Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 62 of 186
Found at i:19433433 original size:83 final size:83
Alignment explanation
Indices: 19433294--19433459 Score: 296
Period size: 83 Copynumber: 2.0 Consensus size: 83
19433284 TGTTTACCGG
* *
19433294 TAAGATTTTTGAGGACGAAAATCCTTAAAATGGGGGGAGAGTTGTAATATCCTGAATTAGGGCTT
1 TAAGATTTTCGAGGACGAAAATCCTTAAAAGGGGGGGAGAGTTGTAATATCCTGAATTAGGGCTT
19433359 AATCAGAATAGTGGTTTC
66 AATCAGAATAGTGGTTTC
*
19433377 TAAGATTTTCGAGGACGAAAATCCTTAAAAGGGGGGGAGAGTTGTAATATCCTGAATTAGGGTTT
1 TAAGATTTTCGAGGACGAAAATCCTTAAAAGGGGGGGAGAGTTGTAATATCCTGAATTAGGGCTT
*
19433442 AATTAGAATAGTGGTTTC
66 AATCAGAATAGTGGTTTC
19433460 GTGACCACAA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 79 1.00
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (83 bp):
TAAGATTTTCGAGGACGAAAATCCTTAAAAGGGGGGGAGAGTTGTAATATCCTGAATTAGGGCTT
AATCAGAATAGTGGTTTC
Found at i:19434080 original size:65 final size:65
Alignment explanation
Indices: 19434005--19434134 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
19433995 CCATAGGTGA
19434005 AATTTGTGTATTTTGATGTTTTATGATAGAATATGGGGTTTTAAATTATGTCAGACAACTTGTGC
1 AATTTGTGTATTTTGATGTTTTATGATAGAATATGGGGTTTTAAATTATGTCAGACAACTTGTGC
*
19434070 AATTTGTGTATTTTGATGTTTTATGATAGAATATGGGGTTTTAAATTATGTTAGACAACTTGTGC
1 AATTTGTGTATTTTGATGTTTTATGATAGAATATGGGGTTTTAAATTATGTCAGACAACTTGTGC
19434135 TACTCGGTTT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.28, C:0.05, G:0.22, T:0.45
Consensus pattern (65 bp):
AATTTGTGTATTTTGATGTTTTATGATAGAATATGGGGTTTTAAATTATGTCAGACAACTTGTGC
Found at i:19434834 original size:46 final size:46
Alignment explanation
Indices: 19434779--19435043 Score: 269
Period size: 46 Copynumber: 5.7 Consensus size: 46
19434769 GGTTGAGCAC
19434779 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
* * * *
19434825 CCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--T
19434872 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
* * * *
19434918 CCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--T
* *
19434965 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
*
19435011 CCGAGCTCGTTGAGTTGAG-CCTGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCC-GAGTTCACTTA
19435044 GGGGCGGGCT
Statistics
Matches: 181, Mismatches: 19, Indels: 38
0.76 0.08 0.16
Matches are distributed among these distances:
42 4 0.02
43 10 0.06
45 8 0.04
46 84 0.46
47 56 0.31
48 6 0.03
50 9 0.05
51 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
Found at i:19434891 original size:47 final size:47
Alignment explanation
Indices: 19434824--19434992 Score: 222
Period size: 47 Copynumber: 3.6 Consensus size: 47
19434814 GATGCGAATG
*
19434824 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* * *
19434871 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCA
*
19434917 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
19434964 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
19434993 ACTTATGGAT
Statistics
Matches: 104, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 28 0.27
47 56 0.54
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:19434938 original size:93 final size:93
Alignment explanation
Indices: 19434779--19435038 Score: 484
Period size: 93 Copynumber: 2.8 Consensus size: 93
19434769 GGTTGAGCAC
19434779 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAG
19434844 TCTGAGTTCGTGAGATGTAACTAGGCAT
66 TCTGAGTTCGTGAGATGTAACTAGGCAT
19434872 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAG
19434937 TCTGAGTTCGTGAGATGTAACTAGGCAT
66 TCTGAGTTCGTGAGATGTAACTAGGCAT
* * *
19434965 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAG
*
19435030 CCTGAGTTC
66 TCTGAGTTC
19435039 ACTTAGGGGC
Statistics
Matches: 163, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 163 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAG
TCTGAGTTCGTGAGATGTAACTAGGCAT
Found at i:19440121 original size:51 final size:51
Alignment explanation
Indices: 19440040--19440151 Score: 161
Period size: 51 Copynumber: 2.2 Consensus size: 51
19440030 TATCCGGATA
*
19440040 AAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATTATTCCAGATG
1 AAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAATTCCAGATG
* * * * *
19440091 AAATTTGAAGCTCTTGTTGAAGTTAGAGCAACAAGGTAATAATTCCGGATG
1 AAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAATTCCAGATG
*
19440142 AAGTATGAAG
1 AAATATGAAG
19440152 TAAGTTTGAG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (51 bp):
AAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAATTCCAGATG
Found at i:19440402 original size:72 final size:72
Alignment explanation
Indices: 19440285--19440427 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 72
19440275 CTTAATAGGT
19440285 TTACATTTAAAATGGATAATTTGTATGTTTTAGACTCAGGGGCTAAATTGAATAAAAGAAAAAAA
1 TTACATTTAAAATGGATAATTTGTATGTTTTAGACTCAGGGGCTAAATTGAATAAAAGAAAAAAA
*
19440350 ACTGTAG
66 AATGTAG
19440357 TTACATTTAAAATGGATAATTTGTATGTTTTAGACTCAGGGGCTAAATTGAATAAAAGAAAAAAA
1 TTACATTTAAAATGGATAATTTGTATGTTTTAGACTCAGGGGCTAAATTGAATAAAAGAAAAAAA
19440422 AATGTA
66 AATGTA
19440428 TGGGCAATTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.32
Consensus pattern (72 bp):
TTACATTTAAAATGGATAATTTGTATGTTTTAGACTCAGGGGCTAAATTGAATAAAAGAAAAAAA
AATGTAG
Found at i:19441797 original size:69 final size:69
Alignment explanation
Indices: 19441686--19441822 Score: 247
Period size: 69 Copynumber: 2.0 Consensus size: 69
19441676 CATACCATAG
*
19441686 TTCCTCCAACCTATCGATTCAATTTCATATCAATTCATGCATTCACGTTCCATATACTCATCAAT
1 TTCCTCCAACCTATCGATTCAATTTCATATCAATTCATGCATTCACATTCCATATACTCATCAAT
19441751 AGGT
66 AGGT
* *
19441755 TTCCTCCCACCTATCGATTCAATTTCATATCAATTCATGCATTCACATTCCATATGCTCATCAAT
1 TTCCTCCAACCTATCGATTCAATTTCATATCAATTCATGCATTCACATTCCATATACTCATCAAT
19441820 AGG
66 AGG
19441823 ACATTGAAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.36
Consensus pattern (69 bp):
TTCCTCCAACCTATCGATTCAATTTCATATCAATTCATGCATTCACATTCCATATACTCATCAAT
AGGT
Found at i:19442095 original size:38 final size:38
Alignment explanation
Indices: 19442043--19442175 Score: 128
Period size: 38 Copynumber: 3.8 Consensus size: 38
19442033 TCAATAGTGT
*
19442043 CGCACAC-GAGTGCTACGTAATCAAATCGCATTGAGTC
1 CGCACACTCAGTGCTACGTAATCAAATCGCATTGAGTC
*
19442080 CGCACACTCAGTGCTA--T-AT--AAT--CA---ACT-
1 CGCACACTCAGTGCTACGTAATCAAATCGCATTGAGTC
*
19442107 CGCACACTTAGTGCTACGTAATCAAATCGCATTGAGTC
1 CGCACACTCAGTGCTACGTAATCAAATCGCATTGAGTC
** *
19442145 CGCACACTCAGTGCTATATAATCAACTCGCA
1 CGCACACTCAGTGCTACGTAATCAAATCGCA
19442176 CACTTAGTGC
Statistics
Matches: 76, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
27 15 0.20
28 2 0.03
29 1 0.01
30 2 0.03
31 2 0.03
32 3 0.04
33 3 0.04
34 2 0.03
35 2 0.03
36 1 0.01
37 9 0.12
38 34 0.45
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (38 bp):
CGCACACTCAGTGCTACGTAATCAAATCGCATTGAGTC
Found at i:19442119 original size:27 final size:27
Alignment explanation
Indices: 19442080--19442137 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
19442070 GCATTGAGTC
* *
19442080 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTACATAATCAAAT
* *
19442107 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTCAGTGCTACATAATCAAAT
19442134 CGCA
1 CGCA
19442138 TTGAGTCCGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (27 bp):
CGCACACTCAGTGCTACATAATCAAAT
Found at i:19442128 original size:65 final size:65
Alignment explanation
Indices: 19442042--19442202 Score: 306
Period size: 65 Copynumber: 2.5 Consensus size: 65
19442032 CTCAATAGTG
*
19442042 TCGCACAC-GAGTGCTACGTAATCAAATCGCATTGAGTCCGCACACTCAGTGCTATATAATCAAC
1 TCGCACACTTAGTGCTACGTAATCAAATCGCATTGAGTCCGCACACTCAGTGCTATATAATCAAC
19442106 TCGCACACTTAGTGCTACGTAATCAAATCGCATTGAGTCCGCACACTCAGTGCTATATAATCAAC
1 TCGCACACTTAGTGCTACGTAATCAAATCGCATTGAGTCCGCACACTCAGTGCTATATAATCAAC
19442171 TCGCACACTTAGTGCTACGTAATCAAATCGCA
1 TCGCACACTTAGTGCTACGTAATCAAATCGCA
19442203 CACTTAGTGC
Statistics
Matches: 95, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
64 8 0.08
65 87 0.92
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (65 bp):
TCGCACACTTAGTGCTACGTAATCAAATCGCATTGAGTCCGCACACTCAGTGCTATATAATCAAC
Found at i:19442184 original size:27 final size:27
Alignment explanation
Indices: 19442145--19442322 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
19442135 GCATTGAGTC
* *
19442145 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTACATAATCAAAT
* *
19442172 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTCAGTGCTACATAATCAAAT
* *
19442199 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTACATAATCAAA-T
* ** ** *
19442227 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTACATAATCAAAT
* * **
19442254 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTCAGTGCTA-CATAATCAAAT
* * *
19442281 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTCAGTGCTACATAATCAAAT
*
19442308 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
19442323 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTACATAATCAAAT
Found at i:19442284 original size:82 final size:81
Alignment explanation
Indices: 19442166--19442321 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19442156 TGCTATATAA
* *
19442166 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
19442231 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19442248 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
19442312 CACTTAGTGC
65 CACTTAGTGC
19442322 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:19442305 original size:54 final size:54
Alignment explanation
Indices: 19442145--19442321 Score: 205
Period size: 54 Copynumber: 3.3 Consensus size: 54
19442135 GCATTGAGTC
* * * *
19442145 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
19442199 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
19442254 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
19442308 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19442322 TGTACAATTT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
54 57 0.55
55 45 0.43
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:19444746 original size:28 final size:28
Alignment explanation
Indices: 19444693--19444776 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
19444683 CACTTTGTGC
19444693 TATTCTAGTGTGTTTTGGATGGATTATAT
1 TATTCTAGTGTGTTTTGGA-GGATTATAT
* *
19444722 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTAGTGTGTTTTGGAGGATTATAT
* * *
19444750 GATACTAGTGTATTTTGGAGGATTATA
1 TATTCTAGTGTGTTTTGGAGGATTATA
19444777 CTAGTGTGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 31 0.65
