Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 110 of 250
Found at i:35283668 original size:29 final size:30
Alignment explanation
Indices: 35283635--35283692 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
35283625 AAATCAATTT
*
35283635 TCAA-GTATAGGGGGAAAATGGTCATTTTG
1 TCAAGGTATAAGGGGAAAATGGTCATTTTG
*
35283664 TCAAGGTCTAAGGGGAAAATGGTCATTTT
1 TCAAGGTATAAGGGGAAAATGGTCATTTT
35283693 ACCTAGTACG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (30 bp):
TCAAGGTATAAGGGGAAAATGGTCATTTTG
Found at i:35284196 original size:47 final size:47
Alignment explanation
Indices: 35284042--35284253 Score: 170
Period size: 47 Copynumber: 4.5 Consensus size: 47
35284032 TGCGTGAGCT
* * *
35284042 AGTGTAAGA-CATGTCTAGGACATGCATCGGCCAC-ATTATGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTACGA-GATGAGAGTC
* ** * * * *
35284087 TAGCGTAAGACCATGTCCAGGACATGGCATCGGC-ATTGAGACGAGGGTG
1 -AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTA-CGAGATGAGAGTC
* *
35284136 AGTGTATGA-CATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTACGAGATGAGAGTC
* * *
35284182 AGTGTAAGACCATGT-TAGGGACATGGCATCGACT-TGAGAT-ATGAGCC
1 AGTGTAAGACCATGTCT-GGGACAT-GCATCGGCTACGAGATGA-GAGTC
35284229 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
35284254 GCATTGGCAC
Statistics
Matches: 134, Mismatches: 21, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
46 35 0.26
47 69 0.51
48 29 0.22
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTACGAGATGAGAGTC
Found at i:35284243 original size:94 final size:95
Alignment explanation
Indices: 35284036--35284253 Score: 241
Period size: 94 Copynumber: 2.3 Consensus size: 95
35284026 GTCACTTGCG
* * *
35284036 TGAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCTAGCGTAAGACCAT
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCTAGCGTAAGACCAT
*
35284101 GTCCAGGACATGGCATCGGCATTGAGACGA
66 GTCCAGGACATGGCATCGACATTGAGACGA
* ** * * * *
35284131 -GGGTGAGTGTATGACATGTCTGGGACATGCATCGGCTACGA-GATGATAG-TCAGTGTAAGACC
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGCT-AGCGTAAGACC
* *
35284193 ATGT-TAGGGACATGGCATCGAC-TTGAGA-TA
64 ATGTCCA-GGACATGGCATCGACATTGAGACGA
35284223 TGAGCCAGTGTAAGACCATGTCTGGGACATG
1 TGAGCCAGTGTAAGA-CATGTCTGGGACATG
35284254 GCATTGGCAC
Statistics
Matches: 102, Mismatches: 16, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
92 1 0.01
93 18 0.18
94 82 0.80
95 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (95 bp):
TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCTAGCGTAAGACCAT
GTCCAGGACATGGCATCGACATTGAGACGA
Found at i:35284254 original size:47 final size:47
Alignment explanation
Indices: 35284091--35284257 Score: 173
Period size: 47 Copynumber: 3.6 Consensus size: 47
35284081 GAGAGCTAGC
** * * *
35284091 GTAAGACCATGTCCAGGACATGGCATCGGCATTGAGACGA-GGGTGAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGA-TATGAGTCAGT
* *
35284139 GTATGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGAT-AGTCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGAT-ATGAGTCAGT
* *
35284185 GTAAGACCATGT-TAGGGACATGGCATCGACTTGAGATATGAGCCAGT
1 GTAAGACCATGTCT-GGGACATGGCATCGGCTTGAGATATGAGTCAGT
35284232 GTAAGACCATGTCTGGGACATGGCAT
1 GTAAGACCATGTCTGGGACATGGCAT
35284258 TGGCACCTTA
Statistics
Matches: 100, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
45 1 0.01
46 26 0.26
47 59 0.59
48 14 0.14
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.23
Consensus pattern (47 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATATGAGTCAGT
Found at i:35290148 original size:48 final size:46
Alignment explanation
Indices: 35290086--35290254 Score: 178
Period size: 48 Copynumber: 3.6 Consensus size: 46
35290076 TGATATGTGT
*
35290086 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTTAG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAG-TA-ATAG
* * * * **
35290134 GCCAGTGTAAGACATATCTGGGACATGCATCAGCATTGAG-ACGAG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGTAATAG
* * *
35290179 AACTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGGTAGATAA
1 -GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCG-AGTA-ATAG
* *
35290228 GCTAGTGTAAGACCTGTCTAGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
35290255 GCGTTGGCTT
Statistics
Matches: 99, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
45 2 0.02
46 34 0.34
47 1 0.01
48 61 0.62
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGTAATAG
Found at i:35290402 original size:50 final size:48
Alignment explanation
Indices: 35290275--35290405 Score: 181
Period size: 49 Copynumber: 2.7 Consensus size: 48
35290265 ATCATGTGTT
* * *
35290275 AGTGTAAGACCTGTCTGGGACATGGCATTGAGACCAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCG-GCCCAATAGATGAAAGCC
* * *
35290324 AGTGTAAGACCTGTCTGGGACATAGCATCGGCCTCACTATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCC-CAATAGATGAAAGCC
35290373 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGGC
35290406 ATCTTAACCC
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
48 2 0.03
49 51 0.70
50 20 0.27
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.21
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCCCAATAGATGAAAGCC
Found at i:35291418 original size:26 final size:26
Alignment explanation
Indices: 35291388--35291437 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
35291378 GCTAGCACAG
* *
35291388 TAATATCGCAGCATAGCTGCCAGAAA
1 TAATAACGCAGCAAAGCTGCCAGAAA
35291414 TAATAACGCAGCAAAGCTGCCAGA
1 TAATAACGCAGCAAAGCTGCCAGA
35291438 TATATACACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (26 bp):
TAATAACGCAGCAAAGCTGCCAGAAA
Found at i:35297557 original size:19 final size:19
Alignment explanation
Indices: 35297533--35297578 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
35297523 ACATGGACAC
35297533 TTTTATTTGTTAATTTTGT
1 TTTTATTTGTTAATTTTGT
35297552 TTTTATTTGTTAATTTTGT
1 TTTTATTTGTTAATTTTGT
*
35297571 CTTTATTT
1 TTTTATTT
35297579 ACTGGATTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.15, C:0.02, G:0.09, T:0.74
Consensus pattern (19 bp):
TTTTATTTGTTAATTTTGT
Found at i:35297934 original size:26 final size:25
Alignment explanation
Indices: 35297883--35297935 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
35297873 GATTTATGGT
* * *
35297883 CCAAAAACAACTGTTCCAATTTTCC
1 CCAAAAACAACTGTTACAACTCTCC
*
35297908 CCAAAAACATGCTGTTACAACTCTCC
1 CCAAAAACA-ACTGTTACAACTCTCC
35297934 CC
1 CC
35297936 CCTTTAGGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.34, C:0.36, G:0.06, T:0.25
Consensus pattern (25 bp):
CCAAAAACAACTGTTACAACTCTCC
Found at i:35302196 original size:96 final size:95
Alignment explanation
Indices: 35302052--35302506 Score: 436
Period size: 96 Copynumber: 4.7 Consensus size: 95
35302042 CCATGGCGAA
*
35302052 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATATGTGTCAGTGTAAGAC
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATATGTGCCAGTGTAAGAC
*
35302117 CATGTTTGGGACATGGCATCGACACCGGTAT
66 CATGTTTGGGACATGGCATCGGC-CCGGTAT
* *
35302148 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATAGGTGTCAGTGTAAGAC
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATATGTGCCAGTGTAAGAC
* *
35302213 CATGTTTGGGACATGCCATCGGTACCGGTAT
66 CATGTTTGGGACATGGCATCGG-CCCGGTAT
* * ** * * **
35302244 ATGAGAGCCAATGTAAGACCATGTCTAAGACATGGCATCAGCGTCAATATGTGAGCCAGTGTAAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATATGT--GCCAGTGTAAG
* * **
35302309 ACTATGTTTGGGACATGGCATAGGCCTTG-AT
64 ACCATGTTTGGGACATGGCATCGGCCCGGTAT
* * * ** * * *
35302340 AT--GTGTTAGTGAAAGACCATGAT-TGGGACATGGTGTCTGCACTGGTATATGAGAGCCAGTGT
1 ATGAGAGCTAGTGTAAGACCATG-TCTGGGACATGGCATCGGC-CTTG-ATAT--GTGCCAGTGT
*
35302402 AAGACCATGTTTGGGACATGGCATCGGCCTC--AAT
61 AAGACCATGTTTGGGACATGGCATCGGCC-CGGTAT
* * * * * * * * *
35302436 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCACCGGCATTGTTATGTAAGCTAGTGTAAA
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATATGT--GCCAGTGTAAG
35302501 ACCATG
64 ACCATG
35302507 CTAGGACATG
Statistics
Matches: 292, Mismatches: 52, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
94 27 0.09
95 2 0.01
96 199 0.68
97 5 0.02
98 59 0.20
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (95 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATATGTGCCAGTGTAAGAC
CATGTTTGGGACATGGCATCGGCCCGGTAT
Found at i:35302487 original size:144 final size:144
Alignment explanation
Indices: 35302106--35302487 Score: 487
Period size: 144 Copynumber: 2.6 Consensus size: 144
35302096 TGATATGTGT
* * * *
35302106 CAGTGTAAGACCATGTTTGGGACATGGCATCGACAC-CGGTATATGAGAGCTAGTGTAAGACCAT
1 CAGTGTAAGACCATGTTTGGGACATGGCATCGGC-CTC--AATATGTGAGCCAGTGTAAGACCAT
* * * *
35302170 GTCTGGGACATGGCATCGGCCTTGATAGGTGTCAGTGTAAGACCATGTTTGGGACATGCCATCGG
63 GTTTGGGACATGGCATCGGCCTTGATATGTGTCAGTGAAAGACCATGATTGGGACATGCCATCGG
*
35302235 TACCGGTATATGAGAGC
128 CACCGGTATATGAGAGC
* * ** * * *
35302252 CAATGTAAGACCATGTCTAAGACATGGCATCAGCGTCAATATGTGAGCCAGTGTAAGACTATGTT
1 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTT
* * *** *
35302317 TGGGACATGGCATAGGCCTTGATATGTGTTAGTGAAAGACCATGATTGGGACATGGTGTCTGCAC
66 TGGGACATGGCATCGGCCTTGATATGTGTCAGTGAAAGACCATGATTGGGACATGCCATCGGCAC
*
35302382 TGGTATATGAGAGC
131 CGGTATATGAGAGC
35302396 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTT
1 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTT
* * * *
35302461 TGGAACATGGCACCGGCATTGTTATGT
66 TGGGACATGGCATCGGCCTTGATATGT
35302488 AAGCTAGTGT
Statistics
Matches: 200, Mismatches: 35, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
144 171 0.86
146 29 0.14
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (144 bp):
CAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTT
TGGGACATGGCATCGGCCTTGATATGTGTCAGTGAAAGACCATGATTGGGACATGCCATCGGCAC
CGGTATATGAGAGC
Found at i:35311912 original size:47 final size:45
Alignment explanation
Indices: 35311769--35312070 Score: 200
Period size: 47 Copynumber: 6.4 Consensus size: 45
35311759 TATAAGACCG
** * * *
35311769 TGTCTGGGACATGGCATTAGCATTGAGACGAGGGCTAGTGTAAGACA
1 TGTCTGGGACAT-GCATCGGC-TAGAGATGAGTGCTAGTGTAAGACA
* * * * * * *
35311816 TGTTTGGGACATGCATCAGCCACATCATGA-TAGCCCA-TATAAGACCA
1 TGTCTGGGACATGCATCGGCTAGA-GATGAGT-G-CTAGTGTAAGA-CA
35311863 TGTCTGGGACATGGCATCGGCGTAGAGATGAGTGCTAGTGTAAGACA
1 TGTCTGGGACAT-GCATCGGC-TAGAGATGAGTGCTAGTGTAAGACA
* * * *
35311910 TGTCTGGGACATGCATCGGATTCGATGATGA-TAGCCAGTGTAAGACG
1 TGTCTGGGACATGCATCGG-CTAGA-GATGAGT-GCTAGTGTAAGACA
* *
35311957 TGTCTGGGACATGCATCGGCTA-AGTTTCA-TGCTAGTGTAAGACA
1 TGTCTGGGACATGCATCGGCTAGAG-ATGAGTGCTAGTGTAAGACA
* * * * *
35312001 TGTCTGGGACATGCATCAGCACGTATACACGAGAGCTAGTGTAAGACCA
1 TGTCTGGGACATGCATC-G-GC-TAGAGATGAGTGCTAGTGTAAGA-CA
*
35312050 TGTCTGGAACATGGCATCGGC
1 TGTCTGGGACAT-GCATCGGC
35312071 CTCGATGGAG
Statistics
Matches: 201, Mismatches: 35, Indels: 37
0.74 0.13 0.14
Matches are distributed among these distances:
44 30 0.15
45 6 0.03
46 30 0.15
47 81 0.40
48 32 0.16
49 17 0.08
50 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
TGTCTGGGACATGCATCGGCTAGAGATGAGTGCTAGTGTAAGACA
Found at i:35311920 original size:94 final size:93
Alignment explanation
Indices: 35311753--35312070 Score: 344
Period size: 94 Copynumber: 3.4 Consensus size: 93
35311743 GTTATGTGAG
* ** * * *
35311753 AGCCAGTATAAGACCGTGTCTGGGACATGGCATTAGCATTGAGACGAGGGCTAGTGTAAGACATG
1 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATG
*
35311818 TTTGGGACATGCATCAGCCAC-ATCATGAT
65 TCTGGGACATGCATCAG-CACGATCATGAT
