAATTTATGTAAGTATGTATAT
1 ATAAAAATTATAAAATACAAAAA-TTATATAAGTATGTATAT
56732902 AT--AAATTATAAA
1 ATAAAAATTATAAA
56732914 TTATGAAATA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
40 27 0.63
42 16 0.37
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.39
Consensus pattern (41 bp):
ATAAAAATTATAAAATACAAAAATTATATAAGTATGTATAT
Found at i:56733164 original size:19 final size:21
Alignment explanation
Indices: 56733119--56733168 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 21
56733109 AATGTACGTA
*
56733119 TATATATATTAGCAAAATATG
1 TATATATATTAGCAAAATACG
* *
56733140 TGTATATATT-GTAAAA-ACG
1 TATATATATTAGCAAAATACG
56733159 TATATATATT
1 TATATATATT
56733169 TAATGTGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 11 0.44
20 5 0.20
21 9 0.36
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (21 bp):
TATATATATTAGCAAAATACG
Found at i:56734867 original size:128 final size:127
Alignment explanation
Indices: 56734626--56734867 Score: 301
Period size: 128 Copynumber: 1.9 Consensus size: 127
56734616 ACTTCAATCC
* * * * * *
56734626 ACTCTGCTGCAACTTCAGGGATGAGATTTGTGGTTTTAGTCTGCTCCACTGTAACTTCAATGAGA
1 ACTCTACTGCAACTTCAGGGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAAGGAGA
* * *
56734691 TAGGATTGGATTCTTCTGTCTGATCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCT
66 TAGGATTGGATTCTTCTATCTGATCAACTGCAACTTCAGGGAAATAAGACTGGATGCGATCT
* *
56734753 ACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCGCTGCAAC-TCAGGGA
1 ACTCTACTGCAACTTCAG-G-GATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAAGGA
* * *
56734817 GATAGGATTGGCTTCTTCTATCTGTTTAACTGCAA-TGTCA-GGAAATTAAGA
64 GATAGGATTGGATTCTTCTATCTGATCAACTGCAACT-TCAGGGAAA-TAAGA
56734868 TTCGCCGTCG
Statistics
Matches: 97, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
127 22 0.23
128 44 0.45
129 31 0.32
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (127 bp):
ACTCTACTGCAACTTCAGGGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAAGGAGA
TAGGATTGGATTCTTCTATCTGATCAACTGCAACTTCAGGGAAATAAGACTGGATGCGATCT
Found at i:56735065 original size:99 final size:100
Alignment explanation
Indices: 56734836--56735102 Score: 308
Period size: 99 Copynumber: 2.7 Consensus size: 100
56734826 GGCTTCTTCT
* *** * * * * *
56734836 ATCTGTTTAACTGCAATGTCAG-GAAATTAAGATTCGCCGTCGTAGCTTCACTCTATTTCACTGC
1 ATCT-TTTAATTGCAATGTCAGAGAAAACGAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGC
* * * * **
56734900 ACCGCATGGGAA-TAAGATTCGCCGTTGTGGCCTTA
65 ACCGCCTAGGAAGTAAAATTTGTTGTTGTGGCCTTA
* * * *
56734935 ATCTTTTAATTGCAATGTCGGGGAAAACGAGATTCACCTTTGTAGCTTCAATCTGTTCCGCTGCA
1 ATCTTTTAATTGCAATGTCAGAGAAAACGAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCA
56735000 CCGCCTAGGAAGTAAAATTTGTTGTTGTGG-CTTCA
66 CCGCCTAGGAAGTAAAATTTGTTGTTGTGGCCTT-A
*
56735035 ATCTTTTAATTGCAATGTCAGAG-AAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCA
1 ATCTTTTAATTGCAATGTCAGAGAAAACGAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCA
56735099 CCGC
66 CCGC
56735103 TTGGGAAATA
Statistics
Matches: 142, Mismatches: 23, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
98 15 0.11
99 91 0.64
100 36 0.25
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.32
Consensus pattern (100 bp):
ATCTTTTAATTGCAATGTCAGAGAAAACGAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCA
CCGCCTAGGAAGTAAAATTTGTTGTTGTGGCCTTA
Found at i:56735270 original size:132 final size:132
Alignment explanation
Indices: 56735102--56735488 Score: 578
Period size: 132 Copynumber: 2.9 Consensus size: 132
56735092 CACTGCACCG
** *
56735102 CTTGGGAA-ATAAGATTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACA
1 CTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
* * * * * *
56735166 ATCTTTGACCTATTCCAATACTACTTATGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTTCT
66 ATCTTCGACCTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACT
56735231 AC
131 AC
* * *
56735233 CTTGGGAAGATAAGATTCACCATTTTTGATCTACTCCACTACTGCTTAGGGAGACAGAATCTGCA
1 CTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
* ** * *
56735298 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCCTCTCTACT
66 ATCTTCGACCTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACT
*
56735363 AT
131 AC
* *
56735365 ATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATTTGCA
1 CTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
*
56735430 ATCTTCGACCTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGTTTAAATCTGCTTC
66 ATCTTCGACCTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTC
56735489 GCCGTCAGTA
Statistics
Matches: 227, Mismatches: 28, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
131 8 0.04
132 219 0.96
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
CTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
ATCTTCGACCTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACT
AC
Found at i:56735326 original size:44 final size:44
Alignment explanation
Indices: 56735263--56735462 Score: 153
Period size: 44 Copynumber: 4.5 Consensus size: 44
56735253 CATTTTTGAT
56735263 CTACTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAAC
1 CTACTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAAC
* * * *
56735307 CTACTCCACTACTGCTTAGGGAGATAGGA-CT--AATGGCTTAAAT
1 CTACTCCACTACTGCTTAGGGAGACAGAATCTGCAAT--CTTCAAC
* * * * * * * *
56735350 CTGCCTCTCTACTA-T-ATT-GGGAAGATAAGATTC-ACCATCTTCGAT
1 CT-ACTC-C-ACTACTGCTTAGGG-AGA-CAGAATCTGCAATCTTCAAC
* * *
56735395 CTGCTCCACTACTGCTTAGGGAGACAGAATTTGCAATCTTCGAC
1 CTACTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAAC
56735439 CTACTCCACTACTGCTTAGGGAGA
1 CTACTCCACTACTGCTTAGGGAGA
56735463 TAGGACTGGT
Statistics
Matches: 121, Mismatches: 21, Indels: 28
0.71 0.12 0.16
Matches are distributed among these distances:
41 3 0.02
42 4 0.03
43 18 0.15
44 75 0.62
45 14 0.12
46 5 0.04
47 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
CTACTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAAC
Found at i:56735582 original size:89 final size:89
Alignment explanation
Indices: 56735480--56735880 Score: 541
Period size: 89 Copynumber: 4.5 Consensus size: 89
56735470 GGTGGTTTAA
* *
56735480 ATCTGCTTCGCCGTCAGTACAAGAAGGTAAGATCTGCTATCTTCAGTCTGCTCCACTGTCAGTAC
1 ATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGTCAGTAC
* * * *
56735545 AGAAAGGCAAGGCTGGTGTCTTTG
66 AGGAAGGCAAGACTGGTTTCTTCG
* * *
56735569 ATCTGCTTCGCCGTCAGTATAGGAAGGCATGATCTGCTATCTTCAGTCTGCTCCACTGTCAGTAT
1 ATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGTCAGTAC
*
56735634 AGGAAGGCAAAACTGGTTTCTTCG
66 AGGAAGGCAAGACTGGTTTCTTCG
* * *
56735658 ATCTGCTTCGCCGCCAGTACAGGAAGGCAAGATCTGTTATCTTCAGTCTGCTTCACTGTCAGTAC
1 ATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGTCAGTAC
* * * *
56735723 AGGAAGGCAAGGCTGATATCTTCA
66 AGGAAGGCAAGACTGGTTTCTTCG
* ** * * * * **
56735747 ATCTGCTTCTCTATCAGTACAGAAAGGCAGGATCTACTATCTTTAGTCTGCTCTGCTGTCAGTAC
1 ATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGTCAGTAC
*
56735812 AGGAAGACAAGACTGGTTTCTTCG
66 AGGAAGGCAAGACTGGTTTCTTCG
* *
56735836 ATCTGCTTCGCCGTCAGTACAGGAAGGCAAAATTTGCTATCTTCA
1 ATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCA
56735881 TTGATCTGTT
Statistics
Matches: 265, Mismatches: 47, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 265 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (89 bp):
ATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGTCAGTAC
AGGAAGGCAAGACTGGTTTCTTCG
Found at i:56735585 original size:44 final size:44
Alignment explanation
Indices: 56735480--56735865 Score: 268
Period size: 44 Copynumber: 8.7 Consensus size: 44
56735470 GGTGGTTTAA
* * * *
56735480 ATCTGCTTCGCCGTCAGTACAAGAAGGTAAGATCTGCTATC-TTC
1 ATCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTGCTATCTTTC
* * * * * *
56735524 AGTCTGCTCCACTGTCAGTACAGAAAGGCAAGGCTGGTGTCTTTG
1 A-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTGCTATCTTTC
* * * *
56735569 ATCTGCTTCGCCGTCAGTATAGGAAGGCATGATCTGCTATC-TTC
1 ATCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTGCTATCTTTC
* * * ** * *
56735613 AGTCTGCTCCACTGTCAGTATAGGAAGGCAAAACTGGTTTC-TTC
1 A-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTGCTATCTTTC
* * * *
56735657 GATCTGCTTCGCCGCCAGTACAGGAAGGCAAGATCTGTTATC-TTC
1 -ATCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTGCTATCTTTC
* *
56735702 AGTCTGCTTCACTGTCAGTACAGGAAGGCAAGGCTGATATC-TTC
1 A-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTGCTATCTTTC
* * * *
56735746 AATCTGCTTCTCTATCAGTACAGAAAGGC-AGGATCTACTATCTTT-
1 -ATCTGCTTCGCTGTCAGTACAGGAAGGCAAGG--CTGCTATCTTTC
* * * *
56735791 AGTCTGC-TCTGCTGTCAGTACAGGAAGACAAGACTGGTTTC-TTC
1 A-TCTGCTTC-GCTGTCAGTACAGGAAGGCAAGGCTGCTATCTTTC
*
56735835 GATCTGCTTCGCCGTCAGTACAGGAAGGCAA
1 -ATCTGCTTCGCTGTCAGTACAGGAAGGCAA
56735866 AATTTGCTAT
Statistics
Matches: 268, Mismatches: 57, Indels: 34
0.75 0.16 0.09
Matches are distributed among these distances:
43 5 0.02
44 134 0.50
45 125 0.47
46 4 0.01
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (44 bp):
ATCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTGCTATCTTTC
Found at i:56737171 original size:9 final size:9
Alignment explanation
Indices: 56737157--56737207 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 9
56737147 TGGCCTCTCA
56737157 TTTTTCTTT
1 TTTTTCTTT
*
56737166 TTTTTC-TC
1 TTTTTCTTT
*
56737174 TTCTTCTTCT
1 TTTTTCTT-T
*
56737184 TCTTTCTTT
1 TTTTTCTTT
56737193 TTTATTCTTT
