Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 147 of 325
Found at i:47261413 original size:44 final size:42
Alignment explanation
Indices: 47261318--47261421 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 42
47261308 CCACTATCCT
* *
47261318 AGACAAGGTCTTACACGAAATCAAGTACAATGCCCATGTCCC
1 AGACATGGTCTTACACGAAATCAAGTACAATGCCAATGTCCC
* *
47261360 AGACATGGTCTTACACGTAAATCATAAGT-CGATGGCAATGTCCC
1 AGACATGGTCTTACACG-AAATC--AAGTACAATGCCAATGTCCC
**
47261404 AGATGTGGTCTTACACGA
1 AGACATGGTCTTACACGA
47261422 CAACACATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
42 16 0.30
43 6 0.11
44 27 0.51
45 4 0.08
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (42 bp):
AGACATGGTCTTACACGAAATCAAGTACAATGCCAATGTCCC
Found at i:47263733 original size:27 final size:27
Alignment explanation
Indices: 47263703--47263824 Score: 174
Period size: 27 Copynumber: 4.5 Consensus size: 27
47263693 CCAATTACTA
47263703 TTTTA-CCTACGATTTACAGAATTACCG
1 TTTTACCCT-CGATTTACAGAATTACCG
* * *
47263730 TTTTACCCTTGATTTATAGAATTATCG
1 TTTTACCCTCGATTTACAGAATTACCG
* **
47263757 TTTTACCCTTGATTTACAGAATTATTG
1 TTTTACCCTCGATTTACAGAATTACCG
47263784 TTTTACCCTCGATTTACAGAATTACCG
1 TTTTACCCTCGATTTACAGAATTACCG
47263811 TTTTACCCTCGATT
1 TTTTACCCTCGATT
47263825 GTGAAATTAC
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 83 0.97
28 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.43
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAGAATTACCG
Found at i:47263859 original size:27 final size:27
Alignment explanation
Indices: 47263829--47263942 Score: 140
Period size: 27 Copynumber: 4.2 Consensus size: 27
47263819 TCGATTGTGA
47263829 AATTACTGAAATACCCCTGTAGGGGAG
1 AATTACTGAAATACCCCTGTAGGGGAG
* * *
47263856 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGGAG
* *
47263883 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGGAG
* * *
47263910 AATTACTGAGATACCCATGT-GGGGTAA
1 AATTACTGAAATACCCCTGTAGGGG-AG
47263937 AATTAC
1 AATTAC
47263943 CATTTTGCCT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
26 3 0.04
27 72 0.96
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGGAG
Found at i:47263901 original size:54 final size:54
Alignment explanation
Indices: 47263827--47263939 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
47263817 CCTCGATTGT
*
47263827 GAAATTACTGAAATACCCCTGTAGGGGAGAATTACCGAAATACCCTTGTAGGGTA
1 GAAA-TACTGAAATACCCCTGTAGGGGAGAATTACCGAAATACCCATGTAGGGTA
* * * *
47263882 GAAATACTGAAATACCCCTGTAGGGTAGAATTACTGAGATACCCATGTGGGGTA
1 GAAATACTGAAATACCCCTGTAGGGGAGAATTACCGAAATACCCATGTAGGGTA
47263936 -AAAT
1 GAAAT
47263940 TACCATTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
53 4 0.08
54 45 0.85
55 4 0.08
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (54 bp):
GAAATACTGAAATACCCCTGTAGGGGAGAATTACCGAAATACCCATGTAGGGTA
Found at i:47264080 original size:21 final size:21
Alignment explanation
Indices: 47264055--47264115 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
47264045 ATATTGTTAT
47264055 ACATGATA-GGACATGATATGC
1 ACATGATATGGA-ATGATATGC
*
47264076 ACATGATATGTAATGATATGC
1 ACATGATATGGAATGATATGC
**
47264097 ACATGATATGCTATGATAT
1 ACATGATATGGAATGATAT
47264116 ACTTATTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 34 0.94
22 2 0.06
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (21 bp):
ACATGATATGGAATGATATGC
Found at i:47264081 original size:11 final size:11
Alignment explanation
Indices: 47264055--47264107 Score: 74
Period size: 11 Copynumber: 5.0 Consensus size: 11
47264045 ATATTGTTAT
*
47264055 ACATGATA-GG
1 ACATGATATGC
47264065 ACATGATATGC
1 ACATGATATGC
*
47264076 ACATGATATGT
1 ACATGATATGC
47264087 A-ATGATATGC
1 ACATGATATGC
47264097 ACATGATATGC
1 ACATGATATGC
47264108 TATGATATAC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
10 17 0.45
11 21 0.55
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (11 bp):
ACATGATATGC
Found at i:47264220 original size:24 final size:24
Alignment explanation
Indices: 47264163--47264234 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
47264153 AGGAAGTGCG
47264163 AAAAG-GGCTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
47264187 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
47264211 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
47264235 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:47285229 original size:93 final size:93
Alignment explanation
Indices: 47285117--47285660 Score: 989
Period size: 93 Copynumber: 5.8 Consensus size: 93
47285107 CACCCATAAG
* * * *
47285117 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47285182 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
47285210 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
47285275 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
47285303 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47285368 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
47285396 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47285461 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * **
47285489 CGAACTTGGACTCAACTCAACGAGTTTGGACATTTACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47285554 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
47285582 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47285647 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
47285661 TCAACCATCC
Statistics
Matches: 433, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 433 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:47301117 original size:43 final size:44
Alignment explanation
Indices: 47301006--47301118 Score: 126
Period size: 43 Copynumber: 2.6 Consensus size: 44
47300996 AATGCTAACG
* **
47301006 TCCCAGACGTGGTCTTACATGT-AGCCAAATATCGATGCCACTA
1 TCCCAGACATGGTCTTACATGTAAATCAAATATCGATGCCACTA
* *
47301049 TCCCAGACAAGGTCTTACATG-AAATCAAATAT-GATGCC-CATG
1 TCCCAGACATGGTCTTACATGTAAATCAAATATCGATGCCAC-TA
* *
47301091 TCCTAGCCATGGTCTTACATGTAAATCA
1 TCCCAGACATGGTCTTACATGTAAATCA
47301119 TAAGTCGATG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.02
42 25 0.42
43 33 0.56
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACATGTAAATCAAATATCGATGCCACTA
Found at i:47315713 original size:43 final size:44
Alignment explanation
Indices: 47315608--47315720 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 44
47315598 TGTGATTTTG
* * * * * *
47315608 TGTAAGACAACATCTGGGACATTGGCATCGATATTTGATTTGCG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGAATTACA
* * *
47315652 TGTAAGACC-CTGTTTGGGACAGTGGCATCGTTATGT-AATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATATGTGAATTACA
47315695 TGTAAGACCACGTCTGGGACATTGGC
1 TGTAAGACCACGTCTGGGACATTGGC
47315721 GTTGTACGAG
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
43 27 0.48
44 29 0.52
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGAATTACA
Found at i:47319019 original size:29 final size:29
Alignment explanation
Indices: 47318977--47319059 Score: 112
Period size: 29 Copynumber: 2.9 Consensus size: 29
47318967 AAATTCACAT
*
47318977 ACCTGTATTTGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAGGCCCAAATC
*
47319006 ACCTGTATATGGCCCATTAGGCACAAATC
1 ACCTGTATATGGCCCATTAGGCCCAAATC
* * * *
47319035 ACATTTATATGGCCCGTTATGCCCA
1 ACCTGTATATGGCCCATTAGGCCCA
47319060 GTCACATTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.28
Consensus pattern (29 bp):
ACCTGTATATGGCCCATTAGGCCCAAATC
Found at i:47326781 original size:18 final size:17
Alignment explanation
Indices: 47326758--47326816 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 17
47326748 TAGCCCATTT
47326758 CAGTAACAGTAATCAGTG
1 CAGTAACA-TAATCAGTG
* *
47326776 CAGTAACCATGATCAATG
1 CAGTAA-CATAATCAGTG
*
47326794 CAGTAACAATAATCAGTA
1 CAGTAAC-ATAATCAGTG
47326812 CAGTA
1 CAGTA
47326817 TGCAAGCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
17 1 0.03
18 31 0.91
19 2 0.06
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (17 bp):
CAGTAACATAATCAGTG
Found at i:47327113 original size:23 final size:23
Alignment explanation
Indices: 47327064--47327113 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
47327054 ACCCCATGAA
*
47327064 ATGCAACATAATATTATACATGG
1 ATGCAACAAAATATTATACATGG
47327087 ATGCAACAAACATA-TA-ACATGG
1 ATGCAACAAA-ATATTATACATGG
47327109 CATGC
1 -ATGC
47327114 TCAAATACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 15 0.62
24 3 0.12
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (23 bp):
ATGCAACAAAATATTATACATGG
Found at i:47327195 original size:27 final size:27
Alignment explanation
Indices: 47327165--47327356 Score: 222
Period size: 27 Copynumber: 7.1 Consensus size: 27
47327155 TACCTTACCG
* * *
47327165 GGGTATTACAGTCATTTTACCCTACAA
1 GGGTATTTCGGTCATTTTACCCTATAA
* *
47327192 GGGTATTTCGGTCATTCTACCCTATGA
1 GGGTATTTCGGTCATTTTACCCTATAA
* * *
47327219 GGGTGTTTCAGTCATTCTACCCTATAA
1 GGGTATTTCGGTCATTTTACCCTATAA
* * * *
47327246 GGGTATTTTGGTCTTTTTACCCTACAG
1 GGGTATTTCGGTCATTTTACCCTATAA
* * *
47327273 GGGTATTTTGGTCATTCTACCCTATGA
1 GGGTATTTCGGTCATTTTACCCTATAA
*
47327300 GGGTATTTCGGTCATTTTACCCTATGA
1 GGGTATTTCGGTCATTTTACCCTATAA
* *
47327327 GGGTATTTCGGTCATTTTATCATATAA
1 GGGTATTTCGGTCATTTTACCCTATAA
47327354 GGG
1 GGG
47327357 CAAAATCGTC
Statistics
Matches: 140, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCTATAA
Found at i:47327286 original size:81 final size:81
Alignment explanation
Indices: 47327165--47327345 Score: 272
Period size: 81 Copynumber: 2.2 Consensus size: 81
47327155 TACCTTACCG
* * *
47327165 GGGTATTACAGTCATTTTACCCTACAAGGGTATTTCGGTCATTCTACCCTATGAGGGTGTTTCAG
1 GGGTATTTCGGTCATTTTACCCTACAAGGGTATTTCGGTCATTCTACCCTATGAGGGTATTTCAG
47327230 TCATTCTACCCTATAA
66 TCATTCTACCCTATAA
* * * * *
47327246 GGGTATTTTGGTCTTTTTACCCTACAGGGGTATTTTGGTCATTCTACCCTATGAGGGTATTTCGG
1 GGGTATTTCGGTCATTTTACCCTACAAGGGTATTTCGGTCATTCTACCCTATGAGGGTATTTCAG
* *
47327311 TCATTTTACCCTATGA
66 TCATTCTACCCTATAA
47327327 GGGTATTTCGGTCATTTTA
1 GGGTATTTCGGTCATTTTA
47327346 TCATATAAGG
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 88 1.00
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTCGGTCATTTTACCCTACAAGGGTATTTCGGTCATTCTACCCTATGAGGGTATTTCAG
TCATTCTACCCTATAA
Found at i:47342260 original size:46 final size:46
Alignment explanation
Indices: 47342193--47342364 Score: 149
Period size: 46 Copynumber: 3.7 Consensus size: 46
47342183 TATTTGTGTA
*
47342193 CCAGTGTAAGACATGTCTGGGACAT-GCATCGGCCATATTATGAGTG
1 CCAGTGTAAGACATGTCTGGGACATGGCATCGGCCATA-TAAGAGTG
* * * *
47342239 CCAGTGTAAGCCATGTCTGGGACATGGCATC-GACAT-TGAAACAAGAG
1 CCAGTGTAAGACATGTCTGGGACATGGCATCGGCCATAT--AA-GAGTG
* * * **
47342286 CTAGTGTAAGACATGTTTGGGACAT-GCATCAG-C-TACGAGATGTG
1 CCAGTGTAAGACATGTCTGGGACATGGCATCGGCCATATAAGA-GTG
*
47342330 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 CCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC
47342365 ACGAATAGAG
Statistics
Matches: 100, Mismatches: 16, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
43 1 0.01
44 13 0.13
45 14 0.14