35311847 AGCCCA-TATAAGACCATGTCTGGGACATGGCATCGGCGTAGAGATGAGTGCTAGTGTAAGACAT
1 AG-CCAGTATAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACAT
* *
35311911 GTCTGGGACATGCATC-GGATTCGATGATGAT
64 GTCTGGGACATGCATCAGCA--CGATCATGAT
* * * *
35311942 AGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGGCTA-AGTTTCA-TGCTAGTGTAAGACATG
1 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCTAGAG-ATGAGTGCTAGTGTAAGACATG
* *
35312003 TCTGGGACATGCATCAGCACGTATACACGAG
65 TCTGGGACATGCATCAGCACG-AT-CATGAT
* * *
35312034 AGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGC
1 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGC
35312071 CTCGATGGAG
Statistics
Matches: 192, Mismatches: 21, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
90 2 0.01
91 36 0.19
92 22 0.11
93 21 0.11
94 93 0.48
95 18 0.09
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (93 bp):
AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACATGT
CTGGGACATGCATCAGCACGATCATGAT
Found at i:35312987 original size:55 final size:55
Alignment explanation
Indices: 35312878--35312990 Score: 131
Period size: 55 Copynumber: 2.1 Consensus size: 55
35312868 TTTTTAAATT
* * **
35312878 AGTATTGTCCACGGTTAGGCCACACGGACATGTGCCATAGCCGTGTCTATAAGTC
1 AGTATTGCCCACGGGTAGGCCACACGGACATGTGCCATAGCCGTCCCTATAAGTC
* * *
35312933 AGTATTGCCCACGGGTAGGCCATACGGGCATGTGTCAT-GCCCGTACCCTA-AAGTC
1 AGTATTGCCCACGGGTAGGCCACACGGACATGTGCCATAG-CCGT-CCCTATAAGTC
35312988 AGT
1 AGT
35312991 GTCGCACACG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
54 1 0.02
55 45 0.92
56 3 0.06
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.24
Consensus pattern (55 bp):
AGTATTGCCCACGGGTAGGCCACACGGACATGTGCCATAGCCGTCCCTATAAGTC
Found at i:35313669 original size:69 final size:70
Alignment explanation
Indices: 35313540--35313669 Score: 163
Period size: 69 Copynumber: 1.9 Consensus size: 70
35313530 CTATTGGAAT
* * * ***
35313540 AGTAAACATAAGGAAACATAAGGTGTAAAACCATTGTTGGACAATGGCCACCAGTGTAGTCTGTC
1 AGTAAACATAAGGAAACATAAGGTGTAAAACCATAGCTGGACAACGGCCACCAACATAGTCTGTC
35313605 AGGAC
66 AGGAC
* * * *
35313610 AGTAAACAT-GGGAAACGTAAGGTGTAAGACCATAGCTGGACTACGGCCACCAACATAGTC
1 AGTAAACATAAGGAAACATAAGGTGTAAAACCATAGCTGGACAACGGCCACCAACATAGTC
35313670 CGCCGGGACA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
69 41 0.82
70 9 0.18
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (70 bp):
AGTAAACATAAGGAAACATAAGGTGTAAAACCATAGCTGGACAACGGCCACCAACATAGTCTGTC
AGGAC
Found at i:35320931 original size:35 final size:35
Alignment explanation
Indices: 35320886--35320969 Score: 141
Period size: 35 Copynumber: 2.4 Consensus size: 35
35320876 TCTTCGGAGC
35320886 CATTGGTGTGTTTCAGATGGATTAACTCTTTTGAG
1 CATTGGTGTGTTTCAGATGGATTAACTCTTTTGAG
* *
35320921 CATTGGTGTGTTTCGGATGGATTAGCTCTTTTGAG
1 CATTGGTGTGTTTCAGATGGATTAACTCTTTTGAG
35320956 CATCTGGTGTGTTT
1 CAT-TGGTGTGTTT
35320970 ATGTTGGAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
35 36 0.78
36 10 0.22
ACGTcount: A:0.15, C:0.12, G:0.29, T:0.44
Consensus pattern (35 bp):
CATTGGTGTGTTTCAGATGGATTAACTCTTTTGAG
Found at i:35321796 original size:20 final size:20
Alignment explanation
Indices: 35321771--35321812 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
35321761 TTAAACCGGT
*
35321771 AACTTAGGAAAATTTTACAA
1 AACTTAGAAAAATTTTACAA
35321791 AACTTAGAAAAATTTTACAA
1 AACTTAGAAAAATTTTACAA
35321811 AA
1 AA
35321813 TACAAGGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.29
Consensus pattern (20 bp):
AACTTAGAAAAATTTTACAA
Found at i:35324891 original size:48 final size:49
Alignment explanation
Indices: 35324829--35325141 Score: 142
Period size: 46 Copynumber: 6.7 Consensus size: 49
35324819 GCACATCAAA
* *
35324829 GTCGACGCCATGTCCTAGACAGGTCTTACATTAACT-TCATATATCGAG-
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTAACTCTCATATATCG-GT
* * * * ** *
35324877 G-CTGATGTCGTGTCCCAGGCAGGTCTTACACTGGCTCTCATCTATCGGT
1 GTC-GATGCCATGTCCTAGACAGGTCTTACACTAACTCTCATATATCGGT
* * * * *
35324926 GTCGATGCCATGTCCTAGACAGGTCTTACAGTAACACACA-ACAAC---
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTAACTCTCATATATCGGT
* * * *
35324971 CT-GACGCCATGTCCTAGACAGGTCTTACACTAGCT-T-GTATATCTTGAG-
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTAACTCTCATATATC--G-GT
* * * * * * * **
35325019 GCCAATG-CATGTCCCAGACATGTCTTACACTAGCTCTC--GTCTCAAT
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTAACTCTCATATATCGGT
* * **
35325065 GCCGATG-CATGTCCTAGACATGTCTTACACTGGCTCTCATA-AT--GT
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTAACTCTCATATATCGGT
* *
35325110 GGTCCATG-CATGTCCTAGACATGTCTTACACT
1 -GTCGATGCCATGTCCTAGACAGGTCTTACACT
35325142 GGCTCACATA
Statistics
Matches: 200, Mismatches: 48, Indels: 36
0.70 0.17 0.13
Matches are distributed among these distances:
43 3 0.01
44 29 0.14
45 2 0.01
46 64 0.32
47 2 0.01
48 58 0.29
49 41 0.20
50 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCTAGACAGGTCTTACACTAACTCTCATATATCGGT
Found at i:35325045 original size:141 final size:138
Alignment explanation
Indices: 35324832--35325093 Score: 339
Period size: 141 Copynumber: 1.9 Consensus size: 138
35324822 CATCAAAGTC
* ** * *
35324832 GACGCCATGTCCTAGACAGGTCTTACATTAACTTCATATATCGAGGCTGATGTCGTGTCCCAGGC
1 GACGCCATGTCCTAGACAGGTCTTACACTAACTTCATATATCGAGGCCAATGTCATGTCCCAGAC
* ** *
35324897 AGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCCTAGACAGGTCTTACAGTAACA
66 AGGTCTTACACTAGCTCTCATC--TCAATGCCGATG-CATGTCCTAGACAGGTCTTACAGTAACA
35324962 CACAACAACCT
128 CACAACAACCT
* *
35324973 GACGCCATGTCCTAGACAGGTCTTACACTAGCTT-GTATATCTTGAGGCCAATG-CATGTCCCAG
1 GACGCCATGTCCTAGACAGGTCTTACACTAACTTCATATATC--GAGGCCAATGTCATGTCCCAG
* * *
35325036 ACATGTCTTACACTAGCTCTCGTCTCAATGCCGATGCATGTCCTAGACATGTCTTACA
64 ACAGGTCTTACACTAGCTCTCATCTCAATGCCGATGCATGTCCTAGACAGGTCTTACA
35325094 CTGGCTCTCA
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
138 21 0.20
139 9 0.09
140 6 0.06
141 61 0.58
142 8 0.08
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (138 bp):
GACGCCATGTCCTAGACAGGTCTTACACTAACTTCATATATCGAGGCCAATGTCATGTCCCAGAC
AGGTCTTACACTAGCTCTCATCTCAATGCCGATGCATGTCCTAGACAGGTCTTACAGTAACACAC
AACAACCT
Found at i:35325092 original size:94 final size:92
Alignment explanation
Indices: 35324978--35325146 Score: 225
Period size: 92 Copynumber: 1.8 Consensus size: 92
35324968 AACCTGACGC
* *
35324978 CATGTCCTAGACAGGTCTTACACTAGCT-T-GTATATCTTGAGGCCAATGCATGTCCCAGACATG
1 CATGTCCTAGACAGGTCTTACACTAGCTCTCATA-AT-GTG-GGCC-ATGCATGTCCCAGACATG
35325041 TCTTACACTAGCTCTCGTCTCAATGCCGATG
62 TCTTACACTAGCTCTCGTCTCAATGCCGATG
* * * *
35325072 CATGTCCTAGACATGTCTTACACTGGCTCTCATAATGTGGTCCATGCATGTCCTAGACATGTCTT
1 CATGTCCTAGACAGGTCTTACACTAGCTCTCATAATGTGGGCCATGCATGTCCCAGACATGTCTT
*
35325137 ACACTGGCTC
66 ACACTAGCTC
35325147 ACATACCACC
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
92 30 0.45
93 3 0.05
94 28 0.42
95 3 0.05
96 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (92 bp):
CATGTCCTAGACAGGTCTTACACTAGCTCTCATAATGTGGGCCATGCATGTCCCAGACATGTCTT
ACACTAGCTCTCGTCTCAATGCCGATG
Found at i:35325904 original size:29 final size:29
Alignment explanation
Indices: 35325862--35325920 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
35325852 TAAAATTCAG
*
35325862 CAAACAACATAAATCTTTTCATGGAAAAT
1 CAAACAACATAAATATTTTCATGGAAAAT
35325891 CAAACAACATAAATATTTTCATGGAAAAT
1 CAAACAACATAAATATTTTCATGGAAAAT
35325920 C
1 C
35325921 CCTATACTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.27
Consensus pattern (29 bp):
CAAACAACATAAATATTTTCATGGAAAAT
Found at i:35331451 original size:14 final size:14
Alignment explanation
Indices: 35331432--35331460 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35331422 GACTCAGTTT
35331432 ACCCTTGCTACAGA
1 ACCCTTGCTACAGA
35331446 ACCCTTGCTACAGA
1 ACCCTTGCTACAGA
35331460 A
1 A
35331461 TCTAAGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.34, G:0.14, T:0.21
Consensus pattern (14 bp):
ACCCTTGCTACAGA
Found at i:35338617 original size:10 final size:10
Alignment explanation
Indices: 35338602--35338629 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
35338592 ACAAAATTTG
35338602 TAAAACAAAT
1 TAAAACAAAT
35338612 TAAAACAAAT
1 TAAAACAAAT
35338622 TAAAACAA
1 TAAAACAA
35338630 GAGATTGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (10 bp):
TAAAACAAAT
Found at i:35344272 original size:47 final size:46
Alignment explanation
Indices: 35344212--35344467 Score: 159
Period size: 47 Copynumber: 5.5 Consensus size: 46
35344202 ATAGCCCATA
*
35344212 TAAGACCACGTCTGGGACATGGCATCGGCGTAGAGATGAGTGCTAGTG
1 TAAGACCATGTCTGGGACAT-GCATCGGC-TAGAGATGAGTGCTAGTG
* * * *
35344260 TAAGA-CATGTCTGGGACATGCATCGGATTCGATGATGA-TAGCCAATG
1 TAAGACCATGTCTGGGACATGCATCGG-CTAGA-GATGAGT-GCTAGTG
* * * ** * *
35344307 TAA-AACGTGTATGATACATGCATCGGCTA-AGTTTCA-TGCTAGTG
1 TAAGACCATGTCTGGGACATGCATCGGCTAGAG-ATGAGTGCTAGTG
* * * *
35344351 TAAGA-CATGTCTGGGACATGCATCAGC-ACGCATACCGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGCATCGGCTA-G-AGA-TGAGTGCTAGTG
* * * *
35344398 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAG-GTAGCCAGCG
1 TAAGACCATGTCTGGGACAT-GCATCGG-CTAGA-GATGAGT-GCTAGTG
35344447 TAAGACCATGTCTGGGACATG
1 TAAGACCATGTCTGGGACATG
35344468 GCAGCGGCAA
Statistics
Matches: 159, Mismatches: 32, Indels: 34
0.71 0.14 0.15
Matches are distributed among these distances:
43 1 0.01
44 26 0.16
45 5 0.03
46 15 0.09
47 55 0.35
48 21 0.13
49 33 0.21
50 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
TAAGACCATGTCTGGGACATGCATCGGCTAGAGATGAGTGCTAGTG
Found at i:35345994 original size:68 final size:69
Alignment explanation
Indices: 35345868--35346001 Score: 198
Period size: 68 Copynumber: 2.0 Consensus size: 69
35345858 TGGCCTCCTA
* * *
35345868 GTAGTCTGTTGGAACAGTAAACATAAGGAAACATAAGGTGTAAAACCATTGTTGGACTATGGCCA
1 GTAGTCTGTCGGAACAGTAAACATAAGGAAACATAAGGTGTAAAACCATAGCTGGACTATGGCCA
35345933 CAGT
66 CAGT
* * * *
35345937 GTAGTCTGTCGGGACAGTAAACAT-GGGAAACGTAAGGTGTAAGACCATAGCTGGACTATGGCCA
1 GTAGTCTGTCGGAACAGTAAACATAAGGAAACATAAGGTGTAAAACCATAGCTGGACTATGGCCA
35346001 C
66 C
35346002 CAACATAGTC
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
68 36 0.62
69 22 0.38
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (69 bp):
GTAGTCTGTCGGAACAGTAAACATAAGGAAACATAAGGTGTAAAACCATAGCTGGACTATGGCCA
CAGT
Found at i:35353692 original size:35 final size:35
Alignment explanation
Indices: 35353647--35353730 Score: 141
Period size: 35 Copynumber: 2.4 Consensus size: 35
35353637 TCTTCGGAGC
35353647 CATTGGTGTGTTTCAGATGGATTAACTCTTTTGAG
1 CATTGGTGTGTTTCAGATGGATTAACTCTTTTGAG
* *
35353682 CATTGGTGTGTTTCGGATGGATTAGCTCTTTTGAG
1 CATTGGTGTGTTTCAGATGGATTAACTCTTTTGAG
35353717 CATCTGGTGTGTTT
1 CAT-TGGTGTGTTT
35353731 ATGTTGGAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
35 36 0.78
36 10 0.22
ACGTcount: A:0.15, C:0.12, G:0.29, T:0.44
Consensus pattern (35 bp):
CATTGGTGTGTTTCAGATGGATTAACTCTTTTGAG
Found at i:35354560 original size:20 final size:20
Alignment explanation
Indices: 35354535--35354576 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
35354525 TTAAACCGGT
*
35354535 AACTTAGGAAAATTTTACAA
1 AACTTAGAAAAATTTTACAA
35354555 AACTTAGAAAAATTTTACAA
1 AACTTAGAAAAATTTTACAA
35354575 AA
1 AA
35354577 TATAAGGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.29
Consensus pattern (20 bp):
AACTTAGAAAAATTTTACAA
Found at i:35357606 original size:29 final size:29
Alignment explanation
Indices: 35357564--35357622 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
