Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 304 of 356
Found at i:99030201 original size:21 final size:21
Alignment explanation
Indices: 99030175--99030220 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
99030165 CCAAATATCC
99030175 AACATTATATTCCATTATAAT
1 AACATTATATTCCATTATAAT
* * *
99030196 AACATTATATTTCATTTTAGT
1 AACATTATATTCCATTATAAT
99030217 AACA
1 AACA
99030221 CCACTAGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.13, G:0.02, T:0.43
Consensus pattern (21 bp):
AACATTATATTCCATTATAAT
Found at i:99041033 original size:69 final size:68
Alignment explanation
Indices: 99040921--99041130 Score: 235
Period size: 69 Copynumber: 3.0 Consensus size: 68
99040911 ATTATATCAT
* * * *
99040921 CCTACAATTACATACAAAAAAATTATATTACTCCATCACCACACCCAATTACGCATACGAAAAGT
1 CCTACAATTACATACAAAAAAA-TATATTAGT-CACCACCACACCCAATTACACATACAAAAAGT
*
99040986 AACAA
64 GACAA
* * * *
99040991 CCTACAATTACGTAC-AAAAAGTGATATTAGTCGACCACCACACCCATTTACATATACAAAAAGT
1 CCTACAATTACATACAAAAAAAT-ATATTAGTC-ACCACCACACCCAATTACACATACAAAAAGT
99041055 GACAA
64 GACAA
* * * *
99041060 TCTACAATTACATACAAAAAACTATATTAGTTCACCACCATA-CCAATTTACACATGCAAAAAGT
1 CCTACAATTACATACAAAAAAATATATTAG-TCACCACCACACCCAA-TTACACATACAAAAAGT
99041124 GACAA
64 GACAA
99041129 CC
1 CC
99041131 CTCTATGACA
Statistics
Matches: 118, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
68 5 0.04
69 91 0.77
70 22 0.19
ACGTcount: A:0.45, C:0.26, G:0.07, T:0.22
Consensus pattern (68 bp):
CCTACAATTACATACAAAAAAATATATTAGTCACCACCACACCCAATTACACATACAAAAAGTGA
CAA
Found at i:99041454 original size:143 final size:143
Alignment explanation
Indices: 99041208--99041477 Score: 441
Period size: 143 Copynumber: 1.9 Consensus size: 143
99041198 TTTTTCACCC
* * * * * *
99041208 ATGCTAATCACTTAGAAGGTGGTAGACTAAGGAAAATGAGCATTTGCATTGGATGATTAGGAATT
1 ATGCTAACCACATAGAAGGTGGTACAATAAGAAAAATGAGCATTTGCATTGGATGATTAGGAACT
*
99041273 TTGATCAATGCATCATCTCACTTATTATCTGTTAAACCTTCTATTTCACCTAAAGACACATAGAG
66 TTGATCAATGCATCATCTCACTCATTATCTGTTAAACCTTCTATTTCACCTAAAGACACATAGAG
99041338 GTTTTTTACCATT
131 GTTTTTTACCATT
* *
99041351 ATGCTAACCACATAGAAGGTGGTACAATTAGAAAAATGAGCATTTGCGTTGGATGATTAGGAACT
1 ATGCTAACCACATAGAAGGTGGTACAATAAGAAAAATGAGCATTTGCATTGGATGATTAGGAACT
**
99041416 TTGATCAATGCATCATCTTGCTCATTATCTGTTAAACCTTCTATTTCACCTAAAGACACATA
66 TTGATCAATGCATCATCTCACTCATTATCTGTTAAACCTTCTATTTCACCTAAAGACACATA
99041478 TAGAGTTTGT
Statistics
Matches: 116, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
143 116 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (143 bp):
ATGCTAACCACATAGAAGGTGGTACAATAAGAAAAATGAGCATTTGCATTGGATGATTAGGAACT
TTGATCAATGCATCATCTCACTCATTATCTGTTAAACCTTCTATTTCACCTAAAGACACATAGAG
GTTTTTTACCATT
Found at i:99044582 original size:106 final size:106
Alignment explanation
Indices: 99044456--99044759 Score: 382
Period size: 106 Copynumber: 2.9 Consensus size: 106
99044446 TGTGCCAGGC
99044456 CGTGTCACCCTCGAAATGGCCTTACACGCTTGTGTGCCTA-CCTGTGTGCTAGGCCGTGTAACTG
1 CGTGTCACCCTCGAAATGGCCTTACACGCTTGTGTGCC-AGCCTGTGTGCTAGGCCGTGTAACTG
* * *
99044520 CCTGACTGGTATGCCTTGAACCTACAGGCCCGTGT-ACTAGT
65 CCTGACTGGTATGCCTTGAACCTACAAGCCCATGTGACAAGT
* * * *
99044561 CTGTGTCAACCTCGAAATGGCCTTACACGTTTGTGTACCAAGCCT-TTTGCTAGGCCGTGTAACT
1 C-GTGTCACCCTCGAAATGGCCTTACACGCTTGTGTGCC-AGCCTGTGTGCTAGGCCGTGTAACT
** *
99044625 GCCTGGTTGGTATGCCTTGAACCTACAAGCCCATGTGCCAAGT
64 GCCTGACTGGTATGCCTTGAACCTACAAGCCCATGTGACAAGT
* * * *** *
99044668 CATGTCACCCTCGAAATGGCCTCACATGCCCATGTGCCAGGCC-GTGTGCTAGGCCATGTAACTG
1 CGTGTCACCCTCGAAATGGCCTTACACGCTTGTGTGCCA-GCCTGTGTGCTAGGCCGTGTAACTG
*
99044732 CCTGACTGGTATGCCTTGGACCTACAAG
65 CCTGACTGGTATGCCTTGAACCTACAAG
99044760 GGACACACAG
Statistics
Matches: 169, Mismatches: 25, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
105 2 0.01
106 159 0.94
107 8 0.05
ACGTcount: A:0.19, C:0.29, G:0.25, T:0.27
Consensus pattern (106 bp):
CGTGTCACCCTCGAAATGGCCTTACACGCTTGTGTGCCAGCCTGTGTGCTAGGCCGTGTAACTGC
CTGACTGGTATGCCTTGAACCTACAAGCCCATGTGACAAGT
Found at i:99045654 original size:30 final size:30
Alignment explanation
Indices: 99045618--99045708 Score: 137
Period size: 30 Copynumber: 3.0 Consensus size: 30
99045608 TTGGACATTT
99045618 CCACACGGGCTGGGCATACGCTTGTGTGAG
1 CCACACGGGCTGGGCATACGCTTGTGTGAG
* *
99045648 CCACACGGGCTGGGCATATGCTCGTGTGAG
1 CCACACGGGCTGGGCATACGCTTGTGTGAG
* * *
99045678 CCACACAGGCTGGGTACACGCTTGTGTGAG
1 CCACACGGGCTGGGCATACGCTTGTGTGAG
99045708 C
1 C
99045709 TGGCCACACA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.20
Consensus pattern (30 bp):
CCACACGGGCTGGGCATACGCTTGTGTGAG
Found at i:99047043 original size:21 final size:21
Alignment explanation
Indices: 99047019--99047140 Score: 147
Period size: 21 Copynumber: 5.8 Consensus size: 21
99047009 ACGCCAATAG
99047019 AAGCTCATAAGAGCTGAACAA
1 AAGCTCATAAGAGCTGAACAA
* *
99047040 AAGCTTATAAGACCTGAA-AA
1 AAGCTCATAAGAGCTGAACAA
*
99047060 GAAGCTCATAAGAGTTGAACAA
1 -AAGCTCATAAGAGCTGAACAA
* * * *
99047082 AAGCTCAAAAGAGCTTAATAG
1 AAGCTCATAAGAGCTGAACAA
* *
99047103 AAGCTCATAAGAGCTTAACAG
1 AAGCTCATAAGAGCTGAACAA
99047124 AAGCTCATAAGAGCTGA
1 AAGCTCATAAGAGCTGA
99047141 TCCTTGTTTT
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
20 2 0.02
21 82 0.95
22 2 0.02
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (21 bp):
AAGCTCATAAGAGCTGAACAA
Found at i:99047066 original size:42 final size:42
Alignment explanation
Indices: 99047017--99047140 Score: 176
Period size: 42 Copynumber: 3.0 Consensus size: 42
99047007 ACACGCCAAT
* *
99047017 AGAAGCTCATAAGAGCTGAACAAAAGCTTATAAGACCTGAAA
1 AGAAGCTCATAAGAGCTGAACAAAAGCTCATAAGAGCTGAAA
* * * *
99047059 AGAAGCTCATAAGAGTTGAACAAAAGCTCAAAAGAGCTTAAT
1 AGAAGCTCATAAGAGCTGAACAAAAGCTCATAAGAGCTGAAA
* *
99047101 AGAAGCTCATAAGAGCTTAACAGAAGCTCATAAGAGCTGA
1 AGAAGCTCATAAGAGCTGAACAAAAGCTCATAAGAGCTGA
99047141 TCCTTGTTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (42 bp):
AGAAGCTCATAAGAGCTGAACAAAAGCTCATAAGAGCTGAAA
Found at i:99048472 original size:43 final size:43
Alignment explanation
Indices: 99048347--99048510 Score: 158
Period size: 43 Copynumber: 3.8 Consensus size: 43
99048337 TGGAAAGCCT
* * * * *
99048347 ATACAATGCCAACGTCCCAGATGTAGTTTTACATGT-AATCAA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAA
* *
99048389 ATATCGATGCC-ACTATCCCAGACAG-GATCTTACACG-AAATCAA
1 ATA-CGATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCAA
* *
99048432 ATACGATGCCAATGTCCTAGACGTGGTCTTACACGTAAATCATA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-A
*
99048476 AGT-CGATGCCAACGTCCCAGATGTGGTCTTACACG
1 A-TACGATGCCAACGTCCCAGACGTGGTCTTACACG
99048511 ATAACACATA
Statistics
Matches: 99, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
41 1 0.01
42 29 0.29
43 36 0.36
44 32 0.32
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATACGATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAA
Found at i:99055887 original size:43 final size:42
Alignment explanation
Indices: 99055824--99055963 Score: 142
Period size: 43 Copynumber: 3.3 Consensus size: 42
99055814 TACAATACCA
99055824 ACGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCGATGCC
1 ACGTCCCAGACAG-GGTCTTACATGTAATCAAATATCGATGCC
* * *
99055866 ACTGTCCCAGACAGGGTCTTACACGAAATCAAATA-CAATGCC
1 AC-GTCCCAGACAGGGTCTTACATGTAATCAAATATCGATGCC
* * *
99055908 AACATCCCAGACATGGTCTTACATGTAAATCATAA-GTCGATGCC
1 -ACGTCCCAGACAGGGTCTTACATGT-AATCA-AATATCGATGCC
*
99055952 AACATCCCAGAC
1 -ACGTCCCAGAC
99055964 GTGGTATTAC
Statistics
Matches: 83, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
42 27 0.33
43 35 0.42
44 21 0.25
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (42 bp):
ACGTCCCAGACAGGGTCTTACATGTAATCAAATATCGATGCC
Found at i:99059291 original size:35 final size:34
Alignment explanation
Indices: 99059225--99059377 Score: 110
Period size: 35 Copynumber: 4.4 Consensus size: 34
99059215 CAAACCACCC
** *
99059225 AAAACACACCAGATGCTTGTACA-AGCCAATCCATCT
1 AAAACACACCA-ATGCTCATA-AGAGCTAATCCAT-T
*
99059261 AAAACACACCAATGCTCATAAGAGCTAATCCCTT
1 AAAACACACCAATGCTCATAAGAGCTAATCCATT
* * * *
99059295 AAAGACACACAAATGCTTATAAGAGTTAATCCCTT
1 AAA-ACACACCAATGCTCATAAGAGCTAATCCATT
* * * * * **
99059330 CGAAGCACACCAATGTTCAAAAGAGCTAGTCCAACC
1 -AAAACACACCAATGCTCATAAGAGCTAATCC-ATT
99059366 AAAACACACCAA
1 AAAACACACCAA
99059378 AACAGAGAGT
Statistics
Matches: 93, Mismatches: 20, Indels: 9
0.76 0.16 0.07
Matches are distributed among these distances:
34 5 0.05
35 75 0.81
36 13 0.14
ACGTcount: A:0.42, C:0.28, G:0.11, T:0.18
Consensus pattern (34 bp):
AAAACACACCAATGCTCATAAGAGCTAATCCATT
Found at i:99072804 original size:44 final size:46
Alignment explanation
Indices: 99072756--99072852 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 46
99072746 AGCCACCAGC
** ** *
99072756 CTTATCTCT-CTAAGGTAGTTA-GAGAGCAGGTTGAAGATTGTAG-T
1 CTTATCTCTCCTAAGGTAGCAAGGA-AGCAGACTGAAGATTGAAGAT
99072800 CTTATCT-TCCTAAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
1 CTTATCTCTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
99072845 CTTATCTC
1 CTTATCTC
99072853 CCTGAGATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.02
44 33 0.75
45 10 0.23
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (46 bp):
CTTATCTCTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
Found at i:99072882 original size:89 final size:88
Alignment explanation
Indices: 99072789--99073096 Score: 228
Period size: 89 Copynumber: 3.5 Consensus size: 88
99072779 GAGCAGGTTG
*
99072789 AAGATTGTAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCC
1 AAGATGGTAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCC
*
99072854 CTGAGATAACAGTGGAGCAGATCA
66 CTGAG-TAGCAGTGGAGCAGATCA
* * * * ** ***** *
99072878 AAGATGGTGAGTCTTATCTTTCC-AAGGTAGCAGGGGAGTAGATTTTAGCCACCA-ACCTTATCT
1 AAGATGGT-AGTCTTATC-TTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCT
** * * *
99072941 ATCTGAGGTAGCAAG-AGAGCAGGTTA
64 CCCTGA-GTAGC-AGTGGAGCAGATCA
* * * * * *
99072967 AAGATTGTAGTCTTATCTTTCTGAGGTAGCAAGGAAACAGACTGAGGATTGAAGATTTTATCTCC
1 AAGATGGTAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCC
* * *
99073032 CTAAGCAGTAGTGGAGCAGATCGA
66 CTGAGTAGCAGTGGAGCAGATC-A
* * * * *
99073056 AA-ATGGCGAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGA
