Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 153 of 333
Found at i:49954880 original size:114 final size:114
Alignment explanation
Indices: 49954675--49954950 Score: 401
Period size: 114 Copynumber: 2.4 Consensus size: 114
49954665 GGCTCAAAGG
* * * *
49954675 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAACCCT
1 CCCGGATATATTACCAGCACTAAGCCTACGGGATTTAACCCGGATATATTACCAGCACGAACCCT
*
49954740 GCGGGATTTAACCCAGATATATTACCAGCACGAAGCCTGCGGGATTTAA
66 GAGGGATTTAACCCAGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* *
49954789 CCCGGATATATTACCAGCACTAAGCTTACGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
1 CCCGGATATATTACCAGCACTAAGCCTACGGGATTTAACCCGGATATATTACCAGCACGAACCCT
* *
49954854 GAGGGATTTAACCCGGATATATTACCAGCACTAAGCCTGCGGGATTTAA
66 GAGGGATTTAACCCAGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* * **
49954903 CCCGGATATATTTCTAGCA-TATAGCCTACAGGTCTTTAAGCCCGGATA
1 CCCGGATATATTACCAGCACTA-AGCCTAC-GGGATTTAA-CCCGGATA
49954951 CACATCAAAT
Statistics
Matches: 145, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
113 2 0.01
114 128 0.88
115 7 0.05
116 8 0.06
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (114 bp):
CCCGGATATATTACCAGCACTAAGCCTACGGGATTTAACCCGGATATATTACCAGCACGAACCCT
GAGGGATTTAACCCAGATATATTACCAGCACGAAGCCTGCGGGATTTAA
Found at i:49954929 original size:38 final size:38
Alignment explanation
Indices: 49954675--49954914 Score: 381
Period size: 38 Copynumber: 6.3 Consensus size: 38
49954665 GGCTCAAAGG
* * * *
49954675 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
49954713 CCCGGATATATTACCAGCACGAACCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
49954751 CCCAGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* * *
49954789 CCCGGATATATTACCAGCACTAAGCTTACGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
49954827 CCCGGATATATTACCAGCACGAAGCCTGAGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
49954865 CCCGGATATATTACCAGCACTAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
49954903 CCCGGATATATT
1 CCCGGATATATT
49954915 TCTAGCATAT
Statistics
Matches: 185, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 185 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (38 bp):
CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
Found at i:49971275 original size:46 final size:48
Alignment explanation
Indices: 49971188--49971308 Score: 158
Period size: 46 Copynumber: 2.6 Consensus size: 48
49971178 TGATATGTGT
* *
49971188 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAT-GA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGATAGACAA
* * * *
49971234 GCTACTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGATAGACAA
49971282 GCTAGTGTAAGA-ACTGTCTGGGACATG
1 GCTAGTGTAAGACA-TGTCTGGGACATG
49971309 GCGTCAGCTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 38 0.58
47 2 0.03
48 25 0.38
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGATAGACAA
Found at i:49971395 original size:49 final size:49
Alignment explanation
Indices: 49971191--49971500 Score: 232
Period size: 49 Copynumber: 6.5 Consensus size: 49
49971181 TATGTGTGCT
* * * * *
49971191 AGTGTAAGACATGTCTGGGACAT-GCATCGACATTG--AGATGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * * *
49971237 ACTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA-AAGCC
* * * * * * *
49971285 AGTGTAAGAACTGTCTGGGACATGGCGTC-AGCTTG-TTG-TG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* *
49971329 AGTGTAAGACCTGTCTGGGACATGGCATCGACACT-GATGGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * *
49971378 AGTGTAAGACCTATCTGGAACATGGCATCGACCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * **
49971427 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTGGAT-G-TGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* *
49971474 AATATAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
49971501 GTCGGCATCT
Statistics
Matches: 210, Mismatches: 41, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
44 28 0.13
45 2 0.01
46 36 0.17
47 17 0.08
48 47 0.22
49 80 0.38
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:49971444 original size:142 final size:138
Alignment explanation
Indices: 49971183--49971452 Score: 366
Period size: 142 Copynumber: 1.9 Consensus size: 138
49971173 TTGGGTGATA
* *
49971183 TGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGATGAGAGCTACTGTAAGACA
1 TGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGACACTGAGATGAGAGCCACTGTAAGACA
* * *
49971248 TGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGAACTGTCTGGGACATGGCGT
66 TATCTGGAACATGCATCGACCTCGAGATATACAAGCTAGTGTAAGAACTGTCTGGGACATGGCGT
49971313 CAGCTTGT
131 CAGCTTGT
* *
49971321 TGTGTG-TCAGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATGGATGAGAGCCAGTGTAA
1 TGTGTGCT-AGTGTAAGACATGTCTGGGACAT-GCATCGACACTGA--GATGAGAGCCACTGTAA
* * *
49971385 GACCTATCTGGAACATGGCATCGACCTCGATATATGA-AAG-TCAGTGTAAGACCTGTCTGGGAC
62 GACATATCTGGAACAT-GCATCGACCTCGAGATAT-ACAAGCT-AGTGTAAGAACTGTCTGGGAC
49971448 ATGGC
124 ATGGC
49971453 ATCGACTTGG
Statistics
Matches: 115, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
137 1 0.01
138 28 0.24
139 12 0.10
141 29 0.25
142 44 0.38
143 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (138 bp):
TGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGACACTGAGATGAGAGCCACTGTAAGACA
TATCTGGAACATGCATCGACCTCGAGATATACAAGCTAGTGTAAGAACTGTCTGGGACATGGCGT
CAGCTTGT
Found at i:49979692 original size:27 final size:27
Alignment explanation
Indices: 49979662--49979741 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
49979652 GAATCTCATA
* * *
49979662 TCTGTAGGCTAGTATTATTGAAATACC
1 TCTGTAGGGTAGAATTACTGAAATACC
*
49979689 TCTGTAGGGTAGAATTACTGAAATGCC
1 TCTGTAGGGTAGAATTACTGAAATACC
*
49979716 CCTGTAGGGTAGAATTACTGAAATAC
1 TCTGTAGGGTAGAATTACTGAAATAC
49979742 GCTTTATTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (27 bp):
TCTGTAGGGTAGAATTACTGAAATACC
Found at i:49979809 original size:27 final size:28
Alignment explanation
Indices: 49979736--49980011 Score: 166
Period size: 27 Copynumber: 10.2 Consensus size: 28
49979726 AGAATTACTG
* * *
49979736 AAATACGCTTTATTTA-CAAAATTAC-A
1 AAATACCCTTGATTTAGTAAAATTACAA
* * *
49979762 GAATACCCTTGGTTTA-CAAAATTACAA
1 AAATACCCTTGATTTAGTAAAATTACAA
*
49979789 AAATACCCTTGA-TTAGTAAAATTACCA
1 AAATACCCTTGATTTAGTAAAATTACAA
* *
49979816 AAATACCCCT-AGTTT-GTAAAATTACCA
1 AAATACCCTTGA-TTTAGTAAAATTACAA
*
49979843 AAATACCCTT-AGTTTA-TAAAATTACCA
1 AAATACCCTTGA-TTTAGTAAAATTACAA
* * **
49979870 AAATACCCCTAATTT-GTAAAATTACTG
1 AAATACCCTTGATTTAGTAAAATTACAA
** ** **
49979897 AAATACCCTCAACCT-GTAAAATTACTG
1 AAATACCCTTGATTTAGTAAAATTACAA
* * * * *
49979924 AAATACCCTCGATTTGGAAAAATTATAG
1 AAATACCCTTGATTTAGTAAAATTACAA
* *
49979952 AAATACCCCTGATTTA-CAAAATTACAA
1 AAATACCCTTGATTTAGTAAAATTACAA
*
49979979 AAAT-CCCTTGACTTTCA--AAAATTACAG
1 AAATACCCTTGA-TTT-AGTAAAATTACAA
49980006 AAATAC
1 AAATAC
49980012 TATTGGTTTG
Statistics
Matches: 208, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
26 31 0.15
27 150 0.72
28 27 0.13
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (28 bp):
AAATACCCTTGATTTAGTAAAATTACAA
Found at i:49979839 original size:54 final size:54
Alignment explanation
Indices: 49979753--49979905 Score: 193
Period size: 54 Copynumber: 2.9 Consensus size: 54
49979743 CTTTATTTAC
* * * **
49979753 AAAATTA-CAGAATACCCTTGGTTTACAAAATTACAAAAATACCCTT-GATTAGT
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACAAAAATACCCTTAGATTA-T
* *
49979806 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTAT
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACAAAAATACCCTTAGATTAT
* **
49979860 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTGAAATACCCT
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACAAAAATACCCT
49979906 CAACCTGTAA