35357554 TAAAATTCAG
* *
35357564 CAAACAACATAAATCTTTTCATGGCAAAT
1 CAAACAACATAAATATTTTCATGGAAAAT
35357593 CAAACAACATAAATATTTTCATGGAAAAT
1 CAAACAACATAAATATTTTCATGGAAAAT
35357622 C
1 C
35357623 CCTATACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.19, G:0.07, T:0.27
Consensus pattern (29 bp):
CAAACAACATAAATATTTTCATGGAAAAT
Found at i:35364893 original size:2 final size:2
Alignment explanation
Indices: 35364888--35364923 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
35364878 GCTATATATA
*
35364888 TG TG TG TG CG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
35364924 GCACTTAGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.03, G:0.50, T:0.47
Consensus pattern (2 bp):
TG
Found at i:35366981 original size:45 final size:45
Alignment explanation
Indices: 35366912--35367038 Score: 220
Period size: 45 Copynumber: 2.8 Consensus size: 45
35366902 TATACGCTTA
*
35366912 AAATGAGTAAGACCGT-AGCTGAAAGATGCAATGGCATCATGATAT
1 AAATGAGTAAGACCGTGATC-GAAAGATGCAATGGCATCATGATAT
35366957 AAATGAGTAAGACCGTGATCGAAAGATGCAATGGCATCATGATAT
1 AAATGAGTAAGACCGTGATCGAAAGATGCAATGGCATCATGATAT
*
35367002 AAATGAGTAAGACCGTGATCGAAAGATGCTATGGCAT
1 AAATGAGTAAGACCGTGATCGAAAGATGCAATGGCAT
35367039 TATGGTAAGC
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
45 77 0.97
46 2 0.03
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.22
Consensus pattern (45 bp):
AAATGAGTAAGACCGTGATCGAAAGATGCAATGGCATCATGATAT
Found at i:35367020 original size:21 final size:21
Alignment explanation
Indices: 35366951--35367020 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
35366941 AATGGCATCA
35366951 TGATATAAATGAGTAAGACCG
1 TGATATAAATGAGTAAGACCG
** * * *
35366972 TGATCGAAA-GATGCAATGGCATCA
1 TGATATAAATGA-GTAA--G-ACCG
35366996 TGATATAAATGAGTAAGACCG
1 TGATATAAATGAGTAAGACCG
35367017 TGAT
1 TGAT
35367021 CGAAAGATGC
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
20 2 0.06
21 16 0.47
22 1 0.03
23 1 0.03
24 12 0.35
25 2 0.06
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.24
Consensus pattern (21 bp):
TGATATAAATGAGTAAGACCG
Found at i:35367058 original size:45 final size:45
Alignment explanation
Indices: 35366912--35367086 Score: 187
Period size: 45 Copynumber: 3.9 Consensus size: 45
35366902 TATACGCTTA
* * *
35366912 AAATGAGTAAGACCGT-AGCTGAAAGATGCAATGGCATCATGATAT
1 AAATGACTAAGACCGTGATC-GAAAGATGCTATGGCATCATGATAT
* *
35366957 AAATGAGTAAGACCGTGATCGAAAGATGCAATGGCATCATGATAT
1 AAATGACTAAGACCGTGATCGAAAGATGCTATGGCATCATGATAT
* * *
35367002 AAATGAGTAAGACCGTGATCGAAAGATGCTATGGCATTATGGTA-
1 AAATGACTAAGACCGTGATCGAAAGATGCTATGGCATCATGATAT
* * *
35367046 AGCA-GAACTAAGACCAT-AGCTGAAAGATGCTATGGCATCAT
1 A-AATG-ACTAAGACCGTGATC-GAAAGATGCTATGGCATCAT
35367087 AGTAGCCCGT
Statistics
Matches: 117, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
44 4 0.03
45 111 0.95
46 2 0.02
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (45 bp):
AAATGACTAAGACCGTGATCGAAAGATGCTATGGCATCATGATAT
Found at i:35367188 original size:69 final size:69
Alignment explanation
Indices: 35367095--35367310 Score: 247
Period size: 68 Copynumber: 3.1 Consensus size: 69
35367085 ATAGTAGCCC
* * * * * *
35367095 GTCGGGACAGTAAACACTGGGAAACATAAGGTGTAAGACCGTAGTTGGGCTATGGCCACCAGTGT
1 GTCGGGACAGTAAAAAC-GAGAAACGTAAGGTGTAAGACCATAGTTGGACTATGGCCACTAGTGT
35367160 AGTCT
65 AGTCT
* * * *
35367165 GTCGAGACAGTAAAAACGAGAAACGTAAGGTGTAAGGCCATAGTTGGACTATGGACTCTAGTGTA
1 GTCGGGACAGTAAAAACGAGAAACGTAAGGTGTAAGACCATAGTTGGACTATGGCCACTAGTGTA
35367230 GT-T
66 GTCT
* * * * * * *
35367233 CATCGGGATAGT-AAAACAAGAAATGTAAGGTGTATGACCATAGTTAGACTATAGCCACTAGTGT
1 -GTCGGGACAGTAAAAACGAGAAACGTAAGGTGTAAGACCATAGTTGGACTATGGCCACTAGTGT
35367297 AGTCT
65 AGTCT
35367302 GTCGGGACA
1 GTCGGGACA
35367311 ATAATACAGG
Statistics
Matches: 121, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
68 55 0.45
69 51 0.42
70 15 0.12
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (69 bp):
GTCGGGACAGTAAAAACGAGAAACGTAAGGTGTAAGACCATAGTTGGACTATGGCCACTAGTGTA
GTCT
Found at i:35367277 original size:68 final size:70
Alignment explanation
Indices: 35367115--35367299 Score: 214
Period size: 69 Copynumber: 2.7 Consensus size: 70
35367105 TAAACACTGG
* * * * *
35367115 GAAACATAAGGTGTAAGACCGTAGTTGGGCTATGGCCACCAGTGTAG-TCTGTCGAGACAGTAAA
1 GAAACGTAAGGTGTAAGACCATAGTTGGACTATGGCCACTAGTGTAGTTCTATCGAGACAGTAAA
*
35367179 AACGA
66 AACAA
* * * * *
35367184 GAAACGTAAGGTGTAAGGCCATAGTTGGACTATGGACTCTAGTGTAGTTC-ATCGGGATAGT-AA
1 GAAACGTAAGGTGTAAGACCATAGTTGGACTATGGCCACTAGTGTAGTTCTATCGAGACAGTAAA
35367247 AACAA
66 AACAA
* * * *
35367252 GAAATGTAAGGTGTATGACCATAGTTAGACTATAGCCACTAGTGTAGT
1 GAAACGTAAGGTGTAAGACCATAGTTGGACTATGGCCACTAGTGTAGT
35367300 CTGTCGGGAC
Statistics
Matches: 97, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
68 47 0.48
69 48 0.49
70 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.24
Consensus pattern (70 bp):
GAAACGTAAGGTGTAAGACCATAGTTGGACTATGGCCACTAGTGTAGTTCTATCGAGACAGTAAA
AACAA
Found at i:35367474 original size:54 final size:54
Alignment explanation
Indices: 35367331--35367476 Score: 157
Period size: 54 Copynumber: 2.6 Consensus size: 54
35367321 GTTGTATTGT
* * * *
35367331 GTAAGACCATAGCTGAAAGATGTTATCGTATCAAGAGATGAAATGAAAATAAAATGA
1 GTAAGACCATGGCTGAAAGATGTTATGGCATC---ATATGAAATGAAAATAAAATGA
* *** * * *
35367388 GTAAGACCATGGCTAAAAGACACTATGACATCATATGAATTGACAATAAAATGA
1 GTAAGACCATGGCTGAAAGATGTTATGGCATCATATGAAATGAAAATAAAATGA
*
35367442 GTAAGACCATGGTTGAAAGATGTTATGGCATCATA
1 GTAAGACCATGGCTGAAAGATGTTATGGCATCATA
35367477 GAGAGTTTGA
Statistics
Matches: 72, Mismatches: 17, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
54 48 0.67
57 24 0.33
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.24
Consensus pattern (54 bp):
GTAAGACCATGGCTGAAAGATGTTATGGCATCATATGAAATGAAAATAAAATGA
Found at i:35371224 original size:47 final size:47
Alignment explanation
Indices: 35371173--35371800 Score: 896
Period size: 47 Copynumber: 13.1 Consensus size: 47
35371163 TTAGGATTTT
* *
35371173 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGTCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
35371220 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
35371267 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
35371314 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
*
35371365 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGTCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
35371412 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
****
35371459 ATGTGATGAATGTGAACCCGTAAATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
35371510 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
35371557 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
35371610 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
35371657 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
35371704 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
35371751 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
35371798 ATG
1 ATG
35371801 CGGAACGTGA
Statistics
Matches: 526, Mismatches: 41, Indels: 28
0.88 0.07 0.05
Matches are distributed among these distances:
47 393 0.75
48 1 0.00
49 4 0.01
51 85 0.16
52 1 0.00
53 42 0.08
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:35371361 original size:145 final size:144
Alignment explanation
Indices: 35371195--35371800 Score: 918
Period size: 145 Copynumber: 4.2 Consensus size: 144
35371185 TGAACATGCG
*
35371195 TATGTGTGATAAGTCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
* * *
35371260 ATGGCCACTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
66 ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
35371325 GTGAACCCGTATATA
131 GTGAACCCG-ATATA
35371340 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
* * * *
35371405 ATGTCCACTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
66 ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
*
35371470 GTGAACCCGTAAATA
131 GTGAACCCG-ATATA
35371485 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
** *
35371550 ATGGCCAATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTG
66 ATGGCCAATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCAATGTG
***
35371615 ATGAATGTGAA--C-ATGCG
125 ATGAATGTGAACCCGATATA
35371632 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
* *
35371697 ATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAAT
66 ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
**
35371762 GTGAACATGA-ATA
131 GTGAACCCGATATA
*
35371775 TATGTG-G-TAAGGCCGAATGGCTAATG
1 TATGTGTGATAAGGCCGAATGGCCAATG
35371801 CGGAACGTGA
Statistics
Matches: 428, Mismatches: 24, Indels: 22
0.90 0.05 0.05
Matches are distributed among these distances:
141 59 0.14
142 1 0.00
143 6 0.01
144 1 0.00
145 227 0.53
146 2 0.00
147 89 0.21
149 1 0.00
151 42 0.10
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (144 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
GTGAACCCGATATA
Found at i:35371514 original size:24 final size:24
Alignment explanation
Indices: 35371486--35371561 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
35371476 CCGTAAATAT
35371486 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
35371510 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
35371533 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
35371557 ATGTG
1 ATGTG
35371562 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:35371637 original size:23 final size:23
Alignment explanation
Indices: 35371610--35371684 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
35371600 CGAATGGCCA
35371610 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
35371633 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
35371657 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
35371680 ATGTG
1 ATGTG
35371685 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:35372154 original size:37 final size:37
Alignment explanation
Indices: 35372009--35372153 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
35371999 GGAAATATAT
35372009 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
35372046 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
35372083 TTCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
35372120 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
35372154 TCGTCTGAGC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:35375904 original size:28 final size:29
Alignment explanation
Indices: 35375840--35375939 Score: 148
Period size: 29 Copynumber: 3.5 Consensus size: 29
35375830 GAAAGCATGT
35375840 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
35375869 ATATGAATGTGATTTGGGCC-AATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * * *
35375897 ATACGAATGTGATTTTGGCCTAATAGACC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
35375926 ATATGAATGAGATT
1 ATATGAATGTGATT
35375940 GGGTCATATG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
28 26 0.41
29 38 0.59
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:35375932 original size:57 final size:57
Alignment explanation
Indices: 35375844--35375952 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 57
35375834 GCATGTATAT
* * *
35375844 GAATGTGATTTGGGCCTAATGGGCCATATGAATGTGATTTGGGCCA-ATGGGCCATAC
1 GAATGTGATTTGGGCCTAATAGACCATATGAATGAGA-TTGGGCCATATGGGCCATAC
* *
35375901 GAATGTGATTTTGGCCTAATAGACCATATGAATGAGATTGGGTCATATGGGC
1 GAATGTGATTTGGGCCTAATAGACCATATGAATGAGATTGGGCCATATGGGC