29 17 0.35
ACGTcount: A:0.23, C:0.04, G:0.27, T:0.46
Consensus pattern (28 bp):
TATTCTAGTGTGTTTTGGAGGATTATAT
Found at i:19444988 original size:23 final size:23
Alignment explanation
Indices: 19444958--19445044 Score: 85
Period size: 21 Copynumber: 4.0 Consensus size: 23
19444948 GCTTTACTGA
*
19444958 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
* *
19444981 TCAGGCACCTTGTGTGTCGCA--
1 TCAGGCACCTTATGTGTCGTATT
**
19445002 TCAGGCACCTCGTGTGTC--ATT
1 TCAGGCACCTTATGTGTCGTATT
*
19445023 TCAGGCA-CTTATGTGTCATATT
1 TCAGGCACCTTATGTGTCGTATT
19445045 CTGATCAAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
19 1 0.02
20 8 0.15
21 24 0.44
22 3 0.06
23 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:19446253 original size:45 final size:46
Alignment explanation
Indices: 19446118--19446257 Score: 113
Period size: 52 Copynumber: 2.9 Consensus size: 46
19446108 GACCATGGTT
* * *
19446118 GGATCATGGCATCAGTGTGATATATGA-CCTGTGTAAGACCCTAGCTG
1 GGAT-ATGGCATCAGTGTGATATGTGATCC-GTGTAAGACCATAGCTA
* * * * *
19446165 GGCTATGGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATA-TTA
1 GGATATGGCATC--AG---TGTGA-TATGTG-ATCCGTGTAAGACCATAGCTA
19446217 GGATATGGCATCAGTGTGATATGTGATCCGTGTAAGACCAT
1 GGATATGGCATCAGTGTGATATGTGATCCGTGTAAGACCAT
19446258 GGTTGGGCTA
Statistics
Matches: 73, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
45 14 0.19
46 13 0.18
47 8 0.11
48 2 0.03
50 2 0.03
51 5 0.07
52 16 0.22
53 11 0.15
54 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (46 bp):
GGATATGGCATCAGTGTGATATGTGATCCGTGTAAGACCATAGCTA
Found at i:19448626 original size:51 final size:51
Alignment explanation
Indices: 19448545--19448656 Score: 152
Period size: 51 Copynumber: 2.2 Consensus size: 51
19448535 TATCCGAATA
* * *
19448545 AAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATTATTCCGGATG
1 AAATATGAAGCTATTGCTAAAGCTAGAGCAACAAAGTAATAATTCCGGATG
* * * *
19448596 AAATTTGAAGCTATTGCTGAAGTTAGAGCAACAAGGTAATAATTCCGGATG
1 AAATATGAAGCTATTGCTAAAGCTAGAGCAACAAAGTAATAATTCCGGATG
*
19448647 AAGTATGAAG
1 AAATATGAAG
19448657 TAAGTTTGAG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (51 bp):
AAATATGAAGCTATTGCTAAAGCTAGAGCAACAAAGTAATAATTCCGGATG
Found at i:19451196 original size:18 final size:18
Alignment explanation
Indices: 19451146--19451197 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
19451136 CTTTGTATGG
* *
19451146 GTGTAAGTCCCGAACGCC
1 GTGTAAGTCCCAAATGCC
* *
19451164 GGGTAAGTCCTAAATGCC
1 GTGTAAGTCCCAAATGCC
19451182 GTGTAAGTCCCAAATG
1 GTGTAAGTCCCAAATG
19451198 TCTTTATATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (18 bp):
GTGTAAGTCCCAAATGCC
Found at i:19453090 original size:47 final size:48
Alignment explanation
Indices: 19453018--19453188 Score: 169
Period size: 46 Copynumber: 3.7 Consensus size: 48
19453008 GGGTTATTGT
* *
19453018 GAGCTAGTGTAAGACATGTCCGGGACATGGCATCGGCATTGAGACG-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGACGTA
* * * *
19453065 GAGCTAGTGTATGACATGTTTGGGACAT-GCATCAGCCTTGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGACGTA
* * * *
19453112 -AGCCAGTGTAAGACATGTCTGGGACAT-GCAT-TG-ACT-ACGA-GTT
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGA-GACGTA
*
19453155 GAGCTAGTGTAAGACCATGTCCGGGACATGGCAT
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCAT
19453189 TGGCATCCTA
Statistics
Matches: 104, Mismatches: 15, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
43 3 0.03
44 15 0.14
45 14 0.13
46 46 0.44
47 26 0.25
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (48 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGACGTA
Found at i:19460429 original size:66 final size:66
Alignment explanation
Indices: 19460352--19460483 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
19460342 ATCCCCATCT
*
19460352 TTCCCTCCCTATACCCTCCATTTTCCCACCACACGATTTCCTCTCTGCGTTCCATGCCCGTGCTC
1 TTCCCTCCCTATACCCTCCATTTTCCCACCACACGATTTCCTCTCTGCGTTACATGCCCGTGCTC
19460417 G
66 G
19460418 TTCCCTCCCTATACCCTCCATTTTCCCACCACACGATTTCCTCTCTGCGTTACATGCCCGTGCTC
1 TTCCCTCCCTATACCCTCCATTTTCCCACCACACGATTTCCTCTCTGCGTTACATGCCCGTGCTC
19460483 G
66 G
19460484 CCATCACACA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.13, C:0.45, G:0.11, T:0.32
Consensus pattern (66 bp):
TTCCCTCCCTATACCCTCCATTTTCCCACCACACGATTTCCTCTCTGCGTTACATGCCCGTGCTC
G
Found at i:19461996 original size:6 final size:6
Alignment explanation
Indices: 19461985--19462053 Score: 68
Period size: 6 Copynumber: 11.3 Consensus size: 6
19461975 AATCCTCCTA
* * *
19461985 TTTTAT TTTTAT TTTTA- TTTTAT TTTATTT ATTTTAT TCTTAT TTTTCT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT -TTTTAT TTTTAT TTTTAT
* *
19462034 TTTGAT TTTTAT TTTCAT TT
1 TTTTAT TTTTAT TTTTAT TT
19462054 CAATTTTCTT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
5 5 0.10
6 39 0.76
7 4 0.08
8 3 0.06
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:19462017 original size:4 final size:5
Alignment explanation
Indices: 19461983--19462053 Score: 63
Period size: 5 Copynumber: 13.0 Consensus size: 5
19461973 TGAATCCTCC
19461983 TATTT TATTTT TATTTT TATTT TATTT TA-TT TATTT TATTCT TATTTT
1 TATTT TA-TTT TA-TTT TATTT TATTT TATTT TATTT TATT-T TA-TTT
*
19462031 TCTTT TGATTTT TATTT TCATTT
1 TATTT T-A-TTT TATTT T-ATTT
19462054 CAATTTTCTT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
4 4 0.07
5 26 0.46
6 21 0.37
7 6 0.11
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:19462018 original size:31 final size:33
Alignment explanation
Indices: 19461983--19462047 Score: 98
Period size: 31 Copynumber: 2.0 Consensus size: 33
19461973 TGAATCCTCC
*
19461983 TATTTTATTTTTATTTTTATTTT-A-TTTTATT
1 TATTTTATTCTTATTTTTATTTTGATTTTTATT
*
19462014 TATTTTATTCTTATTTTTCTTTTGATTTTTATT
1 TATTTTATTCTTATTTTTATTTTGATTTTTATT
19462047 T
1 T
19462048 TCATTTCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 21 0.70
32 1 0.03
33 8 0.27
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (33 bp):
TATTTTATTCTTATTTTTATTTTGATTTTTATT
Found at i:19462401 original size:66 final size:65
Alignment explanation
Indices: 19462295--19462425 Score: 253
Period size: 66 Copynumber: 2.0 Consensus size: 65
19462285 AGCCAAGAAC
19462295 AGTGGCCGCTACCATTTTCCCCAAACACTTTAGCCTCAGAATCAAGCTCTGTATCCTTCTAATAG
1 AGTGGCCGCTACCATTTTCCCCAAACACTTTAGCCTCAGAATCAAGCTCTGTATCCTTCTAATAG
19462360 NAGTGGCCGCTACCATTTTCCCCAAACACTTTAGCCTCAGAATCAAGCTCTGTATCCTTCTAATA
1 -AGTGGCCGCTACCATTTTCCCCAAACACTTTAGCCTCAGAATCAAGCTCTGTATCCTTCTAATA
19462425 G
65 G
19462426 GGAGTGTCAC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (65 bp):
AGTGGCCGCTACCATTTTCCCCAAACACTTTAGCCTCAGAATCAAGCTCTGTATCCTTCTAATAG
Found at i:19466252 original size:66 final size:66
Alignment explanation
Indices: 19466167--19466353 Score: 275
Period size: 66 Copynumber: 2.8 Consensus size: 66
19466157 AACACTCAGT
* * * *
19466167 ACCACCCATGTGACCTAGCCAATTTATCTCGTAGGTATCTTGTCTACATGGTGTCCTTCACCTGG
1 ACCACGCATGCGACCTAGCCAATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGG
19466232 A
66 A
* * *
19466233 ACCACGCATGCTACCTAGCCAGTTTATCTTGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGG
1 ACCACGCATGCGACCTAGCCAATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGG
19466298 A
66 A
* * *
19466299 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGT
1 ACCACGCATGCGACCTAGCCA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGT
19466354 ACACACAGTA
Statistics
Matches: 107, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
66 78 0.73
67 29 0.27
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.32
Consensus pattern (66 bp):
ACCACGCATGCGACCTAGCCAATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGG
A
Found at i:19469499 original size:281 final size:280
Alignment explanation
Indices: 19468997--19469543 Score: 943
Period size: 281 Copynumber: 1.9 Consensus size: 280
19468987 CTAATTGTTC
* *
19468997 ATGCATGCATGTGTTAATGCCTTGATGATCTGCTATGTGTTTTGTTGATAGATAAGAATGGGTAT
1 ATGCATGCATGTGTTAATGCCTTGATGATCTGCTATGTGGTTTGTTGATAGATAAGAAGGGGTAT
* *
19469062 GAATTAAGTACATGAAAATAAGGAATGACTTAATGACTTAAGATGACTATAATCATGAAGGTATA
66 GAATGAAGTACATGAAAATAAGGAATGACTTAATGACTTAAGATGACTATAATCATGAAGGAATA
*
19469127 ATTTGAAGTTATGATAACAAAGTTGGTTATGCATGAAGTTGATGTGGAATGCTACCAAATGTTGT
131 ATTTGAAGTTATGATAACAAAGTTGGTTATGCATGAAGTTGATGTGGAATGCTACCAAATGGTGT
*
19469192 GACTAATTGAATGTGTAATAGGATGACATTACAAAGATGTGAAAGTGCCATGTTGTTGAATAATT
196 GACTAATTGAATGTGTAATAGGATGACATTACAAAGAAGTGAAAGTGCCATGTTGTTGAATAATT
19469257 GAGTGTGTAATTGTTCATGA
261 GAGTGTGTAATTGTTCATGA
* * * *
19469277 ATGCATGCATTTGTTAATGCGTTGATGA-CGTGCTATGTGGTTTGTTTGATGGATATGAAGGGGT
1 ATGCATGCATGTGTTAATGCCTTGATGATC-TGCTATGTGGTTTG-TTGATAGATAAGAAGGGGT
19469341 ATGAATGAAGTACATGAAAATAAGGAATGACTTAATGACTTAAGATGACTATAATCATGAAGGAA
64 ATGAATGAAGTACATGAAAATAAGGAATGACTTAATGACTTAAGATGACTATAATCATGAAGGAA
*
19469406 TAATTTGAAGTTATGATAACAAAGTTGGTTATGCATGAAGTTGATGTGGAATGCTACGAAATGGT
129 TAATTTGAAGTTATGATAACAAAGTTGGTTATGCATGAAGTTGATGTGGAATGCTACCAAATGGT
* * *
19469471 GTGGCTAATTGAATGTGTAATAGGATGACATTACGAAGAAGTGAAAGTGCCATGTTGTTGAATTA
194 GTGACTAATTGAATGTGTAATAGGATGACATTACAAAGAAGTGAAAGTGCCATGTTGTTGAATAA
19469536 TTGAGTGT
259 TTGAGTGT
19469544 CTAAATATGT
Statistics
Matches: 251, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
279 1 0.00
280 39 0.16
281 211 0.84
ACGTcount: A:0.34, C:0.07, G:0.25, T:0.33
Consensus pattern (280 bp):
ATGCATGCATGTGTTAATGCCTTGATGATCTGCTATGTGGTTTGTTGATAGATAAGAAGGGGTAT
GAATGAAGTACATGAAAATAAGGAATGACTTAATGACTTAAGATGACTATAATCATGAAGGAATA
ATTTGAAGTTATGATAACAAAGTTGGTTATGCATGAAGTTGATGTGGAATGCTACCAAATGGTGT
GACTAATTGAATGTGTAATAGGATGACATTACAAAGAAGTGAAAGTGCCATGTTGTTGAATAATT
GAGTGTGTAATTGTTCATGA
Found at i:19472112 original size:22 final size:22
Alignment explanation
Indices: 19472082--19472132 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
19472072 TATTACTCCG
19472082 TACAAGATGGCTCCGACTGAGC
1 TACAAGATGGCTCCGACTGAGC
*
19472104 TACAGGATGGCTCCGACTGAGC
1 TACAAGATGGCTCCGACTGAGC
*
19472126 TAAAAGA
1 TACAAGA
19472133 ATTAAAGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (22 bp):
TACAAGATGGCTCCGACTGAGC
Found at i:19479082 original size:63 final size:64
Alignment explanation
Indices: 19479002--19479209 Score: 206
Period size: 67 Copynumber: 3.2 Consensus size: 64
19478992 CATAATTTTG
* * * *
19479002 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGT-T-TATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCCA-TATATATCCCGT
19479064 A
64 A
* * * * *