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 7 0.08
54 77 0.88
55 4 0.05
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.30
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTAGTTTGTAAAATTACAAAAATACCCTTAGATTAT
Found at i:49979866 original size:81 final size:80
Alignment explanation
Indices: 49979753--49979904 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 80
49979743 CTTTATTTAC
* * * *
49979753 AAAATTACAGAATACCCTTGGTTTACAAAATTACAAAAATACCCTTGATTAGTAAAATTACCAAA
1 AAAATTACAAAATACCCTTAGTTTACAAAATTACAAAAATACCCCTAATTAGTAAAATTACCAAA
49979818 ATACCCCTAGTTTGT
66 ATACCCCTAGTTTGT
* * * **
49979833 AAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTAATTTGTAAAATTACTGA
1 AAAATTA-CAAAATACCCTTAGTTTACAAAATTACAAAAATACCCCTAATTAGTAAAATTACCAA
49979898 AATACCC
65 AATACCC
49979905 TCAACCTGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
80 7 0.11
81 55 0.89
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.30
Consensus pattern (80 bp):
AAAATTACAAAATACCCTTAGTTTACAAAATTACAAAAATACCCCTAATTAGTAAAATTACCAAA
ATACCCCTAGTTTGT
Found at i:49979915 original size:81 final size:81
Alignment explanation
Indices: 49979753--49979932 Score: 211
Period size: 81 Copynumber: 2.2 Consensus size: 81
49979743 CTTTATTTAC
* * * *
49979753 AAAATTA-CAGAATACCCTTGGTTTACAAAATTACAAAAATACCCTTGATTAGTAAAATTACCAA
1 AAAATTACCAAAATACCCTTAGTTTACAAAATTACAAAAATACCCCTAATTAGTAAAATTACCAA
***
49979817 AATACCCCTAGTTTGT
66 AATACCCCTAACCTGT
* * * **
49979833 AAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTAATTTGTAAAATTACTGA
1 AAAATTACCAAAATACCCTTAGTTTACAAAATTACAAAAATACCCCTAATTAGTAAAATTACCAA
49979898 AATA-CCCTCAACCTGT
66 AATACCCCT-AACCTGT
**
49979914 AAAATTACTGAAATACCCT
1 AAAATTACCAAAATACCCT
49979933 CGATTTGGAA
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
80 11 0.13
81 73 0.87
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTAGTTTACAAAATTACAAAAATACCCCTAATTAGTAAAATTACCAA
AATACCCCTAACCTGT
Found at i:49980353 original size:41 final size:41
Alignment explanation
Indices: 49980308--49980427 Score: 213
Period size: 41 Copynumber: 2.9 Consensus size: 41
49980298 AGAGGAAGAA
49980308 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
*
49980349 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* *
49980390 ATTAAGGATCGCATGGTTACTTGACGACCGTGGATCCA
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCA
49980428 TCGGTGGCTT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.26
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:49986699 original size:40 final size:40
Alignment explanation
Indices: 49986618--49986841 Score: 281
Period size: 40 Copynumber: 5.5 Consensus size: 40
49986608 AAACCAAGTA
* * * *
49986618 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATG
*
49986657 CCTTCGGGACTTAGCCCGGATATAGTAACTCTCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
49986697 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
49986737 CCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGG--AT-ATAGTAACTCACACAAATG
* * * * *
49986780 CCTTCGGGACTTGGCCTGGTTATCACAGTAACTCGCATAAATG
1 CCTTCGGGACTTAGCCCGG--AT-ATAGTAACTCACACAAATG
49986823 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
49986842 TTATCATCGG
Statistics
Matches: 168, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
39 14 0.08
40 78 0.46
42 2 0.01
43 74 0.44
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
Found at i:49986750 original size:80 final size:82
Alignment explanation
Indices: 49986618--49986848 Score: 299
Period size: 86 Copynumber: 2.8 Consensus size: 82
49986608 AAACCAAGTA
* * *
49986618 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTGCCTTCGGGACTTAGCCCGG-AT-A
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTATCA
*
49986679 TAGTAACTCTCACAAATG
65 TAGTAACTCACACAAATG
*
49986697 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGTTATCA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TATCA
49986762 TAGTAACTCACACAAATG
65 TAGTAACTCACACAAATG
* * * *
49986780 CCTTCGGGACTTGGCCTGGTTATCACAGTAACTCGCATAAATGCCTTCGGGACTTAGCCCGGTTA
1 CCTTCGGGACTTAGCCCGG--AT-ATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TA
49986845 TCAT
62 TCAT
49986849 CGGAATATTC
Statistics
Matches: 134, Mismatches: 10, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
79 14 0.10
80 39 0.29
82 2 0.01
83 35 0.26
85 2 0.01
86 42 0.31
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (82 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTATCAT
AGTAACTCACACAAATG
Found at i:49986779 original size:43 final size:43
Alignment explanation
Indices: 49986655--49986848 Score: 292
Period size: 43 Copynumber: 4.7 Consensus size: 43
49986645 CTCGCTCAAC
*
49986655 TGCCTTCGGGACTTAGCCCGG--AT-ATAGTAACTCTCACAAA
1 TGCCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAA
49986695 TGCCTTCGGGACTTAGCCCGG--AT-ATAGTAACTCACACAAA
1 TGCCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAA
49986735 TGCCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAA
1 TGCCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAA
* * * * *
49986778 TGCCTTCGGGACTTGGCCTGGTTATCACAGTAACTCGCATAAA
1 TGCCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAA
49986821 TGCCTTCGGGACTTAGCCCGGTTATCAT
1 TGCCTTCGGGACTTAGCCCGGTTATCAT
49986849 CGGAATATTC
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
40 60 0.42
42 2 0.01
43 80 0.56
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (43 bp):
TGCCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAA
Found at i:49994684 original size:40 final size:40
Alignment explanation
Indices: 49994614--49994837 Score: 299
Period size: 40 Copynumber: 5.5 Consensus size: 40
49994604 AAACCAAGTA
* * *
49994614 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
49994653 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
49994693 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
49994733 CCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGG--AT-ATAGTAACTCGCACAAATG
* *
49994776 CCTTCGGGACTTGGCCCGGTTATCATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG--AT-ATAGTAACTCGCACAAATG
*
49994819 CCTTCCGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
49994838 TTATCATCCG
Statistics
Matches: 171, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 14 0.08
40 79 0.46
42 2 0.01
43 76 0.44
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:49994775 original size:43 final size:43
Alignment explanation
Indices: 49994651--49994844 Score: 301
Period size: 43 Copynumber: 4.7 Consensus size: 43
49994641 CTCGCTCAAC
*
49994651 TGCCTTCGGGACTTAGCCCGG--AT-ATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAA
49994691 TGCCTTCGGGACTTAGCCCGG--AT-ATAGTAACTCACACAAA
1 TGCCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAA
49994731 TGCCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAA
1 TGCCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAA
* * *
49994774 TGCCTTCGGGACTTGGCCCGGTTATCATAGCAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAA
*
49994817 TGCCTTCCGGACTTAGCCCGGTTATCAT
1 TGCCTTCGGGACTTAGCCCGGTTATCAT
49994845 CCGAATATTC
Statistics
Matches: 145, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
40 60 0.41
42 2 0.01
43 83 0.57
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (43 bp):
TGCCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAA
Found at i:49994842 original size:86 final size:83
Alignment explanation
Indices: 49994614--49994844 Score: 326
Period size: 86 Copynumber: 2.8 Consensus size: 83
49994604 AAACCAAGTA
* * * *
49994614 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAACTGCCTTCGGGACTTAGCCCGG--AT-A
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCA
*
49994675 TAGTAACTCGCACAAATG
66 TAGTAACTCACACAAATG
* *
49994693 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGTTATCA
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCA
49994758 TAGTAACTCACACAAATG
66 TAGTAACTCACACAAATG
* *
49994776 CCTTCGGGACTTGGCCCGGTTATCATAGCAACTCGCACAAATGCCTTCCGGACTTAGCCCGGTTA
1 CCTTCGGGACTTAGCCCGG--AT-ATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA
49994841 TCAT
63 TCAT
49994845 CCGAATATTC
Statistics
Matches: 134, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
79 13 0.10
80 39 0.29
82 2 0.01
83 36 0.27
85 2 0.01
86 42 0.31
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (83 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCA
TAGTAACTCACACAAATG
Found at i:49999327 original size:13 final size:13
Alignment explanation
Indices: 49999311--49999343 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
49999301 TTTGATTAAA
*
49999311 TTAGTTAATTAGT
1 TTAGATAATTAGT
49999324 TTAGATAATTAGT
1 TTAGATAATTAGT
49999337 TTA-ATAA
1 TTAGATAA
49999344 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:50004722 original size:6 final size:6
Alignment explanation
Indices: 50004682--50004735 Score: 72
Period size: 6 Copynumber: 8.8 Consensus size: 6
50004672 CCTCTTATCT
* * *
50004682 TTTTTA TTTTTTA TTTCTA TTTCTA TTTTTA TTTTTA TTTTTA TGTTTA
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
50004731 TTTTT
1 TTTTT
50004736 CGTTATAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
6 37 0.86
7 6 0.14
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:50007647 original size:13 final size:13
Alignment explanation
Indices: 50007631--50007663 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
50007621 TTTGATTAAA
*
50007631 TTAGTTAATTAGT
1 TTAGATAATTAGT
50007644 TTAGATAATTAGT
1 TTAGATAATTAGT
50007657 TTA-ATAA
1 TTAGATAA
50007664 ACAAACCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:50011881 original size:21 final size:20
Alignment explanation
Indices: 50011853--50011891 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
50011843 ATGTATATTT
50011853 TGAAGTTTCTTAATAGATTA
1 TGAAGTTTCTTAATAGATTA
* *
50011873 TGAATGTTTGTTGATAGAT
1 TGAA-GTTTCTTAATAGAT
50011892 ATACAAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (20 bp):
TGAAGTTTCTTAATAGATTA
Found at i:50026667 original size:20 final size:20
Alignment explanation
Indices: 50026639--50026677 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
50026629 CTAATATTCA
50026639 ACATGGGTAAAATTTTAGAG
1 ACATGGGTAAAATTTTAGAG
*
50026659 ACATTGGTAAAATTTTAGA
1 ACATGGGTAAAATTTTAGA
50026678 CTTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGGGTAAAATTTTAGAG
Found at i:50028896 original size:16 final size:16
Alignment explanation
Indices: 50028872--50028903 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50028862 GACTTCTTGG
50028872 AGGCAGTAATGTTGAA
1 AGGCAGTAATGTTGAA
*
50028888 AGGCGGTAATGTTGAA
1 AGGCAGTAATGTTGAA
50028904 GATGGGCTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.34, T:0.25
Consensus pattern (16 bp):
AGGCAGTAATGTTGAA
Found at i:50040613 original size:25 final size:25
Alignment explanation
Indices: 50040579--50040628 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
50040569 TGCATGTGAT
* *
50040579 TAATGTGTGGATTAGGTGGTTAGGC
1 TAATATGTGGATTAAGTGGTTAGGC
50040604 TAATATGTGGATTAAGTGGTTAGGC
1 TAATATGTGGATTAAGTGGTTAGGC
50040629 AGTTAGTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.04, G:0.36, T:0.36
Consensus pattern (25 bp):
TAATATGTGGATTAAGTGGTTAGGC
Found at i:50045616 original size:25 final size:25
Alignment explanation
Indices: 50045582--50045631 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
50045572 TGCATGTGAT
* *
50045582 TAATGTGTGGATTAGGTGGTTAGGC
1 TAATATGTGGATTAAGTGGTTAGGC
50045607 TAATATGTGGATTAAGTGGTTAGGC
1 TAATATGTGGATTAAGTGGTTAGGC
50045632 AGTTAGTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.04, G:0.36, T:0.36
Consensus pattern (25 bp):
TAATATGTGGATTAAGTGGTTAGGC
Found at i:50045864 original size:27 final size:27
Alignment explanation
Indices: 50045832--50045887 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
50045822 GGCATGCTTT
50045832 TAATGGTACAATTTTTTTTTACTTTTC
1 TAATGGTACAATTTTTTTTTACTTTTC
50045859 TAATGGTACAATTTTTTTTTACTTTTC
1 TAATGGTACAATTTTTTTTTACTTTTC
50045886 TA
1 TA
50045888 CAAAAGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.59
Consensus pattern (27 bp):
TAATGGTACAATTTTTTTTTACTTTTC
Found at i:50054509 original size:117 final size:117
Alignment explanation
Indices: 50054303--50054523 Score: 257
Period size: 117 Copynumber: 1.9 Consensus size: 117
50054293 ATGCTCTAGT
** * * * *
50054303 GAGGCATCCTACAATATAATTAACGATGCAACAAATCCCTCCCCAGTCCCAAAGCTAGAATTTGG
1 GAGGCATCCTACAATATAAAAAACGATGCAACAAATCCCTACCCAATCCCAAAGCAAGAATTTAG
* * * *
50054368 ATATCATCCCAGTCCCTCTCCTTTTGGAATAAGAGCCTCCGACCCATCCAAC
66 ATATCATCCCAGTCCCTCCCCTTTTAGAACAAAAGCCTCCGACCCATCCAAC
* * * * *
50054420 GAGGCATCCTGA-AATATAAAAAATGATGCAACGAGTCCCTACCTAATCCTAAAGCAAGAATTTA
1 GAGGCATCCT-ACAATATAAAAAACGATGCAACAAATCCCTACCCAATCCCAAAGCAAGAATTTA
* *
50054484 GATATCGTTCTCA-TCCCTCCCCTTTTAGAACAAAAGCCTC
65 GATATC-ATCCCAGTCCCTCCCCTTTTAGAACAAAAGCCTC
50054524 TGACACCGTG
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
117 80 0.94
118 5 0.06
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (117 bp):
GAGGCATCCTACAATATAAAAAACGATGCAACAAATCCCTACCCAATCCCAAAGCAAGAATTTAG
ATATCATCCCAGTCCCTCCCCTTTTAGAACAAAAGCCTCCGACCCATCCAAC
Found at i:50056603 original size:16 final size:17
Alignment explanation
Indices: 50056582--50056614 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50056572 ATTACATATC
*
50056582 ATATTT-AAGATTACGT
1 ATATTTGAAGATCACGT
50056598 ATATTTGAAGATCACGT
1 ATATTTGAAGATCACGT
50056615 TCCACATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (17 bp):
ATATTTGAAGATCACGT
Found at i:50064149 original size:33 final size:33
Alignment explanation
Indices: 50064107--50064172 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
50064097 CATTGCAAAC
50064107 TGAAAAATATATAGGATTTTTCCTATATAAATT
1 TGAAAAATATATAGGATTTTTCCTATATAAATT
50064140 TGAAAAATATATAGGATTTTTCCTATATAAATT
1 TGAAAAATATATAGGATTTTTCCTATATAAATT
50064173 ATCACCTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (33 bp):
TGAAAAATATATAGGATTTTTCCTATATAAATT
Found at i:50067740 original size:11 final size:11
Alignment explanation
Indices: 50067724--50067753 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
50067714 TATTGTAAGT
50067724 CCATTTTAGCC
1 CCATTTTAGCC
50067735 CCATTTTAGCC
1 CCATTTTAGCC
50067746 CCATTTTA
1 CCATTTTA
50067754 TTCCCGGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (11 bp):
CCATTTTAGCC
Found at i:50075725 original size:15 final size:15
Alignment explanation
Indices: 50075705--50075736 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
50075695 TAAATGTGGC
50075705 GAATGAGAAAATTTG
1 GAATGAGAAAATTTG
50075720 GAATGAGAAAATTTG
1 GAATGAGAAAATTTG
50075735 GA
1 GA
50075737 CAGGTATGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (15 bp):
GAATGAGAAAATTTG
Found at i:50094100 original size:40 final size:40
Alignment explanation
Indices: 50094001--50094191 Score: 269
Period size: 40 Copynumber: 4.8 Consensus size: 40
50093991 TGGATGATAA
* * * * **
50094001 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
50094041 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
50094080 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
50094120 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
50094160 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
50094192 AGCTATATCC
Statistics
Matches: 138, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 33 0.24
40 103 0.75
41 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:50097206 original size:47 final size:47
Alignment explanation
Indices: 50097137--50097306 Score: 213
Period size: 47 Copynumber: 3.6 Consensus size: 47