35375953 TATATGCATG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 7 0.15
57 39 0.85
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (57 bp):
GAATGTGATTTGGGCCTAATAGACCATATGAATGAGATTGGGCCATATGGGCCATAC
Found at i:35400506 original size:47 final size:46
Alignment explanation
Indices: 35400395--35400565 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
35400385 ACTTGTGTGA
*
35400395 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACATT--ATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGG---CATTGAATGAGT
* * *
35400441 GCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAACGAGT
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTG-AATGAGT
* *
35400489 GCTAGTGTAAGA-TATGTCTGGGACATGCATCGGC-TATGAGATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCAT-TGA-ATGAGT
35400535 -C-AGTGTAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATC
35400566 CGCACAGATA
Statistics
Matches: 106, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
44 9 0.08
45 20 0.19
46 29 0.27
47 27 0.25
48 21 0.20
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAATGAGT
Found at i:35407264 original size:13 final size:13
Alignment explanation
Indices: 35407246--35407271 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35407236 GGGAAGAAAT
35407246 CATAGAAGATTTG
1 CATAGAAGATTTG
35407259 CATAGAAGATTTG
1 CATAGAAGATTTG
35407272 TAATCTTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
CATAGAAGATTTG
Found at i:35408789 original size:11 final size:11
Alignment explanation
Indices: 35408775--35408806 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
35408765 TTATAAACAT
35408775 ATAAAATATAA
1 ATAAAATATAA
35408786 ATAAAATA-AA
1 ATAAAATATAA
35408796 ATAAAA-ATAA
1 ATAAAATATAA
35408806 A
1 A
35408807 GATATTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 1 0.05
10 11 0.55
11 8 0.40
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
ATAAAATATAA
Found at i:35409086 original size:21 final size:20
Alignment explanation
Indices: 35409062--35409130 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 20
35409052 ACATAAAATT
35409062 TATAAACAAAATATATAATGA
1 TATAAACAAAATATATAAT-A
* *
35409083 TATAGACAATATGATAGATAATA
1 TATAAACAA-A--ATATATAATA
*
35409106 TATAAA-ATAATATAT-ATA
1 TATAAACAAAATATATAATA
35409124 TAGTAAA
1 TA-TAAA
35409131 ATATATGTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
18 5 0.13
19 9 0.23
21 9 0.23
22 2 0.05
23 6 0.15
24 8 0.21
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (20 bp):
TATAAACAAAATATATAATA
Found at i:35409150 original size:7 final size:7
Alignment explanation
Indices: 35409071--35409181 Score: 57
Period size: 7 Copynumber: 14.9 Consensus size: 7
35409061 TTATAAACAA
35409071 AATATAT
1 AATATAT
35409078 AATGATAT
1 AAT-ATAT
*
35409086 AGACAATAT
1 A-A-TATAT
* *
35409095 GATAGAT
1 AATATAT
35409102 AATATAT
1 AATATAT
35409109 AA-A-AT
1 AATATAT
35409114 AATATAT
1 AATATAT
*
35409121 ATATAGTAA
1 A-ATA-TAT
35409130 AATATATGT
1 AATATA--T
35409139 AATATA-
1 AATATAT
35409145 ATATATAAT
1 A-ATAT-AT
*
35409154 AATGTAT
1 AATATAT
35409161 AATAATAT
1 AAT-ATAT
*
35409169 AATAAAT
1 AATATAT
35409176 AATATA
1 AATATA
35409182 CAAAGATAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 26
0.68 0.10 0.22
Matches are distributed among these distances:
5 4 0.05
6 3 0.04
7 35 0.44
8 22 0.28
9 15 0.19
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (7 bp):
AATATAT
Found at i:35409161 original size:10 final size:10
Alignment explanation
Indices: 35409071--35409181 Score: 61
Period size: 10 Copynumber: 10.6 Consensus size: 10
35409061 TTATAAACAA
35409071 AATATATAAT
1 AATATATAAT
* * *
35409081 GATATA-GAC
1 AATATATAAT
35409090 AATATGATAGAT
1 AATAT-ATA-AT
35409102 AATATATAA-
1 AATATATAAT
35409111 AATA-AT-AT
1 AATATATAAT
35409119 ATATATAGTAA-
1 A-ATATA-TAAT
35409130 AATATATGTAATAT
1 AATATA--T-A-AT
35409144 AATATATAAT
1 AATATATAAT
*
35409154 AATGTATAAT
1 AATATATAAT
35409164 AATATAATAAAT
1 AATAT-AT-AAT
35409176 AATATA
1 AATATA
35409182 CAAAGATAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 27
0.69 0.07 0.24
Matches are distributed among these distances:
7 1 0.01
8 3 0.04
9 12 0.15
10 28 0.35
11 11 0.14
12 17 0.22
13 1 0.01
14 6 0.08
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (10 bp):
AATATATAAT
Found at i:35409172 original size:30 final size:30
Alignment explanation
Indices: 35409096--35409181 Score: 83
Period size: 30 Copynumber: 2.9 Consensus size: 30
35409086 AGACAATATG
*
35409096 ATAG-ATAAT-ATATAAAATAATATAT-AT
1 ATAGTATAATAATATAATATAATATATAAT
* *
35409123 ATAGTAAAATATATGTAATATAATATATAAT
1 ATAGTATAATA-ATATAATATAATATATAAT
35409154 A-ATGTATAATAATATAATA-AATAATATA
1 ATA-GTATAATAATATAATATAAT-ATATA
35409182 CAAAGATAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
27 4 0.08
28 4 0.08
29 3 0.06
30 27 0.56
31 10 0.21
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (30 bp):
ATAGTATAATAATATAATATAATATATAAT
Found at i:35410849 original size:44 final size:44
Alignment explanation
Indices: 35410784--35411300 Score: 700
Period size: 44 Copynumber: 11.8 Consensus size: 44
35410774 AGCTGAAATG
*
35410784 TTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* *
35410828 TTCAATCTGCTCTCTGGCAATACAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* *
35410872 TTCGATCTACTCTCTGGCAATACAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * *
35410916 TTTGATCGGCTCTCTGACAATACAGAGACGTCAAATCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* *
35410960 TTCGATCTGCTCTCTAACAATACAGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
35411004 TTCGATCTGCTCTCTGGCAATACAGAGACGTCAAATCTGCTATT
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
35411048 TTCGACCTGCTCTCTGACAATACAGAGATGCCAAATCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* *
35411092 TTTGATCTGCTCCCTGACAATACAGAGACGCCAAATCTGCTA-C
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
35411135 TTTCGA-CTTGCTCTCTAACAATACAAAGACGCCAAATCTGTTATC
1 -TTCGATC-TGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* *
35411180 TTCGATCTGCTCTCTGACAATATAGAGACGCCAAATCT-ATCATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATC
* *
35411224 TTTGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTG-TCATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATC
* * * *
35411268 TTTGGTCTGCTCTCTGTCAATACAGAGATGCCA
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCA
35411301 GATGTCACCG
Statistics
Matches: 422, Mismatches: 45, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
43 3 0.01
44 417 0.99
45 2 0.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (44 bp):
TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
Found at i:35414627 original size:39 final size:40
Alignment explanation
Indices: 35414519--35414743 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
35414509 TTGAATGATG
* * * *
35414519 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
35414559 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35414599 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
35414638 TCCGGGTTAAGTCCCGAAGGCAATTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35414678 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35414719 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35414744 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.21
40 116 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35414761 original size:80 final size:79
Alignment explanation
Indices: 35414593--35414766 Score: 219
Period size: 80 Copynumber: 2.2 Consensus size: 79
35414583 TGTGCGAGAT
* * *
35414593 ACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGG
1 ACTAAATCCGGGTTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
* *
35414658 CAATTGTACGAGTT
66 CAATTGAACGAGTG
* *
35414672 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAA
*
35414736 GGCATTTGAACGAG-G
64 GGCAATTGAACGAGTG
*
35414751 AGCTATATCC-GGTTAA
1 A-CTAAATCCGGGTTAA
35414767 ATTCTGAAGG
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
79 22 0.27
80 59 0.71
81 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
ACTAAATCCGGGTTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
CAATTGAACGAGTG
Found at i:35424627 original size:40 final size:40
Alignment explanation
Indices: 35424568--35424785 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
35424558 CGGATGGTAA
* *
35424568 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
35424608 CCGGGCTAAATCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
35424648 CTAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
35424688 CCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
35424728 CCGGGCTAAGCCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
35424768 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35424786 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 16 0.10
40 143 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:35429561 original size:16 final size:16
Alignment explanation
Indices: 35429533--35429570 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
35429523 ATAAGCAAAT
*
35429533 TATAAA-CATATAAAA
1 TATAAATCAAATAAAA
35429548 TATAAATCAAATAAAA
1 TATAAATCAAATAAAA
*
35429564 TAAAAAT
1 TATAAAT
35429571 AAAGATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (16 bp):
TATAAATCAAATAAAA
Found at i:35429920 original size:12 final size:12
Alignment explanation
Indices: 35429867--35429948 Score: 58
Period size: 12 Copynumber: 6.2 Consensus size: 12
35429857 AATATGGTAG
*
35429867 ATAATATATAAA
1 ATAATATATAAT
35429879 ATAATATATATAT
1 ATAATATATA-AT
35429892 AGTAAAATATAGGTAAT
1 A-T--AATATA--TAAT
35429909 ATAATATATAAT
1 ATAATATATAAT
*
35429921 A-ATGTATAATAAT
1 ATA-ATAT-ATAAT
*
35429934 ATAATAAATAAT
1 ATAATATATAAT
35429946 ATA
1 ATA
35429949 CAAAGATAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
11 1 0.02
12 26 0.46
13 10 0.18
14 8 0.14
16 7 0.12
17 3 0.05
18 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (12 bp):
ATAATATATAAT
Found at i:35429933 original size:25 final size:25
Alignment explanation
Indices: 35429878--35429946 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
35429868 TAATATATAA
*
35429878 AATAATAT-ATATATAGTAAAATAT
1 AATAATATAATATATAATAAAATAT
* **
35429902 AGGTAATATAATATATAATAATGTAT
1 A-ATAATATAATATATAATAAAATAT
*
35429928 AATAATATAATAAATAATA
1 AATAATATAATATATAATA
35429947 TACAAAGATA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 1 0.03
25 22 0.59
26 14 0.38
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (25 bp):
AATAATATAATATATAATAAAATAT
Found at i:35432328 original size:46 final size:47
Alignment explanation
Indices: 35432259--35432531 Score: 227
Period size: 46 Copynumber: 5.9 Consensus size: 47
35432249 TGGCTAAGGT
*
35432259 GCCGATGCCATGTCCCAGACATGGT-TTACACTGGCTCACATCTCAA
1 GCCGATGGCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
* * * * * **
35432305 GTCGATGGCATGTCCCAGTCATGGTCTTTCATTGACTTTCATCTCATA
1 GCCGATGGCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCA-A
* * * *
35432353 GCCGAT-GCATGTCCCAAACAT-GTCTTACACTGGCTTACTTCTCGAG
1 GCCGATGGCATGTCCCAGACATGGTCTTACACTGGCTCACATCTC-AA
* * * * *
35432399 GCCGAT-GCATGTCCCAGACAT-ATCTTACACTAGCCCTCGTCTCAA
1 GCCGATGGCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
* * * * * ***
35432444 TGTCGATGCCATGTCCCAGACATGGCCTTACACTGGCTCTCATAATGTG
1 -GCCGATGGCATGTCCCAGACATGGTCTTACACTGGCTCACAT-CTCAA
*
35432493 GCCGAT-GCATGTCCCAGACAT-GTCTTACACTAGCTCACA