19479065 GCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTATATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCCATATATATCCCG
19479130 TA
63 TA
* * *
19479132 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGC--CAT-AT-ATATCCC
19479197 GTA
62 GTA
19479200 GCTCTCTTGT
1 GCTCTCTTGT
19479210 ACACATGATG
Statistics
Matches: 119, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.15
64 24 0.20
65 1 0.01
66 27 0.23
67 30 0.25
68 18 0.15
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCCATATATATCCCGTA
Found at i:19482339 original size:48 final size:47
Alignment explanation
Indices: 19482282--19482813 Score: 405
Period size: 48 Copynumber: 11.3 Consensus size: 47
19482272 AATCCCATAA
* *
19482282 AAGACCATATCTGGGATATGACATCGGCATCGGAAAGAGATCCAGTCT
1 AAGACCATATCTGGGATATGACATCGGCATC-GAATGAGATCCAGTGT
* * *
19482330 AAGATCATATCTGGGATATGGCATCGACATCGAGATGAGATCTC-GTGT
1 AAGACCATATCTGGGATATGACATCGGCATCGA-ATGAGATC-CAGTGT
* * *
19482378 AAGACCATATCTAGGATATGGCATCGGCATCAGTATGAGATCCCA-TGT
1 AAGACCATATCTGGGATATGACATCGGCATC-GAATGAGAT-CCAGTGT
* * *
19482426 AAAACCATATCTGGGATATGACATCGGCGTCGAAATGAGATCCCGTGT
1 AAGACCATATCTGGGATATGACATCGGCATCG-AATGAGATCCAGTGT
*
19482474 AAGACCATATCTAGGATAT-AGCATCGGCATCGAGATGAGATCTC-GTGT
1 AAGACCATATCTGGGATATGA-CATCGGCATCGA-ATGAGATC-CAGTGT
* ** * * * *
19482522 AAGACAATATCCCGGATATGGCATCAGCATTAGTATGAGATCTCA-TGT
1 AAGACCATATCTGGGATATGACATCGGCA-TCGAATGAGATC-CAGTGT
** * * *
19482570 AAGACCATATCAAGGATATGACATCGGCATCAACATGAGATCCCGTAT
1 AAGACCATATCTGGGATATGACATCGGCATCGA-ATGAGATCCAGTGT
* *
19482618 AAGACCATATCTGGGATAT---A---GCATC----GACATCGAGTGT
1 AAGACCATATCTGGGATATGACATCGGCATCGAATGAGATCCAGTGT
** * * *
19482655 AAGACCATATCCAGGATATGGCATTGGCATCAGTATGAGATCCCA-TGT
1 AAGACCATATCTGGGATATGACATCGGCATC-GAATGAGAT-CCAGTGT
* * * * *
19482703 AAGACCATATCTGGGATATGGCATTGGCATCGATATGAGGTCCCGTAT
1 AAGACCATATCTGGGATATGACATCGGCATCGA-ATGAGATCCAGTGT
* * * * * *
19482751 AAGACCATGTCTGGGACATGGCATCGGCATTGTTATGAGACTTC-GTGT
1 AAGACCATATCTGGGATATGACATCGGCATCG-AATGAGA-TCCAGTGT
*
19482799 AAGACCATAGCTGGG
1 AAGACCATATCTGGG
19482814 CTGTTGGCAT
Statistics
Matches: 392, Mismatches: 61, Indels: 62
0.76 0.12 0.12
Matches are distributed among these distances:
37 25 0.06
40 1 0.00
42 5 0.01
43 5 0.01
45 1 0.00
47 12 0.03
48 333 0.85
49 10 0.03
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (47 bp):
AAGACCATATCTGGGATATGACATCGGCATCGAATGAGATCCAGTGT
Found at i:19482403 original size:96 final size:95
Alignment explanation
Indices: 19482282--19482813 Score: 477
Period size: 96 Copynumber: 5.7 Consensus size: 95
19482272 AATCCCATAA
* * * * *
19482282 AAGACCATATCTGGGATATGACATCGGCATCGGAAAGAGATCCAGTCTAAGATCATATCTGGGAT
1 AAGACCATATCTAGGATATGGCATCGGCATC-GAATGAGATCCAGTGTAAGACCATATCTGGGAT
*
19482347 ATGGCATCGACATCGAGATGAGATCTCGTGT
65 ATGGCATCGACATCGAGATGAGATCCCGTGT
* *
19482378 AAGACCATATCTAGGATATGGCATCGGCATCAGTATGAGATCCCA-TGTAAAACCATATCTGGGA
1 AAGACCATATCTAGGATATGGCATCGGCATC-GAATGAGAT-CCAGTGTAAGACCATATCTGGGA
* * * *
19482442 TATGACATCGGCGTCGAAATGAGATCCCGTGT
64 TATGGCATCGACATCGAGATGAGATCCCGTGT
* * **
19482474 AAGACCATATCTAGGATATAGCATCGGCATCGAGATGAGATCTC-GTGTAAGACAATATCCCGGA
1 AAGACCATATCTAGGATATGGCATCGGCATCGA-ATGAGATC-CAGTGTAAGACCATATCTGGGA
* * *
19482538 TATGGCATC-AGCAT-TAGTATGAGATCTCATGT
64 TATGGCATCGA-CATCGAG-ATGAGATCCCGTGT
* * * * *
19482570 AAGACCATATCAAGGATATGACATCGGCATCAACATGAGATCCCGTATAAGACCATATCTGGGAT
1 AAGACCATATCTAGGATATGGCATCGGCATCGA-ATGAGATCCAGTGTAAGACCATATCTGGGAT
*
19482635 ATAGCATCGACATC-------GA----GTGT
65 ATGGCATCGACATCGAGATGAGATCCCGTGT
* * *
19482655 AAGACCATATCCAGGATATGGCATTGGCATCAGTATGAGATCCCA-TGTAAGACCATATCTGGGA
1 AAGACCATATCTAGGATATGGCATCGGCATC-GAATGAGAT-CCAGTGTAAGACCATATCTGGGA
* * * * *
19482719 TATGGCATTGGCATCGATATGAGGTCCCGTAT
64 TATGGCATCGACATCGAGATGAGATCCCGTGT
* * * * * * *
19482751 AAGACCATGTCTGGGACATGGCATCGGCATTGTTATGAGACTTC-GTGTAAGACCATAGCTGGG
1 AAGACCATATCTAGGATATGGCATCGGCATCG-AATGAGA-TCCAGTGTAAGACCATATCTGGG
19482814 CTGTTGGCAT
Statistics
Matches: 354, Mismatches: 57, Indels: 50
0.77 0.12 0.11
Matches are distributed among these distances:
85 68 0.19
86 2 0.01
89 2 0.01
92 1 0.00
95 5 0.01
96 271 0.77
97 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (95 bp):
AAGACCATATCTAGGATATGGCATCGGCATCGAATGAGATCCAGTGTAAGACCATATCTGGGATA
TGGCATCGACATCGAGATGAGATCCCGTGT
Found at i:19482507 original size:144 final size:143
Alignment explanation
Indices: 19482264--19482807 Score: 662
Period size: 144 Copynumber: 3.8 Consensus size: 143
19482254 ATGACATGTG
* ** *
19482264 AGTATTGAAATCCCATAAAAGACCATATCTGGGATATGACATCGGCATCGGAAA-GAGATCCAGT
1 AGTA-TGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATC-GAAATGAGATCCCGT
* * * * *
19482328 CTAAGATCATATCTGGGATATGGCATCGACATCGAGATGAGATCTCGTGTAAGACCATATCTAGG
64 ATAAGACCATATCTGGGATATAGCATCGGCATCGAGATGAGA-CTCGTGTAAGACCATATCCAGG
19482393 ATATGGCATCGGCATC
128 ATATGGCATCGGCATC
* * *
19482409 AGTATGAGATCCCATGTAAAACCATATCTGGGATATGACATCGGCGTCGAAATGAGATCCCGTGT
1 AGTATGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATCGAAATGAGATCCCGTAT
* * *
19482474 AAGACCATATCTAGGATATAGCATCGGCATCGAGATGAGATCTCGTGTAAGACAATATCCCGGAT
66 AAGACCATATCTGGGATATAGCATCGGCATCGAGATGAGA-CTCGTGTAAGACCATATCCAGGAT
* *
19482539 ATGGCATCAGCATT
130 ATGGCATCGGCATC
* **
19482553 AGTATGAGATCTCATGTAAGACCATATCAAGGATATGACATCGGCATC-AACATGAGATCCCGTA
1 AGTATGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATCGAA-ATGAGATCCCGTA
*
19482617 TAAGACCATATCTGGGATATAGCATC-G-A-C---AT-CGA---GTGTAAGACCATATCCAGGAT
65 TAAGACCATATCTGGGATATAGCATCGGCATCGAGATGAGACTCGTGTAAGACCATATCCAGGAT
*
19482672 ATGGCATTGGCATC
130 ATGGCATCGGCATC
* * * *
19482686 AGTATGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGGTCCCGTAT
1 AGTATGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATCGAAATGAGATCCCGTAT
* * * * **
19482751 AAGACCATGTCTGGGACATGGCATCGGCATTGTTATGAGACTTCGTGTAAGACCATA
66 AAGACCATATCTGGGATATAGCATCGGCATCGAGATGAGAC-TCGTGTAAGACCATA
19482808 GCTGGGCTGT
Statistics
Matches: 344, Mismatches: 41, Indels: 29
0.83 0.10 0.07
Matches are distributed among these distances:
133 108 0.31
134 2 0.01
135 1 0.00
137 2 0.01
138 2 0.01
139 2 0.01
140 2 0.01
141 1 0.00
142 1 0.00
143 7 0.02
144 212 0.62
145 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (143 bp):
AGTATGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATCGAAATGAGATCCCGTAT
AAGACCATATCTGGGATATAGCATCGGCATCGAGATGAGACTCGTGTAAGACCATATCCAGGATA
TGGCATCGGCATC
Found at i:19482673 original size:85 final size:85
Alignment explanation
Indices: 19482567--19482735 Score: 248
Period size: 85 Copynumber: 2.0 Consensus size: 85
19482557 TGAGATCTCA
*
19482567 TGTAAGACCATATCAAGGATATGACATCGGCATCAACATGAGATCCCGTATAAGACCATATCTGG
1 TGTAAGACCATATCAAGGATATGACATCGGCATCAACATGAGATCCCATATAAGACCATATCTGG
19482632 GATATAGCATCGACATCGAG
66 GATATAGCATCGACATCGAG
* * * ** *
19482652 TGTAAGACCATATCCAGGATATGGCATTGGCATCAGTATGAGATCCCATGTAAGACCATATCTGG
1 TGTAAGACCATATCAAGGATATGACATCGGCATCAACATGAGATCCCATATAAGACCATATCTGG
* * *
19482717 GATATGGCATTGGCATCGA
66 GATATAGCATCGACATCGA
19482736 TATGAGGTCC
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 74 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (85 bp):
TGTAAGACCATATCAAGGATATGACATCGGCATCAACATGAGATCCCATATAAGACCATATCTGG
GATATAGCATCGACATCGAG
Found at i:19482756 original size:133 final size:133
Alignment explanation
Indices: 19482518--19482776 Score: 374
Period size: 133 Copynumber: 1.9 Consensus size: 133
19482508 ATGAGATCTC
* * *
19482518 GTGTAAGACAATATCCCGGATATGGCATCAGCATTAGTATGAGATCTCATGTAAGACCATATCAA
1 GTGTAAGACAATATCCAGGATATGGCATCAGCATCAGTATGAGATCCCATGTAAGACCATATCAA
*
19482583 GGATATGACATCGGCATCAACATGAGATCCCGTATAAGACCATATCTGGGATATAGCATCGACAT
66 GGATATGACATCGGCATCAACATGAGATCCCGTATAAGACCATATCTGGGACATAGCATCGACAT
19482648 CGA
131 CGA
* ** **
19482651 GTGTAAGACCATATCCAGGATATGGCATTGGCATCAGTATGAGATCCCATGTAAGACCATATCTG
1 GTGTAAGACAATATCCAGGATATGGCATCAGCATCAGTATGAGATCCCATGTAAGACCATATCAA
* * * * * * *
19482716 GGATATGGCATTGGCATCGATATGAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCG
66 GGATATGACATCGGCATCAACATGAGATCCCGTATAAGACCATATCTGGGACATAGCATCG
19482777 GCATTGTTAT
Statistics
Matches: 110, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
133 110 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (133 bp):
GTGTAAGACAATATCCAGGATATGGCATCAGCATCAGTATGAGATCCCATGTAAGACCATATCAA
GGATATGACATCGGCATCAACATGAGATCCCGTATAAGACCATATCTGGGACATAGCATCGACAT
CGA
Found at i:19485433 original size:25 final size:25
Alignment explanation
Indices: 19485377--19485433 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
19485367 TGACAAAGTT
*
19485377 TGGTGGAAAGACACACAACAACATC
1 TGGTGGGAAGACACACAACAACATC
*
19485402 TAGTGGGAAGACACACAACAACATC
1 TGGTGGGAAGACACACAACAACATC
19485427 TGGTGGG
1 TGGTGGG
19485434 CTATCTTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.14
Consensus pattern (25 bp):
TGGTGGGAAGACACACAACAACATC
Found at i:19486479 original size:28 final size:28
Alignment explanation
Indices: 19486439--19486497 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
19486429 GATACCACAC
* *
19486439 TTAATTATATATATTTTATTTGTAATAT
1 TTAATTATATATATATTATTTGCAATAT
19486467 TTAATTATATATATATTATTTGCAATAT
1 TTAATTATATATATATTATTTGCAATAT
19486495 TTA
1 TTA
19486498 CATTCTCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (28 bp):
TTAATTATATATATATTATTTGCAATAT
Found at i:19486666 original size:13 final size:15
Alignment explanation
Indices: 19486647--19486686 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 15
19486637 TAAATTTTTT
*
19486647 TTATTTTTGTTTA-A
1 TTATTTTTATTTACA
19486661 -TATTTTTATTTACA
1 TTATTTTTATTTACA
19486675 TTATTTTTATTT
1 TTATTTTTATTT
19486687 TATTTACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 11 0.48
14 1 0.04
15 11 0.48
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (15 bp):
TTATTTTTATTTACA
Found at i:19487523 original size:27 final size:28
Alignment explanation
Indices: 19487475--19487529 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
19487465 TCGAAATTCA
*
19487475 CACTTTAATTATAAAATAATT-AATTTT
1 CACTTAAATTATAAAATAATTAAATTTT
*
19487502 CACTTAAATTATTAACAT-ATTAAATTTT
1 CACTTAAATTA-TAAAATAATTAAATTTT
19487530 AATATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (28 bp):
CACTTAAATTATAAAATAATTAAATTTT
Found at i:19493970 original size:20 final size:20
Alignment explanation
Indices: 19493945--19493982 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
19493935 TAGTAGACTA
19493945 TATATCTAAGTTGAGGCCTG
1 TATATCTAAGTTGAGGCCTG