1 TTT-TTCTTT
56737203 TTTTT
1 TTTTT
56737208 ATATTTTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
8 6 0.18
9 12 0.36
10 15 0.45
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:56737200 original size:14 final size:14
Alignment explanation
Indices: 56737159--56737212 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
56737149 GCCTCTCATT
56737159 TTTCTTTTTT-TTC
1 TTTCTTTTTTATTC
* *
56737172 TCTTC-TTCTTCTTC
1 T-TTCTTTTTTATTC
56737186 TTTCTTTTTTATTC
1 TTTCTTTTTTATTC
56737200 TTT-TTTTTATATT
1 TTTCTTTTT-TATT
56737213 TTTTATTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 13 0.38
14 21 0.62
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTCTTTTTTATTC
Found at i:56742105 original size:40 final size:41
Alignment explanation
Indices: 56742049--56742142 Score: 113
Period size: 40 Copynumber: 2.3 Consensus size: 41
56742039 AAGAAAATAG
* *
56742049 ATAAAAATTATAAAATATAAAAA-TATATATGTATGTATAT
1 ATAAAAATTATAAAATACAAAAATTATATAAGTATGTATAT
* * *
56742089 TTAAAATTTATTAAATACAAAAATTTATATAAGTATGTATAT
1 ATAAAAATTATAAAATACAAAAA-TTATATAAGTATGTATAT
56742131 AT--AAATTATAAA
1 ATAAAAATTATAAA
56742143 TTATGAAATA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
40 27 0.61
42 17 0.39
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (41 bp):
ATAAAAATTATAAAATACAAAAATTATATAAGTATGTATAT
Found at i:56745957 original size:50 final size:50
Alignment explanation
Indices: 56745833--56746081 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
56745823 GATAATAACA
* * ** * *
56745833 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
56745884 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
56745934 TGCCAACGCCATGTCCCATACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
56745984 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
56746039 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
56746082 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:56746010 original size:100 final size:104
Alignment explanation
Indices: 56745832--56746081 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
56745822 TGATAATAAC
**
56745832 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
56745897 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* * *
56745934 -TGCCAACGCCATGTCCCATACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
56745997 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
56746039 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
56746082 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:56746197 original size:13 final size:13
Alignment explanation
Indices: 56746176--56746207 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56746166 GCTTGGATCA
*
56746176 TCATCAAATAAAT
1 TCATAAAATAAAT
56746189 TCATAAAATAAAT
1 TCATAAAATAAAT
56746202 TCATAA
1 TCATAA
56746208 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:56746452 original size:29 final size:30
Alignment explanation
Indices: 56746419--56746475 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
56746409 CCTCGACTCT
*
56746419 AACTTTTTCA-AATTACAATTTTGCCCCTA
1 AACTTTTACATAATTACAATTTTGCCCCTA
*
56746448 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACATAATTACAATTTTGCCCC
56746476 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.30, C:0.25, G:0.04, T:0.42
Consensus pattern (30 bp):
AACTTTTACATAATTACAATTTTGCCCCTA
Found at i:56748671 original size:70 final size:70
Alignment explanation
Indices: 56748558--56748697 Score: 262
Period size: 70 Copynumber: 2.0 Consensus size: 70
56748548 TCATCATGAG
*
56748558 AAGGGATTTTATCCGTAAGGAGGCTGAGGAAACTTGGAGAGTCAGTAGATTCACCAGGATGACAA
1 AAGGGATTTTATCCGTAAGGAGGCTGAGGAAACTTGGAGAGTCAATAGATTCACCAGGATGACAA
56748623 CTGAA
66 CTGAA
*
56748628 AAGGGATTTTATCCGTAAGGAGGCTGAGGAAACTTGGAGAGTCAATAGATTCATCAGGATGACAA
1 AAGGGATTTTATCCGTAAGGAGGCTGAGGAAACTTGGAGAGTCAATAGATTCACCAGGATGACAA
56748693 CTGAA
66 CTGAA
56748698 GTGGATAATG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (70 bp):
AAGGGATTTTATCCGTAAGGAGGCTGAGGAAACTTGGAGAGTCAATAGATTCACCAGGATGACAA
CTGAA
Found at i:56752109 original size:105 final size:105
Alignment explanation
Indices: 56751977--56752302 Score: 366
Period size: 105 Copynumber: 3.1 Consensus size: 105
56751967 GCCATTGATT
* * * * * **
56751977 AATGCACTATAGGTAACAACATTAGGCTCAATGCCTCGCTTTATCATTGCGTCAACAATATC-AT
1 AATGTACTATACGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATCACGTCAACAATATCTA-
* * *
56752041 TAGCTTCAGAGACCATCCCTTCCTTGCAATGCGCATCAACC
65 CAGCTTCAGAAACCATCCCTTCCTTGCAAAGCGCATCAACC
** * *
56752082 AATGTACTATACGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATCATTTCAACAGTCTCTAC
1 AATGTACTATACGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATCACGTCAACAATATCTAC
* *** * *
56752147 AGCTTTAGAAATTGTTCCTTCCTTGCAAAGTGCATCAACC
66 AGCTTCAGAAACCATCCCTTCCTTGCAAAGCGCATCAACC
* ** *
56752187 AATGTACTATACGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATCATGTCAACGGTCTCTAC
1 AATGTACTATACGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATCACGTCAACAATATCTAC
* * * * *
56752252 AGCTTTAGAAATCGTTCCTTCCTTGCAAAGTGCATCAACC
66 AGCTTCAGAAACCATCCCTTCCTTGCAAAGCGCATCAACC
*
56752292 AATGTATTATA
1 AATGTACTATA
56752303 AGTGTCAATA
Statistics
Matches: 196, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
105 195 0.99
106 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (105 bp):
AATGTACTATACGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATCACGTCAACAATATCTAC
AGCTTCAGAAACCATCCCTTCCTTGCAAAGCGCATCAACC
Found at i:56755681 original size:42 final size:43
Alignment explanation
Indices: 56755629--56755745 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 43
56755619 AAGTTGAGAT
* **
56755629 TTACATGTAAGATCATGTCTGGGACATTGGTTTC-TTATATGA
1 TTACATGTAAGATCATGTTTGGGACATTGGCATCGTTATATGA
* * * *
56755671 TTATATGTAAGACTC-TGTTTGGGACAGTGGCATCGTTGTTTGA
1 TTACATGTAAGA-TCATGTTTGGGACATTGGCATCGTTATATGA
* *
56755714 TTACATGTAAGACCATGTTTGGGACGTTGGCA
1 TTACATGTAAGATCATGTTTGGGACATTGGCA
56755746 CTGTACGAGC
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.38
Consensus pattern (43 bp):
TTACATGTAAGATCATGTTTGGGACATTGGCATCGTTATATGA
Found at i:56758046 original size:28 final size:28
Alignment explanation
Indices: 56758006--56758215 Score: 368
Period size: 28 Copynumber: 7.5 Consensus size: 28
56757996 TAAATTGTAC
56758006 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
56758034 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
56758062 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
56758090 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
56758118 AGCACTAAGTGTGCGGGTTCGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
56758146 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
56758174 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
56758201 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56758216 GACTTAATAT
Statistics
Matches: 176, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.14
28 152 0.86
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:56758123 original size:84 final size:84
Alignment explanation
Indices: 56757981--56758215 Score: 373
Period size: 84 Copynumber: 2.8 Consensus size: 84
56757971 GAGATTGGCG
* * * *
56757981 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGT
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGT
*
56758046 GCGAGTTTGATTATGTAGCA
65 GCGAGTTCGATTATGTAGCA
*
56758066 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTG
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTG
*
56758131 CGGGTTCGATTATGTAGCA
66 CGAGTTCGATTATGTAGCA
* *
56758150 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTG
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTG
56758214 CG
66 CG
56758216 GACTTAATAT
Statistics
Matches: 140, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
83 23 0.16
84 102 0.73
85 15 0.11
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (84 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTG
CGAGTTCGATTATGTAGCA
Found at i:56758230 original size:56 final size:56
Alignment explanation
Indices: 56757981--56758215 Score: 364
Period size: 56 Copynumber: 4.2 Consensus size: 56
56757971 GAGATTGGCG
* * * *
56757981 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
56758038 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
* * *
56758094 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGGGTTCGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
56758150 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
56758205 CTGAGTGTGCG
1 CTAAGTGTGCG
56758216 GACTTAATAT
Statistics
Matches: 166, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
55 22 0.13
56 129 0.78
57 15 0.09
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:56766431 original size:28 final size:28
Alignment explanation
Indices: 56766391--56766600 Score: 368
Period size: 28 Copynumber: 7.5 Consensus size: 28
56766381 TAAATTGTAC
56766391 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
56766419 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
56766447 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
56766475 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
56766503 AGCACTAAGTGTGCGGGTTCGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
56766531 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
56766559 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