46 41 0.41
47 31 0.31
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGGCATCGGCCATATAAGAGTG
Found at i:47342312 original size:93 final size:92
Alignment explanation
Indices: 47342195--47342362 Score: 250
Period size: 93 Copynumber: 1.8 Consensus size: 92
47342185 TTTGTGTACC
* **
47342195 AGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGA-GTGCCAGTGTAAG-CCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAG-C-TACGA-GATGTGCCAGTGTAAGACCATGTCTG
47342258 GGACATGGCATCGACATTGAAACAAGAGCT
63 GGACATGGCATCGACATTGAAACAAGAGCT
* *
47342288 AGTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGTGTCAGTGTAAGACCATGTCTGGGA
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGTGCCAGTGTAAGACCATGTCTGGGA
47342353 CATGGCATCG
66 CATGGCATCG
47342363 GCACGAATAG
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
90 2 0.03
91 15 0.22
92 23 0.34
93 28 0.41
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGTGCCAGTGTAAGACCATGTCTGGGA
CATGGCATCGACATTGAAACAAGAGCT
Found at i:47342383 original size:92 final size:94
Alignment explanation
Indices: 47342195--47342461 Score: 267
Period size: 92 Copynumber: 2.8 Consensus size: 94
47342185 TTTGTGTACC
* * * *
47342195 AGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGA-GTGCCAGTGTAAG-CCATGTCTG
1 AGTGTAAGACATGTTTGGGACATGCATCAGCC-TATGATGATGTGTCAGTGTAAGACCATGTCTG
*
47342258 GGACATGGCATCGACATTGAAACAAGAGCT
65 GGACATGGCATCGACATCGAAACAAGAGCT
*
47342288 AGTGTAAGACATGTTTGGGACATGCATCAG-CTACGA-GATGTGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTTTGGGACATGCATCAGCCTATGATGATGTGTCAGTGTAAGACCATGTCTGG
* * * * *
47342351 GACATGGCATCGGCA-CGAATAGAGGTGTT
66 GACATGGCATCGACATCGAA-ACAAGAGCT
** * * * **
47342380 AGTGTAAGACCACATTTGGGACAAGGCGTCAGTCT-TGATTTTGATAGTCAGTGTAAGACCATGT
1 AGTGTAAGA-CATGTTTGGGAC-ATGCATCAGCCTATGATGATG-T-GTCAGTGTAAGACCATGT
*
47342444 CTAGGACATGGCATCGAC
62 CTGGGACATGGCATCGAC
47342462 TTAATGGTTA
Statistics
Matches: 145, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
90 2 0.01
91 18 0.12
92 39 0.27
93 38 0.26
94 9 0.06
95 4 0.03
96 1 0.01
97 34 0.23
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTTTGGGACATGCATCAGCCTATGATGATGTGTCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATCGAAACAAGAGCT
Found at i:47342400 original size:48 final size:45
Alignment explanation
Indices: 47342287--47342402 Score: 128
Period size: 48 Copynumber: 2.5 Consensus size: 45
47342277 AAACAAGAGC
*
47342287 TAGTGTAAGA-CATGTTTGGGACATGCATCAGCTACGAGATGTGT
1 TAGTGTAAGACCATGTTTGGGACATGCATCAGCTACGAGAGGTGT
* * *
47342331 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGAATAGAGGTGT
1 TAGTGTAAGACCATGTTTGGGACAT-GCATCAGCTACG---AGAGGTGT
**
47342379 TAGTGTAAGACCACATTTGGGACA
1 TAGTGTAAGACCATGTTTGGGACA
47342403 AGGCGTCAGT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 9 0.15
45 16 0.27
46 7 0.12
48 27 0.46
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25
Consensus pattern (45 bp):
TAGTGTAAGACCATGTTTGGGACATGCATCAGCTACGAGAGGTGT
Found at i:47358895 original size:44 final size:44
Alignment explanation
Indices: 47358847--47358935 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
47358837 AGCGGCATCG
47358847 GATAGGCAAAAGTCATATGCTGATTTGAAAAGAAAAGAGATTGA
1 GATAGGCAAAAGTCATATGCTGATTTGAAAAGAAAAGAGATTGA
47358891 GATAGGCAAAAGTCATATGCTGATTTGAAAAGAAAAGAGATTGA
1 GATAGGCAAAAGTCATATGCTGATTTGAAAAGAAAAGAGATTGA
47358935 G
1 G
47358936 TTTCAAGTCG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.45, C:0.07, G:0.26, T:0.22
Consensus pattern (44 bp):
GATAGGCAAAAGTCATATGCTGATTTGAAAAGAAAAGAGATTGA
Found at i:47364349 original size:28 final size:29
Alignment explanation
Indices: 47364312--47364402 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 29
47364302 AAGTCTACAT
* *
47364312 ACATGCATATAACCCATTAGGCCC-AATC
1 ACATTCATATGACCCATTAGGCCCAAATC
* *
47364340 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGACCCATTAGGCCCAAATC
* *
47364369 ACATTTATATGACCCATCT-GGCCCTAATC
1 ACATTCATATGACCCAT-TAGGCCCAAATC
47364398 A-ATTC
1 ACATTC
47364403 CAAGCCATGT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
28 23 0.44
29 28 0.54
30 1 0.02
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.27
Consensus pattern (29 bp):
ACATTCATATGACCCATTAGGCCCAAATC
Found at i:47370288 original size:12 final size:12
Alignment explanation
Indices: 47370271--47370298 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
47370261 AGTAAAACAG
47370271 GTTTTTAGCGGC
1 GTTTTTAGCGGC
47370283 GTTTTTAGCGGC
1 GTTTTTAGCGGC
47370295 GTTT
1 GTTT
47370299 GATTGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.32, T:0.46
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:47370776 original size:21 final size:20
Alignment explanation
Indices: 47370752--47370812 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 20
47370742 ATTTAGGGCA
47370752 TATGGTTAAGGGTTTAAGGTT
1 TATGGTT-AGGGTTTAAGGTT
***
47370773 TATGAGTTACTATTTAAAGGTT
1 TATG-GTTAGGGTTT-AAGGTT
* *
47370795 TATGATTATGGTTTAAGG
1 TATGGTTAGGGTTTAAGG
47370813 GTTAGGGTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
20 4 0.13
21 14 0.45
22 13 0.42
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.44
Consensus pattern (20 bp):
TATGGTTAGGGTTTAAGGTT
Found at i:47370815 original size:21 final size:22
Alignment explanation
Indices: 47370762--47370812 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
47370752 TATGGTTAAG
47370762 GGTTTAAGGTTTATGAGTTACT
1 GGTTTAAGGTTTATGAGTTACT
*
47370784 -ATTTAAAGGTTTATGA-TTA-T
1 GGTTT-AAGGTTTATGAGTTACT
47370804 GGTTTAAGG
1 GGTTTAAGG
47370813 GTTAGGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 5 0.20
21 9 0.36
22 11 0.44
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.45
Consensus pattern (22 bp):
GGTTTAAGGTTTATGAGTTACT
Found at i:47370823 original size:14 final size:14
Alignment explanation
Indices: 47370804--47370843 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
47370794 TTATGATTAT
47370804 GGTTTAAGGGTTAG
1 GGTTTAAGGGTTAG
47370818 GGTTTAAGGGTTAG
1 GGTTTAAGGGTTAG
* *
47370832 GGGTTAGGGGTT
1 GGTTTAAGGGTT
47370844 TAGTGTAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.47, T:0.35
Consensus pattern (14 bp):
GGTTTAAGGGTTAG
Found at i:47370854 original size:21 final size:21
Alignment explanation
Indices: 47370811--47370854 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
47370801 TATGGTTTAA
*
47370811 GGGTTAGGGTTTAAGGGTTAG
1 GGGTTAGGGTTTAAGGGTAAG
*
47370832 GGGTTAGGGGTTT-AGTGTAAG
1 GGGTTA-GGGTTTAAGGGTAAG
47370853 GG
1 GG
47370855 TTTATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (21 bp):
GGGTTAGGGTTTAAGGGTAAG
Found at i:47370894 original size:7 final size:7
Alignment explanation
Indices: 47370884--47370923 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
47370874 AGTTTATGGT
47370884 TTAGGGA
1 TTAGGGA
47370891 TTAGGGA
1 TTAGGGA
47370898 TTAGGGA
1 TTAGGGA
*
47370905 TTAGGAGT
1 TTAGG-GA
*
47370913 TTAGGGT
1 TTAGGGA
47370920 TTAG
1 TTAG
47370924 ATTAATTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.25, C:0.00, G:0.40, T:0.35
Consensus pattern (7 bp):
TTAGGGA
Found at i:47374647 original size:22 final size:21
Alignment explanation
Indices: 47374620--47374660 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
47374610 GATTAATATT
*
47374620 TTATATTTAATATTTATAAATA
1 TTATATATAAT-TTTATAAATA
*
47374642 TTATATATAATTTTTTAAA
1 TTATATATAATTTTATAAA
47374661 ATAACAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATATATAATTTTATAAATA
Found at i:47379379 original size:43 final size:43
Alignment explanation
Indices: 47379342--47379453 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 43
47379332 GATGCTACTA
* *
47379342 TCCCAGACAAGGTCTTACACGAAATCTCTAATCGATGCCAGTG
1 TCCCAGACAAGGTCTTACACGAAATCTCAAATCGATGCCAATG
* * * *
47379385 TCCTAGACACGGTCTTACACGATATCTCAAATTGATGCCAATG
1 TCCCAGACAAGGTCTTACACGAAATCTCAAATCGATGCCAATG
**
47379428 TCCCAGACGTGGTCTTACACGAAATC
1 TCCCAGACAAGGTCTTACACGAAATC
47379454 ATATCTCGGA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
TCCCAGACAAGGTCTTACACGAAATCTCAAATCGATGCCAATG
Found at i:47385437 original size:13 final size:13
Alignment explanation
Indices: 47385419--47385443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47385409 TAATTTATAT
47385419 GTGTGAAAATTTA
1 GTGTGAAAATTTA
47385432 GTGTGAAAATTT
1 GTGTGAAAATTT
47385444 TATCGTTTGT
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:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTA
Found at i:47390924 original size:19 final size:19
Alignment explanation
Indices: 47390897--47390935 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
47390887 CGCTCAATCA
*
47390897 ATTTTTTTTTCATTTTTTT
1 ATTTATTTTTCATTTTTTT
47390916 ATTTATTTTTCATTTTTTT
1 ATTTATTTTTCATTTTTTT
47390935 A
1 A
47390936 AGAACAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (19 bp):
ATTTATTTTTCATTTTTTT
Found at i:47398454 original size:23 final size:23
Alignment explanation
Indices: 47398395--47398447 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
47398385 GTTAAAGTCT
*
47398395 CACACGCCTGTATGGAGGCAATG
1 CACACGCCTGTGTGGAGGCAATG
47398418 CACACGCCTGTGTGGAGGCAATG
1 CACACGCCTGTGTGGAGGCAATG
47398441 CACACGC
1 CACACGC
47398448 TCGTGTGCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.25, C:0.30, G:0.30, T:0.15
Consensus pattern (23 bp):
CACACGCCTGTGTGGAGGCAATG
Found at i:47401650 original size:14 final size:15
Alignment explanation
Indices: 47401626--47401654 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47401616 TGTAGGCTTC
47401626 TATCATTTTCCATAG
1 TATCATTTTCCATAG
47401641 TATC-TTTTCCATAG
1 TATCATTTTCCATAG
47401655 CATTCTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.24, C:0.21, G:0.07, T:0.48
Consensus pattern (15 bp):
TATCATTTTCCATAG
Found at i:47404161 original size:42 final size:42
Alignment explanation
Indices: 47404081--47404209 Score: 120
Period size: 43 Copynumber: 3.0 Consensus size: 42
47404071 GGAATCGACT
* *
47404081 TCTATTTTACGTGTAAGACCATGTCTGGGACA-TCGGCATTGTA
1 TCTAATTT-CGTGTAAGACCCTGTCTGGGACAGT-GGCATTGTA
* *
47404124 TCTAATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATG
1 TCTAATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATTG-TA
* * * *
47404167 TTTGATTACATGTAAGACCAC-GTCTGGGAC-GTTGGCATTGTA
1 TCTAATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATTGTA
47404209 T
1 T
47404210 ATGTTCTCTG
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
42 31 0.43
43 40 0.56
44 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (42 bp):
TCTAATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATTGTA
Found at i:47411400 original size:42 final size:42
Alignment explanation
Indices: 47411336--47411469 Score: 148
Period size: 42 Copynumber: 3.2 Consensus size: 42
47411326 CATGTAATCA
*
47411336 CATAT-CGATGCCACTGTCCCAGACAGGGTCTTACACAAACT
1 CATATACGATGCCAATGTCCCAGACAGGGTCTTACACAAACT
*
47411377 CATATACGATGCCAATGTCCCAGACATGGTCTTACACGCAAA-T
1 CATATACGATGCCAATGTCCCAGACAGGGTCTTACA--CAAACT