1 AAGATGG-TAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGA
99073097 TTTTAGCCAC
Statistics
Matches: 158, Mismatches: 52, Indels: 18
0.69 0.23 0.08
Matches are distributed among these distances:
87 5 0.03
88 39 0.25
89 78 0.49
90 32 0.20
91 4 0.03
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (88 bp):
AAGATGGTAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCC
CTGAGTAGCAGTGGAGCAGATCA
Found at i:99073010 original size:178 final size:177
Alignment explanation
Indices: 99072664--99073117 Score: 597
Period size: 178 Copynumber: 2.6 Consensus size: 177
99072654 GTGAATTTAC
* ** * * ** * *
99072664 AGATCTTATCTCCCTAGGCAGTAGTAGAGCAAATCGAGGATGCCGAATCTTATCTTCCCGAGGTA
1 AGATCTTATCTCCCTAAGCAACAGTGGAGCAGATCGAAAATGGCGAATCTTATCTTTCCGAGGTA
* * * ** *
99072729 GAAGGGGAGTAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGTTAGAGAGCAGGTTGAAGAT
66 GCAGGGGAGTAGATTTTAGCCACCAGCCTTATCTATCTAAGGTAGCAAGAGAGCAGGTTAAAGAT
*
99072794 TGTAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTGA
131 TGTAGTCTTATCTTCCTAAGGTAGCAAGGAAACAGACTGAAGATTGA
* * * * *
99072841 AGATCTTATCTCCCTGAGATAACAGTGGAGCAGATC-AAAGATGGTGAGTCTTATCTTTCCAAGG
1 AGATCTTATCTCCCTAAG-CAACAGTGGAGCAGATCGAAA-ATGGCGAATCTTATCTTTCCGAGG
* *
99072905 TAGCAGGGGAGTAGATTTTAGCCACCAACCTTATCTATCTGAGGTAGCAAGAGAGCAGGTTAAAG
64 TAGCAGGGGAGTAGATTTTAGCCACCAGCCTTATCTATCTAAGGTAGCAAGAGAGCAGGTTAAAG
* * *
99072970 ATTGTAGTCTTATCTTTCTGAGGTAGCAAGGAAACAGACTGAGGATTGA
129 ATTGTAGTCTTATCTTCCTAAGGTAGCAAGGAAACAGACTGAAGATTGA
* **
99073019 AGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCGAATCTTATC-TTCCTGAGGT
1 AGATCTTATCTCCCTAAGCAACAGTGGAGCAGATCGAAAATGGCGAATCTTATCTTTCC-GAGGT
*
99073083 AGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCT
65 AGCAGGGGAGTAGATTTTAGCCACCAGCCTTATCT
99073118 CCCTGAATTT
Statistics
Matches: 237, Mismatches: 36, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
176 4 0.02
177 81 0.34
178 152 0.64
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (177 bp):
AGATCTTATCTCCCTAAGCAACAGTGGAGCAGATCGAAAATGGCGAATCTTATCTTTCCGAGGTA
GCAGGGGAGTAGATTTTAGCCACCAGCCTTATCTATCTAAGGTAGCAAGAGAGCAGGTTAAAGAT
TGTAGTCTTATCTTCCTAAGGTAGCAAGGAAACAGACTGAAGATTGA
Found at i:99077234 original size:57 final size:57
Alignment explanation
Indices: 99077164--99077281 Score: 229
Period size: 57 Copynumber: 2.1 Consensus size: 57
99077154 ATAAAAATTA
99077164 CAAG-AAAACGGATCAATCTCCATACCATGCAAAGATAAAAGATGAAAAAAGCTTCC
1 CAAGTAAAACGGATCAATCTCCATACCATGCAAAGATAAAAGATGAAAAAAGCTTCC
99077220 CAAGTAAAACGGATCAATCTCCATACCATGCAAAGATAAAAGATGAAAAAAGCTTCC
1 CAAGTAAAACGGATCAATCTCCATACCATGCAAAGATAAAAGATGAAAAAAGCTTCC
99077277 CAAGT
1 CAAGT
99077282 CTTCAATAGT
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 4 0.07
57 57 0.93
ACGTcount: A:0.47, C:0.21, G:0.14, T:0.17
Consensus pattern (57 bp):
CAAGTAAAACGGATCAATCTCCATACCATGCAAAGATAAAAGATGAAAAAAGCTTCC
Found at i:99080630 original size:47 final size:47
Alignment explanation
Indices: 99080537--99080907 Score: 562
Period size: 47 Copynumber: 7.8 Consensus size: 47
99080527 GGATAATTGT
*
99080537 GATGTGGTGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
*
99080586 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
*
99080633 AATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
*
99080682 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
*
99080729 AATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
*
99080778 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * *
99080825 GATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * *
99080872 AACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAG
99080908 TCCCGAAGGG
Statistics
Matches: 297, Mismatches: 21, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
47 187 0.63
49 110 0.37
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
Found at i:99080678 original size:96 final size:96
Alignment explanation
Indices: 99080538--99080907 Score: 618
Period size: 96 Copynumber: 3.9 Consensus size: 96
99080528 GATAATTGTG
*
99080538 ATGTGGTGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
99080603 AGTGTATATATGTGATAAGGCCGAATGGCCA
66 AGTGTATATATGTGATAAGGCCGAATGGCCA
99080634 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
99080699 AGTGTATATATGTGATAAGGCCGAATGGCCA
66 AGTGTATATATGTGATAAGGCCGAATGGCCA
99080730 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
99080795 AGTGTATATATGTGATAAGGCCTAATAGCCG
66 AGTGTATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
99080826 ATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
99080889 AGTGTATAAATGTGATAAG
66 AGTGTATATATGTGATAAG
99080908 TCCCGAAGGG
Statistics
Matches: 262, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
94 54 0.21
96 208 0.79
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCGAATGGCCA
Found at i:99080818 original size:143 final size:144
Alignment explanation
Indices: 99080537--99080907 Score: 581
Period size: 143 Copynumber: 2.6 Consensus size: 144
99080527 GGATAATTGT
* * *
99080537 GATGTGGTGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
99080602 AAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGT
64 AAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-ATATATATGT
*
99080665 GATAAGGCCTAATGGCC
128 GATAAGGCCTAATAGCC
99080682 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
99080747 GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGAT
66 GTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGAT
99080811 AAGGCCTAATAGCC
131 AAGGCCTAATAGCC
* * * * *
99080825 GATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
99080890 GTGTATA-A-ATGTGATAAG
66 GTGTATATATATGTGATAAG
99080908 TCCCGAAGGG
Statistics
Matches: 213, Mismatches: 11, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
141 10 0.05
142 1 0.00
143 137 0.64
145 65 0.31
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (144 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
GTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGAT
AAGGCCTAATAGCC
Found at i:99087543 original size:29 final size:26
Alignment explanation
Indices: 99087496--99087554 Score: 64
Period size: 29 Copynumber: 2.2 Consensus size: 26
99087486 AATTTAATTT
*
99087496 ATTTCACACTTAAACCCCTCAATTTGCAC
1 ATTTCACAATTAAACCCCT--ATTTG-AC
* *
99087525 ATTTCACAATTTAATCCCTATTTGAC
1 ATTTCACAATTAAACCCCTATTTGAC
99087551 ATTT
1 ATTT
99087555 TTGTCAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.22
27 5 0.19
29 16 0.59
ACGTcount: A:0.31, C:0.27, G:0.03, T:0.39
Consensus pattern (26 bp):
ATTTCACAATTAAACCCCTATTTGAC
Found at i:99092951 original size:68 final size:64
Alignment explanation
Indices: 99092834--99092984 Score: 162
Period size: 68 Copynumber: 2.3 Consensus size: 64
99092824 ATACAGATAG
* * * *
99092834 TATGTAGCTAGGTCACATGTATGATGCTGAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
1 TATGTAGCTAGGTCGCATGGATGATACTGAGTGCACACCATGTGTACAAGAGAGCTAC--GACA-
99092899 TA
63 TA
* * **
99092901 TGATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACGGGA
1 T-ATGTAGCTAGGTCGCATGGATGATACTGA-GTGCACACCATGT-GTACAAGAGAGCTACGACA
99092964 TA
63 TA
99092966 TATGTAGCTAGGTCGCATG
1 TATGTAGCTAGGTCGCATG
99092985 CGTGGTTCCA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 18 0.25
65 3 0.04
66 2 0.03
67 2 0.03
68 47 0.64
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGATGATACTGAGTGCACACCATGTGTACAAGAGAGCTACGACATA
Found at i:99092984 original size:64 final size:64
Alignment explanation
Indices: 99092903--99093086 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
99092893 AGACATTATG
* * *
99092903 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
99092967 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACTAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
99093032 AA
63 AA
* ** *
99093034 AT-TGGCTAGGTTACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
99093087 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 25 0.26
66 20 0.21
67 32 0.33
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:99102677 original size:18 final size:18
Alignment explanation
Indices: 99102654--99102808 Score: 177
Period size: 18 Copynumber: 8.7 Consensus size: 18
99102644 AGTTGACAAC
*
99102654 ATATAAGTTATGTAAGTG
1 ATATAAGTTATGTAAGTT
99102672 ATATAAGTTATGTAAGTT
1 ATATAAGTTATGTAAGTT
* *
99102690 ATGTAAGTTATATAAGTT
1 ATATAAGTTATGTAAGTT
* *
99102708 ATGTAAGTTATGTATGTT
1 ATATAAGTTATGTAAGTT
*
99102726 ATATGAGTTATGTAAGTT
1 ATATAAGTTATGTAAGTT
* *
99102744 ATATAAGTTATAT-ATTT
1 ATATAAGTTATGTAAGTT
* *
99102761 ATCTAAGTTATATAAGTT
1 ATATAAGTTATGTAAGTT
* * *
99102779 ATGTACGTTTTGTAAGTT
1 ATATAAGTTATGTAAGTT
*
99102797 ATATAAATTATG
1 ATATAAGTTATG
99102809 ATATCAAATA
Statistics
Matches: 115, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
17 15 0.13
18 100 0.87
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.46
Consensus pattern (18 bp):
ATATAAGTTATGTAAGTT
Found at i:99102678 original size:9 final size:9
Alignment explanation
Indices: 99102654--99102807 Score: 157
Period size: 9 Copynumber: 17.2 Consensus size: 9
99102644 AGTTGACAAC
99102654 ATATAAGTT
1 ATATAAGTT
* *
99102663 ATGTAAGTG
1 ATATAAGTT
99102672 ATATAAGTT
1 ATATAAGTT
*
99102681 ATGTAAGTT
1 ATATAAGTT
*
99102690 ATGTAAGTT
1 ATATAAGTT
99102699 ATATAAGTT
1 ATATAAGTT
*
99102708 ATGTAAGTT
1 ATATAAGTT
* *
99102717 ATGTATGTT
1 ATATAAGTT
*
99102726 ATATGAGTT
1 ATATAAGTT
*
99102735 ATGTAAGTT
1 ATATAAGTT
99102744 ATATAAGTT
1 ATATAAGTT
*
99102753 ATAT-ATTT
1 ATATAAGTT
*
99102761 ATCTAAGTT
1 ATATAAGTT
99102770 ATATAAGTT
1 ATATAAGTT
* *
99102779 ATGTACGTT
1 ATATAAGTT
* *
99102788 TTGTAAGTT
1 ATATAAGTT
*
99102797 ATATAAATT
1 ATATAAGTT
99102806 AT
1 AT
99102808 GATATCAAAT
Statistics
Matches: 119, Mismatches: 25, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
8 6 0.05
9 113 0.95
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.46
Consensus pattern (9 bp):
ATATAAGTT
Found at i:99102687 original size:27 final size:27
Alignment explanation
Indices: 99102657--99102807 Score: 187
Period size: 27 Copynumber: 5.6 Consensus size: 27
99102647 TGACAACATA
*
99102657 TAAGTTATGTAAGTGATATAAGTTATG
1 TAAGTTATGTAAGTTATATAAGTTATG
99102684 TAAGTTATGTAAGTTATATAAGTTATG