56766586 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56766601 GACTTAATAT
Statistics
Matches: 176, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.14
28 152 0.86
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:56766508 original size:84 final size:84
Alignment explanation
Indices: 56766366--56766600 Score: 373
Period size: 84 Copynumber: 2.8 Consensus size: 84
56766356 GAGATTGGCG
* * * *
56766366 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGT
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGT
*
56766431 GCGAGTTTGATTATGTAGCA
65 GCGAGTTCGATTATGTAGCA
*
56766451 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTG
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTG
*
56766516 CGGGTTCGATTATGTAGCA
66 CGAGTTCGATTATGTAGCA
* *
56766535 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTG
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTG
56766599 CG
66 CG
56766601 GACTTAATAT
Statistics
Matches: 140, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
83 23 0.16
84 102 0.73
85 15 0.11
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (84 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTG
CGAGTTCGATTATGTAGCA
Found at i:56766615 original size:56 final size:56
Alignment explanation
Indices: 56766366--56766600 Score: 364
Period size: 56 Copynumber: 4.2 Consensus size: 56
56766356 GAGATTGGCG
* * * *
56766366 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
56766423 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
* * *
56766479 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGGGTTCGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
56766535 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
56766590 CTGAGTGTGCG
1 CTAAGTGTGCG
56766601 GACTTAATAT
Statistics
Matches: 166, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
55 22 0.13
56 129 0.78
57 15 0.09
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:56773518 original size:14 final size:15
Alignment explanation
Indices: 56773488--56773519 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
56773478 CTTTAAAAAT
56773488 TAATAAAAAAATATA
1 TAATAAAAAAATATA
56773503 TAATAAAAAAAT-TA
1 TAATAAAAAAATATA
56773517 TAA
1 TAA
56773520 ATCAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
TAATAAAAAAATATA
Found at i:56776821 original size:3 final size:3
Alignment explanation
Indices: 56776813--56776837 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
56776803 CTAGAATCTC
56776813 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
56776838 TGGAAAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:56782941 original size:44 final size:46
Alignment explanation
Indices: 56782851--56782942 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
56782841 TTTGGTTCGC
* *
56782851 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTGAA
56782897 TGTAATGGAATAGAGGCGTAAT-GAT-ATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTGAA
56782941 TG
1 TG
56782943 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 20 0.45
45 2 0.05
46 22 0.50
ACGTcount: A:0.27, C:0.04, G:0.29, T:0.39
Consensus pattern (46 bp):
TGTAATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTGAA
Found at i:56782943 original size:39 final size:44
Alignment explanation
Indices: 56782851--56782958 Score: 136
Period size: 46 Copynumber: 2.5 Consensus size: 44
56782841 TTTGGTTCGC
* *
56782851 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTT--A
56782897 TGTAATGGAATAGAGGCGTAAT-GAT-ATTCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTA
*
56782937 TG-AATGGAATAGAGGTGTAATA
1 TGTAATGGAATAGAGGCGTAATA
56782959 TCATAAGGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
39 18 0.31
40 2 0.03
43 1 0.02
44 13 0.22
45 2 0.03
46 22 0.38
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.37
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTA
Found at i:56783112 original size:15 final size:15
Alignment explanation
Indices: 56783092--56783255 Score: 68
Period size: 17 Copynumber: 11.0 Consensus size: 15
56783082 ATATTTTAAC
*
56783092 ATAATTTTATAAAAT
1 ATAATTTAATAAAAT
56783107 ATAATTTAATAAAATAT
1 ATAATTTAAT-AAA-AT
56783124 ATAATTTAATAAAAT
1 ATAATTTAATAAAAT
*
56783139 -T--GTTAAT-AAAT
1 ATAATTTAATAAAAT
*
56783150 AT--TCTTATATGAAAT
1 ATAAT-TTA-ATAAAAT
*
56783165 -T-A-CTAATAAAAT
1 ATAATTTAATAAAAT
56783177 CATAATATATAATACGAAAAT
1 -ATAAT-T-TAAT---AAAAT
56783198 ATAATTTAA-AATAAT
1 ATAATTTAATAA-AAT
*
56783213 -T-A-TT-ATTAAAT
1 ATAATTTAATAAAAT
56783224 ATAATTTAATAAAATAT
1 ATAATTTAAT-AAA-AT
56783241 ATAATTTAATAAAAT
1 ATAATTTAATAAAAT
56783256 TGTTAATAAA
Statistics
Matches: 117, Mismatches: 8, Indels: 48
0.68 0.05 0.28
Matches are distributed among these distances:
11 8 0.07
12 16 0.14
13 7 0.06
14 10 0.09
15 23 0.20
16 11 0.09
17 24 0.21
18 7 0.06
19 1 0.01
20 5 0.04
21 5 0.04
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (15 bp):
ATAATTTAATAAAAT
Found at i:56783145 original size:17 final size:17
Alignment explanation
Indices: 56783092--56783138 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
56783082 ATATTTTAAC
*
56783092 ATAATTTTAT-AAA-AT
1 ATAATTTAATAAAATAT
56783107 ATAATTTAATAAAATAT
1 ATAATTTAATAAAATAT
56783124 ATAATTTAATAAAAT
1 ATAATTTAATAAAAT
56783139 TGTTAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 9 0.31
16 3 0.10
17 17 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAATTTAATAAAATAT
Found at i:56783210 original size:20 final size:21
Alignment explanation
Indices: 56783172--56783210 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
56783162 AATTACTAAT
*
56783172 AAAATCATAATATATAATACG
1 AAAATCATAATATAAAATACG
*
56783193 AAAAT-ATAATTTAAAATA
1 AAAATCATAATATAAAATA
56783211 ATTATTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (21 bp):
AAAATCATAATATAAAATACG
Found at i:56783317 original size:116 final size:117
Alignment explanation
Indices: 56783086--56783573 Score: 777
Period size: 117 Copynumber: 4.3 Consensus size: 117
56783076 TTAATCATAT
* *
56783086 TTTAACATAATT-TTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
* **
56783150 ATTCTTATATGAAATTACTAATAAAATCATAATATATAATACGAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTTAAATATAA
56783202 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
56783267 ATTCTTAT-TGAATTTACTAATAAAATCATAATATATAATACTTAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTTAAATATAA
56783318 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
*
56783383 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTCAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTTAAATATAA
* * *
56783435 TTTAAAATAATTATTATTAAATATAATGTAATAGTAATATATAATTTAATAAAA---TT-CT---
1 TTTAAAATAATTATTATTAAATATAATTTAATA-AAATATATAATTTAATAAAATTGTTAATAAA
56783493 TATTCTTATATGAATTTAC---TAAAATCATAATATATAATACTATAAAATATAA
65 TATTCTTATATGAATTTACTAATAAAATCATAATATATAATACT-T-AAATATAA
56783545 TTT-AAATAATTATTATTAAATATAATTTA
1 TTTAAAATAATTATTATTAAATATAATTTA
56783574 TAATCTACTT
Statistics
Matches: 356, Mismatches: 11, Indels: 17
0.93 0.03 0.04
Matches are distributed among these distances:
108 22 0.06
109 25 0.07
110 11 0.03
111 19 0.05
114 1 0.00
115 2 0.01
116 124 0.35
117 133 0.37
118 19 0.05
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (117 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTTAAATATAA
Found at i:56783378 original size:17 final size:17
Alignment explanation
Indices: 56783338--56783371 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
56783328 TTATTATTAA
56783338 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
56783355 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
56783372 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:56783569 original size:32 final size:32
Alignment explanation
Indices: 56783533--56783596 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
56783523 TATATAATAC
*
56783533 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
56783565 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
56783597 CTACAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:56785516 original size:10 final size:10
Alignment explanation
Indices: 56785501--56785525 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
56785491 CCTACAAAGG
56785501 AATCACAGTC
1 AATCACAGTC
56785511 AATCACAGTC
1 AATCACAGTC
56785521 AATCA
1 AATCA
56785526 GCCAATCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.28, G:0.08, T:0.20
Consensus pattern (10 bp):
AATCACAGTC
Found at i:56785692 original size:26 final size:26
Alignment explanation
Indices: 56785662--56785712 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
56785652 CCGTAAAATA
56785662 CTGCAGCTAATACCAATGACAAAAAC
1 CTGCAGCTAATACCAATGACAAAAAC
*
56785688 CTGCAGCTAATATCAATGACAAAAA
1 CTGCAGCTAATACCAATGACAAAAA
56785713 TAAATGCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.47, C:0.24, G:0.12, T:0.18
Consensus pattern (26 bp):
CTGCAGCTAATACCAATGACAAAAAC
Found at i:56786696 original size:23 final size:23
Alignment explanation
Indices: 56786651--56786696 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
56786641 ATAAAAAATC
*
56786651 TATTTAAAAAAAAGGTCAAATTT
1 TATTTAAAAAAAAGGTAAAATTT
*
56786674 TATTTAAAATAAAGG-AAATATTT
1 TATTTAAAAAAAAGGTAAA-ATTT
56786697 CCACTTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (23 bp):
TATTTAAAAAAAAGGTAAAATTT
Found at i:56790692 original size:16 final size:16