* * * * *
47411420 CACAAATCGATGCCAACGTCCTAGAC-GTGGTCTTACACGAACT
1 CATATA-CGATGCCAATGTCCCAGACAG-GGTCTTACACAAACT
47411463 CATATAC
1 CATATAC
47411470 CGAAATCCTA
Statistics
Matches: 77, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
41 5 0.06
42 32 0.42
43 10 0.13
44 30 0.39
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.22
Consensus pattern (42 bp):
CATATACGATGCCAATGTCCCAGACAGGGTCTTACACAAACT
Found at i:47411451 original size:44 final size:44
Alignment explanation
Indices: 47411300--47411458 Score: 177
Period size: 44 Copynumber: 3.7 Consensus size: 44
47411290 AGCTAGTACA
* * *
47411300 ATGCTAACGTCCCAGACGTGGTCTTACATG-TAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGCAAATCACATATCG
*
47411343 ATGCC-ACTGTCCCAGACAG-GGTCTTACA--CAAA-CTCATATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGCAAATCACATAT-CG
* * *
47411385 ATGCCAATGTCCCAGACATGGTCTTACACGCAAATCACAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGCAAATCACATATCG
*
47411429 ATGCCAACGTCCTAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
47411459 AACTCATATA
Statistics
Matches: 97, Mismatches: 10, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
41 6 0.06
42 29 0.30
43 23 0.24
44 34 0.35
45 5 0.05
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGCAAATCACATATCG
Found at i:47411452 original size:86 final size:85
Alignment explanation
Indices: 47411308--47411469 Score: 229
Period size: 86 Copynumber: 1.9 Consensus size: 85
47411298 CAATGCTAAC
* * * *
47411308 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAGGGTCTTACACA
1 GTCCCAGACATGGTCTTACACGAAATCACAAATCGATGCCACTGTCCCAGACAGGGTCTTACACA
47411373 AACTCATATACGATGCCAAT
66 AACTCATATACGATGCCAAT
*
47411393 GTCCCAGACATGGTCTTACACGCAAATCACAAATCGATGCCAAC-GTCCTAGAC-GTGGTCTTAC
1 GTCCCAGACATGGTCTTACACG-AAATCACAAATCGATGCC-ACTGTCCCAGACAG-GGTCTTAC
*
47411456 ACGAACTCATATAC
63 ACAAACTCATATAC
47411470 CGAAATCCTA
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
85 21 0.31
86 45 0.66
87 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (85 bp):
GTCCCAGACATGGTCTTACACGAAATCACAAATCGATGCCACTGTCCCAGACAGGGTCTTACACA
AACTCATATACGATGCCAAT
Found at i:47413655 original size:27 final size:26
Alignment explanation
Indices: 47413607--47413658 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
47413597 GCGAGGCTGC
*
47413607 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
47413633 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
47413659 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:47414283 original size:26 final size:27
Alignment explanation
Indices: 47414254--47414307 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
47414244 TCACACAAGT
*
47414254 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
47414280 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
47414307 T
1 T
47414308 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:47414355 original size:54 final size:54
Alignment explanation
Indices: 47414297--47414408 Score: 118
Period size: 54 Copynumber: 2.1 Consensus size: 54
47414287 TTAACACCCT
*
47414297 AGGGGCAAAATGGTAATTT-TACCCCACAAAGGTATCTCATTAATTCTACCCTAC
1 AGGGGCAAAATGGT-ATTTCTACCCCACAAAGGTATCTCAGTAATTCTACCCTAC
* *** * * * **
47414351 AGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTATTCTAC
1 AGGGGCAAAATGGTATTTCTACCCCACAAAGGTATCTCAGTAATTCTACCCTAC
47414405 AGGG
1 AGGG
47414409 TATTTCGGTA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
53 4 0.09
54 43 0.91
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (54 bp):
AGGGGCAAAATGGTATTTCTACCCCACAAAGGTATCTCAGTAATTCTACCCTAC
Found at i:47414357 original size:27 final size:26
Alignment explanation
Indices: 47414327--47414506 Score: 200
Period size: 27 Copynumber: 6.7 Consensus size: 26
47414317 ACCCCACAAA
*
47414327 GGTATCTCATTAATTCTACCCTACAGG
1 GGTATTTCA-TAATTCTACCCTACAGG
** * *
47414354 GGTATTTTGGTATTTCTACCCTACAAG
1 GGTA-TTTCATAATTCTACCCTACAGG
**
47414381 GGTATTTCAGTAATTCTATTCTACA-G
1 GGTATTTCA-TAATTCTACCCTACAGG
*
47414407 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTC-ATAATTCTACCCTACAGG
*
47414434 GGTATTTCGATAATTCTACCTTACAGG
1 GGTATTTC-ATAATTCTACCCTACAGG
*
47414461 GGTATTTCGATAATTCTACCTTACAGG
1 GGTATTTC-ATAATTCTACCCTACAGG
47414488 GGTATTTCGATAATTCTAC
1 GGTATTTC-ATAATTCTAC
47414507 AACTTATCTA
Statistics
Matches: 134, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 25 0.19
27 107 0.80
28 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (26 bp):
GGTATTTCATAATTCTACCCTACAGG
Found at i:47414423 original size:80 final size:81
Alignment explanation
Indices: 47414337--47414506 Score: 238
Period size: 80 Copynumber: 2.1 Consensus size: 81
47414327 GGTATCTCAT
* * * *
47414337 TAATTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTC-AGTAATTCTA-T
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGA-TAATTCTACC
*
47414400 TCTACA-GGGTATTTCGG
65 T-TACAGGGGTATTTCGA
* *
47414417 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTTACAGGGGTATTTCGATAATTCTACCT
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGATAATTCTACCT
47414482 TACAGGGGTATTTCGA
66 TACAGGGGTATTTCGA
47414498 TAATTCTAC
1 TAATTCTAC
47414507 AACTTATCTA
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
80 59 0.74
81 21 0.26
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGATAATTCTACCT
TACAGGGGTATTTCGA
Found at i:47414486 original size:54 final size:54
Alignment explanation
Indices: 47414337--47414506 Score: 238
Period size: 54 Copynumber: 3.2 Consensus size: 54
47414327 GGTATCTCAT
* * * *
47414337 TAATTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTC-A
1 TAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
*
47414390 GTAATTCTA-TTCTACA-GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
1 -TAATTCTACCT-TACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
* *
47414444 TAATTCTACCTTACAGGGGTATTTCGATAATTCTACCTTACAGGGGTATTTCGA
1 TAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
47414498 TAATTCTAC
1 TAATTCTAC
47414507 AACTTATCTA
Statistics
Matches: 104, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
53 45 0.43
54 59 0.57
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (54 bp):
TAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
Found at i:47421180 original size:27 final size:26
Alignment explanation
Indices: 47421132--47421191 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
47421122 GCGAAGCCGC
*
47421132 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
47421159 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
47421185 CAGATAT
1 CAGATAT
47421192 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:47421252 original size:71 final size:67
Alignment explanation
Indices: 47421159--47421300 Score: 185
Period size: 67 Copynumber: 2.1 Consensus size: 67
47421149 TCACCAGATA
* * * *
47421159 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTAGCGAAGCCACCAGATTGCAGCGA
47421224 GGCTGC
62 GGCTGC
* * *
47421230 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTAGCGAGGCCACCAGATTGTAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTAGCGAAGCCACCAGATTGCAGCGAGGCT
47421295 GC
66 GC
47421297 CAGA
1 CAGA
47421301 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 39 0.61
71 25 0.39
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTAGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:47425098 original size:47 final size:47
Alignment explanation
Indices: 47425035--47425367 Score: 540
Period size: 47 Copynumber: 7.1 Consensus size: 47
47425025 GAAATGATAG
*
47425035 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47425082 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47425129 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
47425176 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47425223 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47425270 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
47425317 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47425364 TAAG
1 TAAG
47425368 TCCCGAAGGG
Statistics
Matches: 270, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 270 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:47425542 original size:37 final size:37
Alignment explanation
Indices: 47425486--47425564 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
47425476 CCGAGCTCTA
* *
47425486 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
47425523 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
47425560 AAGAC
1 AAGAC
47425565 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:47427259 original size:40 final size:40
Alignment explanation
Indices: 47427222--47427405 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
47427212 GCTACTCGTT
*
47427222 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
47427262 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
47427302 CCAATGCCTTCGGG-CTTAGCCCAG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * * * *
47427341 CAAATGCCTTC-CGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
47427382 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
47427406 ACATCATTCG
Statistics
Matches: 120, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
38 1 0.01
39 30 0.25
40 76 0.63
41 13 0.11
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:47427390 original size:79 final size:80
Alignment explanation
Indices: 47427222--47427403 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 80
47427212 GCTACTCGTT
* ** * *
47427222 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTCGCGACTTAACCCA
* *
47427286 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* **
47427303 CAATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTC-CGATCTTAGTCCAG
1 CAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGCGA-CTTAACCCAG
* *
47427366 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
47427382 CAAAGCCTTCGGGACTTAGCCC
1 CAAAGCCTTCGGGACTTAGCCC
47427404 GGACATCATT
Statistics
Matches: 84, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
78 2 0.02
79 56 0.67
80 23 0.27
81 3 0.04
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGCGACTTAACCCAGA
TATAGTAACTAGCAC
Found at i:47429676 original size:26 final size:27
Alignment explanation
Indices: 47429647--47429700 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
47429637 TCACACAAGT
*
47429647 TAGTCATTT-ACTCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
47429673 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
47429700 T
1 T
47429701 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:47429731 original size:27 final size:27
Alignment explanation
Indices: 47429701--47429873 Score: 238
Period size: 27 Copynumber: 6.4 Consensus size: 27
47429691 GGGGCAAAAT
* * *
47429701 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
47429728 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
47429755 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
47429782 GGTAATTCTATCCTGCAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47429809 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
47429836 GATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
47429863 GGTAATTCTAC
1 GGTAATTCTAC
47429874 AACTTATCTA
Statistics
Matches: 131, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 131 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:47429836 original size:81 final size:81
Alignment explanation
Indices: 47429719--47429872 Score: 263
Period size: 81 Copynumber: 1.9 Consensus size: 81
47429709 TACCCCACAA
*
47429719 GGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCGG
1 GGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGG
47429784 TAATTCTATCCTGCAG
66 TAATTCTATCCTGCAG
* * * *
47429800 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTTACAGGGGTATTTCGG
1 GGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGG
47429865 TAATTCTA
66 TAATTCTA
47429873 CAACTTATCT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (81 bp):
GGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGG
TAATTCTATCCTGCAG
Found at i:47432109 original size:28 final size:27
Alignment explanation
Indices: 47432078--47432161 Score: 89
Period size: 29 Copynumber: 3.0 Consensus size: 27
47432068 CATTAAGCTC
*
47432078 AATCATATTCATATGGCCTATTAGGCCA
1 AATCATATT-ATATGGCCCATTAGGCCA
47432106 AATCACT-TGTATATGGCCCATTAGGCCCA
1 AATCA-TAT-TATATGGCCCATTAGG-CCA
* *
47432135 AATCACATTTATATGGCCCGTTAGGCC
1 AATCATA-TTATATGGCCCATTAGGCC
47432162 CAGTCACATT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
28 22 0.46
29 25 0.52
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (27 bp):
AATCATATTATATGGCCCATTAGGCCA
Found at i:47432147 original size:29 final size:29
Alignment explanation
Indices: 47432078--47432176 Score: 123
Period size: 28 Copynumber: 3.5 Consensus size: 29
47432068 CATTAAGCTC
* * *
47432078 AATCATATTCATATGGCCTATTAGG-CCA
1 AATCACATTTATATGGCCCATTAGGCCCA
47432106 AATCAC-TTGTATATGGCCCATTAGGCCCA
1 AATCACATT-TATATGGCCCATTAGGCCCA
*
47432135 AATCACATTTATATGGCCCGTTAGGCCC-
1 AATCACATTTATATGGCCCATTAGGCCCA
*
47432163 AGTCACATTTATAT
1 AATCACATTTATAT
47432177 TCATGCTCAT
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
27 2 0.03
28 32 0.51
29 27 0.43
30 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (29 bp):
AATCACATTTATATGGCCCATTAGGCCCA
Found at i:47432159 original size:57 final size:56
Alignment explanation
Indices: 47432054--47432161 Score: 135
Period size: 57 Copynumber: 1.9 Consensus size: 56
47432044 AAATTCACAT
* * * * *
47432054 ACTTGTATCTGGGCCATTAAGCTCAATCATATTCATATGGCCTATTAGGCCAAATC
1 ACTTGTATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCAAATC
* * *
47432110 ACTTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCC
1 ACTTGTATATGGCCCATTAAGCCC-AATCACATTCATATGGCCCATTAGGCC
47432162 CAGTCACATT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
56 20 0.47
57 23 0.53
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (56 bp):
ACTTGTATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCAAATC
Found at i:47434973 original size:27 final size:27
Alignment explanation
Indices: 47434930--47435009 Score: 108
Period size: 27 Copynumber: 2.9 Consensus size: 27
47434920 TGATGGAGGA
47434930 GTATACTGGTGGCTCTGCCACAAATATCT
1 GTAT-CTGGTGGCTCTGCCAC-AATATCT
47434959 GT-TCTGGTGGCTCTGCCACAATATCT
1 GTATCTGGTGGCTCTGCCACAATATCT
* * *
47434985 GTATCTGGTGACTCAGTCACAATAT
1 GTATCTGGTGGCTCTGCCACAATAT
47435010 TTGTTTTGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
26 9 0.19
27 35 0.74
28 1 0.02
29 2 0.04
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.33
Consensus pattern (27 bp):
GTATCTGGTGGCTCTGCCACAATATCT
Found at i:47446900 original size:28 final size:27
Alignment explanation
Indices: 47446858--47446942 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 27
47446848 TACCTGTATC
* *
47446858 TGGCCCATTAAGCCCGATCATATTCATA
1 TGGCCCATTAGGCCC-ATCACATTCATA
* *
47446886 TGGCCCATTAGGCCCAATCACATTTATT
1 TGGCCCATTAGGCCC-ATCACATTCATA
**
47446914 TGGCCTGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCA-TCACATTCATA
47446942 T
1 T
47446943 TCATGCTCAC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 1 0.02
28 46 0.98
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (27 bp):
TGGCCCATTAGGCCCATCACATTCATA
Found at i:47447178 original size:16 final size:16
Alignment explanation
Indices: 47447157--47447187 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47447147 CCAAACTTTT
47447157 GGCTTTTCAGCATTTC
1 GGCTTTTCAGCATTTC
*
47447173 GGCTTTTCGGCATTT
1 GGCTTTTCAGCATTT
47447188 TGACATTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.45
Consensus pattern (16 bp):
GGCTTTTCAGCATTTC
Found at i:47451120 original size:48 final size:47
Alignment explanation
Indices: 47450987--47451146 Score: 155
Period size: 48 Copynumber: 3.3 Consensus size: 47
47450977 CGTGTATCTT
* * * * * * *
47450987 GGACATGGCGTCAGCATCTGAGATGAGAGCCAATGTAAAACCATGTCTG
1 GGACATGGCATCGGCAT-TGATATGTGTGCC-ATGTAAGACTATGTCTG
47451036 GGACATGGCATC-GCATTGATATGTGTGCCAGTGTAAGACTATGTCTG
1 GGACATGGCATCGGCATTGATATGTGTGCCA-TGTAAGACTATGTCTG
* * *
47451083 GGTCATGGCATCGGTGA-TGATATGTGTGCCCATGTAAGA-TCATGTTTG
1 GGACATGGCATCGG-CATTGATATGTGTG-CCATGTAAGACT-ATGTCTG
47451131 GGACATGGCATCGGCA
1 GGACATGGCATCGGCA
47451147 CCGATATGAG
Statistics
Matches: 95, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
46 1 0.01
47 37 0.39
48 42 0.44
49 15 0.16
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (47 bp):
GGACATGGCATCGGCATTGATATGTGTGCCATGTAAGACTATGTCTG
Found at i:47453064 original size:16 final size:17
Alignment explanation
Indices: 47453031--47453065 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
47453021 GTATCCCAAG
47453031 CCACACGGGCGTGTGTGA
1 CCACACGGGCG-GTGTGA
47453049 CCACACGGGC-GTGTGA
1 CCACACGGGCGGTGTGA
47453065 C
1 C
47453066 TCTCTAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
18 10 0.59
ACGTcount: A:0.17, C:0.31, G:0.37, T:0.14
Consensus pattern (17 bp):
CCACACGGGCGGTGTGA
Found at i:47454221 original size:40 final size:40
Alignment explanation
Indices: 47454123--47454270 Score: 147
Period size: 40 Copynumber: 3.6 Consensus size: 40
47454113 CGAATTCTCA
* *
47454123 CACACTAAGTACCAATACATAGCCAAAGCAATT-TT-AATCTCG
1 CACACTAAGTGCC-ATACATAGCCAAAGC-TTTCTTGAA--TCG
* ** *
47454165 CACACTACGTTTCATACATAGCCAAATCTTTCTTGAATCG
1 CACACTAAGTGCCATACATAGCCAAAGCTTTCTTGAATCG
* *
47454205 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCG
1 CACACTAAGTGCCATACATAGCCAAAGCTTTCTTGAATCG
* **
47454245 TACACTAAGTGCTGTACATAGCCAAA
1 CACACTAAGTGCCATACATAGCCAAA
47454271 TTGTTGTCAA
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
40 61 0.69
41 16 0.18
42 12 0.13
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCAAAGCTTTCTTGAATCG
Found at i:47457787 original size:48 final size:48
Alignment explanation
Indices: 47457723--47458771 Score: 1759
Period size: 48 Copynumber: 21.9 Consensus size: 48
47457713 TATATATGTG
*
47457723 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* * * *
47457771 TGTGATAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
47457819 TGTGGTAAAGCCGAATGGCTAGTGCGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
*
47457867 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
47457915 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* *
47457963 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* *
47458011 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGAATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
47458059 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
*
47458107 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
47458155 TGTGATAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
47458203 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATAAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
47458251 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
*
47458299 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
47458347 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* * * *
47458395 TGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATATGTATT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
47458443 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
* *
47458491 TGTGGTAAAGCCGAATGGCTAGTGTGAAATCTGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
47458539 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
47458587 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATAAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
47458635 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
47458683 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
* *
47458731 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGAT
47458772 GTGTGTATAT
Statistics
Matches: 952, Mismatches: 39, Indels: 20
0.94 0.04 0.02
Matches are distributed among these distances:
47 2 0.00
48 948 1.00
49 2 0.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
Found at i:47458507 original size:28 final size:28
Alignment explanation
Indices: 47458475--47458555 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
47458465 TGTGAAATAT
47458475 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
* * *
47458503 GAATG-GCTA-G----TGT-G-AAATCT
1 GAATGAGATATGTATATGTGGTAAAGCC
*
47458523 GTATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
47458551 GAATG
1 GAATG
47458556 GCTAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 16
0.61 0.13 0.26
Matches are distributed among these distances:
20 8 0.22
21 4 0.11
22 4 0.11
26 4 0.11
27 4 0.11
28 13 0.35
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (28 bp):
GAATGAGATATGTATATGTGGTAAAGCC
Found at i:47458699 original size:28 final size:28
Alignment explanation
Indices: 47458667--47458747 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
47458657 TGTGAAATAT
47458667 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
* ***
47458695 GAATG-GCTA-G----TGT-G-AAATAT
1 GAATGAGATATGTATATGTGGTAAAGCC
47458715 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
47458743 GAATG
1 GAATG
47458748 GCTAGTGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 16
0.61 0.13 0.26
Matches are distributed among these distances:
20 8 0.22
21 4 0.11
22 4 0.11
26 4 0.11
27 4 0.11
28 13 0.35
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (28 bp):
GAATGAGATATGTATATGTGGTAAAGCC
Found at i:47460349 original size:43 final size:43
Alignment explanation
Indices: 47460256--47460375 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 43
47460246 TCACTTATTG
* * * * *
47460256 ATGCCACTGTCCCAGACA-GTGTCTTACACGAAATCGATTAACG
1 ATGCCAATGTCCCAGACATG-GTCTTACACGTAATCCAATAACA
47460299 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAAT-ACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATC-CAATAACA
* * *
47460342 ATTCCAATGTCCCAAACATGGTCTTACATGTAAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAT
47460376 GCCATCTCGA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 64 0.96