1 GCCGATGGCATGTCCCAGACATGGTCTTACACTGGCTCACA
35432532 CACGAAGGAC
Statistics
Matches: 179, Mismatches: 41, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
45 1 0.01
46 95 0.53
47 57 0.32
48 25 0.14
49 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGGCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
Found at i:35432514 original size:140 final size:140
Alignment explanation
Indices: 35432259--35432523 Score: 338
Period size: 140 Copynumber: 1.9 Consensus size: 140
35432249 TGGCTAAGGT
* * * * *
35432259 GCCGATGCCATGTCCCAGACATGGTTTACACTGGCTCACATCTCAAGTCGATGGCATGTCCCAGT
1 GCCGATGCCATGTCCCAGACATGATTTACACTAGCCCACATCTCAAGTCGATGCCATGTCCCAGA
* * * * *
35432324 CATGGTCTTTCATTGACTTTCATCTCATAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTT
66 CATGGCCTTACACTGACTCTCATATCATAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTT
35432389 ACTTCTCGAG
131 ACTTCTCGAG
* *
35432399 GCCGATG-CATGTCCCAGACAT-ATCTTACACTAGCCCTCGTCTCAATGTCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGAT-TTACACTAGCCCACATCTCAA-GTCGATGCCATGTCCCA
* * * *
35432462 GACATGGCCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACACT
64 GACATGGCCTTACACTGACTCTCAT-ATCATAGCCGATGCATGTCCCAAACATGTCTTACACT
35432524 AGCTCACACA
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
138 1 0.01
139 31 0.29
140 73 0.69
141 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (140 bp):
GCCGATGCCATGTCCCAGACATGATTTACACTAGCCCACATCTCAAGTCGATGCCATGTCCCAGA
CATGGCCTTACACTGACTCTCATATCATAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTT
ACTTCTCGAG
Found at i:35437302 original size:47 final size:49
Alignment explanation
Indices: 35437179--35437307 Score: 145
Period size: 47 Copynumber: 2.6 Consensus size: 49
35437169 TCGTCCATTC
* * * *
35437179 GAAACACTATTTGTGGACAAGCCACCACTGATTTACAGATAAACTGGCATT
1 GAAACAC--TTTGTGGACAAGCCACCACTGATATACAAATAAACTGCCACT
* * **
35437230 GATAACATTTTGTGGACAAGCCACCA-TG-TATGCAAATATGCTGCCACT
1 GA-AACACTTTGTGGACAAGCCACCACTGATATACAAATAAACTGCCACT
35437278 GAAACACTTTGTGGACAAGCCACCACTGAT
1 GAAACACTTTGTGGACAAGCCACCACTGAT
35437308 TTATAGAAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
47 22 0.33
48 17 0.26
49 3 0.05
50 18 0.27
51 2 0.03
52 4 0.06
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (49 bp):
GAAACACTTTGTGGACAAGCCACCACTGATATACAAATAAACTGCCACT
Found at i:35439411 original size:17 final size:17
Alignment explanation
Indices: 35439372--35439421 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
35439362 TATGGAAAGT
* *
35439372 AATCATAGAATATTAGC
1 AATCTTAGAATATTTGC
*
35439389 AATCTTAGAATATTTGT
1 AATCTTAGAATATTTGC
* *
35439406 AGTCTTAGAAGATTTG
1 AATCTTAGAATATTTG
35439422 ATTCTGTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (17 bp):
AATCTTAGAATATTTGC
Found at i:35445979 original size:3 final size:3
Alignment explanation
Indices: 35445971--35445995 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
35445961 ATACAAAGTA
35445971 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
35445996 TTATTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:35450117 original size:69 final size:71
Alignment explanation
Indices: 35450035--35450169 Score: 177
Period size: 69 Copynumber: 1.9 Consensus size: 71
35450025 ATATGTGAGG
* * * * * * *
35450035 TTATATTGAACTTGTATATTTGGTTACATGTGA-GGTTATATTGAATTTGTATA-TCGGCCATAT
1 TTATATTGAACTTGAACATTAGGTTACATGTAATGATT-TATTGAACTTATATATTCGGCCATAT
35450098 GACATGT
65 GACATGT
35450105 TTAT-TTGAACTTGAACATTAGGTTACATGTAATGATTTATTGAACTTATATATTCGGCCATATG
1 TTATATTGAACTTGAACATTAGGTTACATGTAATGATTTATTGAACTTATATATTCGGCCATATG
35450169 A
66 A
35450170 AATAATATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
69 37 0.66
70 19 0.34
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.43
Consensus pattern (71 bp):
TTATATTGAACTTGAACATTAGGTTACATGTAATGATTTATTGAACTTATATATTCGGCCATATG
ACATGT
Found at i:35454773 original size:45 final size:45
Alignment explanation
Indices: 35454707--35455108 Score: 572
Period size: 45 Copynumber: 8.9 Consensus size: 45
35454697 GATTATCATT
*
35454707 TCACCGGCATTATAGCCTGCTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATCATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATC
* * * * *
35454752 TTACCGACATTATAGCGTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
35454797 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * * *
35454842 TCACCGACATCATAGCCTGCTAGGTTCAAAGGCCCTAATAATATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * * * *
35454887 TCACCAGCATCATAACCTGCTAGGCTCAAAGGTCCAAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
35454932 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * *
35454977 TCACCGGCATCTTAGCCTGCTAGGCTCAAAGGCCCGAACAATATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
35455022 TCACCGGCATCATAGCCTACTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
35455067 TCACCGGTATCATAGCCTGCTACGCTCAAAGGCCCGAATAGT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
35455109 CAAATCAACG
Statistics
Matches: 317, Mismatches: 39, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
44 3 0.01
45 314 0.99
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:35468483 original size:91 final size:91
Alignment explanation
Indices: 35468325--35468548 Score: 281
Period size: 91 Copynumber: 2.5 Consensus size: 91
35468315 AATACTATAG
* * * * *
35468325 TAATACACAAATTGATAGTTCATGTACTACATTGGA-AATTTCAAAGTATAAAATACCACATTGG
1 TAATACACAAATTGATAGTTTA-GTACCACATTAGATATTTTCAAAGTATAAAATACCACATTCG
*
35468389 ACATTTTATGGAAATACAGGTACCAAA
65 ACATTTTATGAAAATACAGGTACCAAA
* * * *
35468416 TAATACACAAATTAATAGTTTAGGTACCACTTTAGATATTTTCAAAGTA-CATATACCACATTCG
1 TAATACACAAATTGATAGTTTA-GTACCACATTAGATATTTTCAAAGTATAAAATACCACATTCG
* *
35468480 ACATTTTATGAAAATACATGTTCCAAA
65 ACATTTTATGAAAATACAGGTACCAAA
* *
35468507 TATTACACATATTGATAGTTTCAGTACCACATTAGATATTTT
1 TAATACACAAATTGATAGTTT-AGTACCACATTAGATATTTT
35468549 TAATTATAAC
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
91 102 0.89
92 12 0.11
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (91 bp):
TAATACACAAATTGATAGTTTAGTACCACATTAGATATTTTCAAAGTATAAAATACCACATTCGA
CATTTTATGAAAATACAGGTACCAAA
Found at i:35469886 original size:99 final size:99
Alignment explanation
Indices: 35469715--35469915 Score: 357
Period size: 99 Copynumber: 2.0 Consensus size: 99
35469705 AATTATTAAC
* *
35469715 CAGCATGCAATTACAATAAAGTAGTATAAAATCCAGAGGACAAGGCAAGAATGCATAGACACTCC
1 CAGCATGCAATTACAAAAAAGTAGTATAAAATCCAGAGGACAAGGCAAGAATGCATAGACACACC
*
35469780 TGTTTCTTGTGGGTGTTATGATTACAGAGAAAAA
66 TATTTCTTGTGGGTGTTATGATTACAGAGAAAAA
* *
35469814 CAGCATGCAATTACAAAAAAGTTGTATAAAATGCAGAGGACAAGGCAAGAATGCATAGACACACC
1 CAGCATGCAATTACAAAAAAGTAGTATAAAATCCAGAGGACAAGGCAAGAATGCATAGACACACC
35469879 TATTTCTTGTGGGTGTTATGATTACAGAGAAAAA
66 TATTTCTTGTGGGTGTTATGATTACAGAGAAAAA
35469913 CAG
1 CAG
35469916 AAATTCAGCA
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.23
Consensus pattern (99 bp):
CAGCATGCAATTACAAAAAAGTAGTATAAAATCCAGAGGACAAGGCAAGAATGCATAGACACACC
TATTTCTTGTGGGTGTTATGATTACAGAGAAAAA
Found at i:35472763 original size:27 final size:27
Alignment explanation
Indices: 35472722--35472817 Score: 156
Period size: 27 Copynumber: 3.6 Consensus size: 27
35472712 GTGGAGAGTG
*
35472722 TCAGATAGGCGGCACCAGTTGTGCCTA
1 TCAGATAGGCAGCACCAGTTGTGCCTA
35472749 TCAGATAGGCAGCACCAGTTGTGCCTA
1 TCAGATAGGCAGCACCAGTTGTGCCTA
*
35472776 TCAGATAGGCAGCACTAGTTGTGCCTA
1 TCAGATAGGCAGCACCAGTTGTGCCTA
* *
35472803 TCTGATAGGCGGCAC
1 TCAGATAGGCAGCAC
35472818 ACCCAGTATA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (27 bp):
TCAGATAGGCAGCACCAGTTGTGCCTA
Found at i:35472907 original size:9 final size:9
Alignment explanation
Indices: 35472895--35472932 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
35472885 AGAGAGGGAG
35472895 AAGAGAAGA
1 AAGAGAAGA
35472904 AAGA-AAGAA
1 AAGAGAAG-A
35472913 AAGAGAAGA
1 AAGAGAAGA
*
35472922 AAGAAAAGA
1 AAGAGAAGA
35472931 AA
1 AA
35472933 TGTAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
8 3 0.12
9 20 0.77
10 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (9 bp):
AAGAGAAGA
Found at i:35472918 original size:18 final size:19
Alignment explanation
Indices: 35472895--35472932 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
35472885 AGAGAGGGAG
35472895 AAGAGAAGAAAG-AAAGAA
1 AAGAGAAGAAAGAAAAGAA
35472913 AAGAGAAGAAAGAAAAGAA
1 AAGAGAAGAAAGAAAAGAA
35472932 A
1 A
35472933 TGTAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (19 bp):
AAGAGAAGAAAGAAAAGAA
Found at i:35475586 original size:64 final size:64
Alignment explanation
Indices: 35475484--35475639 Score: 253
Period size: 64 Copynumber: 2.5 Consensus size: 64
35475474 TGAGCTCATG
* * * *
35475484 TAATTTATATAA-A-AAATTATATTATAAAGTTTGTTCCAATTAAATTATGGTTGTAATGTATT
1 TAATTTATATAACATAATTTATATTACAAAGTTTGCTCCAATTAAATTATGATTGTAATGTATT
*
35475546 TAATTTATATAACATAATTTATATTACAAAGTTTGCTCCAATTAGATTATGATTGTAATGTATT
1 TAATTTATATAACATAATTTATATTACAAAGTTTGCTCCAATTAAATTATGATTGTAATGTATT
35475610 TAATTTATATAACATAATTTATATTACAAA
1 TAATTTATATAACATAATTTATATTACAAA
35475640 ACTAAGTTTG
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
62 12 0.14
63 1 0.01
64 74 0.85
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.46
Consensus pattern (64 bp):
TAATTTATATAACATAATTTATATTACAAAGTTTGCTCCAATTAAATTATGATTGTAATGTATT
Found at i:35476044 original size:33 final size:32
Alignment explanation
Indices: 35476007--35476168 Score: 128
Period size: 33 Copynumber: 4.9 Consensus size: 32
35475997 CTTGAGCTGG
* *
35476007 GAGGAGTGCCATACTGCGGTGGATACGACCTA
1 GAGGAGTGCTATACTGCGGTGGATACGACCGA
* * * * *
35476039 TGAGGAGTG-GAGTATTACGTTGGATACGGGCCGA
1 -GAGGAGTGCTA-TACTGCGGTGGATAC-GACCGA
* * * *
35476073 GGGGAGTGCTGTACTGCGGTGGATACGAGCTGG
1 GAGGAGTGCTATACTGCGGTGGATACGA-CCGA
* * * * *
35476106 GAGGAGTGTTGTACTACAGTGGATACAGGCCGA
1 GAGGAGTGCTATACTGCGGTGGATAC-GACCGA
35476139 GAGGAGTGCTATACTGCGGTGGATACGACC
1 GAGGAGTGCTATACTGCGGTGGATACGACC
35476169 CAAAGATATC
Statistics
Matches: 97, Mismatches: 27, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
32 5 0.05
33 87 0.90
34 5 0.05
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.21
Consensus pattern (32 bp):
GAGGAGTGCTATACTGCGGTGGATACGACCGA
Found at i:35476129 original size:66 final size:66
Alignment explanation
Indices: 35476007--35476168 Score: 218
Period size: 66 Copynumber: 2.5 Consensus size: 66
35475997 CTTGAGCTGG
* * * *
35476007 GAGGAGTGCCATACTGCGGTGGATACGACCTATGAGGAGTGGAGTATTACGTTGGATACGGGCCG
1 GAGGAGTGCTATACTGCGGTGGATACGACCTAGGAGGAGTGGAGTACTACGTTGGATACAGGCCG
35476072 A
66 A
* * * * **
35476073 GGGGAGTGCTGTACTGCGGTGGATACGAGCTGGGAGGAGTGTTGTACTACAG-TGGATACAGGCC
1 GAGGAGTGCTATACTGCGGTGGATACGACCTAGGAGGAGTGGAGTACTAC-GTTGGATACAGGCC
35476137 GA
65 GA
35476139 GAGGAGTGCTATACTGCGGTGGATACGACC
1 GAGGAGTGCTATACTGCGGTGGATACGACC
35476169 CAAAGATATC
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
66 81 0.99
67 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.21
Consensus pattern (66 bp):
GAGGAGTGCTATACTGCGGTGGATACGACCTAGGAGGAGTGGAGTACTACGTTGGATACAGGCCG
A
Found at i:35478403 original size:110 final size:110
Alignment explanation
Indices: 35478210--35478426 Score: 337
Period size: 110 Copynumber: 2.0 Consensus size: 110
35478200 AACAAAAAAA
*
35478210 TTATATTAAAATACTAAAAATAATATGCCAATAAAAAAAACATAACATAAACGATACATAATAAA
1 TTATATTAAAATACTAAAAATAACATGCCAATAAAAAAAACATAACATAAACGATACATAATAAA
* ** * *