50097127 ATATTTGAGT
50097137 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAGCTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAGCTAGGCA
* * * *
50097184 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGAACGC-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGAGATGTA-GC-TAGGCA
* * *
50097231 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAGCTAGGCA
*
50097277 TCCGAACTTGTTGAGTTGAGTCCGAGTTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
50097307 CTTATGGATG
Statistics
Matches: 102, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
45 4 0.04
46 32 0.31
47 62 0.61
48 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAGCTAGGCA
Found at i:50097257 original size:46 final size:46
Alignment explanation
Indices: 50097138--50097359 Score: 215
Period size: 46 Copynumber: 4.8 Consensus size: 46
50097128 TATTTGAGTT
* * * *
50097138 CCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAGCTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CG-AACGC
50097183 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
50097231 CCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
50097276 ATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
50097324 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50097360 GCAAGTTACA
Statistics
Matches: 147, Mismatches: 16, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
42 3 0.02
43 4 0.03
45 4 0.03
46 60 0.41
47 55 0.37
48 9 0.06
49 1 0.01
50 8 0.05
51 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:50097302 original size:93 final size:93
Alignment explanation
Indices: 50097138--50097352 Score: 394
Period size: 93 Copynumber: 2.3 Consensus size: 93
50097128 TATTTGAGTT
* * *
50097138 CCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAGCTAGGCATCCGAACTCGTTGAGTTGA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
50097203 GTCCGAGTTCACTTATGGATGCGAACGC
66 GTCCGAGTTCACTTATGGATGCGAACGC
*
50097231 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTTGTTGAGTTGA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
50097296 GTCCGAGTTCACTTATGGATGCGAACGC
66 GTCCGAGTTCACTTATGGATGCGAACGC
50097324 CCGAGCTCGTTGAGTTGAGTCCGAGTTCG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCG
50097353 CTTATGGGCA
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 118 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (93 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
GTCCGAGTTCACTTATGGATGCGAACGC
Found at i:50107055 original size:117 final size:117
Alignment explanation
Indices: 50106860--50107077 Score: 253
Period size: 117 Copynumber: 1.9 Consensus size: 117
50106850 CTGGCGAGGA
* * * * *
50106860 ATCCTTGAATATAAAAAGTGGTGCAACGAGTCACTCCGTAATCCCATAGCTATAATTCGAATATC
1 ATCCTAGAATATAAAAAATGATGCAACGAGTCACTCCGTAATCCCAAAGCTAGAATTCGAATATC
* * * *
50106925 ATCCCGATTCCTCCCATTTTTCAATAAGAGCGTCCGGAACATCTGATAAGGC
66 ATCCAGATCCCTCCCATTTTGCAATAAGAGCCTCCGGAACATCTGATAAGGC
* * *
50106977 ATCCTAGAATATAAAAAATTATGCAACGAGTCCCTTTC-TAATCCCAAAGCTAGAATTC-AGATA
1 ATCCTAGAATATAAAAAATGATGCAACGAGTCAC-TCCGTAATCCCAAAGCTAGAATTCGA-ATA
* * *
50107040 TCGTCCTAG-TCCCTCCCCTTTTGGAATAAGAGCCTCCG
64 TCATCC-AGATCCCTCCCATTTTGCAATAAGAGCCTCCG
50107078 ACACCTTGGG
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
116 1 0.01
117 79 0.95
118 3 0.04
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (117 bp):
ATCCTAGAATATAAAAAATGATGCAACGAGTCACTCCGTAATCCCAAAGCTAGAATTCGAATATC
ATCCAGATCCCTCCCATTTTGCAATAAGAGCCTCCGGAACATCTGATAAGGC
Found at i:50117495 original size:22 final size:22
Alignment explanation
Indices: 50117433--50117486 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
50117423 CATCAGTGTC
*
50117433 GCTGTCGCACGTAGCCGTTATT
1 GCTGTCGCACGTAGCCATTATT
50117455 GCTGTCGCACGTAGCCATTATT
1 GCTGTCGCACGTAGCCATTATT
50117477 GCTGTCGCAC
1 GCTGTCGCAC
50117487 ACGACCATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.30
Consensus pattern (22 bp):
GCTGTCGCACGTAGCCATTATT
Found at i:50119284 original size:38 final size:38
Alignment explanation
Indices: 50119235--50119312 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
50119225 CTTTCATAAG
50119235 TATGTTTTAATAAATGAATGTTTAGAGAAATTCTTTGT
1 TATGTTTTAATAAATGAATGTTTAGAGAAATTCTTTGT
50119273 TATGTTTTAATAAATGAATGTTTAGAGAAATTCTTTGT
1 TATGTTTTAATAAATGAATGTTTAGAGAAATTCTTTGT
50119311 TA
1 TA
50119313 ATAAGATAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (38 bp):
TATGTTTTAATAAATGAATGTTTAGAGAAATTCTTTGT
Found at i:50125212 original size:30 final size:30
Alignment explanation
Indices: 50125178--50125235 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
50125168 TAGGCACTTC
50125178 CACACGGGT-GATC-CACACGCGCGTGTGTGA
1 CACACGGGTAGATCACACAC-C-CGTGTGTGA
50125208 CACACGGGTAGATCACACACCCGTGTGT
1 CACACGGGTAGATCACACACCCGTGTGT
50125236 CATGGCCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 16 0.62
31 5 0.19
32 5 0.19
ACGTcount: A:0.22, C:0.31, G:0.29, T:0.17
Consensus pattern (30 bp):
CACACGGGTAGATCACACACCCGTGTGTGA
Found at i:50130634 original size:47 final size:47
Alignment explanation
Indices: 50130556--50130959 Score: 655
Period size: 47 Copynumber: 8.6 Consensus size: 47
50130546 CCCTTCGGGA
* * * * * *
50130556 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
50130603 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50130650 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50130697 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50130744 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50130791 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50130840 CTTATCACATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50130887 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50130934 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
50130960 CACAATTATC
Statistics
Matches: 335, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 290 0.87
49 45 0.13
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50130869 original size:143 final size:143
Alignment explanation
Indices: 50130556--50130959 Score: 672
Period size: 143 Copynumber: 2.9 Consensus size: 143
50130546 CCCTTCGGGA
* * * * * * *
50130556 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
*
50130621 TTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
50130684 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
50130697 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
50130762 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
50130827 TTGGCCATTCGGC
131 TCGGCCATTAGGC
*
50130840 CTTATCACATATATACACTTTCACATTCATCACATTGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
50130905 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA--TTCACAT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
50130960 CACAATTATC
Statistics
Matches: 248, Mismatches: 13, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
141 100 0.40
143 148 0.60
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:50135643 original size:40 final size:40
Alignment explanation
Indices: 50135543--50135759 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
50135533 CGGATGATAA
* *
50135543 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
50135583 CCGGGCTAAG-CCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50135622 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50135662 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
50135702 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
50135742 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
50135760 TACCGGGTTG
Statistics
Matches: 163, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 51 0.31
40 112 0.69
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:50135713 original size:80 final size:80
Alignment explanation
Indices: 50135539--50135759 Score: 324