1 TAAGTTATGTAAGTTATATAAGTTATG
* *
99102711 TAAGTTATGTATGTTATATGAGTTATG
1 TAAGTTATGTAAGTTATATAAGTTATG
* * *
99102738 TAAGTTATATAAGTTATAT-ATTTATC
1 TAAGTTATGTAAGTTATATAAGTTATG
* * * *
99102764 TAAGTTATATAAGTTATGTACGTTTTG
1 TAAGTTATGTAAGTTATATAAGTTATG
* *
99102791 TAAGTTATATAAATTAT
1 TAAGTTATGTAAGTTAT
99102808 GATATCAAAT
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 23 0.21
27 87 0.79
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.46
Consensus pattern (27 bp):
TAAGTTATGTAAGTTATATAAGTTATG
Found at i:99102933 original size:15 final size:15
Alignment explanation
Indices: 99102913--99102968 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
99102903 AAGTAGTGGG
99102913 ATTAAATAATATTTA
1 ATTAAATAATATTTA
99102928 ATTAAATAATATTT-
1 ATTAAATAATATTTA
99102942 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
99102957 ATTAAGTAATAT
1 ATTAAATAATAT
99102969 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:99103954 original size:289 final size:289
Alignment explanation
Indices: 99103173--99104177 Score: 1901
Period size: 289 Copynumber: 3.5 Consensus size: 289
99103163 TTGTGATAAA
* *
99103173 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACATAGGGAGGATTCATTA
1 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
*
99103238 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCTAGCCTATATACTTTGAATCTTTAAAA
66 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
99103303 TATTTAAATATTAAAATCAAACATTATT-A-A-AAAAAATAGTAATTTGAATATAATAATATCAA
131 TATTTAAATATTAAAATCAAACATTATTAATATAAAAAATAGTAATTTGAATATAATAATATCAA
99103365 AAAAGAATCGTAG-TTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCAA
196 AAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCAA
99103429 TAGTAAATGAGCTCGATAGAACTTTTTTC
261 TAGTAAATGAGCTCGATAGAACTTTTTTC
99103458 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
1 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
99103523 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
66 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
99103588 TATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCA
131 TATTTAAATATTAAAATCAAACATTATTAATAT-AAAAAATAGTAATTTGAATATAATAATATCA
*
99103653 AAAAAGAATCGTAGTTTAATTTTTATAAGTAAATCGGAAATAAATTAATGTTATATAAATATTCA
195 AAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCA
99103718 ATAGTAAATGAGCTCGATAGAACTTTTTTC
260 ATAGTAAATGAGCTCGATAGAACTTTTTTC
* *
99103748 AAGTCTTTTTGAATTTTTTAAGATTCATCATATGTGGCGTTGTTACACCTAGGGAGGATCCATGA
1 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
99103813 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
66 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
99103878 TATTTAAATATTAAAATCAAACATTATTAATATAAAAAATAGTAATTTGAATATAATAATATCAA
131 TATTTAAATATTAAAATCAAACATTATTAATATAAAAAATAGTAATTTGAATATAATAATATCAA
99103943 AAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCAA
196 AAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCAA
99104008 TAGTAAATGAGCTCGATAGAACTTTTTTC
261 TAGTAAATGAGCTCGATAGAACTTTTTTC
99104037 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
1 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
*
99104102 TATCTTGCAGCTCGATATAAGGCAACCTGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
66 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
99104167 TATTTTAAATA
131 TA-TTTAAATA
99104178 AGGTTGGAGA
Statistics
Matches: 704, Mismatches: 10, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
285 155 0.22
286 1 0.00
287 1 0.00
289 299 0.42
290 248 0.35
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (289 bp):
AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
TATTTAAATATTAAAATCAAACATTATTAATATAAAAAATAGTAATTTGAATATAATAATATCAA
AAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCAA
TAGTAAATGAGCTCGATAGAACTTTTTTC
Found at i:99106279 original size:62 final size:61
Alignment explanation
Indices: 99106121--99106301 Score: 344
Period size: 61 Copynumber: 3.0 Consensus size: 61
99106111 ACAAACTAGT
99106121 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAAGAAATGAA
1 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAAGAAATGAA
*
99106182 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTAACAAAAAAGAAATGAA
1 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAAGAAATGAA
99106243 TTTTCCATTTCAGAACAAAAATATCCAAACAACAGACATAAAACTGACAAAAAAGAAAT
1 TTTTCCATTTCAGAACAAAAA-ATCCAAACAACAGACATAAAACTGACAAAAAAGAAAT
99106302 CAAATTTTGG
Statistics
Matches: 117, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
61 81 0.69
62 36 0.31
ACGTcount: A:0.56, C:0.18, G:0.07, T:0.19
Consensus pattern (61 bp):
TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAAGAAATGAA
Found at i:99106791 original size:6 final size:6
Alignment explanation
Indices: 99106757--99106790 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
99106747 AATCATCGAG
* *
99106757 ATCAAC ATCAAC ATCAAT ATCAAC ATCATC ATCA
1 ATCAAC ATCAAC ATCAAC ATCAAC ATCAAC ATCA
99106791 TTAAGATCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (6 bp):
ATCAAC
Found at i:99108676 original size:26 final size:25
Alignment explanation
Indices: 99108647--99108696 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
99108637 GAATTAATCA
99108647 TAAACCTTCAAATAC-TAGTTAACTCC
1 TAAACCTT-AAA-ACATAGTTAACTCC
*
99108673 TAAACCTTAAACCATAGTTAACTC
1 TAAACCTTAAAACATAGTTAACTC
99108697 ATAATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 13 0.59
26 8 0.36
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.30
Consensus pattern (25 bp):
TAAACCTTAAAACATAGTTAACTCC
Found at i:99108731 original size:14 final size:14
Alignment explanation
Indices: 99108714--99108753 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
99108704 ATTAAACATG
* *
99108714 CTTAAACCATATAT
1 CTTAAACCATAAAC
99108728 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
99108742 CTTAAACTATAA
1 CTTAAACCATAA
99108754 TGATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:99108974 original size:41 final size:41
Alignment explanation
Indices: 99108910--99109170 Score: 398
Period size: 41 Copynumber: 6.4 Consensus size: 41
99108900 CGTTATGAGA
* * *
99108910 TTTTTAGCGGCGTTTTACAAAAAGTGCCGCTGATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
*
99108951 TGTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* * * *
99108992 TTTTTTGCGGTGTTTTAGGAAAAGAGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
*
99109033 TTTTTAGCGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
*
99109074 TTTTTTGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* * *
99109115 TTTTTATCGGTGTTTTATGAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
99109156 -TTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
99109171 TTCTAGAACG
Statistics
Matches: 200, Mismatches: 20, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
40 13 0.06
41 187 0.94
ACGTcount: A:0.18, C:0.19, G:0.28, T:0.35
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
Found at i:99109622 original size:26 final size:26
Alignment explanation
Indices: 99109586--99109693 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
99109576 TGAAATTCCA
*
99109586 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
99109612 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
99109638 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
99109664 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
99109690 ATCA
1 ATCA
99109694 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:99114708 original size:32 final size:34
Alignment explanation
Indices: 99114672--99114736 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
99114662 TAATAGTGGT
*
99114672 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
99114704 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
99114737 TGGCCTATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:99116610 original size:26 final size:26
Alignment explanation
Indices: 99116574--99116655 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
99116564 TGAAATTCCA
99116574 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
99116600 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
99116626 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
99116652 ATCA
1 ATCA
99116656 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:99121811 original size:51 final size:49
Alignment explanation
Indices: 99121734--99121875 Score: 185
Period size: 51 Copynumber: 2.9 Consensus size: 49
99121724 TTGTGAGGTC
*
99121734 ACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT-GATA
* * * * *
99121785 ACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTC
1 ACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGATA
* * *
99121834 GCATATGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
99121876 GCTTTGGCTA
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 38 0.48
50 2 0.03
51 39 0.49
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (49 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGATA
Found at i:99121860 original size:49 final size:51
Alignment explanation
Indices: 99121739--99121875 Score: 179
Period size: 49 Copynumber: 2.7 Consensus size: 51
99121729 AGGTCACGTG
* * *
99121739 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATAACGTG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATAACATA
* * * * **
99121790 TGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAA-TT-GGTCGCATA
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATAACATA
99121839 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
99121876 GCTTTGGCTA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 38 0.51
50 2 0.03
51 34 0.46
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (51 bp):
TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATAACATA
Found at i:99125305 original size:24 final size:25
Alignment explanation
Indices: 99125278--99125349 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 25
99125268 GGGATACTCC
99125278 GAAGAGCTAATAACGGGAAGCTC-G
1 GAAGAGCTAATAACGGGAAGCTCAG
* * * * *
99125302 GAAGAACCATATAATGGAAAGCTCAT
1 GAAGAGCTA-ATAACGGGAAGCTCAG
*
99125328 G-AGAGCTAATAACGGGACGCTC
1 GAAGAGCTAATAACGGGAAGCTC