44 3 0.04
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCCAATAACA
Found at i:47467211 original size:46 final size:46
Alignment explanation
Indices: 47467094--47467228 Score: 153
Period size: 52 Copynumber: 2.8 Consensus size: 46
47467084 TGCAACCCGC
* * *
47467094 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
47467140 CCATTACATCTCTAGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-TA-A---GT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
** *
47467192 CCATAAGTGAACTTAGACTCAGCTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47467229 TGCCCAAACA
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
46 29 0.39
47 3 0.04
48 1 0.01
50 1 0.01
51 3 0.04
52 38 0.51
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:47476687 original size:32 final size:33
Alignment explanation
Indices: 47476627--47476690 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
47476617 CTATGGGCCA
47476627 TACTGTTATCTGAAAAAGGGCTAAGGCCCAGTT
1 TACTGTTATCTGAAAAAGGGCTAAGGCCCAGTT
**
47476660 TACTG-TATTCTG-AAAAGGGCTTCGGCCCAGT
1 TACTGTTA-TCTGAAAAAGGGCTAAGGCCCAGT
47476691 ACCCACTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 19 0.68
33 9 0.32
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (33 bp):
TACTGTTATCTGAAAAAGGGCTAAGGCCCAGTT
Found at i:47476706 original size:34 final size:32
Alignment explanation
Indices: 47476628--47476722 Score: 93
Period size: 34 Copynumber: 2.9 Consensus size: 32
47476618 TATGGGCCAT
* **
47476628 ACTGTTATCTGAAAAAGGGCTAAGGCCCAGTTT
1 ACTGTTATCTG-AAAAGGGCTTAGGCCCAGTCC
*
47476661 ACTG-TATTCTGAAAAGGGCTTCGGCCCAGTACCC
1 ACTGTTA-TCTGAAAAGGGCTTAGGCCCAGT--CC
**
47476695 ACTGTTATCTGAATTGGGCTTAGGCCCA
1 ACTGTTATCTGAAAAGGGCTTAGGCCCA
47476723 ATGGGCTTGA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
32 19 0.37
33 8 0.16
34 22 0.43
35 2 0.04
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.27
Consensus pattern (32 bp):
ACTGTTATCTGAAAAGGGCTTAGGCCCAGTCC
Found at i:47478757 original size:27 final size:27
Alignment explanation
Indices: 47478727--47478868 Score: 72
Period size: 27 Copynumber: 5.3 Consensus size: 27
47478717 CGACTTGTAA
47478727 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAGTAC-CCTCGATTTACAG
****
47478754 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAG
**** * ** *
47478781 AATTACCGTTTTACCCTCAATTTTTAA
1 AATTACCAAAGTACCCTCGATTTACAG
****
47478808 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCAAAGTACCCTCGA-TTTACAG
* ***
47478835 AATTACTATTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAG
47478862 AATTACC
1 AATTACC
47478869 GTTTTACCCT
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.03
27 94 0.96
28 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCGATTTACAG
Found at i:47478873 original size:27 final size:27
Alignment explanation
Indices: 47478744--47478991 Score: 293
Period size: 27 Copynumber: 9.2 Consensus size: 27
47478734 AAAGTACTCC
47478744 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
47478771 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
47478798 CAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
47478825 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
47478852 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
47478879 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * ** *
47478906 TGATTTACAAAATTATTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
47478933 -TAGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
47478960 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
47478987 TGATT
1 CGATT
47478992 GTGAAATTAC
Statistics
Matches: 189, Mismatches: 28, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.01
27 185 0.98
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:47479026 original size:27 final size:27
Alignment explanation
Indices: 47478996--47479191 Score: 232
Period size: 27 Copynumber: 7.3 Consensus size: 27
47478986 TTGATTGTGA
*
47478996 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
47479023 AATTTCCGAAATACCCCTAG-AGGGTAG
1 AATTACCGAAATACCCCT-GTAGGGTAG
* * * *
47479050 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
47479077 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
47479104 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
47479131 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** * *
47479158 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
47479185 AATTACC
1 AATTACC
47479192 ATTTTGCCCC
Statistics
Matches: 141, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
27 140 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:47479428 original size:27 final size:26
Alignment explanation
Indices: 47479390--47479476 Score: 120
Period size: 27 Copynumber: 3.3 Consensus size: 26
47479380 CGGAGGAAGC
*
47479390 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
47479417 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
47479443 GTATCTGGTGACTCTGTCACGATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
47479470 GTTCTGG
1 GTTCTGG
47479477 CAGTCATGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 14 0.25
27 41 0.75
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:47479605 original size:6 final size:6
Alignment explanation
Indices: 47479594--47479795 Score: 146
Period size: 6 Copynumber: 33.3 Consensus size: 6
47479584 TTGCGTTCAC
** * * *
47479594 ATTCTG ATTCTG ACACGTA ATTCTA ATTCTG ATTCTG ATTCTG -TTACTA
1 ATTCTG ATTCTG ATTC-TG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
* *
47479643 ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * * * *
47479691 -TCACCTA ATTCTG ATTCTG ATTCTA ATTCTG -TTACTA ATAT-TG ATTCTA
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG
* * * *
47479740 ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCTC ATTTTG GTTCTA
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
47479788 ATTCTG AT
1 ATTCTG AT
47479796 AATGTTTCTT
Statistics
Matches: 152, Mismatches: 30, Indels: 28
0.72 0.14 0.13
Matches are distributed among these distances:
5 10 0.07
6 129 0.85
7 11 0.07
8 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:47479736 original size:85 final size:85
Alignment explanation
Indices: 47479594--47479774 Score: 299
Period size: 85 Copynumber: 2.1 Consensus size: 85
47479584 TTGCGTTCAC
* * *
47479594 ATTCTGATTCTGACACGTAATTCTAATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTC
1 ATTCTGATTCTGACACCTAATTCTAATTCTGATTCTAATTCTGTTACTAATACTGATTCTAATTC
47479659 TGATTCTGTTACTGATTCTG
66 TGATTCTGTTACTGATTCTG
* * * *
47479679 ATTTTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGTTACTAATATTGATTCTAATTC
1 ATTCTGATTCTGACACCTAATTCTAATTCTGATTCTAATTCTGTTACTAATACTGATTCTAATTC
47479744 TGATTCTGTTACTGATTCTG
66 TGATTCTGTTACTGATTCTG
47479764 ATTCTGATTCT
1 ATTCTGATTCT
47479775 CATTTTGGTT
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 88 1.00
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (85 bp):
ATTCTGATTCTGACACCTAATTCTAATTCTGATTCTAATTCTGTTACTAATACTGATTCTAATTC
TGATTCTGTTACTGATTCTG
Found at i:47479792 original size:30 final size:30
Alignment explanation
Indices: 47479611--47479795 Score: 179
Period size: 30 Copynumber: 6.3 Consensus size: 30
47479601 TTCTGACACG
* *
47479611 TAATTCTAATTCTGATTCTGATTCTGTTAC
1 TAATTCTGATTCTGATTCTAATTCTGTTAC
* *
47479641 TAATACTGATTCTGATTCTGATTCTG-T--
1 TAATTCTGATTCTGATTCTAATTCTGTTAC
* * *
47479668 T-A--CTGATTCTGATTTTGATTCTGTCACC
1 TAATTCTGATTCTGATTCTAATTCTGTTA-C
47479696 TAATTCTGATTCTGATTCTAATTCTGTTAC
1 TAATTCTGATTCTGATTCTAATTCTGTTAC
* *
47479726 TAATAT-TGATTCTAATTCTGATTCTGTTAC
1 TAAT-TCTGATTCTGATTCTAATTCTGTTAC
* * *
47479756 TGATTCTGATTCTGATTCTCATTTTGGTT-C
1 TAATTCTGATTCTGATTCTAATTCT-GTTAC
47479786 TAATTCTGAT
1 TAATTCTGAT
47479796 AATGTTTCTT
Statistics
Matches: 131, Mismatches: 14, Indels: 20
0.79 0.08 0.12
Matches are distributed among these distances:
24 20 0.15
26 1 0.01
27 1 0.01
28 1 0.01
29 3 0.02
30 80 0.61
31 25 0.19
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.50
Consensus pattern (30 bp):
TAATTCTGATTCTGATTCTAATTCTGTTAC
Found at i:47479804 original size:18 final size:17
Alignment explanation
Indices: 47479783--47479816 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
47479773 CTCATTTTGG
47479783 TTCTAATTCTGATAATGT
1 TTCTAATTCTG-TAATGT
*
47479801 TTCTTATTCTGTAATG
1 TTCTAATTCTGTAATG
47479817 GGCTAAGGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
TTCTAATTCTGTAATGT
Found at i:47481821 original size:27 final size:27
Alignment explanation
Indices: 47481791--47482064 Score: 284
Period size: 27 Copynumber: 10.2 Consensus size: 27
47481781 AAAGTACTCC
47481791 TGATTTACAGAATTACCGTTTTACCCT
1 TGATTTACAGAATTACCGTTTTACCCT
*
47481818 TGATTTACAAAATTACCGTTTTACCCT
1 TGATTTACAGAATTACCGTTTTACCCT
** *
47481845 TGATTTTTAAAATTACCGTTTTACCCT
1 TGATTTACAGAATTACCGTTTTACCCT
* * *
47481872 CGATTTACTGAA-TACCGTTTTACGC-
1 TGATTTACAGAATTACCGTTTTACCCT
* **
47481897 TCAGTTTACAGAATTACTATTTTACCCT
1 TGA-TTTACAGAATTACCGTTTTACCCT
* * * *
47481925 CGATTTATAGAATTATCATTTTACCCT
1 TGATTTACAGAATTACCGTTTTACCCT
* ** *
47481952 CGATTTGTAAAATTACCGTTTTACCCT
1 TGATTTACAGAATTACCGTTTTACCCT
* * *
47481979 TGATTTATAGAATTACTGGTTTACCCT
1 TGATTTACAGAATTACCGTTTTACCCT
* *
47482006 CTG-TTTACAAAATTATCGTTTTACCCT
1 -TGATTTACAGAATTACCGTTTTACCCT
* *
47482033 CGATTTATAGAATTACCGTTTTACCCT
1 TGATTTACAGAATTACCGTTTTACCCT
47482060 TGATT
1 TGATT
47482065 GTGAAATTAC
Statistics
Matches: 203, Mismatches: 39, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
25 1 0.00
26 21 0.10
27 178 0.88
28 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (27 bp):
TGATTTACAGAATTACCGTTTTACCCT
Found at i:47482004 original size:81 final size:81
Alignment explanation
Indices: 47481792--47482064 Score: 347
Period size: 81 Copynumber: 3.4 Consensus size: 81
47481782 AAGTACTCCT
* * * * *
47481792 GATTTACAGAATTACCGTTTTACCCTTGATTTACAAAATTACCGTTTTACCCTTGATTTTTAAAA
1 GATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTATAAAA
*
47481857 TTACCGTTTTACCCTC
66 TTATCGTTTTACCCTC
* * * *
47481873 GATTTACT-GAA-TACCGTTTTACGC-TCAGTTTACAGAATTACTATTTTACCCTCGATTTATAG
1 GATTTA-TAGAATTACCGTTTTACCCTTGA-TTTACAGAATTACTGTTTTACCCTCGATTTATAA
*
47481935 AATTATCATTTTACCCTC
64 AATTATCGTTTTACCCTC
* * * * *
47481953 GATTTGTAAAATTACCGTTTTACCCTTGATTTATAGAATTACTGGTTTACCCTCTG-TTTACAAA
1 GATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTC-GATTTATAAA
47482017 ATTATCGTTTTACCCTC
65 ATTATCGTTTTACCCTC
47482034 GATTTATAGAATTACCGTTTTACCCTTGATT
1 GATTTATAGAATTACCGTTTTACCCTTGATT
47482065 GTGAAATTAC
Statistics
Matches: 163, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
79 3 0.02
80 63 0.39
81 94 0.58
82 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (81 bp):
GATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTATAAAA
TTATCGTTTTACCCTC
Found at i:47482056 original size:54 final size:55
Alignment explanation
Indices: 47481790--47482064 Score: 321