Period size: 79 Copynumber: 2.8 Consensus size: 80
50135529 TATTCGGATG
* *
50135539 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGC
50135602 ATTCGTGCGAGTTACT
65 ATTCGTGCGAGTTACT
*
50135618 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
50135683 TTTGTGCGAGTTACT
66 TTCGTGCGAGTTACT
* * * *
50135698 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGTTATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
50135760 TACCGGGTTG
Statistics
Matches: 130, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
79 66 0.51
80 64 0.49
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTCGTGCGAGTTACT
Found at i:50151135 original size:40 final size:40
Alignment explanation
Indices: 50151091--50151307 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
50151081 CGGATGATAA
* * *
50151091 CCGGGCTAAGTCCCGAAGGAATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
50151131 CCGGGCTAAG-CCCGAAGGCATTCGTGCGAGTTACTCTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
50151170 CCGGGCTAAGTCCCGAAGGCATTTCTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
50151210 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
50151250 CCGGGCTAAGTCACGAAGGCATTTGAGCGAG-TAGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
50151290 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
50151308 TACCGGGTTG
Statistics
Matches: 154, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 48 0.31
40 106 0.69
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:50151304 original size:119 final size:119
Alignment explanation
Indices: 50151093--50151307 Score: 292
Period size: 119 Copynumber: 1.8 Consensus size: 119
50151083 GATGATAACC
* * * *
50151093 GGGCTAAGTCCCGAAGGAATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTCGTGC
1 GGGCTAAGTCCCGAAGGAATTTGTGCGAGTGACTAATACCGGGCTAAGCACGAAGGCATTCGAGC
* *
50151158 GAGTTACTCTATCCGGGCTAAGTCCCGAAGGCATTTCTGCAAGTTACTATATCT
66 GAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTCTGCAAGTTACTATATCT
* * *
50151212 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCACGAAGGCATTTGA
1 GGGCTAAGTCCCGAAGGAATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CACGAAGGCATTCGA
*
50151276 GCGAG-TAGTTATATCC-GGCTAAATCCCGAAGG
64 GCGAGTTA-CTATATCCGGGCTAAATCCCGAAGG
50151308 TACCGGGTTG
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
118 2 0.02
119 58 0.70
120 23 0.28
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
GGGCTAAGTCCCGAAGGAATTTGTGCGAGTGACTAATACCGGGCTAAGCACGAAGGCATTCGAGC
GAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTCTGCAAGTTACTATATCT
Found at i:50165709 original size:6 final size:6
Alignment explanation
Indices: 50165700--50165724 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50165690 AATATTTTTA
50165700 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
50165725 GGTGTTACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:50169046 original size:46 final size:46
Alignment explanation
Indices: 50168996--50169168 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
50168986 TGGTTGAGCA
*
50168996 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
50169042 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
50169087 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
50169135 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
50169169 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:50169152 original size:93 final size:93
Alignment explanation
Indices: 50168993--50169163 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
50168983 GGATGGTTGA
* * *
50168993 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50169058 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
50169086 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50169151 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
50169164 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:50170774 original size:31 final size:30
Alignment explanation
Indices: 50170717--50170774 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
50170707 GTAAATATTC
* * * *
50170717 AAAATTTGAGGGATTAAAGTGTAAATACGA
1 AAAAGTTGAAGGACTAAAGTGAAAATACGA
50170747 AAAAGTTGAAGGACTAATAGTGAAAATA
1 AAAAGTTGAAGGACTAA-AGTGAAAATA
50170775 TTTTAGGGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 14 0.61
31 9 0.39
ACGTcount: A:0.50, C:0.03, G:0.22, T:0.24
Consensus pattern (30 bp):
AAAAGTTGAAGGACTAAAGTGAAAATACGA
Found at i:50179901 original size:46 final size:45
Alignment explanation
Indices: 50179851--50180023 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
50179841 TGGTTGAGCA
* *
50179851 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AAATG
* * * *
50179897 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AA--ATG
*
50179942 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AAATG
* *
50179990 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
50180024 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 60 0.57
47 29 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAATG
Found at i:50180007 original size:93 final size:93
Alignment explanation
Indices: 50179848--50180018 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
50179838 GGATGGTTGA
* ** * *
50179848 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACGCCCGAACTCGTTGAGT
50179913 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
50179941 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACGCCCGAACTCGTTGAGT
50180006 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
50180019 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:50181452 original size:31 final size:30
Alignment explanation
Indices: 50181395--50181452 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
50181385 GTAAATATTC
* * * *
50181395 AAAATTTGAGGGATTAAAGTGTAAATACGA
1 AAAAGTTGAAGGACTAAAGTGAAAATACGA
50181425 AAAAGTTGAAGGACTAATAGTGAAAATA
1 AAAAGTTGAAGGACTAA-AGTGAAAATA
50181453 TTTTAGGGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 14 0.61
31 9 0.39
ACGTcount: A:0.50, C:0.03, G:0.22, T:0.24
Consensus pattern (30 bp):
AAAAGTTGAAGGACTAAAGTGAAAATACGA
Found at i:50198927 original size:22 final size:24
Alignment explanation
Indices: 50198882--50198929 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
50198872 TTTGATAATA
50198882 TGTTTTGATATAACAAATTAAAAT
1 TGTTTTGATATAACAAATTAAAAT
*
50198906 TGTTTTGA-ATAA-AAGTTAAAAT
1 TGTTTTGATATAACAAATTAAAAT
50198928 TG
1 TG
50198930 AACAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.48
23 4 0.17
24 8 0.35
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (24 bp):
TGTTTTGATATAACAAATTAAAAT
Found at i:50202123 original size:10 final size:10
Alignment explanation
Indices: 50202091--50202149 Score: 75
Period size: 10 Copynumber: 5.9 Consensus size: 10
50202081 TTAAATTCTA
50202091 AAAGATAAAT
1 AAAGATAAAT
*
50202101 ACAA-TTAAAT
1 A-AAGATAAAT
*
50202111 AAAGATAATT
1 AAAGATAAAT
50202121 AAAGATAAAT
1 AAAGATAAAT
*
50202131 AAGGATAAAT
1 AAAGATAAAT
50202141 AAAGATAAA
1 AAAGATAAA
50202150 AGCTAAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 2 0.05
10 37 0.90
11 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:50202800 original size:16 final size:16
Alignment explanation
Indices: 50202779--50202809 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50202769 AATACATCAC
*
50202779 TTTTTTTCTTTTTCTA
1 TTTTTTTCTTCTTCTA
50202795 TTTTTTTCTTCTTCT
1 TTTTTTTCTTCTTCT
50202810 TATTATTACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTCTTCTTCTA
Found at i:50213389 original size:20 final size:19
Alignment explanation
Indices: 50213355--50213412 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
50213345 AATTAAATTC
* *
50213355 TAAAGATAAACAAAATTAAA
1 TAAAGATAAATAAAAAT-AA
*
50213375 TAAAGATAATTAAAAATAA
1 TAAAGATAAATAAAAATAA
* *