19493965 TATATCTAAGTTGAGGCC
1 TATATCTAAGTTGAGGCC
19493983 GAAGCTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (20 bp):
TATATCTAAGTTGAGGCCTG
Found at i:19496711 original size:118 final size:119
Alignment explanation
Indices: 19496501--19496720 Score: 361
Period size: 118 Copynumber: 1.8 Consensus size: 119
19496491 GGATGATAAC
* * *
19496501 CGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCAAAGGCATTTGCGCGAGTGACTAG-TCCGGGCTAAGTCCCGAAGGCATTGGT
19496566 GCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATT
65 GCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATT
* * *
19496621 CGGGCTAAGTTCCAAAGGCATTTGTGCGAGTTACTA-TCCGGGCTAAGTCCCGAAGGCATTGGTG
1 CGGGCTAAGTCCCAAAGGCATTTGCGCGAGTGACTAGTCCGGGCTAAGTCCCGAAGGCATTGGTG
*
19496685 CGAGTTACTATATCCGGGCTACGTCCCGAAGGCATT
66 CGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
19496721 CGAACGAGTA
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
118 62 0.67
120 31 0.33
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (119 bp):
CGGGCTAAGTCCCAAAGGCATTTGCGCGAGTGACTAGTCCGGGCTAAGTCCCGAAGGCATTGGTG
CGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATT
Found at i:19496736 original size:40 final size:40
Alignment explanation
Indices: 19496500--19496720 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
19496490 TGGATGATAA
* * *
19496500 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
19496540 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
19496580 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
19496620 TCGGGCTAAGTTCCAAAGGCATTTGTGCGAGTTAC--TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
19496658 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
19496698 CCGGGCTACGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
19496721 CGAACGAGTA
Statistics
Matches: 165, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 34 0.21
39 1 0.01
40 130 0.79
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:19500152 original size:3 final size:3
Alignment explanation
Indices: 19500144--19500177 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
19500134 GAGGATCTCA
*
19500144 AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
19500178 TACCACAGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:19507298 original size:31 final size:31
Alignment explanation
Indices: 19507261--19507322 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
19507251 ATGAAAAAGA
* *
19507261 AAAAAAATGCTATTTACGTAATTATCAGTTG
1 AAAAAAATGCTATTGACATAATTATCAGTTG
*
19507292 AAAAAAATGCTATTGGCATAATTATCAGTTG
1 AAAAAAATGCTATTGACATAATTATCAGTTG
19507323 TTTGATGAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.34
Consensus pattern (31 bp):
AAAAAAATGCTATTGACATAATTATCAGTTG
Found at i:19510344 original size:16 final size:16
Alignment explanation
Indices: 19510323--19510360 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
19510313 GTAAAAGTCG
*
19510323 AAAAGCTGAAATGCCA
1 AAAAGCTGAAATACCA
*
19510339 AAAAGCTGAAATACCG
1 AAAAGCTGAAATACCA
19510355 AAAAGC
1 AAAAGC
19510361 CAAAAGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.53, C:0.18, G:0.18, T:0.11
Consensus pattern (16 bp):
AAAAGCTGAAATACCA
Found at i:19510670 original size:28 final size:29
Alignment explanation
Indices: 19510590--19510685 Score: 108
Period size: 28 Copynumber: 3.4 Consensus size: 29
19510580 TAAAGGTGAT
*
19510590 ATGGGCCATATGAATATGA-TTTGGGCCTA
1 ATGGGCCATATGAA-ATGAGATTGGGCCTA
* * *
19510619 ATGGGCCACAT-AAATGTGAATGGGCCTA
1 ATGGGCCATATGAAATGAGATTGGGCCTA
*
19510647 ATGGGCCATATGAAA-GAGATTGGGTCTA
1 ATGGGCCATATGAAATGAGATTGGGCCTA
*
19510675 GTGGGCCATAT
1 ATGGGCCATAT
19510686 ATATATAGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
27 3 0.05
28 40 0.71
29 13 0.23
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
ATGGGCCATATGAAATGAGATTGGGCCTA
Found at i:19513066 original size:17 final size:17
Alignment explanation
Indices: 19513044--19513076 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19513034 ATTTTGGCAA
*
19513044 TGTGGGCCACAGGGGTG
1 TGTGGGCCACACGGGTG
19513061 TGTGGGCCACACGGGT
1 TGTGGGCCACACGGGT
19513077 AGGCTACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.21, G:0.48, T:0.18
Consensus pattern (17 bp):
TGTGGGCCACACGGGTG
Found at i:19521298 original size:13 final size:13
Alignment explanation
Indices: 19521280--19521304 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19521270 CCAAACCAAA
19521280 ACATACCAAACTT
1 ACATACCAAACTT
19521293 ACATACCAAACT
1 ACATACCAAACT
19521305 CATTCATTCA
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:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (13 bp):
ACATACCAAACTT
Found at i:19521385 original size:13 final size:13
Alignment explanation
Indices: 19521367--19521393 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19521357 AAATCATACC
19521367 ATTTTCATAACTA
1 ATTTTCATAACTA
19521380 ATTTTCATAACTA
1 ATTTTCATAACTA
19521393 A
1 A
19521394 CTTACCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTTCATAACTA
Found at i:19522104 original size:43 final size:42
Alignment explanation
Indices: 19522036--19522116 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 42
19522026 AATTCCAACG
* * *
19522036 TCCAGACATGGTCTTACATGTAATCAAATATCAATGCCACTAT
1 TCCAGACAGGGTCTTACACGAAATCAAATA-CAATGCCACTAT
* *
19522079 TCCAGATAGGGTCTTACACGAAATCAAATACGATGCCA
1 TCCAGACAGGGTCTTACACGAAATCAAATACAATGCCA
19522117 ATGTAACAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 7 0.21
43 26 0.79
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (42 bp):
TCCAGACAGGGTCTTACACGAAATCAAATACAATGCCACTAT
Found at i:19541676 original size:239 final size:232
Alignment explanation
Indices: 19541208--19541679 Score: 576
Period size: 239 Copynumber: 2.0 Consensus size: 232
19541198 CCACACAGGC
* *
19541208 GTGTGAGCCCTGTAACTTGGAAAAATTTTAAAATTTCACTAAAAATTTTTAGAGTTCCGATTTAA
1 GTGTGAGCCCTGCAACTTGGAAAAATTTTAAAATTTCAC-AAAAATTCTTAGAGTTCCGATTTAA
*
19541273 GTCCCGATTCAATTCAAAAGCTCATATTGCGAAGGTCCATTTAAGGGACGTTACGAATAATCTTG
65 GTCCCGATTCAATTCAAAAGCTCATATTGCGAAGGTCCATTTAAGGGACGTTACGAACAATCTTG
* * *
19541338 GTTAATGAATAGTAATTGTTGAAATTATCTGAAAATGTTCTGAAAGTTCTAGTAATGCTTCGTAA
130 GTAAATGAATAGTAATTGTTGAAATTATCTAAAAATGTTCTGAAAGTTCTAGTAATACTTCGTAA
**** * *
19541403 CCCTATTCTGGCGATGGATACGGATTAGGGGTGTTACA
195 CCCTATTCCAAAGATGAATACGGATTAAGGGTGTTACA
* * *
19541441 GTGTGAGCCCTGCACCTTGGAAAAATTTTGAAATTATCA-AAAAATTCTTAGAGTTTTCGA-TTA
1 GTGTGAGCCCTGCAACTTGGAAAAATTTTAAAATT-TCACAAAAATTCTTAGAG-TTCCGATTTA
* ** *
19541504 AGTCTCGATTTGATTCTAAAA-CTCATATTGGGCCTCGAGGGTCCATTTAAGGGACGTTACGAAC
64 AGTCCCGATTCAATTC-AAAAGCTCATATT--G---CGAAGGTCCATTTAAGGGACGTTACGAAC
* * * *
19541568 AATTTTCGG-AAAGTGAATAGTAATTGTTGTAACTTATCTAAAAATGTTTTGAAAGTTCTGGTAA
123 AATCTT-GGTAAA-TGAATAGTAATTGTTG-AAATTATCTAAAAATGTTCTGAAAGTTCTAGTAA
*
19541632 TAC-TCTGTAACCCTATTCCAAAGATGAATACGGGTTAAGGGTGTTACA
185 TACTTC-GTAACCCTATTCCAAAGATGAATACGGATTAAGGGTGTTACA
19541680 ATAAAAGTCT
Statistics
Matches: 203, Mismatches: 24, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
232 37 0.18
233 41 0.20
234 4 0.02
237 34 0.17
238 20 0.10
239 67 0.33
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (232 bp):
GTGTGAGCCCTGCAACTTGGAAAAATTTTAAAATTTCACAAAAATTCTTAGAGTTCCGATTTAAG
TCCCGATTCAATTCAAAAGCTCATATTGCGAAGGTCCATTTAAGGGACGTTACGAACAATCTTGG
TAAATGAATAGTAATTGTTGAAATTATCTAAAAATGTTCTGAAAGTTCTAGTAATACTTCGTAAC
CCTATTCCAAAGATGAATACGGATTAAGGGTGTTACA
Found at i:19549791 original size:21 final size:21
Alignment explanation
Indices: 19549767--19549808 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
19549757 CCGTATGATT
19549767 GGGCCGCAGGGGACGACGCTC
1 GGGCCGCAGGGGACGACGCTC
19549788 GGGCCGCAGGGGACGACGCTC
1 GGGCCGCAGGGGACGACGCTC
19549809 TGTCCCAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.33, G:0.48, T:0.05
Consensus pattern (21 bp):
GGGCCGCAGGGGACGACGCTC
Found at i:19562913 original size:38 final size:38
Alignment explanation
Indices: 19562869--19563041 Score: 211
Period size: 38 Copynumber: 4.5 Consensus size: 38
19562859 GCTTAAAGGT
* * * *
19562869 CCGCAGGCTTTGTGCTAGTGTTATATCTAGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
*
19562907 TCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
* *
19562945 CCGTAGGCTTCGTGCTGGTATTATATCCGGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
** * *
19562983 CCGCAGGCTTCGTAATGGTATTATATCCGAGCTTAAAGTC
1 CCGCAGGCTTCGTGCTGGTATTATATCTG-GGTTAAA-TC
* *
19563023 CCGCAGGTTTTGTGCTGGT
1 CCGCAGGCTTCGTGCTGGT
19563042 GACTGGATTC
Statistics
Matches: 117, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
38 94 0.80
39 6 0.05
40 17 0.15
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (38 bp):
CCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
Found at i:19569635 original size:38 final size:37
Alignment explanation
Indices: 19569570--19569729 Score: 221
Period size: 38 Copynumber: 4.2 Consensus size: 37
19569560 ATTTGATGTG
* *
19569570 TATCCGGGCTTAAAGGTCCGCAGGCTTCGTGCTGGTGTTA
1 TATCCGGG-TTAAA--TCTGCAGGCTTCGTGCTGGTATTA
*
19569610 TATCCGGGTTAAATCCTACAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAAT-CTGCAGGCTTCGTGCTGGTATTA
19569648 TATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCT-GCAGGCTTCGTGCTGGTATTA
* *
19569686 TATCCGGGTTAAATTCTGCAGGCTTCGTACTAGTATTA
1 TATCCGGGTTAAA-TCTGCAGGCTTCGTGCTGGTATTA
19569724 TATCCG
1 TATCCG
19569730 AGCTTAAAGT
Statistics
Matches: 111, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
37 3 0.03
38 92 0.83
39 8 0.07
40 8 0.07
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (37 bp):
TATCCGGGTTAAATCTGCAGGCTTCGTGCTGGTATTA
Found at i:19569675 original size:76 final size:76
Alignment explanation
Indices: 19569570--19569760 Score: 258
Period size: 76 Copynumber: 2.5 Consensus size: 76
19569560 ATTTGATGTG
19569570 TATCCGGGCTTAAAGGTCCGCAGGCTTCGTGCTGGTGTTATATCCGGGTTAAATCCTACAGGCTT
1 TATCCGGG-TTAAA-GTCCGCAGGCTTCGTGCTGGTGTTATATCCGGGTTAAATCCTACAGGCTT
* *
19569635 CGTGCTGGTATTA
64 CGTACTAGTATTA
* * *
19569648 TATCCGGGTTAAA-TCTCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATTCTGCAGGCTTC
1 TATCCGGGTTAAAGTC-CGCAGGCTTCGTGCTGGTGTTATATCCGGGTTAAATCCTACAGGCTTC
19569712 GTACTAGTATTA
65 GTACTAGTATTA
* * *
19569724 TATCCGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGTG
1 TATCCG-GGTTAAAGT-CCGCAGGCTTCGTGCTGGTG
19569761 ACTGGATTCG
Statistics
Matches: 100, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
75 2 0.02
76 61 0.61
77 11 0.11
78 25 0.25
79 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.34