Period size: 54 Copynumber: 5.1 Consensus size: 55
47481780 CAAAGTACTC
* * * *
47481790 CTGATTTACAGAATTACCGTTTTACCCTTGATTTACAAAATTACCGTTTTACCCT
1 CTGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
** *
47481845 -TGATTTTTAAAATTACCGTTTTACCCTCGATTTACT-GAA-TACCGTTTTACGCT
1 CTGATTTACAAAATTACCGTTTTACCCTCGATTTA-TAGAATTACCGTTTTACCCT
* * ** * *
47481898 CAG-TTTACAGAATTACTATTTTACCCTCGATTTATAGAATTATCATTTTACCCT
1 CTGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
** * * *
47481952 C-GATTTGTAAAATTACCGTTTTACCCTTGATTTATAGAATTACTGGTTTACCCT
1 CTGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
*
47482006 CTG-TTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
1 CTGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
47482060 -TGATT
1 CTGATT
47482065 GTGAAATTAC
Statistics
Matches: 181, Mismatches: 32, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
52 1 0.01
53 45 0.25
54 134 0.74
55 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.43
Consensus pattern (55 bp):
CTGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
Found at i:47482099 original size:27 final size:27
Alignment explanation
Indices: 47482069--47482259 Score: 178
Period size: 27 Copynumber: 7.2 Consensus size: 27
47482059 TTGATTGTGA
47482069 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
47482096 AATT-TTCGAAATA-CCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
47482122 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
47482149 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
47482176 AATTA-TCG-AA-ACTCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
47482201 AAATACTGAAATACCACTGTAGGGT-G
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
47482227 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
47482254 AATTAC
1 AATTAC
47482260 CATTTTGCCC
Statistics
Matches: 131, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
25 18 0.14
26 48 0.37
27 65 0.50
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:47482153 original size:80 final size:79
Alignment explanation
Indices: 47482077--47482258 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 79
47482067 GAAATTACTG
* *
47482077 AAATACCCCTGTAGGGTAGAATTTTCGAAA-TACCCTATAGGGTAGAATTACTGAAATACCCTTA
1 AAATACCCCTGTAGGGTAGAATTATCGAAACT--CCTATAGGGTAGAAATACTGAAATACCCTTA
47482141 TAGGATAGAATTACCA
64 TAGGATAGAATTACCA
* * *
47482157 AAATACCCCTGTAGGGTAGAATTATCGAAACTCTTGTAGGGTAGAAATACTGAAATACCAC-TGT
1 AAATACCCCTGTAGGGTAGAATTATCGAAACTCCTATAGGGTAGAAATACTGAAATACC-CTTAT
* *
47482221 AGGGT-GAATTACCG
65 AGGATAGAATTACCA
* * * *
47482235 AGATACCCTTGTGGGGTAAAATTA
1 AAATACCCCTGTAGGGTAGAATTA
47482259 CCATTTTGCC
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 28 0.31
79 30 0.34
80 30 0.34
81 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (79 bp):
AAATACCCCTGTAGGGTAGAATTATCGAAACTCCTATAGGGTAGAAATACTGAAATACCCTTATA
GGATAGAATTACCA
Found at i:47482161 original size:53 final size:53
Alignment explanation
Indices: 47482069--47482260 Score: 203
Period size: 53 Copynumber: 3.6 Consensus size: 53
47482059 TTGATTGTGA
* ** *
47482069 AATTACTGAAATACCCCTGTAGGGTAGAATTTTCGAAATACCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCTGTAGGGTAG
* * *
47482122 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATA-CCCTGTAGGGTAG
* * *
47482176 AATTA-TCG-AA-ACTCTTGTAGGGTAGAAATACTGAAATACCACTGTAGGGT-G
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACC-CTGTAGGGTAG
* * * *
47482227 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACC
47482261 ATTTTGCCCT
Statistics
Matches: 113, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
51 9 0.08
52 32 0.28
53 54 0.48
54 18 0.16
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (53 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCTGTAGGGTAG
Found at i:47482496 original size:27 final size:26
Alignment explanation
Indices: 47482458--47482542 Score: 102
Period size: 27 Copynumber: 3.3 Consensus size: 26
47482448 CGGAGGAAGC
47482458 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
47482485 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * *
47482511 GTATCTGGTGAC--TGTCACGATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
47482536 GTTCTGG
1 GTTCTGG
47482543 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
24 5 0.09
25 13 0.25
26 9 0.17
27 26 0.49
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:47482688 original size:6 final size:6
Alignment explanation
Indices: 47482679--47482931 Score: 236
Period size: 6 Copynumber: 41.8 Consensus size: 6
47482669 CTTTCACGTA
* *
47482679 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* *
47482727 ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG
* * *
47482776 ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTTTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
47482824 -TTATTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTA
1 ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
47482873 ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
47482921 ATTCTG ATTCT
1 ATTCTG ATTCT
47482932 CATTTTGGTT
Statistics
Matches: 203, Mismatches: 24, Indels: 40
0.76 0.09 0.15
Matches are distributed among these distances:
5 15 0.07
6 172 0.85
7 13 0.06
8 3 0.01
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:47482797 original size:85 final size:85
Alignment explanation
Indices: 47482660--47482931 Score: 445
Period size: 85 Copynumber: 3.1 Consensus size: 85
47482650 TTGCATTCAC
*
47482660 ATTCTGATTCTTTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTC
1 ATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTC
47482725 TGATTCTGTTACTGATTCTG
66 TGATTCTGTTACTGATTCTG
47482745 ATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTT
1 ATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC------
*
47482810 TGATTCTGATTCTGTTATTGATTCTG
60 TGATTCTGATTCTGTTACTGATTCTG
* * *
47482836 ATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGTTACTAATATTGATTCTGATTC
1 ATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTC
47482901 TGATTCTGTTACTGATTCTG
66 TGATTCTGTTACTGATTCTG
47482921 ATTCTGATTCT
1 ATTCTGATTCT
47482932 CATTTTGGTT
Statistics
Matches: 175, Mismatches: 6, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
85 94 0.54
91 81 0.46
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTC
TGATTCTGTTACTGATTCTG
Found at i:47482949 original size:30 final size:30
Alignment explanation
Indices: 47482660--47482952 Score: 275
Period size: 30 Copynumber: 9.9 Consensus size: 30
47482650 TTGCATTCAC
*
47482660 ATTCTGATTCT-TTCACGTAATTCTGATTCTG
1 ATTCTGATTCTGTT-AC-CAATTCTGATTCTG
* *
47482691 ATTCTGATTCTGTTACTAATACTGATTCTG
1 ATTCTGATTCTGTTACCAATTCTGATTCTG
47482721 ATTCTGATTCTGTT----A--CTGATTCTG
1 ATTCTGATTCTGTTACCAATTCTGATTCTG
* *
47482745 ATTCTGATTCTGTCACGTAATTCTGATTCTG
1 ATTCTGATTCTGTTAC-CAATTCTGATTCTG
* *
47482776 ATTCTGATTCTGTTACTAATACTGATTCTG
1 ATTCTGATTCTGTTACCAATTCTGATTCTG
* ** *
47482806 ATTTTGATTCTGATT--CTGTTATTGATTCTG
1 ATTCTGATTCTG-TTACCAATT-CTGATTCTG
*
47482836 ATTCTGATTCTGTCACCTAATTCTGATTCTG
1 ATTCTGATTCTGTTACC-AATTCTGATTCTG
* *
47482867 ATTCTAATTCTGTTACTAATAT-TGATTCTG
1 ATTCTGATTCTGTTACCAAT-TCTGATTCTG
**
47482897 ATTCTGATTCTGTTACTGATTCTGATTCTG
1 ATTCTGATTCTGTTACCAATTCTGATTCTG
* *
47482927 ATTCTCATTTTGGTT-CCAATTCTGAT
1 ATTCTGATTCT-GTTACCAATTCTGAT
47482953 AATGTTTCTT
Statistics
Matches: 222, Mismatches: 24, Indels: 33
0.80 0.09 0.12
Matches are distributed among these distances:
24 22 0.10
26 1 0.00
29 4 0.02
30 125 0.56
31 66 0.30
32 4 0.02
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGTTACCAATTCTGATTCTG
Found at i:47485449 original size:93 final size:93
Alignment explanation
Indices: 47485321--47485492 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
47485311 GCCCATAAGT
* * *
47485321 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAATTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47485386 CGAGCTCGAATGCCTAGTTACATCTCTC
66 CGAGCTCGAATGCCTAGTTACATCTCTC
* *
47485414 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
47485479 CGAGTTCGGATGCC
66 CGAGCTCGAATGCC
47485493 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCTC
Found at i:47485488 original size:46 final size:46
Alignment explanation
Indices: 47485313--47485488 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
47485303 TGTAACCCGC
* * *
47485313 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
47485359 CCATAAGTGAACTCGGACTCAATTCAACGAGCTC-GA-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
47485405 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
47485452 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
47485489 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 29 0.27
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:47487896 original size:14 final size:14
Alignment explanation
Indices: 47487877--47487937 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
47487867 CAAAGATAAC
47487877 AAGAAAACCGAATA
1 AAGAAAACCGAATA
* *
47487891 AAGAAATCC-AAGA
1 AAGAAAACCGAATA
*
47487904 TAGAGAAACCAGAATA
1 AAGA-AAACC-GAATA
* *
47487920 AAGAAATCAGAATA
1 AAGAAAACCGAATA
47487934 AAGA
1 AAGA
47487938 GATCCAGGAT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
13 6 0.17
14 21 0.58
15 3 0.08
16 6 0.17
ACGTcount: A:0.62, C:0.11, G:0.16, T:0.10
Consensus pattern (14 bp):
AAGAAAACCGAATA
Found at i:47487918 original size:29 final size:29
Alignment explanation
Indices: 47487881--47487963 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 29
47487871 GATAACAAGA
*
47487881 AAACC-GAATAAAGAAATCCAAGATAGAG
1 AAACCAGAATAAAGAAATCCAAGATAAAG
47487909 AAACCAGAATAAAGAAAT-C-AGAATAAAG
1 AAACCAGAATAAAGAAATCCAAG-ATAAAG
* * *
47487937 AGATCCAGGATAAAGAAACCCAAGATA
1 A-AACCAGAATAAAGAAATCCAAGATA
47487964 CGATACTATG
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.04
28 12 0.26
29 26 0.57
30 4 0.09
31 2 0.04
ACGTcount: A:0.58, C:0.14, G:0.17, T:0.11
Consensus pattern (29 bp):
AAACCAGAATAAAGAAATCCAAGATAAAG
Found at i:47490954 original size:43 final size:43
Alignment explanation
Indices: 47490893--47491064 Score: 161
Period size: 46 Copynumber: 3.8 Consensus size: 43
47490883 TGTAACCCGC
47490893 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTAT
*
47490936 CCATAAGTGAACTCGGACTCAACTCAACTCA-CTCGGATGCCTAGTTA-
1 CCATAAGTGAACTCGGACTCAACTCAAC-GAGCTCGG--G-C--GTTAT
*** * * *
47490983 -CATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCGTT---AT
*
47491029 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
47491065 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 11, Indels: 23
0.76 0.08 0.17
Matches are distributed among these distances:
42 2 0.02
43 33 0.31
44 2 0.02
45 2 0.02
46 34 0.32
47 28 0.27
48 4 0.04
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (43 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTAT
Found at i:47491019 original size:47 final size:43
Alignment explanation
Indices: 47490894--47491069 Score: 138
Period size: 43 Copynumber: 3.9 Consensus size: 43