Alignment explanation
Indices: 56790671--56790721 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
56790661 CTTGAACTTA
56790671 AAAATGACTTGAATCT
1 AAAATGACTTGAATCT
56790687 AAAATGAAC-T-AATC-
1 AAAATG-ACTTGAATCT
* *
56790701 GAAATAACTTGAATCT
1 AAAATGACTTGAATCT
56790717 AAAAT
1 AAAAT
56790722 AATCCGACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
13 2 0.07
14 5 0.18
15 8 0.29
16 11 0.39
17 2 0.07
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (16 bp):
AAAATGACTTGAATCT
Found at i:56794604 original size:3 final size:3
Alignment explanation
Indices: 56794598--56794633 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
56794588 CATCAACAGA
* *
56794598 TTG TTG TTG TTG TTG TCG TTG TTG TTG TTG CTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
56794634 CTGCTGAGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.06, G:0.33, T:0.61
Consensus pattern (3 bp):
TTG
Found at i:56795119 original size:12 final size:12
Alignment explanation
Indices: 56795085--56795128 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
56795075 TAGTGAATCG
56795085 GGTTTGGGTTCA
1 GGTTTGGGTTCA
*
56795097 GGTTCGGGTTCA
1 GGTTTGGGTTCA
*
56795109 GGTTTGAGTTCA
1 GGTTTGGGTTCA
*
56795121 AGTTTGGG
1 GGTTTGGG
56795129 ATGATCAAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.11, C:0.09, G:0.41, T:0.39
Consensus pattern (12 bp):
GGTTTGGGTTCA
Found at i:56797412 original size:44 final size:41
Alignment explanation
Indices: 56797364--56797472 Score: 98
Period size: 44 Copynumber: 2.6 Consensus size: 41
56797354 AGTATTATAT
56797364 ATTATGATTTTAGTAAATTCATATAAGAATAAGAATT-TTATTAA
1 ATTAT-ATTTTAGTAAATT-ATAT-AGAATAAGAATTATT-TTAA
* ** *
56797408 ATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAA
1 A-T-TATATT-TTAGTAAATTATATAGAATAAGAATTATTTTAA
56797452 ATTATATTTTAGT--ATTATATA
1 ATTATATTTTAGTAAATTATATA
56797473 TTATGATTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
39 7 0.13
41 4 0.07
42 6 0.11
43 1 0.02
44 15 0.27
45 10 0.18
46 12 0.22
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (41 bp):
ATTATATTTTAGTAAATTATATAGAATAAGAATTATTTTAA
Found at i:56797422 original size:108 final size:112
Alignment explanation
Indices: 56797310--56797569 Score: 354
Period size: 117 Copynumber: 2.3 Consensus size: 112
56797300 AATAAAGTAG
56797310 ATTA-TAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGA-TT
1 ATTATTAAATTATATTTAATAATAATTATTTAAATTATA-TTT-TAGTATTATATATTATGATTT
* *
56797373 -TTAGTAAATTCATAT-AAGA-A-TAAGAATTTTATTAAATTATATATT
64 ATTAGTAAATTCATATAAAAATATTAACAATTTTATTAAATTATATATT
56797418 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTT
1 ATTATTAAATTATATTTAATAATAATTA-TTTAAATTATATTTTAGTATTATATATTATGA-TTT
56797483 ATTAGTAAATTCATATAAAAAATTTTATTAACAATTTTATTAAATTATATATT
64 ATTAGTAAATTCATAT-AAAAA---TATTAACAATTTTATTAAATTATATATT
* *
56797536 -TTATTAAATTATATTTTATAACAATTATGTTAAA
1 ATTATTAAATTATATTTAATAATAATTAT-TTAAA
56797570 ATATGATTAA
Statistics
Matches: 135, Mismatches: 4, Indels: 17
0.87 0.03 0.11
Matches are distributed among these distances:
108 22 0.16
109 26 0.19
110 13 0.10
111 15 0.11
113 3 0.02
116 1 0.01
117 31 0.23
118 24 0.18
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (112 bp):
ATTATTAAATTATATTTAATAATAATTATTTAAATTATATTTTAGTATTATATATTATGATTTAT
TAGTAAATTCATATAAAAATATTAACAATTTTATTAAATTATATATT
Found at i:56797451 original size:26 final size:28
Alignment explanation
Indices: 56797397--56797460 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
56797387 TAAGAATAAG
* * *
56797397 AATTTTATTAAATTATATATTATTATTA
1 AATTATATTTAATAATATATTATTATTA
56797425 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
56797451 AATTATATTT
1 AATTATATTT
56797461 TAGTATTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.39
27 6 0.18
28 14 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
AATTATATTTAATAATATATTATTATTA
Found at i:56797554 original size:15 final size:17
Alignment explanation
Indices: 56797516--56797549 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
56797506 TTTATTAACA
56797516 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
56797533 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
56797550 TTTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:56797563 original size:16 final size:15
Alignment explanation
Indices: 56797516--56797563 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
56797506 TTTATTAACA
*
56797516 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
56797533 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
56797548 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
56797564 GTTAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:56797741 original size:39 final size:42
Alignment explanation
Indices: 56797698--56797841 Score: 186
Period size: 44 Copynumber: 3.4 Consensus size: 42
56797688 TCCTTATGCT
*
56797698 ATTACACCTCTA-T-TT-CATTCAACCAAACACAAGAATACC
1 ATTACGCCTCTATTCTTACATTCAACCAAACACAAGAATACC
56797737 ATTACGCCTCTATTCCATTACATTCAACCAAACACAAGAATACC
1 ATTACGCCTCTATT-C-TTACATTCAACCAAACACAAGAATACC
*
56797781 ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTACC
1 ATTACGCCTCTATT-C-TTACATTCAACCAAACACAAGAA-TACC
*
56797826 TATTACGCCTTTATTC
1 -ATTACGCCTCTATTC
56797842 CATTACAGCG
Statistics
Matches: 95, Mismatches: 3, Indels: 8
0.90 0.03 0.08
Matches are distributed among these distances:
39 11 0.12
40 1 0.01
43 2 0.02
44 63 0.66
45 5 0.05
46 13 0.14
ACGTcount: A:0.38, C:0.30, G:0.04, T:0.28
Consensus pattern (42 bp):
ATTACGCCTCTATTCTTACATTCAACCAAACACAAGAATACC
Found at i:56797859 original size:46 final size:44
Alignment explanation
Indices: 56797713--56797848 Score: 236
Period size: 44 Copynumber: 3.0 Consensus size: 44
56797703 ACCTCTATTT
56797713 CATTCAACCAAACACAAGAATACCATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGAATACCATTACGCCTCTATTCCATTA
56797757 CATTCAACCAAACACAAGAATACCATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGAATACCATTACGCCTCTATTCCATTA
* *
56797801 CATTCAACCAAACAAAAGAATTACCTATTACGCCTTTATTCCATTA
1 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTA
56797847 CA
1 CA
56797849 GCGAACCAAA
Statistics
Matches: 88, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
44 63 0.72
45 4 0.05
46 21 0.24
ACGTcount: A:0.39, C:0.30, G:0.04, T:0.26
Consensus pattern (44 bp):
CATTCAACCAAACACAAGAATACCATTACGCCTCTATTCCATTA
Found at i:56800521 original size:105 final size:105
Alignment explanation
Indices: 56800379--56800620 Score: 403
Period size: 105 Copynumber: 2.3 Consensus size: 105
56800369 ACTATAGGTA
* *
56800379 ACAACATTAGGTTCAATGCCTCGCTTTATCATTGCGTCAACAATATCCTCAGCTTCAGAGACCAT
1 ACAACATCAGGCTCAATGCCTCGCTTTATCATTGCGTCAACAATATCCTCAGCTTCAGAGACCAT
*
56800444 CCCTTCCTTGCAATGCGCATCAACCAATGTATTATACGTG
66 CCCTTCCTTGCAATGAGCATCAACCAATGTATTATACGTG
* * **
56800484 ACAATATCAGGCTCAATGCCTCTCTTTATCATTGCGTCAATGATATCCTCAGCTTCAGAGACCAT
1 ACAACATCAGGCTCAATGCCTCGCTTTATCATTGCGTCAACAATATCCTCAGCTTCAGAGACCAT
56800549 CCCTTCCTTGCAATGAGCATCAACCAATGTATTATACGTG
66 CCCTTCCTTGCAATGAGCATCAACCAATGTATTATACGTG
* *
56800589 ACAACATCAGGCTCAATGCCTTGCATTATCAT
1 ACAACATCAGGCTCAATGCCTCGCTTTATCAT
56800621 CATGTCAACG
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
105 126 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (105 bp):
ACAACATCAGGCTCAATGCCTCGCTTTATCATTGCGTCAACAATATCCTCAGCTTCAGAGACCAT
CCCTTCCTTGCAATGAGCATCAACCAATGTATTATACGTG
Found at i:56805543 original size:114 final size:114
Alignment explanation
Indices: 56805394--56805781 Score: 440
Period size: 114 Copynumber: 3.4 Consensus size: 114
56805384 AAAAACACGA
* **
56805394 AGAACTAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACACTATTAGTGGCGTTTATTTGTAAGC
1 AGAATTAGTGGCGTTTACAAAAAAACACCGTAAAAGAACACTATTAGTGGCGTTTATTTGTAAGC
*
56805459 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATT
66 GCCGCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATT
* * * * * * * *
56805508 AGAATTAGTGGCGTTTACCATAAAACGCCGCAAAAGAACAGTATTAGCGGCGTATTACTAG-AAG
1 AGAATTAGTGGCGTTTACAAAAAAACACCGTAAAAGAACACTATTAGTGGCGT-TTATTTGTAAG
* * * * * * *
56805572 CGTCGC-AAATATCTTAATCAAAACGCACCGTTTAGTCTTGAGGTAGATT
65 CGCCGCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATT
** ** *
56805621 AGTGTTAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATCT-TTAGTGGCGTTTATTTTTAAG
1 AGAATTAGTGGCGTTTACAAAAAAACACCGTAAAAGAACA-CTATTAGTGGCGTTTATTTGTAAG
*
56805685 CGCCGCAAAATACCTTAACCAAAACGCAACATTTGGTTTTGAGGTATATT
65 CGCCGCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATT
* * ** ** * *
56805735 AAAATTAGTGGCATTTACGGAAAAATGCCGTTAAAGAACAGTATTAG
1 AGAATTAGTGGCGTTTACAAAAAAACACCGTAAAAGAACACTATTAG
56805782 CGGCATATTA
Statistics
Matches: 218, Mismatches: 51, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
112 4 0.02
113 87 0.40
114 122 0.56
115 5 0.02
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (114 bp):
AGAATTAGTGGCGTTTACAAAAAAACACCGTAAAAGAACACTATTAGTGGCGTTTATTTGTAAGC
GCCGCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATT
Found at i:56805634 original size:113 final size:112
Alignment explanation
Indices: 56805394--56805841 Score: 404
Period size: 114 Copynumber: 3.9 Consensus size: 112
56805384 AAAAACACGA
* * * * *
56805394 AGAACTAGTGGCGTTTTTA-AAAAAACACCGTAAAAGAACACTATTAGTGGCGTTTATTTGTAAG
1 AGAATTAGTGGCG--TTTACAAAAAACACCGTAAAAGAACAGTATTAGCGGCGTTTACTAG-AAG
*
56805458 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATT
63 CGCCGCAAAATACCTTAACCAAAACGCACCGTTTGGTTTTGAGGTATATT
* * *
56805508 AGAATTAGTGGCGTTTACCATAAAACGCCGCAAAAGAACAGTATTAGCGGCGTATTACTAGAAGC
1 AGAATTAGTGGCGTTTA-CAAAAAACACCGTAAAAGAACAGTATTAGCGGCGT-TTACTAGAAGC
* * * * * *
56805573 GTCGC-AAATATCTTAATCAAAACGCACCGTTTAGTCTTGAGGTAGATT
64 GCCGCAAAATACCTTAACCAAAACGCACCGTTTGGTTTTGAGGTATATT
** * * * **
56805621 AGTGTTAGTGGCGTTTTTA-AAAAAACACCGTAAAAGAACA-TCTTTAGTGGCGTTTATTTTTAA
1 AGAATTAGTGGCG--TTTACAAAAAACACCGTAAAAGAACAGT-ATTAGCGGCGTTTA-CTAGAA
* *
56805684 GCGCCGCAAAATACCTTAACCAAAACGCAACATTTGGTTTTGAGGTATATT
62 GCGCCGCAAAATACCTTAACCAAAACGCACCGTTTGGTTTTGAGGTATATT
* * * ** * * * *
56805735 AAAATTAGTGGCATTTACGGAAAAATGCCGTTAAAGAACAGTATTAGCGGCATATTACAAAAAGC
1 AGAATTAGTGGCGTTTAC-AAAAAACACCGTAAAAGAACAGTATTAGCGGCGT-TTACTAGAAGC
* ** * *
56805800 GCCAC-AAATATCGGT-ACTAAAACGCACCGTTTGGTGTTGAGG
64 GCCGCAAAATA-CCTTAACCAAAACGCACCGTTTGGTTTTGAGG
56805842 AAGGTTAGCA
Statistics
Matches: 266, Mismatches: 55, Indels: 27
0.76 0.16 0.08
Matches are distributed among these distances:
112 12 0.05
113 112 0.42
114 129 0.48
115 13 0.05
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (112 bp):
AGAATTAGTGGCGTTTACAAAAAACACCGTAAAAGAACAGTATTAGCGGCGTTTACTAGAAGCGC
CGCAAAATACCTTAACCAAAACGCACCGTTTGGTTTTGAGGTATATT
Found at i:56805810 original size:227 final size:227
Alignment explanation
Indices: 56805399--56805841 Score: 676
Period size: 227 Copynumber: 2.0 Consensus size: 227
56805389 CACGAAGAAC
56805399 TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACACTATTAGTGGCGTTTATTTGTAAGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACACTATTAGTGGCGTTTATTTGTAAGCGCCGC
* * * *
56805464 AAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACCAT
66 AAAATACCTTAACCAAAACGCAACATTTGGTTTTGAGGTATATTAAAATTAGTGGCATTTACCAT
* * * * * *
56805529 AAAACGCCGCAAAAGAACAGTATTAGCGGCGTATTACTAGAAGCGTCGCAAATATC-TTAATCAA
131 AAAACGCCGCAAAAGAACAGTATTAGCGGCATATTACAAAAAGCGCCACAAATATCGGTAAT-AA
56805593 AACGCACCGTTTAGTCTTGAGGTAGATTAGTGT
195 AACGCACCGTTTAGTCTTGAGGTAGATTAGTGT
*
56805626 TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATCT-TTAGTGGCGTTTATTTTTAAGCGCCG
1 TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACA-CTATTAGTGGCGTTTATTTGTAAGCGCCG
*
56805690 CAAAATACCTTAACCAAAACGCAACATTTGGTTTTGAGGTATATTAAAATTAGTGGCATTTACGG
65 CAAAATACCTTAACCAAAACGCAACATTTGGTTTTGAGGTATATTAAAATTAGTGGCATTTAC-C
* ** *
56805755 A-AAAATGCCGTTAAAGAACAGTATTAGCGGCATATTACAAAAAGCGCCACAAATATCGGTACTA
129 ATAAAACGCCGCAAAAGAACAGTATTAGCGGCATATTACAAAAAGCGCCACAAATATCGGTAATA
* *
56805819 AAACGCACCGTTTGGTGTTGAGG
194 AAACGCACCGTTTAGTCTTGAGG
56805842 AAGGTTAGCA
Statistics
Matches: 195, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
227 189 0.97
228 6 0.03
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (227 bp):
TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACACTATTAGTGGCGTTTATTTGTAAGCGCCGC
AAAATACCTTAACCAAAACGCAACATTTGGTTTTGAGGTATATTAAAATTAGTGGCATTTACCAT
AAAACGCCGCAAAAGAACAGTATTAGCGGCATATTACAAAAAGCGCCACAAATATCGGTAATAAA
ACGCACCGTTTAGTCTTGAGGTAGATTAGTGT
Found at i:56808787 original size:23 final size:23
Alignment explanation
Indices: 56808748--56808793 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
56808738 GCCTGATTCT
*
56808748 TCGTATTTATAGATTTGGTTTTG
1 TCGTATTTATAGATTTGATTTTG
*
56808771 TCGTATTTTTA-ATTTTGATTTTG
1 TCGTATTTATAGA-TTTGATTTTG
56808794 CTTTCTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.17, C:0.04, G:0.17, T:0.61
Consensus pattern (23 bp):
TCGTATTTATAGATTTGATTTTG
Found at i:56808976 original size:44 final size:46
Alignment explanation
Indices: 56808903--56808990 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 46
56808893 GCTTCTATTA
*
56808903 TTGTTCATTACAGATTTTGGTTGAATGGTTTAAGGTGTTAGGAAAT
1 TTGTTCATTACAGATTTTGGTTGAATGGTTTAAGGTGCTAGGAAAT
* *
56808949 TTGTTCATTACTG-TTTT-GTTGAATGGTTTAGGGTGCTAGGAA
1 TTGTTCATTACAGATTTTGGTTGAATGGTTTAAGGTGCTAGGAA
56808991 CCGTTTTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
44 23 0.59
45 4 0.10
46 12 0.31
ACGTcount: A:0.23, C:0.06, G:0.27, T:0.44
Consensus pattern (46 bp):
TTGTTCATTACAGATTTTGGTTGAATGGTTTAAGGTGCTAGGAAAT
Found at i:56810246 original size:17 final size:17
Alignment explanation
Indices: 56810224--56810256 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
56810214 TTAATATCTA
56810224 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
56810241 TATAAGTTTTCTAAAT
1 TATAAGTTTTCTAAAT
56810257 AAGTTTTGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:56810533 original size:32 final size:30
Alignment explanation
Indices: 56810490--56810595 Score: 101
Period size: 32 Copynumber: 3.4 Consensus size: 30
56810480 AGATAAATTA
*
56810490 AATAACTTACATAACTTATTATGTAACAACAT
1 AATAAC-TACATAACTTATTAT-TAATAACAT
*
56810522 AATAAACTACATAA-TACATTATATAATAACAT
1 AAT-AACTACATAACT-TATTAT-TAATAACAT
*
56810554 AATAACTTAAATAACTTA-TA-TAATAACAT
1 AATAAC-TACATAACTTATTATTAATAACAT
56810583 AATAACTAACATA
1 AATAACT-ACATA
56810596 CAATATATAA
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
28 1 0.02
29 19 0.30
31 6 0.10
32 33 0.52
33 4 0.06
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (30 bp):
AATAACTACATAACTTATTATTAATAACAT
Found at i:56810567 original size:20 final size:21
Alignment explanation
Indices: 56810526--56810595 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 21
56810516 CAACATAATA
*
56810526 AACT-ACATAAT-ACATTATAT
1 AACTAACATAATAAC-TTAAAT
56810546 AA-TAACATAATAACTTAAAT
1 AACTAACATAATAACTTAAAT
* * *
56810566 AACTTATATAATAACAT-AAT
1 AACTAACATAATAACTTAAAT
56810586 AACTAACATA
1 AACTAACATA
56810596 CAATATATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
19 1 0.02
20 27 0.66
21 13 0.32
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (21 bp):
AACTAACATAATAACTTAAAT
Found at i:56810572 original size:29 final size:29
Alignment explanation
Indices: 56810490--56810595 Score: 115
Period size: 29 Copynumber: 3.4 Consensus size: 29
56810480 AGATAAATTA
*
56810490 AATAACTTACATAACTTATTATGTAACAACAT
1 AATAACTTACATAACTTA-TA--TAATAACAT
56810522 AATAAAC-TACATAATACATTATATAATAACAT
1 AAT-AACTTACAT-A-AC-TTATATAATAACAT
*
56810554 AATAACTTAAATAACTTATATAATAACAT
1 AATAACTTACATAACTTATATAATAACAT
*
56810583 AATAACTAACATA
1 AATAACTTACATA
56810596 CAATATATAA
Statistics
Matches: 65, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
29 25 0.38
30 2 0.03
31 4 0.06
32 23 0.35
33 4 0.06
34 4 0.06
35 3 0.05
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (29 bp):
AATAACTTACATAACTTATATAATAACAT
Found at i:56810602 original size:29 final size:28
Alignment explanation
Indices: 56810507--56810605 Score: 101
Period size: 29 Copynumber: 3.3 Consensus size: 28
56810497 TACATAACTT
* *
56810507 ATTATGTAACAACATAATAAACTACATAATAC
1 ATTATATAATAACATAAT-AACT--A-AATAC
56810539 ATTATATAATAACATAATAACTTAAATA-
1 ATTATATAATAACATAATAAC-TAAATAC
56810567 ACTTATATAATAACATAATAACTAACATAC
1 A-TTATATAATAACATAATAACTAA-ATAC
*
56810597 AATATATAA
1 ATTATATAA
56810606 ACATATATAG
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
28 4 0.07
29 34 0.57
30 2 0.03
31 3 0.05
32 17 0.28
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.31
Consensus pattern (28 bp):
ATTATATAATAACATAATAACTAAATAC
Found at i:56810645 original size:9 final size:9
Alignment explanation
Indices: 56810617--56810890 Score: 232
Period size: 9 Copynumber: 30.2 Consensus size: 9
56810607 CATATATAGA
*
56810617 AACTAACAT
1 AACTTACAT
* *
56810626 AAATTAAAT
1 AACTTACAT
*
56810635 AAGTTACAT
1 AACTTACAT
56810644 AACTTACAT
1 AACTTACAT
* *
56810653 AAATTAAAT
1 AACTTACAT
56810662 AACTTACAT
1 AACTTACAT
56810671 AACTTACAT
1 AACTTACAT
*
56810680 AAAC-AACAT
1 -AACTTACAT
*
56810689 AAATTACAT
1 AACTTACAT
*
56810698 AACTTAAAT
1 AACTTACAT
* *
56810707 AGGA-ATGCAT
1 A--ACTTACAT
56810717 AACTTACAT
1 AACTTACAT
*
56810726 AACCTACAT
1 AACTTACAT
* *
56810735 AAATTAAAT
1 AACTTACAT
56810744 AACTTACAT
1 AACTTACAT
*
56810753 GACTTACAT
1 AACTTACAT
*
56810762 AAATTA-AGT
1 AACTTACA-T
*
56810771 AACCTACAT
1 AACTTACAT
56810780 AACTTACAT
1 AACTTACAT
**
56810789 AAACTTGTAT
1 -AACTTACAT
* *
56810799 AAATTAAAT
1 AACTTACAT
56810808 AACTTACAT
1 AACTTACAT
*
56810817 AACCTACAT
1 AACTTACAT
* *
56810826 AAATTAAAT
1 AACTTACAT
*
56810835 AAGTTACAT
1 AACTTACAT
56810844 AACTTACAT
1 AACTTACAT
*
56810853 AAATTA-AGT
1 AACTTACA-T
56810862 AACTTACAT
1 AACTTACAT
56810871 AACTTACAT
1 AACTTACAT
56810880 AACTTACAT
1 AACTTACAT
56810889 AA
1 AA
56810891 TACATAAAAA
Statistics
Matches: 207, Mismatches: 48, Indels: 20
0.75 0.17 0.07
Matches are distributed among these distances:
8 5 0.02
9 185 0.89
10 16 0.08
11 1 0.00
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:56810647 original size:27 final size:27
Alignment explanation
Indices: 56810617--56810897 Score: 264
Period size: 27 Copynumber: 10.1 Consensus size: 27
56810607 CATATATAGA
* *
56810617 AACTAACATAAATTAAATAAGTTACAT
1 AACTTACATAAATTAAATAACTTACAT
56810644 AACTTACATAAATTAAATAACTTACAT
1 AACTTACATAAATTAAATAACTTACAT
* *
56810671 AACTTACATAAA-CAACATAAATTACAT
1 AACTTACATAAATTAA-ATAACTTACAT
* **
56810698 AACTTAAATAGGAA-TGCATAACTTACAT
1 AACTTACATA--AATTAAATAACTTACAT
*
56810726 AACCTACATAAATTAAATAACTTACAT
1 AACTTACATAAATTAAATAACTTACAT
* * *
56810753 GACTTACATAAATTAAGTAACCTACAT
1 AACTTACATAAATTAAATAACTTACAT
*
56810780 AACTTACATAAACTTGTATAAATTAAATAACTTACAT
1 AACTTACATAAA----T-TAAA-T--A-AC-TTACAT