99125350 TTTTGAGCTA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
24 18 0.50
25 17 0.47
26 1 0.03
ACGTcount: A:0.39, C:0.18, G:0.28, T:0.15
Consensus pattern (25 bp):
GAAGAGCTAATAACGGGAAGCTCAG
Found at i:99134452 original size:17 final size:16
Alignment explanation
Indices: 99134430--99134468 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
99134420 CATGTCATGT
99134430 ATTCATATACATGTACA
1 ATTCATATACATG-ACA
* *
99134447 ATTCATATCCATGATA
1 ATTCATATACATGACA
99134463 ATTCAT
1 ATTCAT
99134469 TTCGAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTCATATACATGACA
Found at i:99134628 original size:25 final size:25
Alignment explanation
Indices: 99134586--99134705 Score: 86
Period size: 25 Copynumber: 4.8 Consensus size: 25
99134576 AATTCATATT
99134586 CGGGAATGCTCTTACGAGCACA-TAAA
1 CGGGAA-GCTCTTACGAGC-CATTAAA
* *
99134612 CGGGAAGCTCTTTCGAGCCATTAAT
1 CGGGAAGCTCTTACGAGCCATTAAA
* **
99134637 CGGGAAGCTCATGTGAGCCATGT-AA
1 CGGGAAGCTCTTACGAGCCAT-TAAA
* * **
99134662 CAGGAAACTTCGGA-GAGCCATT-AA
1 CGGGAAGC-TCTTACGAGCCATTAAA
*
99134686 CGGGAAGCTCATACGAGCCA
1 CGGGAAGCTCTTACGAGCCA
99134706 ATATCAGGAA
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
23 3 0.04
24 17 0.23
25 46 0.61
26 9 0.12
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (25 bp):
CGGGAAGCTCTTACGAGCCATTAAA
Found at i:99138498 original size:20 final size:20
Alignment explanation
Indices: 99138452--99138498 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
99138442 AGTTTATCAC
*
99138452 TCAAAACACGAAAAATATAT
1 TCAAAACACAAAAAATATAT
* * *
99138472 CCGAAACCCAAAAAATATAT
1 TCAAAACACAAAAAATATAT
99138492 TCAAAAC
1 TCAAAAC
99138499 TACTAAACCC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.57, C:0.21, G:0.04, T:0.17
Consensus pattern (20 bp):
TCAAAACACAAAAAATATAT
Found at i:99138961 original size:18 final size:17
Alignment explanation
Indices: 99138940--99139003 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 17
99138930 TATTTTTATT
99138940 ATTTATTATTTATCAACA
1 ATTTATTATTTAT-AACA
99138958 ATTTATTATATTATTTAACA
1 ATTTATTAT-TTA--TAACA
*
99138978 TATATTATTATTTTATAATA
1 -AT-TTATTA-TTTATAACA
99138998 ATTTAT
1 ATTTAT
99139004 CTTTTAATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
18 13 0.33
19 5 0.13
20 8 0.21
21 3 0.08
22 9 0.23
23 1 0.03
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTATTATTTATAACA
Found at i:99138985 original size:22 final size:23
Alignment explanation
Indices: 99138936--99138993 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 23
99138926 ATTATATTTT
99138936 TATTATT-TATTATTTATCAACAA
1 TATTATTATATTA-TTATCAACAA
99138959 T-TTATTATATTATT-T-AACATA
1 TATTATTATATTATTATCAACA-A
*
99138980 TATTATTATTTTAT
1 TATTATTATATTAT
99138994 AATAATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.13
21 3 0.10
22 18 0.58
23 6 0.19
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (23 bp):
TATTATTATATTATTATCAACAA
Found at i:99139768 original size:21 final size:21
Alignment explanation
Indices: 99139744--99139787 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
99139734 ATGGTATTGT
99139744 TTGCTTAGAAAACTTGTCATG
1 TTGCTTAGAAAACTTGTCATG
*
99139765 TTGCTTAGAAAATTTGTCATG
1 TTGCTTAGAAAACTTGTCATG
99139786 TT
1 TT
99139788 TAAGCAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.43
Consensus pattern (21 bp):
TTGCTTAGAAAACTTGTCATG
Found at i:99144716 original size:18 final size:18
Alignment explanation
Indices: 99144693--99144731 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
99144683 ACGAAAATAT
99144693 CCACTAGTGGTACCAACC
1 CCACTAGTGGTACCAACC
99144711 CCACTAGTGGTACCAACC
1 CCACTAGTGGTACCAACC
99144729 CCA
1 CCA
99144732 TATTCTCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.41, G:0.15, T:0.15
Consensus pattern (18 bp):
CCACTAGTGGTACCAACC
Found at i:99145362 original size:14 final size:14
Alignment explanation
Indices: 99145324--99145366 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
99145314 CAAAATGTAC
99145324 AATATAATTAAA-T
1 AATATAATTAAATT
99145337 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
99145352 AA-ATAATTTAATT
1 AATATAATTAAATT
99145365 AA
1 AA
99145367 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:99146235 original size:65 final size:69
Alignment explanation
Indices: 99146154--99146284 Score: 200
Period size: 65 Copynumber: 2.0 Consensus size: 69
99146144 TAAAGGTTGC
99146154 TATATTTAAGTAATTATATTAACTAATTATAA-A-AT-ACT-A-ACCTTGCTTTTGTCTTGTTAT
1 TATATTTAAGTAATTATATTAACTAATTA-AACATATCACTCAGACCTTGCTTTTGTCTTGTTAT
99146214 CTAAT
65 CTAAT
* *
99146219 TATATTTAAGTAATTATATTAACTAATTAAACATCTCTCTCAGACCTTGCTTTTGTCTTGTTATC
1 TATATTTAAGTAATTATATTAACTAATTAAACATATCACTCAGACCTTGCTTTTGTCTTGTTATC
99146284 T
66 T
99146285 CTTCAAGTTG
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
64 2 0.03
65 30 0.51
66 1 0.02
67 2 0.03
68 1 0.02
69 23 0.39
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.47
Consensus pattern (69 bp):
TATATTTAAGTAATTATATTAACTAATTAAACATATCACTCAGACCTTGCTTTTGTCTTGTTATC
TAAT
Found at i:99146245 original size:13 final size:14
Alignment explanation
Indices: 99146214--99146247 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
99146204 GTCTTGTTAT
99146214 CTAATTATATTTAA
1 CTAATTATATTTAA
*
99146228 GTAATTATA-TTAA
1 CTAATTATATTTAA
99146241 CTAATTA
1 CTAATTA
99146248 AACATCTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (14 bp):
CTAATTATATTTAA
Found at i:99149395 original size:17 final size:19
Alignment explanation
Indices: 99149363--99149409 Score: 71
Period size: 17 Copynumber: 2.6 Consensus size: 19
99149353 TTTGTGACCT
99149363 AAACTCTATCATCCTCTCA
1 AAACTCTATCATCCTCTCA
99149382 AAACTC-AT-ATCCTCTCA
1 AAACTCTATCATCCTCTCA
*
99149399 AAATTCTATCA
1 AAACTCTATCA
99149410 AATTCTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 14 0.56
18 4 0.16
19 7 0.28
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (19 bp):
AAACTCTATCATCCTCTCA
Found at i:99153375 original size:23 final size:22
Alignment explanation
Indices: 99153348--99153397 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
99153338 TGCCTAAAAT
99153348 GACACACGAGGTGCCTG-ATAC
1 GACACACGAGGTGCCTGAATAC
99153369 GACACACGAGGTGCCTGAAATAC
1 GACACACGAGGTGCCTG-AATAC
99153392 GACACA
1 GACACA
99153398 TCAAGTGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 17 0.63
23 10 0.37
ACGTcount: A:0.34, C:0.28, G:0.26, T:0.12
Consensus pattern (22 bp):
GACACACGAGGTGCCTGAATAC
Found at i:99153405 original size:23 final size:23
Alignment explanation
Indices: 99153323--99153407 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 23
99153313 TCTGATCAGT
**
99153323 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACGAAGTGCCTGAA
* *
99153345 A-ATGACACACGAGGTGCCTG--
1 ATACGACACACGAAGTGCCTGAA
*
99153365 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAAGTGCCTGAA
99153388 ATACGACACATC-AAGTGCCT
1 ATACGACACA-CGAAGTGCCT
99153408 AATCGGTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
20 1 0.02
21 32 0.62
22 1 0.02
23 17 0.33
24 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.16
Consensus pattern (23 bp):
ATACGACACACGAAGTGCCTGAA
Found at i:99154934 original size:22 final size:23
Alignment explanation
Indices: 99154896--99154942 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
99154886 TGTTCGAATG
99154896 CTTTCTGTTCTCTTTTCTCTATT
1 CTTTCTGTTCTCTTTTCTCTATT
* *
99154919 CTTTTTGTT-TCTTTTCTTTATT
1 CTTTCTGTTCTCTTTTCTCTATT
99154941 CT
1 CT
99154943 ATTTCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.04, C:0.21, G:0.04, T:0.70
Consensus pattern (23 bp):
CTTTCTGTTCTCTTTTCTCTATT
Found at i:99158717 original size:42 final size:43
Alignment explanation
Indices: 99158612--99158781 Score: 175
Period size: 43 Copynumber: 4.0 Consensus size: 43
99158602 TCATACAATA
* ** * *
99158612 CCAACGTCCCAGATGTGGTCTTACATGTAATCAAATATCGATG
1 CCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCGATG
* * *
99158655 CCACTGTCCCAGACAGGGTCTTACACGAAATCAGATA-CGATG
1 CCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCGATG
*
99158697 CCAATGTCCCTGACATGGTCTTACACGTAAATCACAA-ATCGATG
1 CCAATGTCCCAGACATGGTCTTACACG-AAATCA-AATATCGATG
** * *
99158741 CCAACATCCCAGACGTGGTCTTACACGATAAT-ACATATCGA
1 CCAATGTCCCAGACATGGTCTTACACGA-AATCAAATATCGA
99158782 AATTCCTATG
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
42 30 0.29
43 43 0.41
44 32 0.30
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
CCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCGATG
Found at i:99159460 original size:13 final size:13
Alignment explanation
Indices: 99159442--99159466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99159432 ACAAACAATA
99159442 AAATTTTCACACG
1 AAATTTTCACACG
99159455 AAATTTTCACAC
1 AAATTTTCACAC
99159467 ATATCACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:99166319 original size:86 final size:83
Alignment explanation
Indices: 99166178--99166340 Score: 256
Period size: 86 Copynumber: 1.9 Consensus size: 83
99166168 AATATGTTGC
*
99166178 TAATATGTCACCCCATAGGTTATCTTTTTGTCTGTTTTATTAAAAACATTAATATTTATGTTGCA
1 TAATATGTCACCCCATAGGTCATCTTTTTGTCTGTTTTATTAAAAACATTAATATTTATGTTGCA
99166243 AGAATTTATAAACTTTGA
66 AGAATTTATAAACTTTGA
* *
99166261 TAATATGTC-CTCCCATAGGTCATCTTTTTTTTTTCTGTTTTATTAAAAACATTGATATTTATGT
1 TAATATGTCAC-CCCATAGGTCATC---TTTTTGTCTGTTTTATTAAAAACATTAATATTTATGT
99166325 TGCAAGAATTTATAAA
62 TGCAAGAATTTATAAA
99166341 TATTTAAGGG
Statistics
Matches: 73, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
82 1 0.01
83 21 0.29
86 51 0.70
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.46
Consensus pattern (83 bp):
TAATATGTCACCCCATAGGTCATCTTTTTGTCTGTTTTATTAAAAACATTAATATTTATGTTGCA
AGAATTTATAAACTTTGA
Found at i:99168413 original size:8 final size:8
Alignment explanation
Indices: 99168400--99168426 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
99168390 TATGAAAAAT
99168400 ATTAATAA
1 ATTAATAA
99168408 ATTAATAA
1 ATTAATAA
99168416 ATTAATAA
1 ATTAATAA
99168424 ATT
1 ATT
99168427 TACAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATTAATAA
Found at i:99171337 original size:20 final size:20
Alignment explanation
Indices: 99171312--99171350 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