47490884 GTAACCCGCC
* * ** ** *
47490894 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTATC
1 CATAACTGAACTCGGACTCAACTCAACGAGTTCGGATGCCATA
* * *
47490937 CATAAGTGAACTCGGACTCAACTCAACTCA-CTCGGATGCCTAGTTA
1 CATAACTGAACTCGGACTCAACTCAAC-GAGTTCGGATGCC-A--TA
** * *
47490983 CATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
1 CATAACT-GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CATA
*
47491030 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CATAACTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
47491070 CAAATATCCT
Statistics
Matches: 107, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
43 34 0.32
44 5 0.05
46 34 0.32
47 29 0.27
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (43 bp):
CATAACTGAACTCGGACTCAACTCAACGAGTTCGGATGCCATA
Found at i:47505526 original size:52 final size:51
Alignment explanation
Indices: 47505399--47505528 Score: 183
Period size: 49 Copynumber: 2.6 Consensus size: 51
47505389 TGTGTTCTGG
* *
47505399 ATTAAATAAAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATC
1 ATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCATC
* * *
47505450 A-T-AATTATGACATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATT
1 ATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTT-AAGTTTGCATC
*
47505500 ATTAAATTAAGTCATGCATTAAGTAACTC
1 ATTAAATTAAGTCATGCATTATGTAACTC
47505529 ATTTGTTCAT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
49 32 0.47
50 12 0.18
51 2 0.03
52 22 0.32
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (51 bp):
ATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCATC
Found at i:47509401 original size:29 final size:29
Alignment explanation
Indices: 47509369--47509464 Score: 138
Period size: 29 Copynumber: 3.3 Consensus size: 29
47509359 AACTCTACAT
* *
47509369 ACATGCATATGGCCCACTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
**
47509398 ACATTTGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
**
47509427 ACATTTGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
47509456 ACATTCATA
1 ACATTCATA
47509465 CATGCTTTCA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:47514226 original size:46 final size:46
Alignment explanation
Indices: 47514056--47514228 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
47514046 AACCCGCCCC
* * * * * *
47514056 TAAGTGAACTAGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
* * * *
47514102 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-ATTTGCATCCA
* * *
47514150 TCA-CGAACTCGAACTCAACTCAACGAGTTCAGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
47514195 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGA
47514229 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 3 0.03
46 56 0.55
47 25 0.25
48 2 0.02
49 3 0.03
50 4 0.04
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
Found at i:47514247 original size:46 final size:45
Alignment explanation
Indices: 47514106--47514247 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 45
47514096 CATCCATAAA
*
47514106 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCAGATGCTC-A---ACCATCT-AG
* * * * *
47514153 CGAACTCGAACTCAACTCAACGAGTTCAGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCAG--ATGCT-CAACCATCTAG
47514199 TGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCAT-CTAG
47514245 TGA
1 TGA
47514248 CATGTCACTT
Statistics
Matches: 75, Mismatches: 11, Indels: 19
0.71 0.10 0.18
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 32 0.43
47 29 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCTAG
Found at i:47516174 original size:29 final size:29
Alignment explanation
Indices: 47516141--47516242 Score: 125
Period size: 29 Copynumber: 3.6 Consensus size: 29
47516131 TGAATGTGAC
*
47516141 TGGGCCTAACGGGCCATATAAATATGATT
1 TGGGCCTAATGGGCCATATAAATATGATT
* **
47516170 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATATGATT
* * *
47516199 TAGGCCTAATGGCCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATATGATT
*
47516227 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
47516243 GATACAAGTA
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 14 0.23
29 46 0.77
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATATGATT
Found at i:47518551 original size:79 final size:80
Alignment explanation
Indices: 47518409--47518591 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
47518399 TACTCGTTCA
* *
47518409 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
47518474 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
* **
47518489 AATGCCTTCGGG-CTTAGCCTGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
47518551 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
47518568 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
47518592 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 4 0.05
79 58 0.66
80 26 0.30
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:47518591 original size:40 final size:40
Alignment explanation
Indices: 47518388--47518591 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
47518378 CGGAATTTAA
** *
47518388 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
47518428 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
47518468 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
47518507 CTGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
47518547 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
47518587 CCGGA
1 CCGGA
47518592 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:47519786 original size:56 final size:56
Alignment explanation
Indices: 47519719--47519833 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
47519709 TATTAGTTTA
47519719 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
47519775 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
47519831 TTG
1 TTG
47519834 TAACAGCCCG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:47528572 original size:16 final size:16
Alignment explanation
Indices: 47528553--47528587 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
47528543 CGAAAAGTCG
*
47528553 AAATACTAAAAAGCTA
1 AAATACCAAAAAGCTA
*
47528569 AAATACCGAAAAGCTA
1 AAATACCAAAAAGCTA
47528585 AAA
1 AAA
47528588 GTTTGGCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.14, G:0.09, T:0.14
Consensus pattern (16 bp):
AAATACCAAAAAGCTA
Found at i:47528877 original size:28 final size:28
Alignment explanation
Indices: 47528798--47528883 Score: 93
Period size: 28 Copynumber: 3.0 Consensus size: 28
47528788 GTGAGCATGA
** *
47528798 ATATGAATATGGCTGGGCCTAACGGGCC
1 ATATGAATATGATTGGGCCTAATGGGCC
* *
47528826 ATAT-AAAAGTAATTTGGGCCTAATGGGCC
1 ATATGAATA-TGA-TTGGGCCTAATGGGCC
*
47528855 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATATGATTGGGCCTAATGGGCC
47528883 A
1 A
47528884 GGTACAGGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
27 3 0.06
28 21 0.45
29 20 0.43
30 3 0.06
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (28 bp):
ATATGAATATGATTGGGCCTAATGGGCC
Found at i:47531978 original size:93 final size:93
Alignment explanation
Indices: 47531865--47532036 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
47531855 CGCCCATAAG
* *
47531865 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47531930 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
47531958 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47532023 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
47532037 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:47532033 original size:46 final size:46
Alignment explanation
Indices: 47531858--47532033 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
47531848 TGTAACCCGC
* * *
47531858 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
47531904 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
47531954 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
47531997 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
47532034 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:47563743 original size:40 final size:40
Alignment explanation
Indices: 47563669--47563849 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
47563659 AACCCAAGTA
* * *
47563669 CCTTCAGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
47563708 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
47563748 CCTTCGGGACTTAG-CCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
47563787 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
47563827 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
47563850 CATTCGAATA
Statistics
Matches: 130, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
39 48 0.37
40 79 0.61
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:47563800 original size:79 final size:79
Alignment explanation
Indices: 47563669--47563849 Score: 292
Period size: 79 Copynumber: 2.3 Consensus size: 79
47563659 AACCCAAGTA
* * * *
47563669 CCTTCAGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
47563734 CAATAGCACAAAAG
66 CAATAGCACAAAAG
47563748 CCTTCGGGACTTAGCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
47563812 TCAATAGCACAAATG
65 TCAATAGCACAAAAG
47563827 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAG-CCGGATAT
47563850 CATTCGAATA
Statistics
Matches: 95, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
79 86 0.91
80 9 0.09
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CAATAGCACAAAAG
Found at i:47570661 original size:262 final size:262
Alignment explanation
Indices: 47570320--47570853 Score: 998
Period size: 262 Copynumber: 2.0 Consensus size: 262
47570310 CCCCACACAG
* *
47570320 TTGAGACACACAGCCGTGTCTTTGCCCGTGTGGTTAACACTTAGGCTATTTTCCAATCCTTTATG
1 TTGAGACACACAGCCGTGTCTCTGCCCGTGTGGTTAACACTTAGGCTATTTTCCAAGCCTTTATG
* *
47570385 TTACCCTTAATCCTTCACATCTTTATACATACTAATAACACATATCATGACATCATTTTAGTGAT
66 TTACCCTTAATCCTTCACATCTTTATACATACTAAGAACACATATCATGACATCATTTTAATGAT
*
47570450 TTATCATCTCATATTAAGACACATTCATAACATTAATGCCAACAATATATGGCCAACAAGCATAA
131 TTAGCATCTCATATTAAGACACATTCATAACATTAATGCCAACAATATATGGCCAACAAGCATAA
47570515 TCACACCACCTTATCACAAGCATTAGAACATAGCATAGATAGATAGGTTCACAAACCATAATCAA
196 TCACACCACCTTATCACAAGCATTAGAACATAGCATAGATAGATAGGTTCACAAACCATAATCAA
47570580 AA
261 AA
*
47570582 TTGAGACACACAGCCGTGTCTCTGCCTGTGTGGTTAACACTTAGGCTATTTTCCAAGCCTTTATG
1 TTGAGACACACAGCCGTGTCTCTGCCCGTGTGGTTAACACTTAGGCTATTTTCCAAGCCTTTATG
47570647 TTACCCTTAATCCTTCACATCTTTATACATACTAAGAACACATATCATGACATCATTTTAATGAT
66 TTACCCTTAATCCTTCACATCTTTATACATACTAAGAACACATATCATGACATCATTTTAATGAT
47570712 TTAGCATCTCATATTAAGACACATTCATAACATTAATGCCAACAATATATGGCCAACAAGCATAA
131 TTAGCATCTCATATTAAGACACATTCATAACATTAATGCCAACAATATATGGCCAACAAGCATAA
47570777 TCACACCACCTTATCACAAGCATTAGAACATAGCATAGATAGATAGGTTCACAAACCATAATCAA
196 TCACACCACCTTATCACAAGCATTAGAACATAGCATAGATAGATAGGTTCACAAACCATAATCAA
47570842 AA
261 AA
*
47570844 -TAAGACACAC
1 TTGAGACACAC
47570854 CTCTTGGCCA
Statistics
Matches: 265, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
261 9 0.03
262 256 0.97