Consensus pattern (76 bp):
TATCCGGGTTAAAGTCCGCAGGCTTCGTGCTGGTGTTATATCCGGGTTAAATCCTACAGGCTTCG
TACTAGTATTA
Found at i:19577435 original size:25 final size:25
Alignment explanation
Indices: 19577404--19577459 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
19577394 CACTATTAAA
*
19577404 CAGAGAGCA-TAAATGTGCTAATAAT
1 CAGAGAGCACT-AACGTGCTAATAAT
* *
19577429 TAGAGAGCACTAACGTGCTATTAAT
1 CAGAGAGCACTAACGTGCTAATAAT
19577454 CAGAGA
1 CAGAGA
19577460 ATGTGCGAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.23
Consensus pattern (25 bp):
CAGAGAGCACTAACGTGCTAATAAT
Found at i:19587928 original size:3 final size:3
Alignment explanation
Indices: 19587907--19587945 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
19587897 TTTATTTATG
* * *
19587907 TTA TTG TTA TTA TTT TTA TTA TTA TTA TGA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19587946 GAATTTTCCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19590786 original size:12 final size:12
Alignment explanation
Indices: 19590769--19590799 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
19590759 ATGGGGTTTA
19590769 GGTTACAGGTAT
1 GGTTACAGGTAT
19590781 GGTTACAGGTAT
1 GGTTACAGGTAT
*
19590793 GGATACA
1 GGTTACA
19590800 AGTCGAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.10, G:0.32, T:0.29
Consensus pattern (12 bp):
GGTTACAGGTAT
Found at i:19592092 original size:12 final size:12
Alignment explanation
Indices: 19592077--19592102 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19592067 AATGAAAAGG
19592077 AAAATAAGAATA
1 AAAATAAGAATA
19592089 AAAATAAGAATA
1 AAAATAAGAATA
19592101 AA
1 AA
19592103 TAAAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (12 bp):
AAAATAAGAATA
Found at i:19598703 original size:5 final size:5
Alignment explanation
Indices: 19598693--19598753 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
19598683 CCTTTGAGTC
* *
19598693 ATTTT ATTTT ATTATT ATTACT ATTTT -TTTA ATTTT AATTTT ATTTT
1 ATTTT ATTTT ATT-TT ATT-TT ATTTT ATTTT ATTTT -ATTTT ATTTT
*
19598740 CTTTT A-TTT ATTTT
1 ATTTT ATTTT ATTTT
19598754 TGAAGACATG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
4 7 0.15
5 24 0.52
6 15 0.33
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:19600545 original size:21 final size:20
Alignment explanation
Indices: 19600519--19600560 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
19600509 CATAGGAAGG
*
19600519 CAAAAAGAGTAAGAAATGGGC
1 CAAAAACAG-AAGAAATGGGC
*
19600540 CAAAAACAGATGAAATGGGC
1 CAAAAACAGAAGAAATGGGC
19600560 C
1 C
19600561 TAATTCAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.50, C:0.14, G:0.26, T:0.10
Consensus pattern (20 bp):
CAAAAACAGAAGAAATGGGC
Found at i:19602750 original size:36 final size:33
Alignment explanation
Indices: 19602626--19602752 Score: 103
Period size: 33 Copynumber: 3.8 Consensus size: 33
19602616 ATTTTCTTTA
* * * * *
19602626 TGCCATAGTCCAACTATGGTCTTACACTTGTAT
1 TGCCATAGCCCAGCTATGGTCTTACTCATGTAG
* *
19602659 TGCCATGGCCCAGCCATGGTCTTACTCATGTAG
1 TGCCATAGCCCAGCTATGGTCTTACTCATGTAG
* * * * *
19602692 TGCCATATCCTAGATATTGTCTTA-TCATCTTCATG
1 TGCCATAGCCCAGCTATGGTCTTACTCAT-GT-A-G
19602727 ATGCCATAGCCCAGCTATGGTCTTAC
1 -TGCCATAGCCCAGCTATGGTCTTAC
19602753 ACGTGCACAT
Statistics
Matches: 71, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
32 4 0.06
33 45 0.63
34 1 0.01
35 1 0.01
36 20 0.28
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.34
Consensus pattern (33 bp):
TGCCATAGCCCAGCTATGGTCTTACTCATGTAG
Found at i:19605342 original size:14 final size:16
Alignment explanation
Indices: 19605325--19605358 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
19605315 CCTGTCTTTA
19605325 TTTTCTTT-A-TTTGT
1 TTTTCTTTAATTTTGT
19605339 TTTTCTTTAATTTTGT
1 TTTTCTTTAATTTTGT
19605355 TTTT
1 TTTT
19605359 ACGATTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 1 0.06
16 9 0.50
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (16 bp):
TTTTCTTTAATTTTGT
Found at i:19607696 original size:17 final size:17
Alignment explanation
Indices: 19607674--19607707 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
19607664 TAAATTCTAG
19607674 TAGCTATAAGAA-TCAAA
1 TAGCTAT-AGAATTCAAA
19607691 TAGCTATAGAATTCAAA
1 TAGCTATAGAATTCAAA
19607708 ACTAGAGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (17 bp):
TAGCTATAGAATTCAAA
Found at i:19608185 original size:20 final size:20
Alignment explanation
Indices: 19608160--19608204 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
19608150 AGGGACTAAA
* *
19608160 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
19608180 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
19608200 ATGAA
1 ATGAA
19608205 TACATATGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:19611052 original size:27 final size:27
Alignment explanation
Indices: 19611021--19611197 Score: 194
Period size: 27 Copynumber: 6.5 Consensus size: 27
19611011 TAAATTGTAC
*
19611021 AGCACTAAGTGTACGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
19611048 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19611074 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
19611102 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
19611130 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19611157 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19611184 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
19611198 AGACTCAATA
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19611135 original size:82 final size:81
Alignment explanation
Indices: 19611022--19611177 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
19611012 AAATTGTACA
* *
19611022 GCACTAAGTGTACGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTACGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
19611086 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
19611103 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTACGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
19611168 TGCGAGTTGA
65 TGCGAATTGA
19611178 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTACGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:19611189 original size:82 final size:81
Alignment explanation
Indices: 19611018--19611197 Score: 218
Period size: 82 Copynumber: 2.2 Consensus size: 81
19611008 GATTAAATTG
* * *
19611018 TACAGCACTAAGTGTACGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19611083 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
19611099 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19611163 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19611181 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
19611198 AGACTCAATA
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19626965 original size:27 final size:27
Alignment explanation
Indices: 19626935--19627047 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 27
19626925 GGAAAAATGA
* *
19626935 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTTTACCCTACAAGGGTATTTCGG
* * *
19626962 TAATTTTACCCTATAGGGGTATTTCGA
1 TAATTTTACCCTACAAGGGTATTTCGG
*
19626989 T-ATTTCTACCCTACAAGGGTATTTTGG
1 TAATTT-TACCCTACAAGGGTATTTCGG
* *
19627016 TAATTTTATCCTACAAGGGTATTTTGG
1 TAATTTTACCCTACAAGGGTATTTCGG
19627043 TAATT
1 TAATT
19627048 CTTCAACTTA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.05
27 66 0.89
28 4 0.05
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.40
Consensus pattern (27 bp):
TAATTTTACCCTACAAGGGTATTTCGG
Found at i:19626979 original size:54 final size:54
Alignment explanation
Indices: 19626921--19627028 Score: 121
Period size: 54 Copynumber: 2.0 Consensus size: 54
19626911 TTTAACACCC
19626921 TAGGGGAAAAAT-GATAATTT-TACCCCACAAGGGTATCTCGGTAATTTTACCCTA
1 TAGGGG-AAAATCGAT-ATTTCTACCCCACAAGGGTATCTCGGTAATTTTACCCTA
* ** * * * *
19626975 TAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTTGGTAATTTTATCCTA
1 TAGGGGAAAATCGATATTTCTACCCCACAAGGGTATCTCGGTAATTTTACCCTA
19627029 CAAGGGTATT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (54 bp):
TAGGGGAAAATCGATATTTCTACCCCACAAGGGTATCTCGGTAATTTTACCCTA
Found at i:19631484 original size:27 final size:26
Alignment explanation
Indices: 19631428--19631484 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
19631418 CAACCTTAAC
* *
19631428 CCTAGGGGTATATTAGTAATTTTACT
1 CCTAGGGGTAAATTAGTAATTTTACA
*
19631454 CCTAGGGGTAAATCT-GTAAATTTTCCA
1 CCTAGGGGTAAAT-TAGT-AATTTTACA
19631481 CCTA
1 CCTA
19631485 TAAAGGTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATTAGTAATTTTACA
Found at i:19639327 original size:26 final size:26
Alignment explanation
Indices: 19639272--19639327 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
19639262 CAACCTTAAC
* *
19639272 CCTAAGGGTATATCAGTAATTTTACT
1 CCTAAGGGTAAATCAGTAATTTTACA
* * *
19639298 CCTAGGGGTAAATCTGTAATTTTCCA
1 CCTAAGGGTAAATCAGTAATTTTACA
19639324 CCTA
1 CCTA
19639328 TAAAGGTGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (26 bp):
CCTAAGGGTAAATCAGTAATTTTACA
Found at i:19644269 original size:27 final size:27
Alignment explanation
Indices: 19644206--19644269 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
19644196 AGGGGCAAAA
* *
19644206 TGGTAATTTTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
* * * *
19644233 CGGCATTTCTACCCTGCAAGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
19644260 TGGTAATTCT
1 TGGTAATTCT
19644270 TCAACTTATC
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAAGGGTATTT
Found at i:19654525 original size:10 final size:11
Alignment explanation
Indices: 19654499--19654524 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19654489 GTTTTGTCCC
19654499 TTTTTGGCTCA
1 TTTTTGGCTCA
19654510 TTTTTGGCTCA
1 TTTTTGGCTCA
19654521 TTTT
1 TTTT
19654525 GACTCTTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.15, G:0.15, T:0.62
Consensus pattern (11 bp):
TTTTTGGCTCA
Found at i:19661593 original size:20 final size:20
Alignment explanation
Indices: 19661579--19661617 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19661569 TGAAAAGTTG
19661579 TAAAATTTGATGAAACATTC
1 TAAAATTTGATGAAACATTC
*
19661599 TAAAATTTTATGAATACAT
1 TAAAATTTGATGAA-ACAT
19661618 GTGCTGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (20 bp):
TAAAATTTGATGAAACATTC
Found at i:19665137 original size:40 final size:40
Alignment explanation
Indices: 19665063--19665244 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
19665053 AACCCAAGTA
* * *
19665063 CCTTTGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
19665102 CCTTCGGGTCTTAGCCCGGATATAGTCATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