50213394 TAAGGATAAATAAAGATAA
1 TAAAGATAAATAAAAATAA
50213413 AAGTAAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (19 bp):
TAAAGATAAATAAAAATAA
Found at i:50213413 original size:10 final size:10
Alignment explanation
Indices: 50213355--50213413 Score: 59
Period size: 10 Copynumber: 6.0 Consensus size: 10
50213345 AATTAAATTC
50213355 TAAAGATAAA
1 TAAAGATAAA
*
50213365 CAAA-ATTAAA
1 TAAAGA-TAAA
*
50213375 TAAAGATAAT
1 TAAAGATAAA
*
50213385 TAAAAAT-AA
1 TAAAGATAAA
*
50213394 TAAGGATAAA
1 TAAAGATAAA
50213404 TAAAGATAAA
1 TAAAGATAAA
50213414 AGTAAAATTA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
9 7 0.18
10 30 0.79
11 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
TAAAGATAAA
Found at i:50224614 original size:30 final size:29
Alignment explanation
Indices: 50224556--50224614 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
50224546 TTCCCGAGCC
*
50224556 TAGGGGAAAAAGTGTAATTATGCAAAGTT
1 TAGGGGAAAAAGTGTAATTATCCAAAGTT
* *
50224585 TAGGGGCAAAAGTGTAATTTTTCCAAAGTT
1 TAGGGGAAAAAGTGTAA-TTATCCAAAGTT
50224615 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (29 bp):
TAGGGGAAAAAGTGTAATTATCCAAAGTT
Found at i:50226608 original size:30 final size:30
Alignment explanation
Indices: 50226552--50226608 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
50226542 GTAAATATTC
* * *
50226552 AAAATTTGAGGGATTAAAGTGTAAATACGA
1 AAAAGTTGAAGGACTAAAGTGTAAATACGA
50226582 AAAAGTTGAAGGACTAATAGTG-AAATA
1 AAAAGTTGAAGGACTAA-AGTGTAAATA
50226609 TTTTAGGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.49, C:0.04, G:0.23, T:0.25
Consensus pattern (30 bp):
AAAAGTTGAAGGACTAAAGTGTAAATACGA
Found at i:50257135 original size:42 final size:43
Alignment explanation
Indices: 50257075--50257180 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 43
50257065 GAATTAAGAA
*
50257075 ATCCGAGCTCGTTGAGTGGTCCAAATTCATGATATATGAG-GC
1 ATCCGAGCTCGTTGAGTGGTCCAAATTCATGATAGATGAGAGC
* * * * * *
50257117 ATCCGAGCTCGTTCAGTGGTCCGAGTTCATTATGGATGCGAGC
1 ATCCGAGCTCGTTGAGTGGTCCAAATTCATGATAGATGAGAGC
*
50257160 ATCCGAGCCCGTTGAGTGGTC
1 ATCCGAGCTCGTTGAGTGGTC
50257181 TGAGTTCATA
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 33 0.61
43 21 0.39
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (43 bp):
ATCCGAGCTCGTTGAGTGGTCCAAATTCATGATAGATGAGAGC
Found at i:50257178 original size:43 final size:43
Alignment explanation
Indices: 50257075--50257200 Score: 146
Period size: 43 Copynumber: 3.0 Consensus size: 43
50257065 GAATTAAGAA
* * * ** *
50257075 ATCCGAGCTCGTTGAGTGGTCCAAATTCATGATATATGAG-GC
1 ATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCGAGC
* *
50257117 ATCCGAGCTCGTTCAGTGGTCCGAGTTCATTATGGATGCGAGC
1 ATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCGAGC
* * *
50257160 ATCCGAGCCCGTTGAGTGGTCTGAGTTCATAATGGCTGCGA
1 ATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCGA
50257201 TACATGTAAC
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 33 0.46
43 38 0.54
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (43 bp):
ATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCGAGC
Found at i:50257256 original size:51 final size:51
Alignment explanation
Indices: 50257159--50257258 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 51
50257149 TGGATGCGAG
* * *
50257159 CATCCGAGCCCGTTGAGTGGTCTGAGTTCATAATGGCTGCGATACATGTAA
1 CATCCAAGCCCGTTGAGAGGTCTGAGTTCATAATGGATGCGATACATGTAA
* * * *
50257210 CATCCAAGCTCGTTGAGAGGT-TCGAGTTCATTATGGATGTGTTACATGT
1 CATCCAAGCCCGTTGAGAGGTCT-GAGTTCATAATGGATGCGATACATGT
50257259 TATAAGGTAG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 1 0.02
51 40 0.98
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (51 bp):
CATCCAAGCCCGTTGAGAGGTCTGAGTTCATAATGGATGCGATACATGTAA
Found at i:50261096 original size:15 final size:15
Alignment explanation
Indices: 50261076--50261133 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
50261066 TATGATATTG
50261076 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
50261091 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
* * *
50261106 TGTCCTGGACTTCTT
1 TATCTTGGATTTCTT
* *
50261121 TACCTTGGTTTTC
1 TATCTTGGATTTC
50261134 ATGCCATCTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.10, C:0.19, G:0.16, T:0.55
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:50264000 original size:43 final size:43
Alignment explanation
Indices: 50263933--50264018 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
50263923 GATATATGAG
** *
50263933 GCATCCGAGGTCGTTCAGTGGTCTGAGTTCATTATGGATGCGA
1 GCATCCGAGCCCGTTCAGTGGTCTGAGTTCATAATGGATGCGA
* * *
50263976 GCATCCGAGCCCGTTGAGTTGTCTGAGTTCATAATGGCTGCGA
1 GCATCCGAGCCCGTTCAGTGGTCTGAGTTCATAATGGATGCGA
50264019 TACATGTAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (43 bp):
GCATCCGAGCCCGTTCAGTGGTCTGAGTTCATAATGGATGCGA
Found at i:50264074 original size:51 final size:51
Alignment explanation
Indices: 50263977--50264076 Score: 119
Period size: 51 Copynumber: 2.0 Consensus size: 51
50263967 TGGATGCGAG
** *
50263977 CATCCGAGCCCGTTGAGTTGTCTGAGTTCATAATGGCTGCGATACATGTAA
1 CATCCGAGCCCGTTGAGAGGTCTGAGTTCATAATGGATGCGATACATGTAA
* * * * * *
50264028 CATCCGAGCTCGTTGAGAGGTTTGATTTCATTATGGATGTGTTACATGT
1 CATCCGAGCCCGTTGAGAGGTCTGAGTTCATAATGGATGCGATACATGT
50264077 TATAAGGTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (51 bp):
CATCCGAGCCCGTTGAGAGGTCTGAGTTCATAATGGATGCGATACATGTAA
Found at i:50267730 original size:46 final size:46
Alignment explanation
Indices: 50267677--50267852 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
50267667 TATTTGGGCA
50267677 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
50267723 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGA--GA-GG-TG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAA-T--G
* *
50267768 CATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
50267816 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50267853 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 64 0.58
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:50267832 original size:93 final size:93
Alignment explanation
Indices: 50267673--50267844 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
50267663 AGGATATTTG
*
50267673 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
*
50267738 TTGAGTCCGAGTTCGAGAGGTGTAACTA
66 TTGAGTCCAAGTTCGAGAGGTGTAACTA
* * *
50267766 GGCATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
50267831 TTGAGTCCAAGTTC
66 TTGAGTCCAAGTTC
50267845 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGAGAGGTGTAACTA
Found at i:50272742 original size:43 final size:43
Alignment explanation
Indices: 50272671--50272756 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
50272661 GATATATGAG
* *
50272671 GCATCCGAGCTCGTTCAATGGTCCGAGTTCATTATGGATGCGA
1 GCATCCGAGCCCGTTCAATGGTCCGAGTTCATAATGGATGCGA
* * ** *
50272714 GCATCCGAGCCCGTTGAGTGGTTTGAGTTCATAATGGCTGCGA
1 GCATCCGAGCCCGTTCAATGGTCCGAGTTCATAATGGATGCGA
50272757 TACATGTAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (43 bp):
GCATCCGAGCCCGTTCAATGGTCCGAGTTCATAATGGATGCGA
Found at i:50272812 original size:51 final size:51
Alignment explanation
Indices: 50272715--50272814 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 51
50272705 TGGATGCGAG
* * *
50272715 CATCCGAGCCCGTTGAGTGGTTTGAGTTCATAATGGCTGCGATACATGTAA
1 CATCCGAGCCCGTTGAGAGGTTCGAGTTCATAATGGATGCGATACATGTAA
* * * *
50272766 CATCCGAGCTCGTTGAGAGGTTCGAGTTCATTATGGATGTGTTACATGT
1 CATCCGAGCCCGTTGAGAGGTTCGAGTTCATAATGGATGCGATACATGT
50272815 TATAAGGTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (51 bp):
CATCCGAGCCCGTTGAGAGGTTCGAGTTCATAATGGATGCGATACATGTAA
Found at i:50276645 original size:15 final size:15
Alignment explanation
Indices: 50276625--50276680 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
50276615 TATGATATTG