35478275 TATGAATATTATTATTATTATTTTAAAATGATAATAAGTAAATTT
66 AAAAAAAATTATTATTATTACTTTAAAATGATAATAAGTAAATTT
* * *
35478320 TTATATTAAAATACTAAAAATAACATGCCAATAACAAAAACATAATATAAATGATACATAATAAA
1 TTATATTAAAATACTAAAAATAACATGCCAATAAAAAAAACATAACATAAACGATACATAATAAA
35478385 AACAAAAAATT-TTATTATTACTTTAAAATGATAATAAGTAAA
66 AA-AAAAAATTATTATTATTACTTTAAAATGATAATAAGTAAA
35478427 CATTTTTGGT
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
110 92 0.95
111 5 0.05
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.32
Consensus pattern (110 bp):
TTATATTAAAATACTAAAAATAACATGCCAATAAAAAAAACATAACATAAACGATACATAATAAA
AAAAAAAATTATTATTATTACTTTAAAATGATAATAAGTAAATTT
Found at i:35478576 original size:16 final size:17
Alignment explanation
Indices: 35478543--35478578 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
35478533 TATAAAACAT
* *
35478543 AAAATAAGATTTTAAAA
1 AAAATAAAATCTTAAAA
35478560 AAAATAAAATCTTAAAA
1 AAAATAAAATCTTAAAA
35478577 AA
1 AA
35478579 TTAAAACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (17 bp):
AAAATAAAATCTTAAAA
Found at i:35481511 original size:42 final size:41
Alignment explanation
Indices: 35481452--35481553 Score: 159
Period size: 42 Copynumber: 2.4 Consensus size: 41
35481442 GTGTCGCAGG
*
35481452 CCATGTGCCAGACCGTGTAACTCTCTGAGTTGCCACAAATGA
1 CCATGTGACAG-CCGTGTAACTCTCTGAGTTGCCACAAATGA
*
35481494 CCATGTGACAGCTCGTGTAACTCTTTGAGTTGCCACAAATGA
1 CCATGTGACAGC-CGTGTAACTCTCTGAGTTGCCACAAATGA
35481536 CCATGTGACAGCCTGTGT
1 CCATGTGACAGCC-GTGT
35481554 CGCCAGGCCA
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
41 2 0.04
42 54 0.96
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (41 bp):
CCATGTGACAGCCGTGTAACTCTCTGAGTTGCCACAAATGA
Found at i:35481932 original size:36 final size:36
Alignment explanation
Indices: 35481886--35481974 Score: 153
Period size: 36 Copynumber: 2.5 Consensus size: 36
35481876 CAAGCACTTA
*
35481886 AAAG-TCACCAAATTAACACAACTTCATAATACACT
1 AAAGTTCACCAAATCAACACAACTTCATAATACACT
*
35481921 AAAGTTCACCAAATCAACACAACTTCATAATACATT
1 AAAGTTCACCAAATCAACACAACTTCATAATACACT
35481957 AAAGTTCACCAAATCAAC
1 AAAGTTCACCAAATCAAC
35481975 CATAATTTCC
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
35 4 0.08
36 47 0.92
ACGTcount: A:0.48, C:0.26, G:0.03, T:0.22
Consensus pattern (36 bp):
AAAGTTCACCAAATCAACACAACTTCATAATACACT
Found at i:35486876 original size:49 final size:49
Alignment explanation
Indices: 35486794--35486908 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 49
35486784 ATATCACACC
* * * *
35486794 AATAATATGGTCAAGCCACCTGATAGTGCAGACAAGCTGCCAAATAC-A
1 AATATTATGGTCAAGCCACCAGATAATGCAGACAAGCTACCAAATACTA
* * * *
35486842 GAATATTGTGGTCAAGCCCCCAGATAATGTAGACAAGCTACCAGATACTA
1 -AATATTATGGTCAAGCCACCAGATAATGCAGACAAGCTACCAAATACTA
*
35486892 AATATTATAGTCAAGCC
1 AATATTATGGTCAAGCC
35486909 TTTAGATTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 54 0.98
50 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (49 bp):
AATATTATGGTCAAGCCACCAGATAATGCAGACAAGCTACCAAATACTA
Found at i:35503200 original size:43 final size:43
Alignment explanation
Indices: 35503105--35503227 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 43
35503095 ATCATGATGT
* * * *
35503105 GATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATTGA
1 GATTACGTGTAAGAACATGTCTAGGACATTGGCATCGTAATGA
* *
35503148 GATTACGTGTAAGAACATGTCTGGGACATTGGCATCGTTAAT-C
1 GATTACGTGTAAGAACATGTCTAGGACATTGGCATCG-TAATGA
* * * *
35503191 GATTTCGTGTAA-AACCCTGTCTAGGATAGTGGCATCG
1 GATTACGTGTAAGAA-CATGTCTAGGACATTGGCATCG
35503228 ATATGTGTTA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 2 0.03
43 62 0.93
44 3 0.04
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTACGTGTAAGAACATGTCTAGGACATTGGCATCGTAATGA
Found at i:35504225 original size:190 final size:190
Alignment explanation
Indices: 35503902--35504283 Score: 692
Period size: 190 Copynumber: 2.0 Consensus size: 190
35503892 CCCGCGGCCA
*
35503902 ACAAACATGCCCGTGTGCTATGGCCATGTGGCACAATGCAGGCTTAGTTTAAGCTAATTTGCCAC
1 ACAAACACGCCCGTGTGCTATGGCCATGTGGCACAATGCAGGCTTAGTTTAAGCTAATTTGCCAC
* * *
35503967 CCCTTTATGGGTCATTCTTACAAGCCAAATTAAGTAGCATTCATATAAAATATTCAGCCAATTCA
66 CCCTTTATGGGTCATTCCTACAAGACAAATTAAGCAGCATTCATATAAAATATTCAGCCAATTCA
* *
35504032 TGCTCAAAACATGCTTCATTACAACTATTTAATCATCATTCAACAACTTATTCAAACCAT
131 TGCTCAAAACATGCTTCATTAAAACTATTTAATCATCATTCAACAACTCATTCAAACCAT
*
35504092 ACAAACACGCCCGTGTGCTATGGCCGTGTGGCACAATGCAGGCTTAGTTTAAGCTAATTTGCCAC
1 ACAAACACGCCCGTGTGCTATGGCCATGTGGCACAATGCAGGCTTAGTTTAAGCTAATTTGCCAC
35504157 CCCTTTATGGGTCATTCCTACAAGACAAATTAAGCAGCATTCATATAAAATATTCAGCCAATTCA
66 CCCTTTATGGGTCATTCCTACAAGACAAATTAAGCAGCATTCATATAAAATATTCAGCCAATTCA
*
35504222 TGCTCAAAACATGCTTCATTAAAACTATTTCATCATCATTCAACAACTCATTCAAACCAT
131 TGCTCAAAACATGCTTCATTAAAACTATTTAATCATCATTCAACAACTCATTCAAACCAT
35504282 AC
1 AC
35504284 CAAAACTTAA
Statistics
Matches: 184, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
190 184 1.00
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (190 bp):
ACAAACACGCCCGTGTGCTATGGCCATGTGGCACAATGCAGGCTTAGTTTAAGCTAATTTGCCAC
CCCTTTATGGGTCATTCCTACAAGACAAATTAAGCAGCATTCATATAAAATATTCAGCCAATTCA
TGCTCAAAACATGCTTCATTAAAACTATTTAATCATCATTCAACAACTCATTCAAACCAT
Found at i:35517833 original size:217 final size:217
Alignment explanation
Indices: 35517458--35517895 Score: 849
Period size: 217 Copynumber: 2.0 Consensus size: 217
35517448 ATCTCAAAAG
35517458 AATAATGATAACAAAACATAAAGAAAACCCAAAAACTCCTAAAGGAAATTGAAGGGAGATCTTTA
1 AATAATGATAACAAAACATAAAGAAAACCCAAAAACTCCTAAAGGAAATTGAAGGGAGATCTTTA
*
35517523 GTCTTGAAGGATAATCCAGCTTCTGAGATGGATCAATTGAGTTTCTTCGAGTAATTTCATGCCTC
66 GTCTTGAAGGATAATCCAGCTTCTGAGATGGATCAATTGAGTTTCTTCGAGTAATTCCATGCCTC
35517588 CTACTCTGTGTGTCTTTTCTAGGTACCTCCTGGGGTATTTATATAGGCTTTAGAATGCTTCAAAA
131 CTACTCTGTGTGTCTTTTCTAGGTACCTCCTGGGGTATTTATATAGGCTTTAGAATGCTTCAAAA
35517653 CCCTCAAGAGTGGCCTTTTCTA
196 CCCTCAAGAGTGGCCTTTTCTA
35517675 AATAATGATAACAAAACATAAAGAAAACCCAAAAACTCCTAAAGGAAATTGAAGGGAGATCTTTA
1 AATAATGATAACAAAACATAAAGAAAACCCAAAAACTCCTAAAGGAAATTGAAGGGAGATCTTTA
*
35517740 GTCTTGAAGGATAATCCAGCTTTTGAGATGGATCAATTGAGTTTCTTCGAGTAATTCCATGCCTC
66 GTCTTGAAGGATAATCCAGCTTCTGAGATGGATCAATTGAGTTTCTTCGAGTAATTCCATGCCTC
35517805 CTACTCTGTGTGTCTTTTCTAGGTACCTCCTGGGGTATTTATATAGGCTTTAGAATGCTTCAAAA
131 CTACTCTGTGTGTCTTTTCTAGGTACCTCCTGGGGTATTTATATAGGCTTTAGAATGCTTCAAAA
*
35517870 CCCTCAAGAGTGGCTTTTTCTA
196 CCCTCAAGAGTGGCCTTTTCTA
35517892 AATA
1 AATA
35517896 GGACTAGATT
Statistics
Matches: 218, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
217 218 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (217 bp):
AATAATGATAACAAAACATAAAGAAAACCCAAAAACTCCTAAAGGAAATTGAAGGGAGATCTTTA
GTCTTGAAGGATAATCCAGCTTCTGAGATGGATCAATTGAGTTTCTTCGAGTAATTCCATGCCTC
CTACTCTGTGTGTCTTTTCTAGGTACCTCCTGGGGTATTTATATAGGCTTTAGAATGCTTCAAAA
CCCTCAAGAGTGGCCTTTTCTA
Found at i:35521579 original size:10 final size:10
Alignment explanation
Indices: 35521559--35521588 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
35521549 AGAAACATTC
35521559 AAATAAACAAT
1 AAAT-AACAAT
35521570 AAATAACAAT
1 AAATAACAAT
35521580 AAATAACAA
1 AAATAACAA
35521589 GAGAATAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (10 bp):
AAATAACAAT
Found at i:35533163 original size:14 final size:13
Alignment explanation
Indices: 35533142--35533174 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
35533132 AAATATTTAA
35533142 CTTGTTCTTAATT
1 CTTGTTCTTAATT
35533155 CTGTGTTCTTAATT
1 CT-TGTTCTTAATT
35533169 CTTGTT
1 CTTGTT
35533175 TTGATATCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.61
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:35535296 original size:14 final size:13
Alignment explanation
Indices: 35535271--35535304 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
35535261 CTAGAATATT
35535271 AAAACAATAATTA
1 AAAACAATAATTA
35535284 AAAACACATAATTA
1 AAAACA-ATAATTA
*
35535298 AGAACAA
1 AAAACAA
35535305 ATCAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.68, C:0.12, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAACAATAATTA
Found at i:35560500 original size:28 final size:29
Alignment explanation
Indices: 35560469--35560528 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
35560459 GATTTTTTAC
* *
35560469 AAAAATGTCAATT-AGGGAG-TAATTTGAG
1 AAAAATGTAAATTAAGGG-GTTAAATTGAG
*
35560497 AAAAGTGTAAATTAAGGGGTTAAATTGAG
1 AAAAATGTAAATTAAGGGGTTAAATTGAG
35560526 AAA
1 AAA
35560529 TAAAAGTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.47, C:0.02, G:0.25, T:0.27
Consensus pattern (29 bp):
AAAAATGTAAATTAAGGGGTTAAATTGAG
Found at i:35564987 original size:22 final size:23
Alignment explanation
Indices: 35564959--35565004 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
35564949 GTTATGTTTT
35564959 ATTCTG-AAGAAATTAAA-TCCTA
1 ATTCTGAAAGAAA-TAAATTCCTA
35564981 ATTCTGAAAGAAATAAATTCCTA
1 ATTCTGAAAGAAATAAATTCCTA
35565004 A
1 A
35565005 AGACCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (23 bp):
ATTCTGAAAGAAATAAATTCCTA
Found at i:35570243 original size:38 final size:40
Alignment explanation
Indices: 35570031--35570252 Score: 202
Period size: 40 Copynumber: 5.6 Consensus size: 40
35570021 TTGAATGCTG
* * * * * *
35570031 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
35570071 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA-A
* * * *
35570111 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
35570151 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
35570191 TCCGGGTTAAGTCCCGAAGGCATT-GTGTG-GTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
35570229 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
35570253 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
38 29 0.19
39 5 0.03
40 111 0.72
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:35570272 original size:78 final size:80
Alignment explanation
Indices: 35570111--35570287 Score: 191
Period size: 78 Copynumber: 2.2 Consensus size: 80
35570101 AGATACAAGT
* * * *
35570111 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
35570176 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
35570191 TCCGGGTTAAGTCCCGAAGG-CATTGTGTG-GTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
35570254 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
35570269 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35570288 TATGTGATTT
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
77 16 0.20
78 40 0.49
79 7 0.09
80 19 0.23
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:35578163 original size:39 final size:40
Alignment explanation
Indices: 35577948--35578170 Score: 202
Period size: 40 Copynumber: 5.6 Consensus size: 40
35577938 TTGAATGCTG
* * * * * *
35577948 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
35577988 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA-A
* * * *
35578028 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
35578068 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
35578108 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGGGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
35578147 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
35578171 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 34 0.22
40 111 0.72
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:35578190 original size:79 final size:80
Alignment explanation
Indices: 35578028--35578205 Score: 193
Period size: 79 Copynumber: 2.2 Consensus size: 80
35578018 AGATACAAGT