19665142 CCTTCGGGACTTAGCCCGGATATAGTCAGTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
19665182 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
19665222 CTTTCGGGACTTAGCCCAGATAT
1 CCTTCGGGACTTAGCCCGGATAT
19665245 CATTCGAATA
Statistics
Matches: 129, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 11 0.09
40 117 0.91
41 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:19667840 original size:32 final size:32
Alignment explanation
Indices: 19667801--19667865 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
19667791 TTCTTGCAAT
*
19667801 TTCTTCCAAAATCGTGATGTGAATCTCGAATC
1 TTCTTCCAAAATCGCGATGTGAATCTCGAATC
*
19667833 TTCTTCCAAAATCGCGATGTGAATCTCGGATC
1 TTCTTCCAAAATCGCGATGTGAATCTCGAATC
19667865 T
1 T
19667866 CTATCTGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (32 bp):
TTCTTCCAAAATCGCGATGTGAATCTCGAATC
Found at i:19673208 original size:40 final size:40
Alignment explanation
Indices: 19673134--19673235 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
19673124 AACCCAAGTA
*
19673134 CCTTCGGGAT-TTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGG-TCTTAGCCCGGATATAGCAACTAGCACAAATG
19673173 CCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACAAATG
* *
19673213 CCTTTGGGACTTAGCCCGGATAT
1 CCTTCGGGTCTTAGCCCGGATAT
19673236 CATTCGAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
38 1 0.02
39 12 0.21
40 43 0.75
41 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATG
Found at i:19676951 original size:14 final size:16
Alignment explanation
Indices: 19676934--19676966 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19676924 ATGCCTTTAC
19676934 TTTCTTT-A-TTTGTT
1 TTTCTTTAATTTTGTT
19676948 TTTCTTTAATTTTGTT
1 TTTCTTTAATTTTGTT
19676964 TTT
1 TTT
19676967 ACGATTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 1 0.06
16 9 0.53
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (16 bp):
TTTCTTTAATTTTGTT
Found at i:19679816 original size:20 final size:20
Alignment explanation
Indices: 19679791--19679840 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
19679781 AGGGACTAAA
* *
19679791 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
19679811 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
19679831 ATGAATAAAT
1 ATGAA-AAAT
19679841 ATGCTGGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:19684934 original size:39 final size:40
Alignment explanation
Indices: 19684889--19685020 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
19684879 GCTCCTCGTT
* * *
19684889 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
19684929 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
19684968 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
19685008 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
19685021 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.43
40 46 0.57
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:19690701 original size:10 final size:10
Alignment explanation
Indices: 19690687--19690733 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
19690677 TAAGCTCGGT
*
19690687 TGAGCTCAAA
1 TGAGCTGAAA
*
19690697 CGAGCTGAAA
1 TGAGCTGAAA
19690707 TGAGCTGAAA
1 TGAGCTGAAA
19690717 TGAGCT-AAA
1 TGAGCTGAAA
19690726 TTGAGCTG
1 -TGAGCTG
19690734 GACGGAGCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 3 0.09
10 29 0.91
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (10 bp):
TGAGCTGAAA
Found at i:19692438 original size:13 final size:13
Alignment explanation
Indices: 19692420--19692448 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
19692410 AATAGTTGTG
19692420 TGTTATTTAATTA
1 TGTTATTTAATTA
19692433 TGTTATTTAATTA
1 TGTTATTTAATTA
19692446 TGT
1 TGT
19692449 AGGTTAGCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:19694664 original size:4 final size:4
Alignment explanation
Indices: 19694655--19694682 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
19694645 AAGTTTTATT
19694655 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
19694683 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:19696578 original size:19 final size:21
Alignment explanation
Indices: 19696556--19696596 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
19696546 AAACAAGTGA
19696556 GGAAAA-AG-AAAAAGAGAAT
1 GGAAAAGAGCAAAAAGAGAAT
19696575 GGAAAAGAGCAAAAAGAGAAT
1 GGAAAAGAGCAAAAAGAGAAT
19696596 G
1 G
19696597 AGAGTGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 12 0.60
ACGTcount: A:0.63, C:0.02, G:0.29, T:0.05
Consensus pattern (21 bp):
GGAAAAGAGCAAAAAGAGAAT
Found at i:19696599 original size:27 final size:27
Alignment explanation
Indices: 19696558--19696609 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
19696548 ACAAGTGAGG
*
19696558 AAAAAGAAAAAGAGAATGGAAAAGAGC
1 AAAAAGAAAAAGAGAATGAAAAAGAGC
* * *
19696585 AAAAAGAGAATGAGAGTGAAAAAGA
1 AAAAAGAAAAAGAGAATGAAAAAGA
19696610 AATTGAAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.65, C:0.02, G:0.27, T:0.06
Consensus pattern (27 bp):
AAAAAGAAAAAGAGAATGAAAAAGAGC
Found at i:19700868 original size:10 final size:10
Alignment explanation
Indices: 19700855--19700900 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
19700845 AGCTCACTTG
19700855 AGCTCGTTTT
1 AGCTCGTTTT
*
19700865 AGCTCGTTTG
1 AGCTCGTTTT
*
19700875 AGCTCGAATTT
1 AGCTCG-TTTT
*
19700886 AGCTCGTTTC
1 AGCTCGTTTT
19700896 AGCTC
1 AGCTC
19700901 ATTCCTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (10 bp):
AGCTCGTTTT
Found at i:19700888 original size:21 final size:20
Alignment explanation
Indices: 19700852--19700900 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
19700842 ATAAGCTCAC
*
19700852 TTGAGCTCGTTTTAGCTCGT
1 TTGAGCTCGATTTAGCTCGT
19700872 TTGAGCTCGAATTTAGCTCGT
1 TTGAGCTCG-ATTTAGCTCGT
*
19700893 TTCAGCTC
1 TTGAGCTC
19700901 ATTCCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.41
Consensus pattern (20 bp):
TTGAGCTCGATTTAGCTCGT
Found at i:19701143 original size:13 final size:13
Alignment explanation
Indices: 19701125--19701153 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
19701115 AATAGTTGTT
19701125 TGTTATTTAATTA
1 TGTTATTTAATTA
19701138 TGTTATTTAATTA
1 TGTTATTTAATTA
19701151 TGT
1 TGT
19701154 AGGTTAGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:19702559 original size:13 final size:13
Alignment explanation
Indices: 19702529--19702559 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
19702519 AGTTCCGTTG
19702529 AAAAATTTCAAAA
1 AAAAATTTCAAAA
*
19702542 CAAAATTTCAAAA
1 AAAAATTTCAAAA
19702555 AAAAA
1 AAAAA
19702560 CCTTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAAATTTCAAAA
Found at i:19702895 original size:26 final size:28
Alignment explanation
Indices: 19702865--19702919 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
19702855 ACCAACACAC
19702865 TAAT-ATCA-CAGCAAAGCTGCCAGTAA
1 TAATAATCAGCAGCAAAGCTGCCAGTAA
* *
19702891 TAATAATGATGCAGCATAGCTGCCAGTAA
1 TAATAATCA-GCAGCAAAGCTGCCAGTAA
19702920 CAGTAAGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 4 0.17
27 3 0.12
29 17 0.71
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (28 bp):
TAATAATCAGCAGCAAAGCTGCCAGTAA
Found at i:19710446 original size:27 final size:28
Alignment explanation
Indices: 19710362--19710459 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
19710352 CATGAGATTG
* * * *
19710362 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
19710391 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
19710419 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
19710446 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
19710460 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:19710470 original size:27 final size:27
Alignment explanation
Indices: 19710390--19710472 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
19710380 TAAATTGTAC
* *
19710390 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
19710418 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
19710445 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
19710472 A
1 A
19710473 TTTTTTGAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:19710473 original size:29 final size:27
Alignment explanation
Indices: 19710362--19710473 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
19710352 CATGAGATTG
** * *
19710362 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
19710391 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
19710419 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
19710446 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
19710474 TTTTTGAATC
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:19713584 original size:24 final size:26
Alignment explanation
Indices: 19713533--19713584 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
19713523 ATCGATAAAA
*
19713533 ATTATAAGTTGAGAAGAATTTATTTTG
1 ATTATAAGTTGAG-AGAATTTATCTTG
*
19713560 ATTATAAGTTGAG-GATTTTA-CTTG
1 ATTATAAGTTGAGAGAATTTATCTTG
19713584 A
1 A
19713585 AGACAAGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 6 0.26
27 13 0.57
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (26 bp):
ATTATAAGTTGAGAGAATTTATCTTG
Found at i:19725032 original size:43 final size:43
Alignment explanation
Indices: 19724971--19725097 Score: 159
Period size: 43 Copynumber: 3.0 Consensus size: 43
19724961 ACATAGGATT
*
19724971 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGATGTTGGCA
1 TCGATATATGATTTCGTGTAAGACCACGTCTGGGATGTTGGCA
* *
19725014 TCGATTTATGATTTCGTGTAAAACC-CTGTCTGGGATAG-TGGCA
1 TCGATATATGATTTCGTGTAAGACCAC-GTCTGGGAT-GTTGGCA
* * * *
19725057 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGG
1 TCGATATATGATTTCGTGTAAGACCACGTCTGGGATGTTGG
19725098 TGTTGTACGA
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
42 2 0.03
43 67 0.94
44 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (43 bp):
TCGATATATGATTTCGTGTAAGACCACGTCTGGGATGTTGGCA
Found at i:19725624 original size:149 final size:150
Alignment explanation
Indices: 19725354--19725659 Score: 510
Period size: 149 Copynumber: 2.1 Consensus size: 150
19725344 TGTTTATAAG
* * * **
19725354 ATATGTTTGAGTTTGCAAGCATGATACATGTACATTTGGTTAAGTTTTGTTTGGTTCGGTCTAGT
1 ATATGTTTGAGTTTGCAAGCACGATACATCTACATTTGGCTAAGTTTTGTTTGGTTCCATCTAGT
19725419 TTAATTGAATTATGTATGTCATTAAAATGAATTATTTGCTTATAACTTACTAAGCTATTTAGGCT
66 TTAATTGAATTATGTATGTCATTAAAATGAATTATTTGCTTATAACTTACTAAGCTATTTAGGCT
*
19725484 TATTGTGTGAGTGTTTGTT-
131 TACTGTGTGAGTGTTTGTTC
*
19725503 ATATGTTTGAGTTTGCAAGCACGATACATCTACATTTGGCTAAGGTTTT-TTTGGTTCCATTTAG