* *
56810817 AACCTACATAAATTAAATAAGTTACAT
1 AACTTACATAAATTAAATAACTTACAT
*
56810844 AACTTACATAAATTAAGTAACTTACAT
1 AACTTACATAAATTAAATAACTTACAT
* *
56810871 AACTTACATAACTTACATAA--TACAT
1 AACTTACATAAATTAAATAACTTACAT
56810896 AA
1 AA
56810898 AAATATATCA
Statistics
Matches: 211, Mismatches: 29, Indels: 30
0.78 0.11 0.11
Matches are distributed among these distances:
25 7 0.03
26 4 0.02
27 149 0.71
28 19 0.09
29 3 0.01
31 2 0.01
32 7 0.03
33 2 0.01
35 1 0.00
36 1 0.00
37 16 0.08
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.31
Consensus pattern (27 bp):
AACTTACATAAATTAAATAACTTACAT
Found at i:56810735 original size:91 final size:90
Alignment explanation
Indices: 56810639--56810890 Score: 303
Period size: 91 Copynumber: 2.8 Consensus size: 90
56810629 TTAAATAAGT
* * * * * *
56810639 TACATAACTTACATAAATTAAATAACTTACATAACTTACA-TAAACAACATAAATTACATAACTT
1 TACATAAATTAAATAAATTACATAACTTACATAAATTA-AGTAAACTACATAACTTACATAACTT
**
56810703 AAATAGGAA-TGCATAACTTACATAACC
65 AAATA--AATTAAATAACTTACATAACC
* * *
56810730 TACATAAATTAAATAACTTACATGACTTACATAAATTAAGTAACCTACATAACTTACATAAACTT
1 TACATAAATTAAATAAATTACATAACTTACATAAATTAAGTAAACTACATAACTTACAT-AACTT
**
56810795 GTATAAATTAAATAACTTACATAACC
65 AAATAAATTAAATAACTTACATAACC
*
56810821 TACATAAATTAAATAAGTTACATAACTTACATAAATTAAGT-AACTTACATAACTTACATAACTT
1 TACATAAATTAAATAAATTACATAACTTACATAAATTAAGTAAAC-TACATAACTTACATAACTT
*
56810885 ACATAA
65 AAATAA
56810891 TACATAAAAA
Statistics
Matches: 139, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
90 14 0.10
91 117 0.84
92 8 0.06
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.31
Consensus pattern (90 bp):
TACATAAATTAAATAAATTACATAACTTACATAAATTAAGTAAACTACATAACTTACATAACTTA
AATAAATTAAATAACTTACATAACC
Found at i:56811558 original size:45 final size:45
Alignment explanation
Indices: 56811490--56811708 Score: 321
Period size: 45 Copynumber: 4.9 Consensus size: 45
56811480 AAGAGGTGGA
** * * *
56811490 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
56811535 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
56811580 CAACATCAAGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
56811625 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
56811670 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
56811709 CCATGGCCGA
Statistics
Matches: 160, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 160 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.25
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:56815221 original size:16 final size:16
Alignment explanation
Indices: 56815200--56815231 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
56815190 TAATGTGTTT
*
56815200 TGCTGCTGTTGTTTAA
1 TGCTGCTATTGTTTAA
56815216 TGCTGCTATTGTTTAA
1 TGCTGCTATTGTTTAA
56815232 ATGCAGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.12, G:0.22, T:0.50
Consensus pattern (16 bp):
TGCTGCTATTGTTTAA
Found at i:56815425 original size:45 final size:45
Alignment explanation
Indices: 56815345--56815563 Score: 303
Period size: 45 Copynumber: 4.9 Consensus size: 45
56815335 AAGAGGTGGA
* ** * * *
56815345 CAACATCACGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
56815390 CAAAATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
56815435 CAACATCAAGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
56815480 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
56815525 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
56815564 CCATGGCCGA
Statistics
Matches: 157, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 157 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.25
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:56821604 original size:66 final size:65
Alignment explanation
Indices: 56821510--56821680 Score: 200
Period size: 66 Copynumber: 2.6 Consensus size: 65
56821500 GAGCAAATTA
** * * * *
56821510 CACAACTTAAAGTGGAGGCAACATCGAGAGAAGCTGATGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
56821574 G
65 G
*
56821575 CTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
56821640 G
65 G
* * * * *
56821641 CAGCAGCTTAGAGCAGATGCGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
56821681 CGACAGCGAA
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.02
66 85 0.93
67 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.14
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:56821678 original size:21 final size:21
Alignment explanation
Indices: 56821652--56821763 Score: 59
Period size: 21 Copynumber: 5.3 Consensus size: 21
56821642 AGCAGCTTAG
* *
56821652 AGCAGATGCGGCAGC-AAGAGA
1 AGCAGAGGCGACAGCGAA-AGA
56821673 AGCAGAGGCGACAGCGAAAGA
1 AGCAGAGGCGACAGCGAAAGA
* * * *
56821694 AGAACAGGCTACAGC-AAGGGA
1 AGCAGAGGCGACAGCGAA-AGA
* * **
56821715 AGCAGAGGCTAAAGCGAGGGA
1 AGCAGAGGCGACAGCGAAAGA
* **
56821736 AACAGAGGCTG-CAGCGAGGGA
1 AGCAGAGGC-GACAGCGAAAGA
56821757 AGCAGAG
1 AGCAGAG
56821764 CAGCGTCAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
20 2 0.03
21 68 0.93
22 3 0.04
ACGTcount: A:0.39, C:0.18, G:0.39, T:0.04
Consensus pattern (21 bp):
AGCAGAGGCGACAGCGAAAGA
Found at i:56821722 original size:42 final size:42
Alignment explanation
Indices: 56821663--56821763 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
56821653 GCAGATGCGG
* *
56821663 CAGCAAGAGAAGCAGAGGCGACAGCGAAAGAAGA-ACAGGCTA
1 CAGCAAGGGAAGCAGAGGCGAAAGCGAAAGAA-ACACAGGCTA
* ** * *
56821705 CAGCAAGGGAAGCAGAGGCTAAAGCGAGGGAAACAGAGGCTG
1 CAGCAAGGGAAGCAGAGGCGAAAGCGAAAGAAACACAGGCTA
*
56821747 CAGCGAGGGAAGCAGAG
1 CAGCAAGGGAAGCAGAG
56821764 CAGCGTCAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
41 1 0.02
42 49 0.98
ACGTcount: A:0.41, C:0.18, G:0.39, T:0.03
Consensus pattern (42 bp):
CAGCAAGGGAAGCAGAGGCGAAAGCGAAAGAAACACAGGCTA
Found at i:56822266 original size:43 final size:43
Alignment explanation
Indices: 56822156--56822277 Score: 140
Period size: 43 Copynumber: 2.8 Consensus size: 43
56822146 AAGGCCATGG
* * *
56822156 TCTATAGCGGCGTTTATATAAAAAACGCCACTAAAGACCCTGA
1 TCTATAGCGGCGCTTATATAAAAAACGCCGCTAAAGACCCTAA
**
56822199 TCTATAGCGGCGCTTCCA-AGAAAAACGCCGCTAAAGACACC-AA
1 TCTATAGCGGCGCTTATATA-AAAAACGCCGCTAAAGAC-CCTAA
* * *
56822242 TCTATAACGGCGGTTATATAAAAAATGCCGCTAAAG
1 TCTATAGCGGCGCTTATATAAAAAACGCCGCTAAAG
56822278 CTCTTAGTCT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
42 1 0.02
43 62 0.94
44 3 0.05
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (43 bp):
TCTATAGCGGCGCTTATATAAAAAACGCCGCTAAAGACCCTAA
Found at i:56822454 original size:22 final size:22
Alignment explanation
Indices: 56822426--56822468 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
56822416 TTGCGGCGCT
*
56822426 AAAAAGCACCGCTAAAGGCCTA
1 AAAAAGCACCGCTAAAAGCCTA
*
56822448 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCACCGCTAAAAGCCT
56822469 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.28, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAAGCACCGCTAAAAGCCTA
Found at i:56826078 original size:6 final size:6
Alignment explanation
Indices: 56826067--56826091 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
56826057 TTTTACATTT
56826067 TAATTA TAATTA TAATTA TAATTA T
1 TAATTA TAATTA TAATTA TAATTA T
56826092 TCACACTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATTA
Found at i:56827125 original size:11 final size:11
Alignment explanation
Indices: 56827106--56827148 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
56827096 ATATTTTTAT
*
56827106 AAAGTAAAAAG
1 AAAGAAAAAAG
*
56827117 AAAGAAAAAGG
1 AAAGAAAAAAG
56827128 AAAGCAAAAAAG
1 AAAG-AAAAAAG
56827140 -AAGAAAAAA
1 AAAGAAAAAA
56827149 AAGATGGGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 6 0.21
11 16 0.57
12 6 0.21
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:56830578 original size:17 final size:19
Alignment explanation
Indices: 56830556--56830591 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
56830546 CCCAATCTAC
56830556 CCAAAA-TTTATT-TCCCA
1 CCAAAATTTTATTCTCCCA
56830573 CCAAAATTTTATTCTCCCA
1 CCAAAATTTTATTCTCCCA
56830592 TTTATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (19 bp):
CCAAAATTTTATTCTCCCA
Found at i:56838179 original size:14 final size:15
Alignment explanation
Indices: 56838162--56838191 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
56838152 ATCATTTTGA
56838162 TTAAT-ATAAATATT
1 TTAATAATAAATATT
56838176 TTAATAATAAATATT
1 TTAATAATAAATATT
56838191 T
1 T
56838192 AGAAGGTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAATAATAAATATT
Found at i:56839972 original size:7 final size:7
Alignment explanation
Indices: 56839960--56839997 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
56839950 AACTAATCAA
*
56839960 TTTTTAC
1 TTTTCAC
*
56839967 TTTTTAC
1 TTTTCAC
56839974 TTTTCAC
1 TTTTCAC
56839981 TTTTCAC
1 TTTTCAC
56839988 TTTTCAC
1 TTTTCAC
56839995 TTT
1 TTT
56839998 AATAAGTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.13, C:0.21, G:0.00, T:0.66
Consensus pattern (7 bp):
TTTTCAC
Found at i:56840060 original size:27 final size:28
Alignment explanation
Indices: 56840024--56840076 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
56840014 TTCTAAATTT
*
56840024 TTATTTATTT-GTGTACACAAA-AAACTA
1 TTATTGATTTAGTGT-CACAAATAAACTA
56840051 TTATTGATTTAGTGTCACAAATAAAC
1 TTATTGATTTAGTGTCACAAATAAAC
56840077 ACGACATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (28 bp):
TTATTGATTTAGTGTCACAAATAAACTA
Found at i:56841006 original size:12 final size:12