99171302 AGTTGTGAGT
99171312 TGAATTAAATTTTAATTAGG
1 TGAATTAAATTTTAATTAGG
* *
99171332 TGAATTTATTTTTAATTAG
1 TGAATTAAATTTTAATTAG
99171351 AAGTAATTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (20 bp):
TGAATTAAATTTTAATTAGG
Found at i:99171560 original size:3 final size:3
Alignment explanation
Indices: 99171552--99171582 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
99171542 AGATATTTAC
99171552 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
99171583 ATTTTATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:99171787 original size:16 final size:14
Alignment explanation
Indices: 99171766--99171799 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
99171756 ACAAGAAAAA
99171766 GAAATAGAGAAGAAAC
1 GAAATAGA-AAG-AAC
99171782 GAAATAGAAAGAAC
1 GAAATAGAAAGAAC
99171796 GAAA
1 GAAA
99171800 GAAGAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 3 0.17
16 8 0.44
ACGTcount: A:0.65, C:0.06, G:0.24, T:0.06
Consensus pattern (14 bp):
GAAATAGAAAGAAC
Found at i:99171793 original size:26 final size:25
Alignment explanation
Indices: 99171763--99171816 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
99171753 AAAACAAGAA
* * *
99171763 AAAGAAATAGAGAAGAAACGAAATAG
1 AAAGAAAGAAAGAAGAAAAGAAA-AG
*
99171789 AAAGAACGAAAGAAGAAAAGAAAAG
1 AAAGAAAGAAAGAAGAAAAGAAAAG
99171814 AAA
1 AAA
99171817 AAGGAGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.70, C:0.04, G:0.22, T:0.04
Consensus pattern (25 bp):
AAAGAAAGAAAGAAGAAAAGAAAAG
Found at i:99177051 original size:36 final size:37
Alignment explanation
Indices: 99177011--99177088 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
99177001 TAATTCCATA
*
99177011 GTCTTGC-ATATATCACAATGCCATAGCCCCGCTACG
1 GTCTTGCAATATATCACAATGCCATAGCCCAGCTACG
* * * ** *
99177047 GTCTTTCAATTTATTATGATGCCATAGCCCAGCTATG
1 GTCTTGCAATATATCACAATGCCATAGCCCAGCTACG
99177084 GTCTT
1 GTCTT
99177089 ACACATACAC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
36 6 0.18
37 28 0.82
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (37 bp):
GTCTTGCAATATATCACAATGCCATAGCCCAGCTACG
Found at i:99179665 original size:11 final size:11
Alignment explanation
Indices: 99179649--99179685 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
99179639 ATGAGCACTA
99179649 TATTTTTTTAC
1 TATTTTTTTAC
*
99179660 TA-TTTTCTA-
1 TATTTTTTTAC
99179669 TATTTTTTTAC
1 TATTTTTTTAC
99179680 TATTTT
1 TATTTT
99179686 CTCAGTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.09
10 12 0.55
11 8 0.36
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTTTTTTAC
Found at i:99179694 original size:20 final size:20
Alignment explanation
Indices: 99179646--99179687 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
99179636 GTGATGAGCA
99179646 CTATATTTTTTTACTATTTT
1 CTATATTTTTTTACTATTTT
99179666 CTATATTTTTTTACTATTTT
1 CTATATTTTTTTACTATTTT
99179686 CT
1 CT
99179688 CAGTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.69
Consensus pattern (20 bp):
CTATATTTTTTTACTATTTT
Found at i:99183570 original size:3 final size:3
Alignment explanation
Indices: 99183562--99183589 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
99183552 AAATTAAGAG
99183562 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
99183590 AGTATATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:99184375 original size:19 final size:19
Alignment explanation
Indices: 99184364--99184400 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
99184354 AATAATTTTT
99184364 AAAATTCCAAATATTTATA
1 AAAATTCCAAATATTTATA
99184383 AAAATTCCAAAT-TTTATA
1 AAAATTCCAAATATTTATA
99184401 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTCCAAATATTTATA
Found at i:99184384 original size:18 final size:18
Alignment explanation
Indices: 99184353--99184400 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
99184343 TAAAAATATA
*
99184353 AAATAATTTTTAAAATTCC
1 AAAT-ATTTATAAAATTCC
99184372 AAATATTTATAAAAATTCC
1 AAATATTTAT-AAAATTCC
99184391 AAAT-TTTATA
1 AAATATTTATA
99184401 TTTTAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 1 0.04
18 10 0.37
19 16 0.59
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATATTTATAAAATTCC
Found at i:99185215 original size:127 final size:127
Alignment explanation
Indices: 99184902--99185225 Score: 429
Period size: 127 Copynumber: 2.5 Consensus size: 127
99184892 AGCTCAACGA
*
99184902 AAAACCGAAACCCAGCAC-AGTAGGGCACGA-TTCCTCGAATTTCCAAACATTGAATATTGCCTT
1 AAAATCGAAACCCAGCACGA-TAGGGCACGATTTCC-CGAATTTCCAAACATTGAATATTGCCTT
** * *
99184965 ACTTTATAATTTAAAAAACACTAGTGAAATTCTAAAGGAATATTCAATTATTTTGAACAAACCG
64 GTTTTAGAATTTAAAAAACACTAGTGAAATTCTAAAGCAATATTCAATTATTTTGAACAAACCG
* * * *
99185029 AAAATCCAAACCCAACACGATAGGGCACGATTCCCCGAATTTCCAAATATTGAATATTGCCTTGT
1 AAAATCGAAACCCAGCACGATAGGGCACGATTTCCCGAATTTCCAAACATTGAATATTGCCTTGT
** * *
99185094 TTTAGAATTTGGAAAACACGT-GTGAAATTCTAAAGCAATATTCGATTATTTTGAACAAACGG
66 TTTAGAATTTAAAAAACAC-TAGTGAAATTCTAAAGCAATATTCAATTATTTTGAACAAACCG
* * ** *
99185156 GAAATCGAAACCCAGCACGATAGGGCACGATTTCCCGAATTTTCAAACATCAAACATTGCCTTCG
1 AAAATCGAAACCCAGCACGATAGGGCACGATTTCCCGAATTTCCAAACATTGAATATTGCCTT-G
99185221 TTTTA
65 TTTTA
99185226 AGGAATTTTC
Statistics
Matches: 171, Mismatches: 22, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
127 160 0.94
128 11 0.06
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (127 bp):
AAAATCGAAACCCAGCACGATAGGGCACGATTTCCCGAATTTCCAAACATTGAATATTGCCTTGT
TTTAGAATTTAAAAAACACTAGTGAAATTCTAAAGCAATATTCAATTATTTTGAACAAACCG
Found at i:99185764 original size:2 final size:2
Alignment explanation
Indices: 99185757--99185782 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
99185747 CCAAATATTA
99185757 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
99185783 TTACAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99187947 original size:44 final size:44
Alignment explanation
Indices: 99187749--99188242 Score: 280
Period size: 44 Copynumber: 11.2 Consensus size: 44
99187739 TAATCTTCTC
* * *
99187749 TACTGCAA-CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCA
1 TACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-T
* ** * * * *
99187793 TATTTTTATCCTGCTCTACTGTAACTTCAGAGAGATACGGATTTGT
1 TACTTCAAT-CTGCTCCACTGCAACTTCAGGGAGATA-AGATTTGT
* * * * * *
99187839 TATTTCAACCCGCTCTACTGCAACTTCAGAGAGATAAGGA-TCGT
1 TACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTTGT
** * * * *
99187883 GGCTTCGATTTGCCCCACTGCAACTTCAGGGAGACAAGATTTGT
1 TACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
* * * *
99187927 TACTTCAACCTGCTCTACTGCAACTTCAGAGAGATAAGGA-TCGT
1 TACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTTGT
** * * * * * * **
99187971 GGCTTCGATCTGCCCCACTGTAACTTTAGGGAGACAAGATCTAC
1 TACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
* * * * *
99188015 TATCTTCAGTCTGCTCCACTACAACTTCAGGAAGATAAGACTCGT
1 TA-CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
* * * * * * *
99188060 TACTTCGATCTGTTCCATTGCAGCTTCAGGGAGACAAGATCTGC
1 TACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
* * * *
99188104 TATCTTCAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTTG-
1 TA-CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
* * * ** * *
99188148 --CTTCGATCTGCTCCGCTGCAACTTTAGGGAGGCAAGATCTGC
1 TACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
* * * * * * *
99188190 TATTTTTAGTCTGTTCCACTACAACTTCAGGGAGACAAGACTTGT
1 TA-CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
99188235 TACTTCAA
1 TACTTCAA
99188243 CCCGCTCTAT
Statistics
Matches: 324, Mismatches: 113, Indels: 26
0.70 0.24 0.06
Matches are distributed among these distances:
41 33 0.10
43 4 0.01
44 129 0.40
45 123 0.38
46 30 0.09
47 5 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
TACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
Found at i:99188034 original size:45 final size:44
Alignment explanation
Indices: 99187897--99188229 Score: 218
Period size: 45 Copynumber: 7.6 Consensus size: 44
99187887 TCGATTTGCC
* * * **
99187897 CCACTGCAACTTCAGGGAGACAAGATTTGT-TACTTCAACCTGCT
1 CCACTACAACTTCAGGGAGACAAGATCTCTAT-CTTCAGTCTGCT
* * * * * ** *
99187941 CTACTGCAACTTCAGAGAGATAAGGATC-GTGGCTTC-GATCTGCC
1 CCACTACAACTTCAGGGAGACAA-GATCTCTATCTTCAG-TCTGCT
** *
99187985 CCACTGTAACTTTAGGGAGACAAGATCTACTATCTTCAGTCTGCT
1 CCACTACAACTTCAGGGAGACAAGATCT-CTATCTTCAGTCTGCT
* * *
99188030 CCACTACAACTTCAGGAAGATAAGA-CTCGT-TACTTC-GATCTGTT
1 CCACTACAACTTCAGGGAGACAAGATCTC-TAT-CTTCAG-TCTGCT
* * *
99188074 CCATTGCAGCTTCAGGGAGACAAGATCTGCTATCTTCAGTCTGCT
1 CCACTACAACTTCAGGGAGACAAGATCT-CTATCTTCAGTCTGCT
* * *
99188119 CCACTACAACTTTAGGGAGATAAGA-CT-T-GCTTC-GATCTGCT
1 CCACTACAACTTCAGGGAGACAAGATCTCTATCTTCAG-TCTGCT
* * * * * * *
99188160 CCGCTGCAACTTTAGGGAGGCAAGATCTGCTATTTTTAGTCTGTT
1 CCACTACAACTTCAGGGAGACAAGATCT-CTATCTTCAGTCTGCT
99188205 CCACTACAACTTCAGGGAGACAAGA
1 CCACTACAACTTCAGGGAGACAAGA
99188230 CTTGTTACTT
Statistics
Matches: 223, Mismatches: 47, Indels: 37
0.73 0.15 0.12
Matches are distributed among these distances:
40 1 0.00
41 31 0.14
42 3 0.01
43 7 0.03
44 83 0.37
45 93 0.42
46 5 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (44 bp):
CCACTACAACTTCAGGGAGACAAGATCTCTATCTTCAGTCTGCT
Found at i:99188067 original size:89 final size:88
Alignment explanation
Indices: 99187850--99188229 Score: 410
Period size: 89 Copynumber: 4.3 Consensus size: 88
99187840 ATTTCAACCC
* * * *
99187850 GCTCTACTGCAACTTCA-GAGAGATAAGGATCGTGGCTTCGATTTGCCCCACTGCAACTTCAGGG
1 GCTCCACTACAACTTCAGGA-AGATAA-GATCGTTGCTTCGATCTGCCCCACTGCAACTTCAGGG
* * **
99187914 AGACAAGATTTGTTA-CTTCAACCT
64 AGACAAGATCTGCTATCTTCAGTCT
* * * * *
99187938 GCTCTACTGCAACTTCA-GAGAGATAAGGATCGTGGCTTCGATCTGCCCCACTGTAACTTTAGGG
1 GCTCCACTACAACTTCAGGA-AGATAA-GATCGTTGCTTCGATCTGCCCCACTGCAACTTCAGGG
*
99188002 AGACAAGATCTACTATCTTCAGTCT
64 AGACAAGATCTGCTATCTTCAGTCT
* ** * *
99188027 GCTCCACTACAACTTCAGGAAGATAAGACTCGTTACTTCGATCTGTTCCATTGCAGCTTCAGGGA
1 GCTCCACTACAACTTCAGGAAGATAAGA-TCGTTGCTTCGATCTGCCCCACTGCAACTTCAGGGA
99188092 GACAAGATCTGCTATCTTCAGTCT
65 GACAAGATCTGCTATCTTCAGTCT
* * * * *
99188116 GCTCCACTACAACTTTAGGGAGATAAGA-C-TTGCTTCGATCTGCTCCGCTGCAACTTTAGGGAG
1 GCTCCACTACAACTTCAGGAAGATAAGATCGTTGCTTCGATCTGCCCCACTGCAACTTCAGGGAG
* * *
99188179 GCAAGATCTGCTATTTTTAGTCT