* * * *
35578028 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
35578093 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* *
35578108 TCCGGGTTAAGTCCCGAAGGCATTGTGTG-G-GTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT-TGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
35578171 TGAACGAG-GAGCTATA
65 CGAACGAGTGA-CTAAA
*
35578187 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35578206 TATGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
78 16 0.19
79 40 0.48
80 23 0.28
81 4 0.05
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:35589499 original size:14 final size:15
Alignment explanation
Indices: 35589480--35589509 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
35589470 ATATTTAACT
35589480 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
35589494 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
35589509 T
1 T
35589510 TTTGATATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:35599051 original size:47 final size:47
Alignment explanation
Indices: 35599000--35599099 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 47
35598990 GATTTTATGA
*
35599000 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGT
*
35599047 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGT
35599094 GATGAA
1 GATGAA
35599100 CGTGGAAGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGT
Found at i:35599132 original size:47 final size:47
Alignment explanation
Indices: 35599000--35599139 Score: 158
Period size: 47 Copynumber: 3.0 Consensus size: 47
35598990 GATTTTATGA
* *
35599000 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAACGTGAACATGCATATATGTGAGAAGGCCGAATGGCCAATGT
* * **
35599047 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAACGTGAACATGCATATATGTGAGAAGGCCGAATGGCCAATGT
* * * *
35599094 GATGAACGTGGAA-GTGTATATATGTGGCGAA-GCCGAATGGCTAATG
1 GATGAACGT-GAACATGCATATATGT-GAGAAGGCCGAATGGCCAATG
35599140 CGAAATGTGT
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
47 75 0.93
48 6 0.07
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
GATGAACGTGAACATGCATATATGTGAGAAGGCCGAATGGCCAATGT
Found at i:35599177 original size:46 final size:46
Alignment explanation
Indices: 35599127--35599295 Score: 275
Period size: 46 Copynumber: 3.7 Consensus size: 46
35599117 GTGGCGAAGC
* *
35599127 CGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTAAAGT
1 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGA
*
35599173 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGC
1 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGA
35599219 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGA
1 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGA
* * **
35599265 CGAATGGCTAATGTGAGATATGTATGAGATG
1 CGAATGGCTAATGCGAAACGTGTATGAGATG
35599296 TGTTATATAT
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 116 1.00
ACGTcount: A:0.35, C:0.08, G:0.33, T:0.24
Consensus pattern (46 bp):
CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGA
Found at i:35608793 original size:16 final size:16
Alignment explanation
Indices: 35608771--35608807 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
35608761 AGGCAAATCT
35608771 CGAAATGCCGAAAAGC
1 CGAAATGCCGAAAAGC
* *
35608787 TGAAATGCTGAAAAGC
1 CGAAATGCCGAAAAGC
35608803 CGAAA
1 CGAAA
35608808 GTTTGGCTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (16 bp):
CGAAATGCCGAAAAGC
Found at i:35610060 original size:29 final size:29
Alignment explanation
Indices: 35609984--35610102 Score: 118
Period size: 29 Copynumber: 4.2 Consensus size: 29
35609974 TACATACATG
*
35609984 CATATGGCCCACTAGGCCC-AATCTTATT
1 CATATGGCCCACTAGGCCCAAATCATATT
* * **
35610012 CAAATGGCCCATCTA-ACCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAAATCATATT
* * *
35610041 CTTATGGCCCACTAGGCCCAATTCACATT
1 CATATGGCCCACTAGGCCCAAATCATATT
* *
35610070 GATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAAATCATATT
35610099 -ATAT
1 CATAT
35610103 TCATGCTCAC
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 20 0.27
29 53 0.73
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAAATCATATT
Found at i:35612686 original size:9 final size:9
Alignment explanation
Indices: 35612672--35612698 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
35612662 CCACGTTAGG
35612672 AGCCACGCC
1 AGCCACGCC
35612681 AGCCACGCC
1 AGCCACGCC
35612690 AGCCACGCC
1 AGCCACGCC
35612699 CTTAAAGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.56, G:0.22, T:0.00
Consensus pattern (9 bp):
AGCCACGCC
Found at i:35614592 original size:29 final size:28
Alignment explanation
Indices: 35614496--35614594 Score: 85
Period size: 29 Copynumber: 3.5 Consensus size: 28
35614486 ACCCCTACAT
*
35614496 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCACTAGGCCCAATC
** * * *
35614524 TTATTCAAATGGCCCATCT-GGCCTAGTC
1 ACATTCATATGGCCCA-CTAGGCCCAATC
*
35614552 -CATTTTCTTATGGCCCACTAGGCCCAAATC
1 ACA--TTCATATGGCCCACTAGGCCC-AATC
35614582 ACATTCATATGGC
1 ACATTCATATGGC
35614595 TTATTATGTA
Statistics
Matches: 53, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
27 1 0.02
28 21 0.40
29 26 0.49
30 3 0.06
31 2 0.04
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (28 bp):
ACATTCATATGGCCCACTAGGCCCAATC
Found at i:35616030 original size:19 final size:18
Alignment explanation
Indices: 35615991--35616033 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
35615981 ATTTATTATG
*
35615991 TTTTTGTATTTTAGCATA
1 TTTTTGTATTGTAGCATA
35616009 TTTTATGTATTGTAGC-TGA
1 TTTT-TGTATTGTAGCAT-A
35616028 TTTTTG
1 TTTTTG
35616034 AATCATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.60
Consensus pattern (18 bp):
TTTTTGTATTGTAGCATA
Found at i:35621924 original size:27 final size:27
Alignment explanation
Indices: 35621905--35622061 Score: 206
Period size: 27 Copynumber: 5.8 Consensus size: 27
35621895 ATTGCCAAAG
* *
35621905 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCATTT
*
35621932 TACCCTTAATTTACAGAATTACCATTT
1 TACCCTCAATTTACAGAATTACCATTT
* * *
35621959 TACCCTCGATTTATAGAATTGCCATTT
1 TACCCTCAATTTACAGAATTACCATTT
*
35621986 TACCCTCAATTTACAAAATTACCATTT
1 TACCCTCAATTTACAGAATTACCATTT
* *
35622013 TACCCTTAATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCATTT
** *
35622040 TACCCTTGATTTACAAAATTAC
1 TACCCTCAATTTACAGAATTAC
35622062 TAAAATACCC
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACCATTT
Found at i:35621943 original size:54 final size:54
Alignment explanation
Indices: 35621892--35622195 Score: 227
Period size: 54 Copynumber: 5.6 Consensus size: 54
35621882 CTCAATTTGT
* *
35621892 AAAATTGCCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
* *** * * * *
35621946 AGAATTACCATTTTACCCTCGATTTATAGAATTGCCATTTTACCCTCAATTTAC
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
*** ** *
35622000 AAAATTACCATTTTACCCTTAATTTACAGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
* * * * **** * * **
35622054 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
* ** *** * **
35622108 AAAATTACCAAAATACCACT-GGTTTGTA-AATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACC-CTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
*
35622161 AAAATTACCAAAATACCC-CTGATTTACAAAATTAC
1 AAAATTACCAAAATACCCTC-GATTTACAGAATTAC
35622196 AGAAATACCC
Statistics
Matches: 203, Mismatches: 43, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
52 1 0.00
53 43 0.21
54 157 0.77
55 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
Found at i:35622070 original size:27 final size:27
Alignment explanation
Indices: 35621892--35622263 Score: 198
Period size: 27 Copynumber: 13.7 Consensus size: 27
35621882 CTCAATTTGT
* * *
35621892 AAAATTGCCAAAGTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* **** *
35621919 AGAATTACCGTTTTACCCTTAATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* *** * *
35621946 AGAATTACCATTTTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTTGATTTAC
* * *** **
35621973 AGAATTGCCATTTTACCCTCAATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
*** *
35622000 AAAATTACCATTTTACCCTTAATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* ****
35622027 AGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* *
35622054 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* **
35622081 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCTTGA-TTTAC
* *
35622108 AAAATTACCAAAATACCAC-TGGTTT-G
1 AAAATTACCAAAATACC-CTTGATTTAC
* * ** **
35622134 TAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGATTTAC
*
35622161 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
35622188 AAAATTA-CAGAAATACCCTTGACTTT-C
1 AAAATTACCA-AAATACCCTTGA-TTTAC
* * *
35622215 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACCA-AAATACCCTTGATTTAC
*
35622244 AAAATTACTAAAATACCCTT
1 AAAATTACCAAAATACCCTT
35622264 AGTTTGTAGA
Statistics
Matches: 281, Mismatches: 53, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
25 1 0.00
26 20 0.07
27 231 0.82
28 9 0.03
29 20 0.07
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.34
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTAC
Found at i:35622071 original size:81 final size:81
Alignment explanation
Indices: 35621892--35622090 Score: 254
Period size: 81 Copynumber: 2.5 Consensus size: 81
35621882 CTCAATTTGT
* * * *
35621892 AAAATTGCCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTACAGAATTACCAT
1 AAAATTACCAAAATACCCTCGATTTACAAAATTACCATTTTACCCTTAATTTACAGAATTACCAT
*
35621957 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* * *** * *
35621973 AGAATTGCCATTTTACCCTCAATTTACAAAATTACCATTTTACCCTTAATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTACAAAATTACCATTTTACCCTTAATTTACAGAATTACCAT
*
35622038 TTTACCCTTGATTTAC
66 TTTACCCTCGATTTAC
* * *
35622054 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 AAAATTACCAAAATACCCTCGATTTACAAAATTACCA
35622091 AAATACCCCT
Statistics
Matches: 99, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 99 1.00
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTACAAAATTACCATTTTACCCTTAATTTACAGAATTACCAT
TTTACCCTCGATTTAC
Found at i:35622161 original size:53 final size:54
Alignment explanation
Indices: 35622054--35622289 Score: 214
Period size: 54 Copynumber: 4.4 Consensus size: 54
35622044 CTTGATTTAC
* * *
35622054 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCC-TGGTTTACAAAATTACCGAAATACCCTCTAATTTGT
**
35622108 AAAATTACCAAAATACCACTGGTTT-GTAAATTACCGAAATACCCTC-AATTTGT
1 AAAATTACCAAAATACC-CTGGTTTACAAAATTACCGAAATACCCTCTAATTTGT
* * * *
35622161 AAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCT-TGACTTTCT
1 AAAATTACCAAAATA-CCCTGGTTTACAAAATTACCGAAATACCCTCT-AATTTGT
* * ** *
35622216 AAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTAAAATACCCT-TAGTTTGT
1 -AAAATTACCA-AAATACC-CTGGTTTACAAAATTACCGAAATACCCTCTAATTTGT
* * *
35622271 AGATTTACCAAAACACCCT
1 AAAATTACCAAAATACCCT
35622290 TGTAGGATGA
Statistics
Matches: 149, Mismatches: 23, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
53 44 0.30
54 53 0.36
55 15 0.10
56 37 0.25
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTGGTTTACAAAATTACCGAAATACCCTCTAATTTGT
Found at i:35622401 original size:25 final size:27
Alignment explanation
Indices: 35622299--35622401 Score: 81
Period size: 27 Copynumber: 3.9 Consensus size: 27
35622289 TTGTAGGATG
** *
35622299 AAATGACTAAAATACCCCT-AATAGGTA
1 AAATGACTGTAATACCCCTGTAT-GGTA
* * *
35622326 AAAAGACCGTAA-AGCCCCTGTAGGGTA
1 AAATGACTGTAATA-CCCCTGTATGGTA
*
35622353 AAGTGACTGTAATACCCCTGTATGGTA