Alignment explanation
Indices: 56840989--56841021 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
56840979 TGGTAAAAAA
56840989 TTAAAATTATTT
1 TTAAAATTATTT
56841001 TTAAAATT-TTT
1 TTAAAATTATTT
*
56841012 ATAAAATTAT
1 TTAAAATTAT
56841022 AAAATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTAAAATTATTT
Found at i:56842649 original size:14 final size:14
Alignment explanation
Indices: 56842623--56842652 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
56842613 TTTATTAAAA
*
56842623 TTTTATTTTTAATT
1 TTTTAATTTTAATT
56842637 TTTTAATTTTAATT
1 TTTTAATTTTAATT
56842651 TT
1 TT
56842653 ATTCTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTAATTTTAATT
Found at i:56852152 original size:54 final size:57
Alignment explanation
Indices: 56852047--56852161 Score: 191
Period size: 57 Copynumber: 2.1 Consensus size: 57
56852037 TTGTGATAGG
56852047 AATTAATGGGAAAGTACGTGAAGAAGAAGAAGAAAGAGAAACTAATTAATGATTGAT
1 AATTAATGGGAAAGTACGTGAAGAAGAAGAAGAAAGAGAAACTAATTAATGATTGAT
* *
56852104 AATTAATGGGAAAGTACGTTAAGAAGAAGAA-AGAGA-AAAC-AATTAATGATTGAT
1 AATTAATGGGAAAGTACGTGAAGAAGAAGAAGAAAGAGAAACTAATTAATGATTGAT
56852158 AATT
1 AATT
56852162 GAAAATAATT
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
54 18 0.32
55 4 0.07
56 4 0.07
57 30 0.54
ACGTcount: A:0.51, C:0.03, G:0.23, T:0.23
Consensus pattern (57 bp):
AATTAATGGGAAAGTACGTGAAGAAGAAGAAGAAAGAGAAACTAATTAATGATTGAT
Found at i:56852165 original size:24 final size:24
Alignment explanation
Indices: 56852138--56852185 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
56852128 AGAAGAAAGA
56852138 GAAAACAATTAATGATTGATAATT
1 GAAAACAATTAATGATTGATAATT
*
56852162 GAAAATAATTAATGATTGATAATT
1 GAAAACAATTAATGATTGATAATT
56852186 AATGGGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.35
Consensus pattern (24 bp):
GAAAACAATTAATGATTGATAATT
Found at i:56852280 original size:3 final size:3
Alignment explanation
Indices: 56852274--56852314 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
56852264 GATGATGATG
56852274 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
56852315 TAGGTTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:56852711 original size:19 final size:19
Alignment explanation
Indices: 56852687--56852733 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
56852677 TAAATCTATG
56852687 AAAAAAAGAAGATTGA-AAC
1 AAAAAAA-AAGATTGATAAC
* *
56852706 AAAAAAAAAGGTTGATAGC
1 AAAAAAAAAGATTGATAAC
56852725 AAAAAAAAA
1 AAAAAAAAA
56852734 AAACCTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.70, C:0.04, G:0.15, T:0.11
Consensus pattern (19 bp):
AAAAAAAAAGATTGATAAC
Found at i:56861958 original size:3 final size:3
Alignment explanation
Indices: 56861950--56861996 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
56861940 TCAATTGTAA
56861950 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
56861997 CAATAATAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:56862608 original size:10 final size:10
Alignment explanation
Indices: 56862580--56862615 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
56862570 TTAGAACATT
56862580 ATAAAATTAA
1 ATAAAATTAA
56862590 A-AAAA-TAA
1 ATAAAATTAA
56862598 ATAAAATTAA
1 ATAAAATTAA
56862608 ATAAAATT
1 ATAAAATT
56862616 TTAAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 4 0.17
9 8 0.33
10 12 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
ATAAAATTAA
Found at i:56865361 original size:13 final size:13
Alignment explanation
Indices: 56865343--56865367 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56865333 TTGTCGTGTT
56865343 ATTTAGTTAATTA
1 ATTTAGTTAATTA
56865356 ATTTAGTTAATT
1 ATTTAGTTAATT
56865368 TTAGTTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
ATTTAGTTAATTA
Found at i:56866381 original size:39 final size:38
Alignment explanation
Indices: 56866335--56866416 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 38
56866325 TTTTAAGGTT
56866335 TTAAAAATATATATAACTTATTTTTTAAAA-TTAAAATTA
1 TTAAAAATATATATAA-TTATTTTTTAAAACTTAAAA-TA
*
56866374 TTAAAAATATATATTATTATTTTTTAAAACTTTAAAATA
1 TTAAAAATATATATAATTATTTTTTAAAAC-TTAAAATA
56866413 TTAA
1 TTAA
56866417 TTAAATGCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
38 13 0.32
39 21 0.52
40 6 0.15
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (38 bp):
TTAAAAATATATATAATTATTTTTTAAAACTTAAAATA
Found at i:56867481 original size:89 final size:88
Alignment explanation
Indices: 56867384--56867560 Score: 300
Period size: 89 Copynumber: 2.0 Consensus size: 88
56867374 AACAGCCCGA
* *
56867384 TTCTGGGCCTAGTTGAAAAAGTGGTTTTGGGACCACAAATCCGACAAGGGAAAATATGATTATTA
1 TTCTGGGCCTAGTCGAAAAAGTGGTTTCGGGACCACAAATCCGACAAGGG-AAATATGATTATTA
56867449 TTATATTTTTATGATCTACAATTT
65 TTATATTTTTATGATCTACAATTT
* *
56867473 TTCTGGGCCTAGTCGGAACAGTGGTTTCGGGACCACAAATCCGACAAGGGAAATATGATTATTAT
1 TTCTGGGCCTAGTCGAAAAAGTGGTTTCGGGACCACAAATCCGACAAGGGAAATATGATTATTAT
*
56867538 TATATTTTTATGATCTCCAATTT
66 TATATTTTTATGATCTACAATTT
56867561 CACGGAAAAA
Statistics
Matches: 83, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
88 37 0.45
89 46 0.55
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (88 bp):
TTCTGGGCCTAGTCGAAAAAGTGGTTTCGGGACCACAAATCCGACAAGGGAAATATGATTATTAT
TATATTTTTATGATCTACAATTT
Found at i:56868702 original size:27 final size:27
Alignment explanation
Indices: 56868664--56868715 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
56868654 TGAATGAAAA
56868664 AGGGGTTGCTAAGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
56868691 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
56868716 GAACCATTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.15, C:0.25, G:0.33, T:0.27
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:56868785 original size:102 final size:102
Alignment explanation
Indices: 56868665--56868892 Score: 395
Period size: 102 Copynumber: 2.2 Consensus size: 102
56868655 GAATGAAAAA
*
56868665 GGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGAAC-CATTGGTGG
1 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCG-ACTCATTGGTGG
*
56868729 TTGCTAAGTGCTGATTCAACCGTATCTTAAATGTGAAG
65 TTGCTAAGTGCTAATTCAACCGTATCTTAAATGTGAAG
*
56868767 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTGCCCGACTCATTGGTGGT
1 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGT
* *
56868832 TGCTAAGTGCTAATTCCACTGTATCTTAAATGTGAAG
66 TGCTAAGTGCTAATTCAACCGTATCTTAAATGTGAAG
56868869 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
56868893 GAATCATTGG
Statistics
Matches: 120, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
101 2 0.02
102 118 0.98
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (102 bp):
GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGT
TGCTAAGTGCTAATTCAACCGTATCTTAAATGTGAAG
Found at i:56868917 original size:75 final size:75
Alignment explanation
Indices: 56868792--56869002 Score: 307
Period size: 75 Copynumber: 2.8 Consensus size: 75
56868782 TGATTCCCCC
* * * *
56868792 AAGGGGTTGCTAAGTGCTGATTGCCCGACTCATTGGTGGTTGCTAAGTGCTAATTCCACTGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTAATCCCACCGTATC
56868857 TTAAATGTGA
66 TTAAATGTGA
* *
56868867 AGGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTAATCCCACCGTATC
56868932 TTAAATGTGA
66 TTAAATGTGA
* * * * *
56868942 AAGGGATTGCTAAGTGTTGATTCCCCAAATCACTGGTGGTTGCTAAGTACTGAAT-CCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCT-AATCCCACCG
56869003 ATAACGGATA
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
75 120 0.98
76 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTAATCCCACCGTATC
TTAAATGTGA
Found at i:56872598 original size:14 final size:15
Alignment explanation
Indices: 56872581--56872610 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
56872571 ATTATTTTGA
56872581 TTAAT-ATAAATATT
1 TTAATAATAAATATT
56872595 TTAATAATAAATATT
1 TTAATAATAAATATT
56872610 T
1 T
56872611 AGAAGGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAATAATAAATATT
Found at i:56882204 original size:84 final size:85
Alignment explanation
Indices: 56882103--56882273 Score: 326
Period size: 84 Copynumber: 2.0 Consensus size: 85
56882093 AATTAAATTT
*
56882103 TTTACTTTGACAAATTCTATTTTTGGAAAAATCTAATTTAGTGGTTGCTTGTTGAGCACGATTCT
1 TTTACTTTGACAAATTCTATTTTTGGAAAAATCTAATTTAGTGGTTGCTTGTTAAGCACGATTCT
56882168 AGGAGTAAAATTATGTGAAA
66 AGGAGTAAAATTATGTGAAA
56882188 TTTA-TTTGACAAATTCTATTTTTGGAAAAATCTAATTTAGTGGTTGCTTGTTAAGCACGATTCT
1 TTTACTTTGACAAATTCTATTTTTGGAAAAATCTAATTTAGTGGTTGCTTGTTAAGCACGATTCT
56882252 AGGAGTAAAATTATGTGAAA
66 AGGAGTAAAATTATGTGAAA
56882272 TT
1 TT
56882274 GATTCTTTGA
Statistics
Matches: 85, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
84 81 0.95
85 4 0.05
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (85 bp):
TTTACTTTGACAAATTCTATTTTTGGAAAAATCTAATTTAGTGGTTGCTTGTTAAGCACGATTCT
AGGAGTAAAATTATGTGAAA
Found at i:56883016 original size:9 final size:9
Alignment explanation
Indices: 56883002--56883104 Score: 127
Period size: 9 Copynumber: 11.4 Consensus size: 9
56882992 GTAGTGATTC
*
56883002 AATTTGGTT
1 AATTCGGTT
*
56883011 AATTTGGTT
1 AATTCGGTT
*
56883020 AATTCGGGT
1 AATTCGGTT
56883029 AATTCGGTT
1 AATTCGGTT
56883038 AATTCGAG-T
1 AATTCG-GTT
* *
56883047 AATTTGGGT
1 AATTCGGTT
56883056 AATTCGGTT
1 AATTCGGTT
*
56883065 AATTCGGGT
1 AATTCGGTT
56883074 AATTCGGTT
1 AATTCGGTT
*
56883083 AATTCGGGT
1 AATTCGGTT
56883092 AATTCGGTT
1 AATTCGGTT
56883101 AATT
1 AATT