66 ACAAGATCTGCTATCTTCAGTCT
* * *
99188202 GTTCCACTACAACTTCAGGGAGACAAGA
1 GCTCCACTACAACTTCAGGAAGATAAGA
99188230 CTTGTTACTT
Statistics
Matches: 256, Mismatches: 33, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
86 73 0.29
87 1 0.00
88 75 0.29
89 105 0.41
90 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (88 bp):
GCTCCACTACAACTTCAGGAAGATAAGATCGTTGCTTCGATCTGCCCCACTGCAACTTCAGGGAG
ACAAGATCTGCTATCTTCAGTCT
Found at i:99188211 original size:175 final size:177
Alignment explanation
Indices: 99187901--99188240 Score: 461
Period size: 175 Copynumber: 1.9 Consensus size: 177
99187891 TTTGCCCCAC
* * * *
99187901 TGCAACTTCAGGGAGACAAGATTTGTTACTTCAACCTGCTCTACTGCAACTTCAGAGAGATAAGG
1 TGCAACTTCAGGGAGACAAGATCTGCTACTTCAACCTGCTCCACTACAACTTCAGAGAGATAAGG
*
99187966 ATCGTGGCTTCGATCTGCCCCACTGTAACTTTAGGGAGACAAGATCTACTATCTTCAGTCTGCTC
66 ATCGTGGCTTCGATCTGCCCCACTGCAACTTTAGGGAGACAAGATCTACTATCTTCAGTCTGCTC
*
99188031 CACTACAACTTCAGGAAGATAAGACTCGTTACTTCGATCTGTTCCAT
131 CACTACAACTTCAGGAAGACAAGACTCGTTACTTCGATCTGTTCCAT
* ** * *
99188078 TGCAGCTTCAGGGAGACAAGATCTGCTATCTTCAGTCTGCTCCACTACAACTTTAGGGAGATAA-
1 TGCAACTTCAGGGAGACAAGATCTGCTA-CTTCAACCTGCTCCACTACAACTTCAGAGAGATAAG
* * * * * * * *
99188142 GA-C-TTGCTTCGATCTGCTCCGCTGCAACTTTAGGGAGGCAAGATCTGCTATTTTTAGTCTGTT
65 GATCGTGGCTTCGATCTGCCCCACTGCAACTTTAGGGAGACAAGATCTACTATCTTCAGTCTGCT
* *
99188205 CCACTACAACTTCAGGGAGACAAGACTTGTTACTTC
130 CCACTACAACTTCAGGAAGACAAGACTCGTTACTTC
99188241 AACCCGCTCT
Statistics
Matches: 141, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
175 84 0.60
176 1 0.01
177 27 0.19
178 29 0.21
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (177 bp):
TGCAACTTCAGGGAGACAAGATCTGCTACTTCAACCTGCTCCACTACAACTTCAGAGAGATAAGG
ATCGTGGCTTCGATCTGCCCCACTGCAACTTTAGGGAGACAAGATCTACTATCTTCAGTCTGCTC
CACTACAACTTCAGGAAGACAAGACTCGTTACTTCGATCTGTTCCAT
Found at i:99195410 original size:24 final size:24
Alignment explanation
Indices: 99195364--99195419 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
99195354 GTAAGGAGGG
* *
99195364 GATAAGGGAGAGAATTTAGGAGCA
1 GATAAGGGAGAGAATCTAAGAGCA
*
99195388 GATAAGGGAG-GAAATCTAAGAGCT
1 GATAAGGGAGAG-AATCTAAGAGCA
99195412 GATCAAGG
1 GAT-AAGG
99195420 AACAAGAGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 1 0.04
24 22 0.81
25 4 0.15
ACGTcount: A:0.41, C:0.07, G:0.36, T:0.16
Consensus pattern (24 bp):
GATAAGGGAGAGAATCTAAGAGCA
Found at i:99196823 original size:27 final size:27
Alignment explanation
Indices: 99196793--99196904 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
99196783 AGGAAGCGTC
* *
99196793 CTGGTGGATATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
99196820 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
99196847 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * * *
99196875 CTGGTGACTCTGTCAC-ATTATATGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
99196901 CTGG
1 CTGG
99196905 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 8 0.11
27 47 0.64
28 18 0.25
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:99196901 original size:54 final size:54
Alignment explanation
Indices: 99196793--99196904 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
99196783 AGGAAGCGTC
* * *
99196793 CTGGTGGATATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGATATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATATGTT
* * * *
99196847 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATATGTT
1 CTGGTGGATATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATATGTT
99196901 CTGG
1 CTGG
99196905 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGATATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATATGTT
Found at i:99199624 original size:19 final size:19
Alignment explanation
Indices: 99199600--99199640 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
99199590 TTATGGCCTT
*
99199600 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATG-AATG
99199619 TAATGCAAATGCATGAATG
1 TAATGCAAATGCATGAATG
99199638 TAA
1 TAA
99199641 ATGAGGCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (19 bp):
TAATGCAAATGCATGAATG
Found at i:99203048 original size:127 final size:127
Alignment explanation
Indices: 99202911--99203226 Score: 467
Period size: 127 Copynumber: 2.5 Consensus size: 127
99202901 GCTCAACGAA
*
99202911 AAATCGAAACCCAGCAC-AGTAGGGCACGATTCCTCGAATTTCCAAACATTAAACATTGCCTTGC
1 AAATCAAAACCCAGCACGA-TAGGGCACGATTCCTCGAATTTCCAAACATTAAACATTGCCTTGC
* *
99202975 TTTAGAATTTAGAAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTTGAACAAACCGG
65 TTTAGAATTTAGAAAACACGAGTAAAATTCTAAAGCAATATTCAATTATTTTGAACAAACCGG
* * * *
99203038 AAATCCAAACCCAGCACGATAGGGCACGATT-CTCTGAATTTCCAAACATTGAATATTGCCTTGT
1 AAATCAAAACCCAGCACGATAGGGCACGATTCCTC-GAATTTCCAAACATTAAACATTGCCTTGC
* * * *
99203102 TTTAGAATTTGGAGAACACGAGTAAAATTCTAAAGCAATATTCGATTATTTTGAACAAACGGG
65 TTTAGAATTTAGAAAACACGAGTAAAATTCTAAAGCAATATTCAATTATTTTGAACAAACCGG
* *
99203165 AAATCAAAACCCAGCACGATAGGGCACGATTTCC-CGAATTTTCAAACATCAAACATTGCCTT
1 AAATCAAAACCCAGCACGATAGGGCACGA-TTCCTCGAATTTCCAAACATTAAACATTGCCTT
99203227 CGTTTTAAGG
Statistics
Matches: 170, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
126 3 0.02
127 162 0.95
128 4 0.02
129 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (127 bp):
AAATCAAAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACATTAAACATTGCCTTGCT
TTAGAATTTAGAAAACACGAGTAAAATTCTAAAGCAATATTCAATTATTTTGAACAAACCGG
Found at i:99204820 original size:30 final size:30
Alignment explanation
Indices: 99204786--99204847 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
99204776 TTGCCTTCAT
99204786 TCAGCTGAACCTTAACAATGCCCTAGCCTC
1 TCAGCTGAACCTTAACAATGCCCTAGCCTC
99204816 TCAGCTGAACCTTAACAATGCCCTAGCCTC
1 TCAGCTGAACCTTAACAATGCCCTAGCCTC
99204846 TC
1 TC
99204848 CATTTTGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.37, G:0.13, T:0.24
Consensus pattern (30 bp):
TCAGCTGAACCTTAACAATGCCCTAGCCTC
Found at i:99207349 original size:10 final size:10
Alignment explanation
Indices: 99207312--99207407 Score: 69
Period size: 10 Copynumber: 10.0 Consensus size: 10
99207302 AAAGGAGTGG
99207312 TAATTTTT-A
1 TAATTTTTAA
99207321 -AATTTTT-A
1 TAATTTTTAA
**
99207329 TAACATTTAA
1 TAATTTTTAA
*
99207339 TACTTTTTAA
1 TAATTTTTAA
** *
99207349 TAACATTTAC
1 TAATTTTTAA
99207359 T-ATTTTCTAA
1 TAATTTT-TAA
99207369 TAATTTTCTAA
1 TAATTTT-TAA
99207380 T-A-TTTTAA
1 TAATTTTTAA
*
99207388 TAATTTCTAA
1 TAATTTTTAA
99207398 TAATTTTTAA
1 TAATTTTTAA
99207408 AACTAGTAAT
Statistics
Matches: 67, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
8 12 0.18
9 12 0.18
10 33 0.49
11 10 0.15
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:99207375 original size:29 final size:29
Alignment explanation
Indices: 99207343--99207404 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
99207333 ATTTAATACT
* *
99207343 TTTTAATAACA-TTTACTATTTTCTAATAA
1 TTTT-ATAACATTTTAATAATTTCTAATAA
* *
99207372 TTTTCTAATATTTTAATAATTTCTAATAA
1 TTTTATAACATTTTAATAATTTCTAATAA
99207401 TTTT
1 TTTT
99207405 TAAAACTAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTTATAACATTTTAATAATTTCTAATAA
Found at i:99207376 original size:11 final size:11
Alignment explanation
Indices: 99207360--99207404 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
99207350 AACATTTACT
99207360 ATTTTCTAATA
1 ATTTTCTAATA
99207371 ATTTTCTAAT-
1 ATTTTCTAATA
99207381 A-TTT-TAATA
1 ATTTTCTAATA
99207390 A-TTTCTAATA
1 ATTTTCTAATA
99207400 ATTTT
1 ATTTT
99207405 TAAAACTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 4 0.13
9 7 0.23
10 7 0.23
11 13 0.42
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTTTCTAATA
Found at i:99207390 original size:19 final size:19
Alignment explanation
Indices: 99207366--99207404 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
99207356 TACTATTTTC
99207366 TAATAATTTTCTAAT-ATTT
1 TAATAA-TTTCTAATAATTT
99207385 TAATAATTTCTAATAATTT
1 TAATAATTTCTAATAATTT
99207404 T
1 T
99207405 TAAAACTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
TAATAATTTCTAATAATTT
Found at i:99207417 original size:29 final size:29
Alignment explanation
Indices: 99207362--99207417 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
99207352 CATTTACTAT
* **
99207362 TTTCTAATAATTTTCTAATATTTTAATAA
1 TTTCTAATAATTTTCTAAAATAGTAATAA
99207391 TTTCTAATAATTTT-TAAAACTAGTAAT
1 TTTCTAATAATTTTCTAAAA-TAGTAAT
99207418 TTTTTAACCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (29 bp):
TTTCTAATAATTTTCTAAAATAGTAATAA
Found at i:99211384 original size:27 final size:27
Alignment explanation
Indices: 99211346--99211410 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
99211336 TTTAGACATA
99211346 ATTGCAATTGCTCGAGTCTAATTTTAT
1 ATTGCAATTGCTCGAGTCTAATTTTAT
99211373 ATTGCAATTGCTCGAGTCTAATTTTAT
1 ATTGCAATTGCTCGAGTCTAATTTTAT
*
99211400 ATGTTCAATTG
1 AT-TGCAATTG
99211411 GTCCATTTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 29 0.81
28 7 0.19
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (27 bp):
ATTGCAATTGCTCGAGTCTAATTTTAT
Found at i:99211608 original size:19 final size:19
Alignment explanation
Indices: 99211574--99211612 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
99211564 TCTTGAAATA
99211574 TTTGGAAAATATTAATGATT
1 TTTGGAAAATATTAAT-ATT
99211594 TTTGGAAAA-ATTAATATT
1 TTTGGAAAATATTAATATT
99211612 T
1 T
99211613 ATCAAGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 6 0.32
20 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (19 bp):
TTTGGAAAATATTAATATT
Found at i:99213369 original size:22 final size:22
Alignment explanation
Indices: 99213339--99213385 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
99213329 ATAGTTTATC
*
99213339 TTTTATTTGTTTGATGAGAAAA
1 TTTTATTTGTTTGATGAAAAAA
*
99213361 TTTTGTTTGTTTGATGAAAAAA
1 TTTTATTTGTTTGATGAAAAAA
99213383 TTT
1 TTT
99213386 GGAATGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (22 bp):
TTTTATTTGTTTGATGAAAAAA
Found at i:99213657 original size:12 final size:13
Alignment explanation
Indices: 99213640--99213673 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
99213630 AATTAACACC
99213640 CCACTAAACTA-A
1 CCACTAAACTATA
*
99213652 CCACTAAACTATC
1 CCACTAAACTATA
99213665 CCACTAAAC
1 CCACTAAAC