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (262 bp):
TTGAGACACACAGCCGTGTCTCTGCCCGTGTGGTTAACACTTAGGCTATTTTCCAAGCCTTTATG
TTACCCTTAATCCTTCACATCTTTATACATACTAAGAACACATATCATGACATCATTTTAATGAT
TTAGCATCTCATATTAAGACACATTCATAACATTAATGCCAACAATATATGGCCAACAAGCATAA
TCACACCACCTTATCACAAGCATTAGAACATAGCATAGATAGATAGGTTCACAAACCATAATCAA
AA
Found at i:47572221 original size:25 final size:25
Alignment explanation
Indices: 47572187--47572262 Score: 143
Period size: 25 Copynumber: 3.0 Consensus size: 25
47572177 ATCCATTAAG
*
47572187 TCGATGTCATGTCCCAAACATGATC
1 TCGATGTCATGTCCCAGACATGATC
47572212 TCGATGTCATGTCCCAGACATGATC
1 TCGATGTCATGTCCCAGACATGATC
47572237 TCGATGTCATGTCCCAGACATGATC
1 TCGATGTCATGTCCCAGACATGATC
47572262 T
1 T
47572263 TACATTGACT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (25 bp):
TCGATGTCATGTCCCAGACATGATC
Found at i:47572405 original size:46 final size:45
Alignment explanation
Indices: 47572338--47572506 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 45
47572328 TATCTGTGTC
*
47572338 ATGCCATGTCCCAGACTTGGTCTTACACTAACACATCTCATAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCA-AGTCG
** * *
47572384 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAAC--ACATCTC-AAGTCG
* * * *
47572432 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTA--ACACATCTCAA-GTCG
*
47572478 ATGCCATGTCCTAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
47572507 GGCTCTCATA
Statistics
Matches: 102, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
45 1 0.01
46 49 0.48
47 27 0.26
48 24 0.24
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (45 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCAAGTCG
Found at i:47572500 original size:94 final size:94
Alignment explanation
Indices: 47572285--47572560 Score: 332
Period size: 94 Copynumber: 2.9 Consensus size: 94
47572275 TATAATCGAG
* * * *
47572285 GTCGACGCAATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCTGTGTC-ATGCCATGTCC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATATC-GGGCCGATG-CATGTCC
*
47572349 CAGACTTGGTCTTACACTA--ACACATCTCATA
63 CAGACAT-GTCTTACACTAGCACACATCTCATA
*
47572380 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGAGGCCGATGCATGTCCCA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCG-GGCCGATGCATGTCCCA
* * *
47572444 GACATGTCTTACACTAGCTCTCGTCTCA-A
65 GACATGTCTTACACTAGCACACATCTCATA
* *
47572473 TGTTGATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCC
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATCG-GGCCGATGCATGTCC
47572536 CAGACATGTCTTACACTAGCACACA
63 CAGACATGTCTTACACTAGCACACA
47572561 AATAACCCAA
Statistics
Matches: 158, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
92 12 0.08
93 22 0.14
94 87 0.55
95 37 0.23
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCGGGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCACACATCTCATA
Found at i:47579463 original size:15 final size:15
Alignment explanation
Indices: 47579443--47579472 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47579433 CAACACTTGT
47579443 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
47579458 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
47579473 AATACATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:47580409 original size:36 final size:36
Alignment explanation
Indices: 47580362--47580434 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
47580352 AAGTAGCATG
47580362 TTAGTTAGATGGTGGAACCAAATTGCATAAAATGGC
1 TTAGTTAGATGGTGGAACCAAATTGCATAAAATGGC
47580398 TTAGTTAGATGGTGGAACCAAATTGCATAAAATGGC
1 TTAGTTAGATGGTGGAACCAAATTGCATAAAATGGC
47580434 T
1 T
47580435 AAAAATTACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.29
Consensus pattern (36 bp):
TTAGTTAGATGGTGGAACCAAATTGCATAAAATGGC
Found at i:47585180 original size:9 final size:9
Alignment explanation
Indices: 47585166--47585194 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
47585156 AAATGTTCAT
47585166 CTTCTTCTC
1 CTTCTTCTC
47585175 CTTCTTCTC
1 CTTCTTCTC
47585184 CTTCTTCTC
1 CTTCTTCTC
47585193 CT
1 CT
47585195 ACCTCTCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (9 bp):
CTTCTTCTC
Found at i:47585201 original size:18 final size:18
Alignment explanation
Indices: 47585166--47585201 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47585156 AAATGTTCAT
* *
47585166 CTTCTTCTCCTTCTTCTC
1 CTTCTTCTCCTACCTCTC
47585184 CTTCTTCTCCTACCTCTC
1 CTTCTTCTCCTACCTCTC
47585202 TCAAGCCGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.47, G:0.00, T:0.50
Consensus pattern (18 bp):
CTTCTTCTCCTACCTCTC
Found at i:47587211 original size:47 final size:47
Alignment explanation
Indices: 47587153--47587543 Score: 579
Period size: 47 Copynumber: 8.3 Consensus size: 47
47587143 TGTACAAGTA
* * *
47587153 TATATATGTGATAGGGTCGAGTGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
47587200 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
47587247 CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
47587294 CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
47587341 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* * *
47587388 TGTATGTGTGATAAGGCCGAATGGTCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
47587435 CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
* *
47587482 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAA-GTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATG
*
47587529 TATAAATGTGATAAG
1 TATATATGTGATAAG
47587544 TCCCGAAGGG
Statistics
Matches: 318, Mismatches: 24, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 314 0.99
48 3 0.01
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
Found at i:47594444 original size:46 final size:46
Alignment explanation
Indices: 47594379--47594474 Score: 165
Period size: 46 Copynumber: 2.1 Consensus size: 46
47594369 GGATAACCAC
* *
47594379 ATAATAATAGCTTTTATGCACATAGCTTATAAGTATTCCTACTTTA
1 ATAATAACAGCTTTTATGCACATAGCTTATAAGCATTCCTACTTTA
*
47594425 ATAATAACAGCTTTTATGCACATAGCTTATAAGCATTCCTACTTTC
1 ATAATAACAGCTTTTATGCACATAGCTTATAAGCATTCCTACTTTA
47594471 ATAA
1 ATAA
47594475 ATATGGCTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (46 bp):
ATAATAACAGCTTTTATGCACATAGCTTATAAGCATTCCTACTTTA
Found at i:47611751 original size:37 final size:37
Alignment explanation
Indices: 47611692--47611833 Score: 239
Period size: 37 Copynumber: 3.8 Consensus size: 37
47611682 AACTCAGATG
* *
47611692 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
47611729 AAATCTCCACACGTAGTCATCGGGTCTTACTCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
47611766 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
47611803 TAATCTCCACACGTAGTCATCGGGTCTTACC
1 AAATCTCCACACGTAGTCATCGGGTCTTACC
47611834 TGGAATATAT
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:47612039 original size:48 final size:48
Alignment explanation
Indices: 47611978--47612663 Score: 1084
Period size: 48 Copynumber: 14.0 Consensus size: 48
47611968 ATATACACAC
* * * *
47611978 ATCTCCTACATATTTCACACTAGCCATTCGGTTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
47612026 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
47612074 ATCTCATATATATATTTCACATTAACCATTCGGCTTTACTACATGTACAT
1 ATCTC--ATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
47612124 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
47612172 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
47612220 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
47612270 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
47612318 ATCTCATATATATATTTCACATTAACCATTCGGCTTTACCACATGTACAT
1 ATCTC--ATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
47612368 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
47612416 ATCTCATATATATATTTTACATTAGCCATTCGGCTTTACCACATATGCAT
1 ATCTC--ATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
47612466 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
47612514 ATATCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
47612564 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
47612612 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
47612662 AT
1 AT
47612664 ATTTATCTTG
Statistics
Matches: 592, Mismatches: 34, Indels: 22
0.91 0.05 0.03
Matches are distributed among these distances:
48 322 0.54
50 270 0.46
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:47612137 original size:98 final size:97
Alignment explanation
Indices: 47611978--47612663 Score: 1142
Period size: 98 Copynumber: 7.0 Consensus size: 97
47611968 ATATACACAC
* * *
47611978 ATCTCCTACATATTTCACACTAGCCATTCGGTTTTACCACATATACATATCTC-ATATATATTTC
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAATATATATTTC
*
47612042 ACACTAGCCATTCGGCTTTACCACATATACAT
66 ACATTAGCCATTCGGCTTTACCACATATACAT
* * * * *
47612074 ATCTCATATATATATTTCACATTAACCATTCGGCTTTACTACATGTACATATCTC-ATACATATT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAATATATATT
47612138 TCACATTAGCCATTCGGCTTTACCACATATACAT
64 TCACATTAGCCATTCGGCTTTACCACATATACAT
* *
47612172 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-ATATATATTT
47612237 CACATTAGCCATTCGGCTTTACCACATATACAT
65 CACATTAGCCATTCGGCTTTACCACATATACAT
47612270 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-ATATATATTT
* *
47612335 CACATTAACCATTCGGCTTTACCACATGTACAT
65 CACATTAGCCATTCGGCTTTACCACATATACAT
47612368 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-ATATATATTT
* *
47612433 TACATTAGCCATTCGGCTTTACCACATATGCAT
65 CACATTAGCCATTCGGCTTTACCACATATACAT
*
47612466 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATATCATATATATATTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-ATATATATTT
47612531 CACATTAGCCATTCGGCTTTACCACATATACAT
65 CACATTAGCCATTCGGCTTTACCACATATACAT
*
47612564 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-ATATATATTT
47612629 CACATTAGCCATTCGGCTTTACCACATATACAT
65 CACATTAGCCATTCGGCTTTACCACATATACAT
47612662 AT
1 AT
47612664 ATTTATCTTG
Statistics
Matches: 559, Mismatches: 27, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
96 49 0.09
98 510 0.91
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (97 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAATATATATTTC
ACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:47619987 original size:44 final size:42
Alignment explanation
Indices: 47619939--47620096 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 42
47619929 TGTAATTTCA
*
47619939 TGTAAAACCACGTCTGGGACATTGGCATCGATTTGAGATTTACG
1 TGTAAAACCACGTCTAGGACATTGGCATCGATTT--GATTTACG
* * * * *
47619983 TGTAAGACCATGTCTAGGACATCGACATCGTATTTGATTTTCG
1 TGTAAAACCACGTCTAGGACATTGGCATCG-ATTTGATTTACG
* * * * *
47620026 TGTAAGACC-CTGTTTGGGACAGTGGCATCGAGATTTGA-TTACA
1 TGTAAAACCAC-GTCTAGGACATTGGCATC--GATTTGATTTACG
* *
47620069 TGTCAAACCACGTCTAGGACGTTGGCAT
1 TGTAAAACCACGTCTAGGACATTGGCAT
47620097 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
43 52 0.58
44 32 0.36
45 5 0.06
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAAACCACGTCTAGGACATTGGCATCGATTTGATTTACG
Done.