56883105 TTTAACCAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
8 1 0.01
9 80 0.98
10 1 0.01
ACGTcount: A:0.24, C:0.08, G:0.25, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:56884372 original size:41 final size:41
Alignment explanation
Indices: 56884315--56884418 Score: 172
Period size: 41 Copynumber: 2.5 Consensus size: 41
56884305 TTTAACATAT
* * *
56884315 TCACCGGTACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTACAACCTGATTCAGA
*
56884356 TCACCGGCACTTAGCCTGCTAGGTTTACAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTACAACCTGATTCAGA
56884397 TCACCGGCACTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
56884419 ATTTATGGTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTACAACCTGATTCAGA
Found at i:56892075 original size:41 final size:41
Alignment explanation
Indices: 56892018--56892163 Score: 170
Period size: 41 Copynumber: 3.6 Consensus size: 41
56892008 TTTAACATAT
*
56892018 TCACCGGTACTTAGCCTGCTAGGCTTATAGCCTGATTCAAA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAA
* * * *
56892059 TCACCGGCACTTAGCCTGCTAGGTTTACAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAA
** * * *
56892100 TCACCGGCACTTAGCCTGCTAGATTTATGGTCTGA--AAAA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAA
*
56892139 TTCACCGGCATTTAGCCTGCTAGGC
1 -TCACCGGCACTTAGCCTGCTAGGC
56892164 GCTTAGCCTT
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 2 0.02
40 21 0.24
41 66 0.74
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAA
Found at i:56896858 original size:19 final size:19
Alignment explanation
Indices: 56896834--56896880 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
56896824 TCTCTTTCTT
56896834 TTTGCATT-CATTCCATGCA
1 TTTGCATTACATTCCAT-CA
*
56896853 TTTGCATTACATTGCATCA
1 TTTGCATTACATTCCATCA
*
56896872 TATGCATTA
1 TTTGCATTA
56896881 GATTTTCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCATCA
Found at i:56899363 original size:3 final size:3
Alignment explanation
Indices: 56899355--56899404 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
56899345 TGCATCAAAA
56899355 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
56899403 AA
1 AA
56899405 AAATGAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:56900742 original size:43 final size:43
Alignment explanation
Indices: 56900677--56900770 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 43
56900667 AAGCACCAAC
* * *
56900677 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAT-TGCAAT
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGATCGAAGATGTG-AAT
* *
56900720 CTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGATGGTGAAT
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGATCGAAGAT-GTGAAT
56900764 CTTATCT
1 CTTATCT
56900771 TCCCAAGGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
43 32 0.73
44 10 0.23
45 2 0.05
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
CTTATCTCCCTAAGCAGCAGTGGAGTAGATCGAAGATGTGAAT
Found at i:56900922 original size:45 final size:45
Alignment explanation
Indices: 56900883--56901293 Score: 486
Period size: 45 Copynumber: 9.2 Consensus size: 45
56900873 GGAGCAGACT
* * * * *
56900883 GAAGATAGCAGATATTGTCTTTCTGTATTGGCAGCGGAGCATA-C
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
56900927 TGAAGATAGTAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATC
1 -GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
56900973 GAAGATAGCAAATCTTGTCTTCCTATATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
56901018 GAAGATAGCAGAACTTGTCTTCCTGTATTGGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
56901063 GAAGATAGCAGATCTTGTCTTCCTGTATTGGTAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
56901108 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
56901153 AAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * ** * * * * *
56901198 GAAGACACCAG-CCTTACCTTCCTGTACTGACAGTGGAGCAGA-C
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * *
56901241 TTAAGATAGCAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATC
1 -GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
56901287 GAAGATA
1 GAAGATA
56901294 CCATAGTTTG
Statistics
Matches: 320, Mismatches: 42, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
43 1 0.00
44 34 0.11
45 283 0.88
46 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:56901502 original size:45 final size:44
Alignment explanation
Indices: 56901453--56901621 Score: 167
Period size: 44 Copynumber: 3.8 Consensus size: 44
56901443 TCGAAGATGG
* *
56901453 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGCCAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAG-TAA
* * * *
56901498 CAAATCTTATCTCCCTTAAGTTGCAGTGGAGCAGATTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGTAA
* * ** * *
56901542 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGGGGATTAAAATGA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGTAA
*** * * *
56901586 TGGATCTTATCTCTCTGAAGTTGTAGTAGAGTAGAT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGAT
56901622 CGCATCAGAC
Statistics
Matches: 101, Mismatches: 23, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
44 64 0.63
45 37 0.37
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGTAA
Found at i:56901565 original size:44 final size:45
Alignment explanation
Indices: 56901453--56901581 Score: 161
Period size: 45 Copynumber: 2.9 Consensus size: 45
56901443 TCGAAGATGG
* *
56901453 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGCCAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
* * **
56901498 CAAATCTTATCTCCCTTAAGTTGCAGTGGAGCAGATTGAAG-TTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
* * **
56901542 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGGGGATTAAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
56901582 ATGATGGATC
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 35 0.49
45 37 0.51
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
Found at i:56902497 original size:3 final size:3
Alignment explanation
Indices: 56902489--56902527 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
56902479 AAGTTAGTAC
* * *
56902489 TAT TAT TAT TAT TAT TAT TTT TAA TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
56902528 CATCATATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:56902664 original size:19 final size:19
Alignment explanation
Indices: 56902640--56902677 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
56902630 TACATGTGAT
56902640 TTTATAATATATATATATA
1 TTTATAATATATATATATA
* *
56902659 TTTATAATCTATCTATATA
1 TTTATAATATATATATATA
56902678 AACATATACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTATAATATATATATATA
Found at i:56902828 original size:16 final size:16
Alignment explanation
Indices: 56902807--56902865 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
56902797 AAAGTATACA
*
56902807 TATATATACATACTTT
1 TATATATACATAATTT
**
56902823 TATATATACATGTTTT
1 TATATATACATAATTT
* *
56902839 TACATATTTCATAATTT
1 TATATA-TACATAATTT
56902856 TATATATACA
1 TATATATACA
56902866 CATATATGTA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
16 22 0.65
17 12 0.35
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (16 bp):
TATATATACATAATTT
Found at i:56904180 original size:72 final size:72
Alignment explanation
Indices: 56904057--56904190 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 72
56904047 TCTCGGATTT
56904057 AAAAAAAGGATCACGACTAGTAAGTTAGGACACGTTCTTTTATCAAATCCCGAGATCGTTTAGAA
1 AAAAAAAGGATCACGACTAGTAAGTTAGGACACGTTCTTTTATCAAATCCCGAGATCGTTTAGAA
56904122 TTTGAGA
66 TTTGAGA
* * * *
56904129 AAAAAAAGGATCA-TACTCGGTAAGTTAGGACACGATCTCTTTT-T-AATTCCCGAGATTGTTTA
1 AAAAAAAGGATCACGACT-AGTAAGTTAGGACACG-T-TCTTTTATCAAATCCCGAGATCGTTTA
56904191 AAACTTAAGT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
71 3 0.05
72 44 0.80
73 2 0.04
74 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (72 bp):
AAAAAAAGGATCACGACTAGTAAGTTAGGACACGTTCTTTTATCAAATCCCGAGATCGTTTAGAA
TTTGAGA
Found at i:56904808 original size:35 final size:35
Alignment explanation
Indices: 56904741--56904811 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
56904731 AATGATCCAA
*
56904741 AAAATTATGAAAATATAAAAGATATATATATGTAC
1 AAAATTATGAAAATATAAAAGACATATATATGTAC
* *
56904776 AAAATTATGAAAATAT-GAAGAACATATGTATGTAC
1 AAAATTATGAAAATATAAAAG-ACATATATATGTAC
56904811 A
1 A
56904812 CATATTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 3 0.09
35 29 0.91
ACGTcount: A:0.55, C:0.04, G:0.11, T:0.30
Consensus pattern (35 bp):
AAAATTATGAAAATATAAAAGACATATATATGTAC
Found at i:56904906 original size:16 final size:16
Alignment explanation
Indices: 56904886--56904947 Score: 79
Period size: 16 Copynumber: 3.8 Consensus size: 16
56904876 TTATACATAT
56904886 ATATGTATATATAAAA
1 ATATGTATATATAAAA
* *
56904902 TTATGAAATATATAAAA
1 ATATG-TATATATAAAA
*
56904919 ACATGTATATATAAAA
1 ATATGTATATATAAAA
*
56904935 GTATGTATATATA
1 ATATGTATATATA
56904948 TGTATACTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
16 25 0.66
17 13 0.34
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (16 bp):
ATATGTATATATAAAA
Found at i:56905249 original size:3 final size:3
Alignment explanation
Indices: 56905243--56905267 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
56905233 TGATAGTAAC
56905243 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
56905268 GTACTAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Done.