99213674 CACCCCACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.18
Consensus pattern (13 bp):
CCACTAAACTATA
Found at i:99213670 original size:13 final size:12
Alignment explanation
Indices: 99213639--99213684 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
99213629 CAATTAACAC
99213639 CCCACTAAACTA
1 CCCACTAAACTA
*
99213651 ACCACTAAACTA
1 CCCACTAAACTA
*
99213663 TCCCACTAAACCA
1 -CCCACTAAACTA
99213676 CCCCACTAA
1 -CCCACTAA
99213685 CTTCATCACC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.41, C:0.43, G:0.00, T:0.15
Consensus pattern (12 bp):
CCCACTAAACTA
Found at i:99214157 original size:3 final size:3
Alignment explanation
Indices: 99214149--99214180 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
99214139 GGGCAGAATG
99214149 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
99214181 CTATATACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:99214257 original size:3 final size:3
Alignment explanation
Indices: 99214236--99214452 Score: 67
Period size: 3 Copynumber: 71.0 Consensus size: 3
99214226 AACGCAATAG
* *
99214236 TAT TTT TAT TAT T-T CAT TAT TAT T-T T-T TACCT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA--T TAT TAT TAT TAT
* * * * *
99214280 TAT TAT TAACC TAC TAT TAT TAT TTT TAT TAA TA- TAG TAT TAT T-T
1 TAT TAT T-A-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * * * *
99214325 TTT TCG TAT TGT TAT TAT TAT TAG CA- CAT ATAT TAT TAT TAAT GTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT T-AT -TAT
* * * * *
99214372 CAT TGT TAT TTT CTAT T-T TAT TAT TACT T-T TAT TAC TAT TGT T-T
1 TAT TAT TAT TAT -TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
99214416 CTAT TAT TAT TAT T-T TCAT TACT TCCAT TAT TAT TAT
1 -TAT TAT TAT TAT TAT T-AT TA-T T--AT TAT TAT TAT
99214453 CGTTATTTTC
Statistics
Matches: 163, Mismatches: 28, Indels: 46
0.69 0.12 0.19
Matches are distributed among these distances:
2 18 0.11
3 120 0.74
4 17 0.10
5 7 0.04
6 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:99214301 original size:23 final size:24
Alignment explanation
Indices: 99214251--99214311 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 24
99214241 TTATTATTTC
* * *
99214251 ATTATTATTTTTTACCTTATTATT
1 ATTATTATTATTAACCTTACTATT
99214275 ATTATTATTATTAACC-TACTATT
1 ATTATTATTATTAACCTTACTATT
*
99214298 ATTATTTTTATTAA
1 ATTATTATTATTAA
99214312 TATAGTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
23 19 0.58
24 14 0.42
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (24 bp):
ATTATTATTATTAACCTTACTATT
Found at i:99214320 original size:23 final size:23
Alignment explanation
Indices: 99214271--99214328 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
99214261 TTTACCTTAT
* *
99214271 TATTATTATTATTATTAACCTAC
1 TATTATTATTTTTATTAACATAC
* *
99214294 TATTATTATTTTTATTAATATAG
1 TATTATTATTTTTATTAACATAC
99214317 TATTATT-TTTTT
1 TATTATTATTTTT
99214329 CGTATTGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 5 0.16
23 26 0.84
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (23 bp):
TATTATTATTTTTATTAACATAC
Found at i:99214562 original size:21 final size:21
Alignment explanation
Indices: 99214533--99214582 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
99214523 ATATATATTT
* *
99214533 TTTAATATTATTACCATTATA
1 TTTATTATTACTACCATTATA
* *
99214554 TTTATTATTACTACTATTATT
1 TTTATTATTACTACCATTATA
99214575 TTTATTAT
1 TTTATTAT
99214583 CCATCCTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTATTATTACTACCATTATA
Found at i:99214722 original size:15 final size:16
Alignment explanation
Indices: 99214691--99214725 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
99214681 TTATTCCATT
*
99214691 TTTTATCTCTATATTA
1 TTTTATCTATATATTA
99214707 TTTTATCTAT-TATTA
1 TTTTATCTATATATTA
99214722 TTTT
1 TTTT
99214726 TGCCTGGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTATCTATATATTA
Found at i:99214726 original size:16 final size:17
Alignment explanation
Indices: 99214690--99214726 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
99214680 ATTATTCCAT
*
99214690 TTTTTATCTCTATATTA
1 TTTTTATCTATATATTA
99214707 -TTTTATCTAT-TATTA
1 TTTTTATCTATATATTA
99214722 TTTTT
1 TTTTT
99214727 GCCTGGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTATCTATATATTA
Found at i:99215877 original size:38 final size:38
Alignment explanation
Indices: 99215833--99215921 Score: 153
Period size: 38 Copynumber: 2.4 Consensus size: 38
99215823 TACAATTGTG
99215833 ATATATTTATTTATTTACTTTTATTTAAGTAAATAGAT
1 ATATATTTATTTATTTACTTTTATTTAAGTAAATAGAT
*
99215871 ATATATTTATTTAATTACTTTTATTTAAGTAAATAGAT
1 ATATATTTATTTATTTACTTTTATTTAAGTAAATAGAT
*
99215909 ATTTA-TTATTTAT
1 ATATATTTATTTAT
99215922 ATTTATTAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
37 7 0.15
38 41 0.85
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.56
Consensus pattern (38 bp):
ATATATTTATTTATTTACTTTTATTTAAGTAAATAGAT
Found at i:99215883 original size:34 final size:34
Alignment explanation
Indices: 99215835--99215946 Score: 133
Period size: 38 Copynumber: 3.3 Consensus size: 34
99215825 CAATTGTGAT
99215835 ATATTTATTTATTTACTTTTATTTAAGTAAATAG
1 ATATTTATTTATTTACTTTTATTTAAGTAAATAG
*
99215869 ATATATATTTATTTAATTACTTTTATTTAAGTAAATAG
1 ----ATATTTATTTATTTACTTTTATTTAAGTAAATAG
99215907 ATATTTA-TTATTTA-TATTTA-TTAAGTAAA-AG
1 ATATTTATTTATTTACT-TTTATTTAAGTAAATAG
*
99215938 ATAATTATT
1 ATATTTATT
99215947 AATTAAATAA
Statistics
Matches: 69, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
31 8 0.12
32 11 0.16
33 10 0.14
34 7 0.10
38 33 0.48
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (34 bp):
ATATTTATTTATTTACTTTTATTTAAGTAAATAG
Found at i:99216144 original size:31 final size:28
Alignment explanation
Indices: 99216088--99216150 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 28
99216078 TAGATATTTA
*
99216088 TTATTTATTATTATTAAATAAAAGATGT
1 TTATTTATAATTATTAAATAAAAGATGT
* *
99216116 TTATTTGATAATTAATTAAATTATAAGATTT
1 TTATTT-ATAATT-ATTAAA-TAAAAGATGT
99216147 TTAT
1 TTAT
99216151 GAGGTAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 6 0.21
29 5 0.17
30 6 0.21
31 12 0.41
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.52
Consensus pattern (28 bp):
TTATTTATAATTATTAAATAAAAGATGT
Found at i:99216302 original size:15 final size:16
Alignment explanation
Indices: 99216274--99216303 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
99216264 TATATGTTAT
99216274 AAAAGAATAAAGAAAC
1 AAAAGAATAAAGAAAC
99216290 AAAAGAA-AAAGAAA
1 AAAAGAATAAAGAAA
99216304 GGAGGAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.80, C:0.03, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAAGAATAAAGAAAC
Found at i:99216331 original size:13 final size:13
Alignment explanation
Indices: 99216293--99216332 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 13
99216283 AAGAAACAAA
99216293 AGAAAAAGAAAGG
1 AGAAAAAGAAAGG
99216306 AGGAAGAACAGAAAGG
1 A-GAA-AA-AGAAAGG
99216322 AGAAAAAGAAA
1 AGAAAAAGAAA
99216333 AGAAAAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 6 0.25
14 5 0.21
15 5 0.21
16 8 0.33
ACGTcount: A:0.68, C:0.03, G:0.30, T:0.00
Consensus pattern (13 bp):
AGAAAAAGAAAGG
Found at i:99217423 original size:51 final size:54
Alignment explanation
Indices: 99217338--99217453 Score: 139
Period size: 51 Copynumber: 2.2 Consensus size: 54
99217328 AAGTGTCGCC
* * *
99217338 TTACTGTTACTGTTCCGAATTCGTTCTGAAGAGGTA-T-TCTGTACC-TTACTG
1 TTACTGTTACTGTTCCGAATTCATTCCGAAGAGGTACTCTCTGTACCGCTACTG
* * * * *
99217389 TTATTGTTACTGTTCCGGATTTATTCCGATGAGGTACTCTGTGTACCGCTACTG
1 TTACTGTTACTGTTCCGAATTCATTCCGAAGAGGTACTCTCTGTACCGCTACTG
99217443 TTACTGTTACT
1 TTACTGTTACT
99217454 TTTACTGTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
51 30 0.57
52 1 0.02
53 7 0.13
54 15 0.28
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (54 bp):
TTACTGTTACTGTTCCGAATTCATTCCGAAGAGGTACTCTCTGTACCGCTACTG
Found at i:99217601 original size:18 final size:18
Alignment explanation
Indices: 99217578--99217697 Score: 73
Period size: 18 Copynumber: 6.6 Consensus size: 18
99217568 TAAATAAAGG
99217578 TACTGAATAATTAACTGT
1 TACTGAATAATTAACTGT
* *
99217596 TACTGAATAACTGACTGT
1 TACTGAATAATTAACTGT
* *
99217614 TACT-AGATAACTAACTGC
1 TACTGA-ATAATTAACTGT
* * ** *
99217632 TATTGCATAAAAAAAATTGT
1 TACTG-A-ATAATTAACTGT
* * *
99217652 TATTGAATAATTGATTGT
1 TACTGAATAATTAACTGT
*
99217670 TACTGAATAATATATC-GT
1 TACTGAATAAT-TAACTGT
99217688 TACTGAATAA
1 TACTGAATAA
99217698 CTGACTATTA
Statistics
Matches: 79, Mismatches: 19, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
17 1 0.01
18 63 0.80
19 2 0.03
20 13 0.16
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (18 bp):
TACTGAATAATTAACTGT
Found at i:99218642 original size:9 final size:9
Alignment explanation
Indices: 99218628--99218704 Score: 100
Period size: 9 Copynumber: 8.6 Consensus size: 9
99218618 ATAAGTATAA
99218628 AATTAACCG
1 AATTAACCG
*
99218637 AATTAATCG
1 AATTAACCG
99218646 AATTAACCG
1 AATTAACCG
*
99218655 AATTACCCG
1 AATTAACCG
* *
99218664 AATTACCCA
1 AATTAACCG
*
99218673 AATTAATCG
1 AATTAACCG
*
99218682 AATTAACCA
1 AATTAACCG
99218691 AATTAACCG
1 AATTAACCG
99218700 AATTA
1 AATTA
99218705 TTTGTATAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:99218677 original size:36 final size:36
Alignment explanation
Indices: 99218628--99218704 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
99218618 ATAAGTATAA
* * *
99218628 AATTAACCGAATTAATCGAATTAACCGAATTACCCG
1 AATTAACCAAATTAATCGAATTAACCAAATTAACCG
*
99218664 AATTACCCAAATTAATCGAATTAACCAAATTAACCG
1 AATTAACCAAATTAATCGAATTAACCAAATTAACCG
99218700 AATTA
1 AATTA
99218705 TTTGTATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (36 bp):
AATTAACCAAATTAATCGAATTAACCAAATTAACCG
Found at i:99218745 original size:5 final size:6
Alignment explanation
Indices: 99218727--99218770 Score: 61
Period size: 6 Copynumber: 7.0 Consensus size: 6
99218717 TATATGTTTC
*
99218727 TTATTT TTATTT TTATTT TTAGTTT TAGATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTA-TTT T-TATTT TTATTT TTATTT
99218771 AATAAATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 25 0.74
7 8 0.24
8 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:99218811 original size:13 final size:13