1 AAATGACTGTAATACCCCTGTATGGTA
35622380 AAATGA-TG-AATACGCCCT-TATG
1 AAATGACTGTAATAC-CCCTGTATG
35622402 TTCCGTATGA
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
25 9 0.15
26 7 0.11
27 43 0.70
28 2 0.03
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (27 bp):
AAATGACTGTAATACCCCTGTATGGTA
Found at i:35622756 original size:17 final size:17
Alignment explanation
Indices: 35622736--35622771 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
35622726 GGGCCCAATG
35622736 GGCTTTCGGACCCATTT
1 GGCTTTCGGACCCATTT
35622753 GGCTTTCGGACCCATTT
1 GGCTTTCGGACCCATTT
35622770 GG
1 GG
35622772 GTAAAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.28, G:0.28, T:0.33
Consensus pattern (17 bp):
GGCTTTCGGACCCATTT
Found at i:35623135 original size:20 final size:20
Alignment explanation
Indices: 35623110--35623196 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
35623100 GATATGATAT
*
35623110 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
35623130 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
35623150 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
35623170 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
35623190 ACATGAT
1 ACATGAT
35623197 GTATTCATAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:35623329 original size:52 final size:51
Alignment explanation
Indices: 35623246--35623376 Score: 187
Period size: 52 Copynumber: 2.6 Consensus size: 51
35623236 GAGGAAGTGC
* **
35623246 AAAAGGGCTTATGCCCCAGTCTATTGAAAAGGGATTATGCCCCGGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGATT-TGCCCCAATTTACCG
* *
35623298 AAAATGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGATTTGCCCCAATTTACCG
35623349 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG
35623377 AGGCTAGGCC
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
48 5 0.07
49 5 0.07
50 8 0.11
51 22 0.30
52 33 0.45
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGATTTGCCCCAATTTACCG
Found at i:35623345 original size:25 final size:26
Alignment explanation
Indices: 35623246--35623381 Score: 154
Period size: 26 Copynumber: 5.3 Consensus size: 26
35623236 GAGGAAGTGC
*
35623246 AAAAGGGCTTATGCCCCAGTCTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
35623272 AAAAGGGATTATGCCCCGGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
35623298 AAAATGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
35623324 AAAAGGGCTT-TGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
35623349 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
35623372 AAAAGAGGCT
1 AAAAG-GGCT
35623382 AGGCCTTCAG
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.08
25 29 0.32
26 51 0.55
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:35623573 original size:42 final size:42
Alignment explanation
Indices: 35623514--35623605 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
35623504 TAGTCTCCCC
* ** *
35623514 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
35623556 AAATGGGCTTTCATACATCCATTGACATTACATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
35623598 AAATGGGC
1 AAATGGGC
35623606 CTGTGGCCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:35623665 original size:31 final size:31
Alignment explanation
Indices: 35623629--35623707 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
35623619 CATTTACAAT
35623629 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
35623660 AAAGGCTTCGGCCCAGTGGTATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
35623691 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
35623708 AACCATTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:35635807 original size:28 final size:28
Alignment explanation
Indices: 35635774--35635872 Score: 87
Period size: 28 Copynumber: 3.5 Consensus size: 28
35635764 ATGAATATAT
35635774 GCACTATGTGTGCGAAATTATTAACCAA
1 GCACTATGTGTGCGAAATTATTAACCAA
* * ** *
35635802 GCACTATGTGTGCTAGATCGGGTGT-A--AG
1 GCACTATGTGTGCGAAAT--TAT-TAACCAA
*
35635830 GCACTATGTGTGCGAAATTATTAACCGA
1 GCACTATGTGTGCGAAATTATTAACCAA
*
35635858 GCATTATGTGTGCGA
1 GCACTATGTGTGCGA
35635873 GATCGGGTGT
Statistics
Matches: 53, Mismatches: 12, Indels: 12
0.69 0.16 0.16
Matches are distributed among these distances:
25 1 0.02
26 2 0.04
28 47 0.89
30 2 0.04
31 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (28 bp):
GCACTATGTGTGCGAAATTATTAACCAA
Found at i:35635838 original size:56 final size:56
Alignment explanation
Indices: 35635774--35635909 Score: 218
Period size: 56 Copynumber: 2.4 Consensus size: 56
35635764 ATGAATATAT
*
35635774 GCACTATGTGTGCGAAATTATTAACCAAGCACTATGTGTGCTAGATCGGGTGTAAG
1 GCACTATGTGTGCGAAATTATTAACCAAGCACTATGTGTGCGAGATCGGGTGTAAG
* *
35635830 GCACTATGTGTGCGAAATTATTAACCGAGCATTATGTGTGCGAGATCGGGTGTAAG
1 GCACTATGTGTGCGAAATTATTAACCAAGCACTATGTGTGCGAGATCGGGTGTAAG
*
35635886 GCACTGTGTGTGTGCGAAATTATT
1 GCAC--TATGTGTGCGAAATTATT
35635910 TAAGGAATAT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
56 57 0.77
58 17 0.23
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (56 bp):
GCACTATGTGTGCGAAATTATTAACCAAGCACTATGTGTGCGAGATCGGGTGTAAG
Found at i:35635895 original size:28 final size:28
Alignment explanation
Indices: 35635802--35635897 Score: 90
Period size: 28 Copynumber: 3.4 Consensus size: 28
35635792 TATTAACCAA
*
35635802 GCACTATGTGTGCTAGATCGGGTGTAAG
1 GCACTATGTGTGCGAGATCGGGTGTAAG
* **
35635830 GCACTATGTGTGCGAAAT--TAT-TAACCG
1 GCACTATGTGTGCGAGATCGGGTGTAA--G
*
35635857 AGCATTATGTGTGCGAGATCGGGTGTAAG
1 -GCACTATGTGTGCGAGATCGGGTGTAAG
*
35635886 GCACTGTGTGTG
1 GCACTATGTGTG
35635898 TGCGAAATTA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 1 0.02
28 42 0.81
29 1 0.02
30 1 0.02
31 3 0.06
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.29
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGGTGTAAG
Found at i:35636539 original size:111 final size:111
Alignment explanation
Indices: 35636345--35636567 Score: 446
Period size: 111 Copynumber: 2.0 Consensus size: 111
35636335 TTTTGAGTAA
35636345 TGTAATTATCTTTTTGATGAGCCATACGAAAATGGCACACAATCTAGTTTTGTGATCTTATAATG
1 TGTAATTATCTTTTTGATGAGCCATACGAAAATGGCACACAATCTAGTTTTGTGATCTTATAATG
35636410 TTAAACATTTTGATAACTAGCATGCGTAATATGAATGAATAATATC
66 TTAAACATTTTGATAACTAGCATGCGTAATATGAATGAATAATATC
35636456 TGTAATTATCTTTTTGATGAGCCATACGAAAATGGCACACAATCTAGTTTTGTGATCTTATAATG
1 TGTAATTATCTTTTTGATGAGCCATACGAAAATGGCACACAATCTAGTTTTGTGATCTTATAATG
35636521 TTAAACATTTTGATAACTAGCATGCGTAATATGAATGAATAATATC
66 TTAAACATTTTGATAACTAGCATGCGTAATATGAATGAATAATATC
35636567 T
1 T
35636568 ACTTTTTATA
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 112 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (111 bp):
TGTAATTATCTTTTTGATGAGCCATACGAAAATGGCACACAATCTAGTTTTGTGATCTTATAATG
TTAAACATTTTGATAACTAGCATGCGTAATATGAATGAATAATATC
Found at i:35642771 original size:47 final size:47
Alignment explanation
Indices: 35642716--35643245 Score: 855
Period size: 47 Copynumber: 11.3 Consensus size: 47
35642706 ACAAGATATG
* *
35642716 TATATGTGATAAGGCCTAATGGCCAGTGTGATGAATGTGAAAGTTTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
35642763 TGTATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
35642810 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
35642857 TATATGTGATAAAGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
35642904 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
35642951 TATATGTGATAAGGCCTAATGGTCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
35642998 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
35643045 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
35643092 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * *
35643139 TATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
35643186 TATATGTGATAAGGCCGAATGGCCAATGTGAT-AGATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGA-ATGTGAAAGTGTA
*
35643233 TAAATGTGATAAG
1 TATATGTGATAAG
35643246 TCCCGAAGGG
Statistics
Matches: 444, Mismatches: 38, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
47 444 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:35647693 original size:46 final size:46
Alignment explanation
Indices: 35647643--35647818 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
35647633 TGGTTGAGCA
35647643 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35647689 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
35647734 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35647782 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35647819 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35647799 original size:93 final size:93
Alignment explanation
Indices: 35647640--35647811 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35647630 GGATGGTTGA
* *
35647640 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35647705 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
35647733 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35647798 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
35647812 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35655264 original size:46 final size:46
Alignment explanation
Indices: 35655214--35655389 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
35655204 TGGTTGAGCA
35655214 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35655260 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
35655305 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35655353 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35655390 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35655370 original size:93 final size:93
Alignment explanation
Indices: 35655211--35655382 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35655201 GGATGGTTGA
* *
35655211 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35655276 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
35655304 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35655369 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
35655383 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35664366 original size:49 final size:48
Alignment explanation
Indices: 35664174--35664366 Score: 208
Period size: 49 Copynumber: 3.9 Consensus size: 48
35664164 TCTATTGTGA
* * *
35664174 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC--AGACTGT
* * * **
35664225 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACT-GT
* * *
35664273 GAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTTCCAGACTGTT
1 G-GTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTG-T
* *
35664323 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
35664367 TAGCTTCGGC
Statistics
Matches: 121, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.01
48 5 0.04
49 78 0.64
50 3 0.02
51 34 0.28
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (48 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGT
Found at i:35667386 original size:15 final size:15
Alignment explanation
Indices: 35667366--35667421 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
35667356 GTATCTTGGG
35667366 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
35667381 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
35667396 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
35667411 TTTCTTTATTC
1 TTTCTTTATTC
35667422 AGTTTTCTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 4 0.11
15 27 0.77
16 4 0.11
ACGTcount: A:0.11, C:0.14, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Done.