1 ATATGTTTGAGTTTGCAAGCACGATACATCTACATTTGGCTAA-GTTTTGTTTGGTTCCATCTAG
*
19725567 TTTAATTGAATTATGTATGTCATTAAAATGAATTATTTGCTTATGACTTACTAAGCTATTTAGGC
65 TTTAATTGAATTATGTATGTCATTAAAATGAATTATTTGCTTATAACTTACTAAGCTATTTAGGC
19725632 TTACTGTGTGAGTGTTTGTTC
130 TTACTGTGTGAGTGTTTGTTC
19725653 AT-TGTTT
1 ATATGTTT
19725660 TATAGATTTT
Statistics
Matches: 147, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
149 140 0.95
150 7 0.05
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.46
Consensus pattern (150 bp):
ATATGTTTGAGTTTGCAAGCACGATACATCTACATTTGGCTAAGTTTTGTTTGGTTCCATCTAGT
TTAATTGAATTATGTATGTCATTAAAATGAATTATTTGCTTATAACTTACTAAGCTATTTAGGCT
TACTGTGTGAGTGTTTGTTC
Found at i:19735267 original size:125 final size:125
Alignment explanation
Indices: 19735045--19735294 Score: 482
Period size: 125 Copynumber: 2.0 Consensus size: 125
19735035 AACTTGCACA
19735045 TAAGTGCCATATATGCAATCAAGCAATCATGTAACCCGCCCATAAGCGAACTCGGACTCAACTCA
1 TAAGTGCCATATATGCAATCAAGCAATCATGTAACCCGCCCATAAGCGAACTCGGACTCAACTCA
* *
19735110 ACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
66 ACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
19735170 TAAGTGCCATATATGCAATCAAGCAATCATGTAACCCGCCCATAAGCGAACTCGGACTCAACTCA
1 TAAGTGCCATATATGCAATCAAGCAATCATGTAACCCGCCCATAAGCGAACTCGGACTCAACTCA
19735235 ACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
66 ACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
19735295 CTAGTTACAT
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 123 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (125 bp):
TAAGTGCCATATATGCAATCAAGCAATCATGTAACCCGCCCATAAGCGAACTCGGACTCAACTCA
ACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
Found at i:19735276 original size:46 final size:46
Alignment explanation
Indices: 19735209--19735381 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
19735199 TGTAACCCGC
*
19735209 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
* * *
19735255 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--A-GAC-A-TTCGCAT
*
19735305 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
*
19735348 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
19735382 GGATGCTCAA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 3 0.03
46 58 0.54
47 26 0.24
48 3 0.03
49 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
Found at i:19735330 original size:93 final size:93
Alignment explanation
Indices: 19735216--19735387 Score: 335
Period size: 93 Copynumber: 1.8 Consensus size: 93
19735206 CGCCCATAAG
19735216 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
19735281 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
19735309 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
19735374 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
19735388 TCAACCATCC
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 78 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:19740381 original size:45 final size:45
Alignment explanation
Indices: 19740331--19740422 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
19740321 AATGATTTCT
19740331 ACCACACCGCTGGCACTCGGGTTTAACAAATCTCGAGTTCCCTAC
1 ACCACACCGCTGGCACTCGGGTTTAACAAATCTCGAGTTCCCTAC
*
19740376 ACCACACTGCTGGCACTCGGGTTTAACAAATCTCGAGTTCCCTAC
1 ACCACACCGCTGGCACTCGGGTTTAACAAATCTCGAGTTCCCTAC
19740421 AC
1 AC
19740423 TGGCTGCAGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (45 bp):
ACCACACCGCTGGCACTCGGGTTTAACAAATCTCGAGTTCCCTAC
Found at i:19744481 original size:50 final size:49
Alignment explanation
Indices: 19744360--19744597 Score: 273
Period size: 49 Copynumber: 4.8 Consensus size: 49
19744350 TGAGGTCGCA
* ** *
19744360 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCA-AAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-T-TAG-TCACG
* **
19744411 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-AGTCACG
* *
19744461 TGTGTAGTATTAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCACG
* * * *
19744510 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCACG
* * *
19744559 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
19744598 GCTTTGGCTA
Statistics
Matches: 164, Mismatches: 20, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
49 88 0.54
50 45 0.27
51 31 0.19
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCACG
Found at i:19747074 original size:31 final size:31
Alignment explanation
Indices: 19747032--19747859 Score: 1633
Period size: 31 Copynumber: 26.7 Consensus size: 31
19747022 TTAGTCTTGA
19747032 CATAT-ACTGGGCCGAAGCC-TTTCTATAAAT
1 CATATCACTGGGCCGAAGCCTTTTC-ATAAAT
19747062 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747093 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747124 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747155 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747186 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747217 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747248 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747279 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747310 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747341 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747372 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747403 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747434 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747465 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747496 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747527 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747558 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747589 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747620 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747651 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747682 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747713 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747744 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747775 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747806 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19747837 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
19747860 ACTGTAAACG
Statistics
Matches: 796, Mismatches: 0, Indels: 3
1.00 0.00 0.00
Matches are distributed among these distances:
30 5 0.01
31 787 0.99
32 4 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:19747930 original size:42 final size:42
Alignment explanation
Indices: 19747883--19747973 Score: 173
Period size: 42 Copynumber: 2.2 Consensus size: 42
19747873 TGGCCCTTAG
*
19747883 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
19747925 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
19747967 GCCCATT
1 GCCCATT
19747974 CGGGGAGACT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:19748136 original size:24 final size:24
Alignment explanation
Indices: 19748109--19748193 Score: 73
Period size: 25 Copynumber: 3.5 Consensus size: 24
19748099 ATGGAGGCTT
*
19748109 AGCCTCTTTTAAT-AATTAGGGCAA
1 AGCC-CTTTTAATAAACTAGGGCAA
* *
19748133 AGCCCTTTCTGATAAACTGGGGCAA
1 AGCCCTTT-TAATAAACTAGGGCAA
** * *
19748158 AGCCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTT-AATAAACTAGGGCAA
19748183 AGCCCTTTTAA
1 AGCCCTTTTAA
19748194 CACTTCCTCC
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
23 4 0.08
24 8 0.16
25 39 0.76
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTAGGGCAA
Found at i:19748159 original size:25 final size:25
Alignment explanation
Indices: 19748127--19748191 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
19748117 TTAATAATTA
19748127 GGGCAAAGCCC-TTTCTGATAAACTG
1 GGGCAAAGCCCTTTTC-GATAAACTG
*
19748152 GGGCAAAGCCCTTTTCGGTAAACTG
1 GGGCAAAGCCCTTTTCGATAAACTG
*
19748177 GGGCAGAGCCCTTTT
1 GGGCAAAGCCCTTTT
19748192 AACACTTCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 33 0.89
26 4 0.11
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (25 bp):
GGGCAAAGCCCTTTTCGATAAACTG
Found at i:19749149 original size:27 final size:27
Alignment explanation
Indices: 19749119--19749360 Score: 139
Period size: 27 Copynumber: 8.9 Consensus size: 27
19749109 GTAAATCTAC
* *
19749119 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTAT
** *
19749146 AAACC-AGTGGTATTTCTATAATTTTTAG
1 AAACCAAG-GGTATTTCGGTAA-TTTTAT
* * * *
19749174 AAAGTCAAAGGTATTTCTGTAATTTTGT
1 AAA-CCAAGGGTATTTCGGTAATTTTAT
** * *
19749202 AAATTAGGGGTATTTTGGTAATTTTAT
1 AAACCAAGGGTATTTCGGTAATTTTAT
*** * * *
19749229 AAATTGATGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCGGTAATTTTAT
*
19749256 AAACC-AGTGGTATTTCGGTAATTTTAC
1 AAACCAAG-GGTATTTCGGTAATTTTAT
* * * *
19749283 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCGGTAATTTTAT
* * * *
19749310 AAACTAGGGGTATTTTGGTAATTCTAT
1 AAACCAAGGGTATTTCGGTAATTTTAT
** *
19749337 CTTA-CAAGGGTATTTCAGTAATTT
1 -AAACCAAGGGTATTTCGGTAATTT
19749361 CACAATTGAG
Statistics
Matches: 171, Mismatches: 37, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
26 3 0.02
27 138 0.81
28 16 0.09
29 13 0.08
30 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCGGTAATTTTAT
Found at i:19749268 original size:54 final size:54
Alignment explanation
Indices: 19749207--19749365 Score: 169
Period size: 54 Copynumber: 2.9 Consensus size: 54
19749197 TTTGTAAATT
* * *
19749207 AGGGGTATTTTGGTAATTTTATAAA-TTGATGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTCACAAACC
* * * * *
19749261 AGTGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACC
* ** * *
19749315 AGGGGTATTTTGGTAATTCTATCTTAC-AAGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTCGGTAATTTCACAA
19749366 TTGAGGGTAA
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
54 81 0.94
55 5 0.06
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACC
Found at i:19749322 original size:81 final size:81
Alignment explanation
Indices: 19749183--19749332 Score: 212
Period size: 81 Copynumber: 1.9 Consensus size: 81
19749173 GAAAGTCAAA
* ** * * * *
19749183 GGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTATAAATTGATGGTATTTCGGT
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGT
19749248 AATTTCACAAACCAGT
66 AATTTCACAAACCAGT
*
19749264 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGG
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGG
19749328 TAATT
65 TAATT
19749333 CTATCTTACA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
81 58 0.97
82 2 0.03
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.43
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGT
AATTTCACAAACCAGT