Alignment explanation
Indices: 99218795--99218819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99218785 AATTTTTATG
99218795 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
99218808 ATTGGGTTGGGT
1 ATTGGGTTGGGT
99218820 TGGGTACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:99218946 original size:17 final size:18
Alignment explanation
Indices: 99218921--99218957 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
99218911 TTTTTTTATT
*
99218921 AATTTTTTTGATTAACCG
1 AATTTTTTCGATTAACCG
*
99218939 AATTTTTTCGGTTAACCG
1 AATTTTTTCGATTAACCG
99218957 A
1 A
99218958 CCGGTTTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.46
Consensus pattern (18 bp):
AATTTTTTCGATTAACCG
Found at i:99219462 original size:22 final size:22
Alignment explanation
Indices: 99219434--99219476 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
99219424 TGACATCACG
99219434 ACTTCGGGGCTTGCTCATTGCA
1 ACTTCGGGGCTTGCTCATTGCA
99219456 ACTTCGGGGCTTGCTCATTGC
1 ACTTCGGGGCTTGCTCATTGC
99219477 GATGCAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.12, C:0.28, G:0.28, T:0.33
Consensus pattern (22 bp):
ACTTCGGGGCTTGCTCATTGCA
Found at i:99225930 original size:18 final size:19
Alignment explanation
Indices: 99225896--99225937 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
99225886 CCTTTTTTAA
*
99225896 ATTTTTTATATATTTATTC
1 ATTTTTTATACATTTATTC
*
99225915 ATTTTTTATACA-TTATTT
1 ATTTTTTATACATTTATTC
99225933 ATTTT
1 ATTTT
99225938 AAACAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTTTTATACATTTATTC
Found at i:99225938 original size:27 final size:25
Alignment explanation
Indices: 99225915--99226285 Score: 277
Period size: 26 Copynumber: 14.2 Consensus size: 25
99225905 ATATTTATTC
*
99225915 ATTTTTTATACATTATTTATTTTAA
1 ATTTTTTATATATTATTTATTTTAA
** *
99225940 ACAGTTTTATATTTTATTTATTTTAA
1 A-TTTTTTATATATTATTTATTTTAA
* * *
99225966 AATTCTTATATATTATTTATATTAA
1 ATTTTTTATATATTATTTATTTTAA
*
99225991 ATTGTTT-TATATTATTTATTTTAA
1 ATTTTTTATATATTATTTATTTTAA
* *
99226015 ATCATTTTAGATTATTATTTATTTTAA
1 AT-TTTTTATA-TATTATTTATTTTAA
*
99226042 ATTGTTTTATATATTATTTATTTTGA
1 ATT-TTTTATATATTATTTATTTTAA
*
99226068 ATTGCTTTATATATTATTTTATTTTAA
1 ATT-TTTTATATATTA-TTTATTTTAA
*
99226095 ACTGATTTATATATATTATTTATTTTAGA
1 A-T--TTTTTATATATTATTTATTTTA-A
* * * *
99226124 TTTTTTTCCACATATTATTTCTTTTAG
1 ATTTTTT--ATATATTATTTATTTTAA
* *
99226151 ATTGTTTTATGTATTGTTTATTTTAA
1 ATT-TTTTATATATTATTTATTTTAA
** *
99226177 ATTGCATTA-A-ATTATTTATTTCAA
1 ATT-TTTTATATATTATTTATTTTAA
*
99226201 ATTGTTTTATACT-TTATTTATGTTAA
1 ATT-TTTTATA-TATTATTTATTTTAA
* *
99226227 ATCATTTTCATATATTGTTTATTTTGAA
1 AT--TTTTTATATATTATTTATTTT-AA
99226255 CCATTTTTT-TGA-ATTATTTATTTTAA
1 --ATTTTTTAT-ATATTATTTATTTTAA
99226281 ATTTT
1 ATTTT
99226286 AAATTATTTT
Statistics
Matches: 276, Mismatches: 47, Indels: 47
0.75 0.13 0.13
Matches are distributed among these distances:
24 42 0.15
25 29 0.11
26 91 0.33
27 62 0.22
28 38 0.14
29 11 0.04
30 3 0.01
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (25 bp):
ATTTTTTATATATTATTTATTTTAA
Found at i:99231649 original size:17 final size:17
Alignment explanation
Indices: 99231629--99231662 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
99231619 AAATAGATTT
99231629 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
99231646 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
99231663 ACCTAAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:99245398 original size:26 final size:26
Alignment explanation
Indices: 99245368--99245426 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 26
99245358 AAATATTAAG
99245368 ATAAATAA-TATTTATTTTTATGATA
1 ATAAATAATTATTTATTTTTATGATA
*
99245393 ATTAAATAATTTTTTTATTTTTATGATA
1 A-TAAATAA-TTATTTATTTTTATGATA
99245421 ATAAAT
1 ATAAAT
99245427 TTTGAATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 1 0.03
26 7 0.23
27 5 0.17
28 17 0.57
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (26 bp):
ATAAATAATTATTTATTTTTATGATA
Found at i:99249961 original size:45 final size:44
Alignment explanation
Indices: 99249911--99250057 Score: 121
Period size: 37 Copynumber: 3.4 Consensus size: 44
99249901 ACTAAACCGA
99249911 CCACTAACTCCACCAACCCAA-TCAAACCATCCACTACCTCCACCT
1 CCACTAACTCCACC-ACCCAACT-AAACCATCCACTACCTCCACCT
* * *
99249956 CCACTAACTCCATCACCCTACTAAACTATCCACTACCTCCA--T
1 CCACTAACTCCACCACCCAACTAAACCATCCACTACCTCCACCT
* * * *
99249998 -CAC---CCCCA-CACCCTATTAAACCATCCACTACCTCCATCACCC
1 CCACTAACTCCACCACCCAACTAAACCATCCACTACCT-C--CACCT
*
99250040 CCACTAACTCCATCACCC
1 CCACTAACTCCACCACCC
99250058 TACTTGTTAT
Statistics
Matches: 83, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
37 23 0.28
38 5 0.06
40 2 0.02
41 3 0.04
42 1 0.01
43 3 0.04
44 23 0.28
45 14 0.17
46 4 0.05
47 5 0.06
ACGTcount: A:0.31, C:0.51, G:0.00, T:0.18
Consensus pattern (44 bp):
CCACTAACTCCACCACCCAACTAAACCATCCACTACCTCCACCT
Found at i:99250012 original size:37 final size:37
Alignment explanation
Indices: 99249969--99250043 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
99249959 CTAACTCCAT
*
99249969 CACCCTACTAAACTATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
*
99250006 CACCCTATTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
99250043 C
1 C
99250044 TAACTCCATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.29, C:0.52, G:0.00, T:0.19
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:99250045 original size:18 final size:18
Alignment explanation
Indices: 99249985--99250057 Score: 69
Period size: 18 Copynumber: 4.0 Consensus size: 18
99249975 ACTAAACTAT
99249985 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
* * *
99250003 CCAC-ACC-CTATTAAACCAT
1 CCACTACCTCCA-T-CACC-C
99250022 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
*
99250040 CCACTAACTCCATCACCC
1 CCACTACCTCCATCACCC
99250058 TACTTGTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
16 2 0.05
17 4 0.09
18 24 0.56
19 7 0.16
20 4 0.09
21 2 0.05
ACGTcount: A:0.27, C:0.55, G:0.00, T:0.18
Consensus pattern (18 bp):
CCACTACCTCCATCACCC
Found at i:99250451 original size:8 final size:8
Alignment explanation
Indices: 99250438--99250473 Score: 51
Period size: 7 Copynumber: 4.9 Consensus size: 8
99250428 GTTATGTTTC
99250438 ATATTATT
1 ATATTATT
99250446 ATATTATT
1 ATATTATT
99250454 -TATTATT
1 ATATTATT
99250461 ATA-TATT
1 ATATTATT
99250468 -TATTAT
1 ATATTAT
99250474 GTAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
6 2 0.08
7 14 0.54
8 10 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
ATATTATT
Found at i:99250483 original size:17 final size:14
Alignment explanation
Indices: 99250439--99250473 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
99250429 TTATGTTTCA
99250439 TATTATTATATTATT
1 TATTATTATA-TATT
99250454 TATTATTATATATT
1 TATTATTATATATT
99250468 TATTAT
1 TATTAT
99250474 GTAAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTATATATT
Found at i:99254577 original size:21 final size:21
Alignment explanation
Indices: 99254547--99254591 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
99254537 GAGGGATTAA
*
99254547 ATGCTAGAGTCCCAGAAAAAC
1 ATGCTAGAGTCACAGAAAAAC
* *
99254568 ATGCTTGAGTCACAGAACAAC
1 ATGCTAGAGTCACAGAAAAAC
99254589 ATG
1 ATG
99254592 ATGAGCCAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (21 bp):
ATGCTAGAGTCACAGAAAAAC
Found at i:99257134 original size:13 final size:13
Alignment explanation
Indices: 99257118--99257184 Score: 57
Period size: 13 Copynumber: 5.2 Consensus size: 13
99257108 AAAAAAAAAG
99257118 AAGAGAAAAAGGA
1 AAGAGAAAAAGGA
*
99257131 AAGAGAAAAAAGA
1 AAGAGAAAAAGGA
*
99257144 AAAAGGAAAAA-G-
1 AAGA-GAAAAAGGA
**
99257156 AAGAGAAAAATAA
1 AAGAGAAAAAGGA
* *
99257169 AAAAGAAAAAGAA
1 AAGAGAAAAAGGA
99257182 AAG
1 AAG
99257185 CAAAGCAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
11 6 0.14
12 3 0.07
13 29 0.66
14 6 0.14
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.01
Consensus pattern (13 bp):
AAGAGAAAAAGGA
Found at i:99257154 original size:38 final size:37
Alignment explanation
Indices: 99257112--99257183 Score: 108
Period size: 38 Copynumber: 1.9 Consensus size: 37
99257102 ACTTTCAAAA
* *
99257112 AAAAAGAAGAGAAAAAGGAAAGAGAAAAAAGAAAAAGG
1 AAAAAGAAGAGAAAAAGAAAAAAG-AAAAAGAAAAAGG
*
99257150 AAAAAGAAGAGAAAAATAAAAAAGAAAAAGAAAA
1 AAAAAGAAGAGAAAAAGAAAAAAGAAAAAGAAAA
99257184 GCAAAGCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 10 0.32
38 21 0.68
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (37 bp):
AAAAAGAAGAGAAAAAGAAAAAAGAAAAAGAAAAAGG
Found at i:99257159 original size:25 final size:24
Alignment explanation
Indices: 99257108--99257181 Score: 87
Period size: 25 Copynumber: 2.9 Consensus size: 24
99257098 CTTCACTTTC
99257108 AAAAAAAAAGAAGAGAAAAAGGAAAGAG
1 AAAAAAAAA-AAG-GAAAAA-G-AAGAG
99257136 AAAAAAGAAAAAGGAAAAAGAAGAG
1 AAAAAA-AAAAAGGAAAAAGAAGAG
99257161 AAAAATAAAAAA-GAAAAAGAA
1 AAAAA-AAAAAAGGAAAAAGAA
99257182 AAGCAAAGCA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
24 9 0.20
25 15 0.34
26 2 0.05
27 6 0.14
28 9 0.20
29 3 0.07
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.01
Consensus pattern (24 bp):
AAAAAAAAAAAGGAAAAAGAAGAG
Found at i:99258644 original size:45 final size:45
Alignment explanation
Indices: 99258588--99258797 Score: 146
Period size: 45 Copynumber: 4.7 Consensus size: 45
99258578 CAGCCACCAG
*
99258588 TCTTATATTCACTGAGCAGGAGTGGAGCAGGCTAAACATACTAGA
1 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACTAGA
* * * ** *
99258633 TCTTATCTTCACTGAGCAGGAGTGAAGCA-GATCAA-ATTTTGGCAA
1 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACTAG--A
* * ** * * * *
99258678 GTCTTATC-TCTA-TGTATC-GGCAATGGAGCAGATTTCAGC-CACCAG-
1 -TCTTATCTTC-ACTG-AGCAGG-AGTGGAGCAG-GCTAAACATACTAGA
* *
99258723 CCTTATCTTCACTGAGCAGGAGTGGGGCAGGCTAAACATACTAGA
1 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACTAGA
*
99258768 TCTTATCTTCACTGAGCAGGAGTGAAGCAG
1 TCTTATCTTCACTGAGCAGGAGTGGAGCAG
99258798 ATCAAATTTT
Statistics
Matches: 120, Mismatches: 31, Indels: 28
0.67 0.17 0.16
Matches are distributed among these distances:
43 7 0.06
44 25 0.21
45 67 0.56
46 17 0.14
48 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACTAGA
Done.