Found at i:19749349 original size:81 final size:81
Alignment explanation
Indices: 19749183--19749365 Score: 201
Period size: 81 Copynumber: 2.3 Consensus size: 81
19749173 GAAAGTCAAA
* ** * * * *
19749183 GGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTATAAATTGATGGTATTTCGGT
1 GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGT
*
19749248 AATTTCACAAACCAGT
66 AATTTCACAAACAAGT
* *
19749264 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGG
1 GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGG
**
19749328 TAA-TTCTATCTTACAAG-
65 TAATTTC-A-CAAACAAGT
*
19749345 GGTATTTCAGTAATTTCACAA
1 GGTATTTCAGTAATTTTACAA
19749366 TTGAGGGTAA
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
80 3 0.03
81 76 0.88
82 7 0.08
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (81 bp):
GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGT
AATTTCACAAACAAGT
Found at i:19749400 original size:27 final size:27
Alignment explanation
Indices: 19749368--19749601 Score: 308
Period size: 27 Copynumber: 8.7 Consensus size: 27
19749358 TTTCACAATT
* *
19749368 GAGGGTAAAACAGTAATTTTGTAAATT
1 GAGGGTAAAACGGTAATTTTGTAAATC
* *
19749395 GAGGGTAAAATGATAATTTTGTAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
*
19749422 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
* *
19749449 GAGGGTAAAATGGTAATTCTT-TAAATT
1 GAGGGTAAAACGGTAATT-TTGTAAATC
*
19749476 GAGGGTAAAACGGTAATTTTATAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
* * * *
19749503 GAGGGTGAAACGATAATTCTATAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
19749530 GAGGGTAAAACGGTAATTTTGTAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
* * *
19749557 GAGGGTGAAACGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
*
19749584 GAGGGTAAAATGGTAATT
1 GAGGGTAAAACGGTAATT
19749602 CTACAAATCA
Statistics
Matches: 181, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.01
27 178 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTTTGTAAATC
Found at i:19749475 original size:81 final size:81
Alignment explanation
Indices: 19749368--19749615 Score: 354
Period size: 81 Copynumber: 3.1 Consensus size: 81
19749358 TTTCACAATT
* * * *
19749368 GAGGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAATGATAATTTTGTAAATCGAGGGTAAAAC
1 GAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAAC
*
19749433 GGTAATTCTGTAAATC
66 GGTAATTCTATAAATC
* *
19749449 GAGGGTAAAATGGTAATTCTT-TAAATTGAGGGTAAAACGGTAATTTTATAAATCGAGGGTGAAA
1 GAGGGTAAAACGGTAATT-TTGTAAATTGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAA
*
19749513 CGATAATTCTATAAATC
65 CGGTAATTCTATAAATC
* * * *
19749530 GAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTAAAAT
1 GAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAAC
*
19749595 GGTAATTCTACAAATC
66 GGTAATTCTATAAATC
*
19749611 AAGGG
1 GAGGG
19749616 CATTTCAGTA
Statistics
Matches: 148, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
80 2 0.01
81 144 0.97
82 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (81 bp):
GAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAAC
GGTAATTCTATAAATC
Found at i:19751906 original size:31 final size:31
Alignment explanation
Indices: 19751866--19752166 Score: 568
Period size: 31 Copynumber: 9.7 Consensus size: 31
19751856 TTAGTCTTGA
* * *
19751866 CATAT-ACTGGACTGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19751896 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19751927 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19751958 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19751989 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19752020 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19752051 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19752082 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19752113 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
19752144 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
19752167 ACTGTAAACG
Statistics
Matches: 267, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
30 5 0.02
31 262 0.98
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:19752237 original size:42 final size:42
Alignment explanation
Indices: 19752190--19753037 Score: 1687
Period size: 42 Copynumber: 20.2 Consensus size: 42
19752180 TGGCCCTTAG
19752190 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19752232 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19752274 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19752316 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19752358 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19752400 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19752442 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19752484 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19752526 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19752568 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19752610 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19752652 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19752694 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19752736 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19752778 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19752820 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19752862 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19752904 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19752946 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
*
19752988 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
19753030 GCCCATTT
1 GCCCATTT
19753038 GGGGAGACTA
Statistics
Matches: 805, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 805 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
Found at i:19753213 original size:25 final size:25
Alignment explanation
Indices: 19753185--19753254 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
19753175 CTCTTTTAAT
*
19753185 AACTGGGGTAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
19753210 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
19753235 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
19753255 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:19754094 original size:27 final size:27
Alignment explanation
Indices: 19754064--19754128 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
19754054 GGGCATATTC
19754064 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
19754091 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
19754118 GTCTTTTTACC
1 GTCATTTTACC
19754129 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:19754202 original size:27 final size:27
Alignment explanation
Indices: 19754172--19754224 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
19754162 AGGTGTTTTG
19754172 GTAAATCTACAAACCAAGGGTATTTCA
1 GTAAATCTACAAACCAAGGGTATTTCA
* * * *
19754199 GTAATTTTATAAACCAATGGTATTTC
1 GTAAATCTACAAACCAAGGGTATTTC
19754225 TATAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (27 bp):
GTAAATCTACAAACCAAGGGTATTTCA
Found at i:19754331 original size:54 final size:54
Alignment explanation
Indices: 19754187--19754368 Score: 177
Period size: 54 Copynumber: 3.3 Consensus size: 54
19754177 TCTACAAACC
* * * *
19754187 AAGGGTATTTCAGTAATTTTATAAACCAATGGTATTTCT-ATAATTTTTAAAAAGTG
1 AAGGGTATTTCGGTAATTTTATAAACCAGTGGTATTT-TGGTAA-TTTTAAAAA-TT
* * ** * *
19754243 AAGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTATAAATT
1 AAGGGTATTTCGGTAATTTTATAAACCAGTGGTATTTTGGTAATTTTAAAAATT
* * * * *
19754297 AAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTATAAACCAGTGGTATTTTGGTAATTTTAAAAATT
* *
19754351 AGGGGTATTTTGGTAATT
1 AAGGGTATTTCGGTAATT
19754369 CTATCTTATA
Statistics
Matches: 104, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
54 61 0.59
55 9 0.09
56 34 0.33
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (54 bp):
AAGGGTATTTCGGTAATTTTATAAACCAGTGGTATTTTGGTAATTTTAAAAATT
Found at i:19754347 original size:27 final size:26
Alignment explanation
Indices: 19754179--19754368 Score: 119
Period size: 27 Copynumber: 7.0 Consensus size: 26
19754169 TTGGTAAATC
*
19754179 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACC-AGGGTATTTCGGTAATTT
* * **
19754206 TATAAACCAATGGTATTTCTATAATTTT
1 TACAAACC-AGGGTATTTCGGTAA-TTT
* ** *
19754234 TAAAAAGTGAAGGGTATTTCTGTAATTT
1 TACAAA--CCAGGGTATTTCGGTAATTT
** ** *
19754262 TGTAAATTAGGGGTATTTTGGTAATTT
1 TACAAACCA-GGGTATTTCGGTAATTT
* **
19754289 TATAAATTAAGGGTATTTCGGTAATTT
1 TACAAA-CCAGGGTATTTCGGTAATTT
*
19754316 CACAAACCAGTGGTATTTCGGTAATTT
1 TACAAACCAG-GGTATTTCGGTAATTT
* *
19754343 TACAAACTAGGGGTATTTTGGTAATT
1 TACAAACCA-GGGTATTTCGGTAATT
19754369 CTATCTTATA
Statistics
Matches: 131, Mismatches: 25, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.02
27 97 0.74
28 18 0.14
29 13 0.10
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (26 bp):
TACAAACCAGGGTATTTCGGTAATTT
Found at i:19754362 original size:81 final size:81
Alignment explanation
Indices: 19754246--19754401 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 81
19754236 AAAAGTGAAG
* ** * * *
19754246 GGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTATAAATTA-A-GGGTATTTCG
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTAT--ATTATAGGGGTATTTCA
19754309 GTAATTTCACAAACCAGT
64 GTAATTTCACAAACCAGT
*
19754327 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCTTATAGGGGTATTTCAGT
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATATTATAGGGGTATTTCAGT
19754392 AATTTCACAA
66 AATTTCACAA
19754402 TCGAGGGTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
79 3 0.05
80 1 0.02
81 62 0.94
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATATTATAGGGGTATTTCAGT
AATTTCACAAACCAGT
Found at i:19754408 original size:27 final size:26
Alignment explanation
Indices: 19754270--19754401 Score: 104
Period size: 27 Copynumber: 4.9 Consensus size: 26
19754260 TTTGTAAATT
* * * *
19754270 AGGGGTATTTTGGTAATTTTATAAATT
1 AGGGGTATTTCGGTAATTTCACAAA-C
*
19754297 AAGGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTCGGTAATTTCACAAA-C
* *
19754324 AGTGGTATTTCGGTAATTTTACAAAC
1 AGGGGTATTTCGGTAATTTCACAAAC
* ** *
19754350 TAGGGGTATTTTGGTAA-TTCTATCTTAT
1 -AGGGGTATTTCGGTAATTTC-A-CAAAC
*
19754378 AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTCGGTAATTTCACAA
19754402 TCGAGGGTAA
Statistics
Matches: 82, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
26 4 0.05
27 73 0.89
28 5 0.06
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (26 bp):
AGGGGTATTTCGGTAATTTCACAAAC
Done.