50276625 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
50276640 TATCTTAGATTTCTT
1 TATCTTGGATTTCTT
* * *
50276655 TGTCCTGGACTTCTT
1 TATCTTGGATTTCTT
*
50276670 TACCTT-GATTT
1 TATCTTGGATTT
50276681 TCATGCCATC
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
14 4 0.12
15 28 0.88
ACGTcount: A:0.14, C:0.18, G:0.12, T:0.55
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:50279553 original size:43 final size:43
Alignment explanation
Indices: 50279450--50279575 Score: 146
Period size: 43 Copynumber: 3.0 Consensus size: 43
50279440 GAATTAAGAA
* * ** *
50279450 ATCCGAGCTCGTTGAGTGGTCCAAGTTCATGATATATGAG-GC
1 ATCCGAGCTCGTTGAGTGGTCTAAGTTCATAATGGATGCGAGC
* * *
50279492 ATCCGAGCTTGTTCAGTGGTCTAAGTTCATTATGGATGCGAGC
1 ATCCGAGCTCGTTGAGTGGTCTAAGTTCATAATGGATGCGAGC
* * *
50279535 ATCCGAGCCCGTTGAGTGGTCTGAGTTCATAATGGCTGCGA
1 ATCCGAGCTCGTTGAGTGGTCTAAGTTCATAATGGATGCGA
50279576 TACATGTAAC
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
42 33 0.47
43 37 0.53
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (43 bp):
ATCCGAGCTCGTTGAGTGGTCTAAGTTCATAATGGATGCGAGC
Found at i:50279631 original size:51 final size:51
Alignment explanation
Indices: 50279534--50279633 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
50279524 TGGATGCGAG
* *
50279534 CATCCGAGCCCGTTGAGTGGTCTGAGTTCATAATGGCTGCGATACATGTAA
1 CATCCGAGCCCGTTGAGAGGTCTGAGTTCATAATGGATGCGATACATGTAA
* * * *
50279585 CATCCGAGCTCGTTGAGAGGT-TCGAGTTCATTATGGATGTGTTACATGT
1 CATCCGAGCCCGTTGAGAGGTCT-GAGTTCATAATGGATGCGATACATGT
50279634 TATAAGGTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.02
51 41 0.98
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (51 bp):
CATCCGAGCCCGTTGAGAGGTCTGAGTTCATAATGGATGCGATACATGTAA
Found at i:50284091 original size:46 final size:46
Alignment explanation
Indices: 50284038--50284214 Score: 195
Period size: 46 Copynumber: 3.8 Consensus size: 46
50284028 TATTTGGGCA
*
50284038 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
50284084 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA---A-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* * *
50284129 CATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
50284177 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
50284215 CGGGTTACAT
Statistics
Matches: 112, Mismatches: 7, Indels: 24
0.78 0.05 0.17
Matches are distributed among these distances:
42 3 0.03
43 6 0.05
45 3 0.03
46 63 0.56
47 28 0.25
48 1 0.01
50 5 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:50284193 original size:93 final size:93
Alignment explanation
Indices: 50284034--50284206 Score: 303
Period size: 93 Copynumber: 1.9 Consensus size: 93
50284024 AGGATATTTG
*
50284034 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
50284099 TTGAGTCCGAGTTCAAGAGATGTAACTA
66 TTGAGTCCGAGTTCAAGAGATGTAACTA
* *
50284127 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGA
50284191 GTTGAGTCCGAGTTCA
65 GTTGAGTCCGAGTTCA
50284207 CTTATGGACG
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCAAGAGATGTAACTA
Found at i:50288483 original size:40 final size:40
Alignment explanation
Indices: 50288428--50288510 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
50288418 GTCCTATGTT
50288428 TTGATGTGATGATATAGTTAGCTTTGTTTGTTATGCATGA
1 TTGATGTGATGATATAGTTAGCTTTGTTTGTTATGCATGA
50288468 TTGATGTGATGATATAGTTAGCTTTGTTTGTTATGCATGA
1 TTGATGTGATGATATAGTTAGCTTTGTTTGTTATGCATGA
50288508 TTG
1 TTG
50288511 GTAATACATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.22, C:0.05, G:0.25, T:0.48
Consensus pattern (40 bp):
TTGATGTGATGATATAGTTAGCTTTGTTTGTTATGCATGA
Found at i:50288996 original size:15 final size:15
Alignment explanation
Indices: 50288976--50289033 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
50288966 TATGATACTA
50288976 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
50288991 TATCTTGAATTTCTT
1 TATCTTGGATTTCTT
* * *
50289006 TTTCCTGGACTTCTT
1 TATCTTGGATTTCTT
*
50289021 TATCTTGGTTTTC
1 TATCTTGGATTTC
50289034 ATGTCATCTC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.12, C:0.17, G:0.12, T:0.59
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:50307306 original size:48 final size:48
Alignment explanation
Indices: 50307147--50307297 Score: 234
Period size: 48 Copynumber: 3.2 Consensus size: 48
50307137 GACAGGACAG
* * * * *
50307147 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
50307193 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
*
50307241 GACAGGAATGAGCCATGTTAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
50307289 GACAGGAAT
1 GACAGGAAT
50307298 AATTCATGTA
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
46 27 0.28
47 1 0.01
48 69 0.71
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
Found at i:50332015 original size:93 final size:93
Alignment explanation
Indices: 50331902--50332072 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
50331892 GCCCATAAGT
* * *
50331902 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50331967 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
50331995 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
50332060 CGAGTTCGGATGC
66 CGAGCTCGGATGC
50332073 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:50332069 original size:46 final size:46
Alignment explanation
Indices: 50331894--50332069 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
50331884 TGTAACCCGC
* * *
50331894 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
50331940 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
50331986 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
50332033 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
50332070 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:50337549 original size:93 final size:93
Alignment explanation
Indices: 50337423--50337593 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
50337413 GCCCATAAGT
* *
50337423 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTTAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50337488 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
50337516 GAACTCGGACTCAACTCAAGGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
50337581 CGAGTTCGGATGC
66 CGAGCTCGGATGC
50337594 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:50337590 original size:46 final size:46
Alignment explanation
Indices: 50337415--50337590 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
50337405 TGTAACCCGC
*
50337415 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
50337461 CCATAAGTTAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
50337507 ACATCTCTCGAACTCGGACTCAACTCAAGGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
50337554 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
50337591 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 68 0.63
47 30 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:50370833 original size:14 final size:15
Alignment explanation
Indices: 50370816--50370844 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50370806 AAGTATGGTA
50370816 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
50370830 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
50370845 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:50371200 original size:21 final size:21
Alignment explanation
Indices: 50371143--50371207 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
50371133 TAAAATATTA
*
50371143 AAAACAAATAAATATTTAAAA-
1 AAAATAAAT-AATATTTAAAAT
* * *
50371164 AAGATATATCA-A-TTAAAAT
1 AAAATAAATAATATTTAAAAT
*
50371183 AAAATAAATAATATTTAAATT
1 AAAATAAATAATATTTAAAAT
50371204 AAAA
1 AAAA
50371208 GTATAAATTC
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 6 0.18
19 9 0.27
20 2 0.06
21 16 0.48
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAATAAATAATATTTAAAAT
Found at i:50378825 original size:40 final size:39
Alignment explanation
Indices: 50378727--50378949 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
50378717 TCCTCGTTCA
* * ** * *
50378727 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
50378766 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
50378805 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
**
50378845 GAATGCCTTCGGGACTTAACCCGGATTT-AGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC
* * * * * *
50378885 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCAC
* *
50378926 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
50378950 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 108 0.69
41 8 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
Found at i:50378883 original size:80 final size:79
Alignment explanation
Indices: 50378725--50378949 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
50378715 GCTCCTCGTT
* * ** * *
50378725 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
50378790 TTTAACAATTCGCA
66 TTTAACAATTCGCA
*
50378804 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
**
50378869 ATTT-AGTATCTCGCA
65 ATTTAACAAT-TCGCA
* * * * * * *
50378884 CAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCC
50378947 GGA
63 GGA
50378950 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
79 41 0.33
80 77 0.62
81 6 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAATTCGCA
Found at i:50378949 original size:120 final size:119
Alignment explanation
Indices: 50378727--50378949 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 119
50378717 TCCTCGTTCA
* * *
50378727 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
50378792 TAACAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
50378846 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* * *
50378910 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGA
50378950 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 38 0.43
120 42 0.48
121 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:50386729 original size:40 final size:39
Alignment explanation
Indices: 50386631--50386853 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
50386621 TCCTCGTTCA
* * ** * *
50386631 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
50386670 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
50386709 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
**
50386749 GAATGCCTTCGGGACTTAACCCGGATTT-AGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC
* * * * * *
50386789 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCAC
* *
50386830 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
50386854 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 108 0.69
41 8 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
Found at i:50386787 original size:80 final size:79
Alignment explanation
Indices: 50386629--50386853 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
50386619 GCTCCTCGTT
* * ** * *
50386629 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
50386694 TTTAACAATTCGCA
66 TTTAACAATTCGCA
*
50386708 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
**
50386773 ATTT-AGTATCTCGCA
65 ATTTAACAAT-TCGCA
* * * * * * *
50386788 CAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCC
50386851 GGA
63 GGA
50386854 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
79 41 0.33
80 77 0.62
81 6 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAATTCGCA
Found at i:50386853 original size:120 final size:119
Alignment explanation
Indices: 50386631--50386853 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 119
50386621 TCCTCGTTCA
* * *
50386631 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
50386696 TAACAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
50386750 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* * *
50386814 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGA
50386854 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 38 0.43
120 42 0.48
121 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:50398372 original size:43 final size:42
Alignment explanation
Indices: 50398200--50398587 Score: 398
Period size: 43 Copynumber: 9.7 Consensus size: 42
50398190 CTTGCTTTAA
50398200 AGAGCA-AT-GAAGATACAGATTTGGC-TCTCTGTGTT---AG
1 AGAGCAGATCGAAGATACAGATTTGGCGTCTCTGT-TTGACAG
* *
50398237 AGAGCAGAT-AAAGATGCA-ATTTGGC-TCTCTGTATTGA-AG
1 AGAGCAGATCGAAGATACAGATTTGGCGTCTCTGT-TTGACAG
*
50398276 AGAG-A-AT-GAAGATACAGATTTGGCGTCTTTG-TTGACA-
1 AGAGCAGATCGAAGATACAGATTTGGCGTCTCTGTTTGACAG
*
50398313 AGAGCAGATCGAAGATACAGATTTGGCTTCTCTGTGTTGACAG
1 AGAGCAGATCGAAGATACAGATTTGGCGTCTCTGT-TTGACAG
*
50398356 AGAGCAGATCGAAGATACAGATTTGGCGTCTCTGTATGACAG
1 AGAGCAGATCGAAGATACAGATTTGGCGTCTCTGTTTGACAG
*
50398398 AGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTTTGACAG
1 AGAGCAGATCGAAGATA-CAGATTTGGCGTCTCTGTTTGACAG
* *
50398441 AGAGCAGATCGAAGATAGAGATTTGGCTTCTCTGTATTGACA-
1 AGAGCAGATCGAAGATACAGATTTGGCGTCTCTGT-TTGACAG
* *
50398483 AGAGCA-ATCGAAGAT--AGAATTGGCGT-TCTGTATG-CA-
1 AGAGCAGATCGAAGATACAGATTTGGCGTCTCTGTTTGACAG
* * * *
50398519 AGAGCAGATCGAAGATAGTAGATTTGGCATTTCTGTATT--TA-
1 AGAGCAGATCGAAGATA-CAGATTTGGCGTCTCTGT-TTGACAG
50398560 AGAGCAGATCGAA-ATA-AGATTTGGCGTC
1 AGAGCAGATCGAAGATACAGATTTGGCGTC
50398588 AAAACAATGA
Statistics
Matches: 307, Mismatches: 24, Indels: 39
0.83 0.06 0.11
Matches are distributed among these distances:
36 8 0.03
37 50 0.16
38 34 0.11
39 22 0.07
40 34 0.11
41 28 0.09
42 51 0.17
43 80 0.26
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (42 bp):
AGAGCAGATCGAAGATACAGATTTGGCGTCTCTGTTTGACAG
Found at i:50398438 original size:85 final size:85
Alignment explanation
Indices: 50398200--50398587 Score: 425
Period size: 85 Copynumber: 4.8 Consensus size: 85
50398190 CTTGCTTTAA
* * * *
50398200 AGAGCA-AT-GAAGATACAGATTTGGC-TCTCTGTGTTA-GAGAGCAGAT-AAAGAT-GCA-ATT
1 AGAGCAGATCGAAGATACAGATTTGGCGTCTCTGTATGACAAGAGCAGATCGAAGATAGCAGATT
50398258 TGGC-TCTCTGTATTGA-AG
66 TGGCGTCTCTGTATTGACAG
*
50398276 AGAG-A-AT-GAAGATACAGATTTGGCGTCTTTGT-TGACAAGAGCAGATCGAAGATA-CAGATT
1 AGAGCAGATCGAAGATACAGATTTGGCGTCTCTGTATGACAAGAGCAGATCGAAGATAGCAGATT
* *
50398336 TGGCTTCTCTGTGTTGACAG
66 TGGCGTCTCTGTATTGACAG
*
50398356 AGAGCAGATCGAAGATACAGATTTGGCGTCTCTGTATGACAGAGAGCAGATCAAAGATAGCAGAT
1 AGAGCAGATCGAAGATACAGATTTGGCGTCTCTGTATGACA-AGAGCAGATCGAAGATAGCAGAT
50398421 TTGGCGTCTCTGT-TTGACAG
65 TTGGCGTCTCTGTATTGACAG
* *
50398441 AGAGCAGATCGAAGATAGAGATTTGGCTTCTCTGTATTGACAAGAGCA-ATCGAAGATAG-A-A-
1 AGAGCAGATCGAAGATACAGATTTGGCGTCTCTGTA-TGACAAGAGCAGATCGAAGATAGCAGAT
50398502 TTGGCGT-TCTGTA-TG-CA-
65 TTGGCGTCTCTGTATTGACAG
* * * **
50398519 AGAGCAGATCGAAGATAGTAGATTTGGCATTTCTGTAT-TTAAGAGCAGATCGAA-ATA--AGAT
1 AGAGCAGATCGAAGATA-CAGATTTGGCGTCTCTGTATGACAAGAGCAGATCGAAGATAGCAGAT
50398580 TTGGCGTC
65 TTGGCGTC
50398588 AAAACAATGA
Statistics
Matches: 276, Mismatches: 16, Indels: 37
0.84 0.05 0.11
Matches are distributed among these distances:
75 22 0.08
76 20 0.07
77 18 0.07
78 38 0.14
79 29 0.11
80 13 0.05
81 8 0.03
82 3 0.01
83 25 0.09
84 15 0.05
85 63 0.23
86 22 0.08
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (85 bp):
AGAGCAGATCGAAGATACAGATTTGGCGTCTCTGTATGACAAGAGCAGATCGAAGATAGCAGATT
TGGCGTCTCTGTATTGACAG
Found at i:50400190 original size:23 final size:24
Alignment explanation
Indices: 50400153--50400234 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 24
50400143 TATAAAATAG
*
50400153 TATATATTAT-TTATTTATA-TAT
1 TATACATTATATTATTTATATTAT
*
50400175 TATCCATTATATTATTTATATTAT
1 TATACATTATATTATTTATATTAT
** *
50400199 TATACATT-TATTAATAAATTTTAT
1 TATACATTATATT-ATTTATATTAT
*
50400223 TATATATTATAT
1 TATACATTATAT
50400235 GTTATTATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
22 8 0.16
23 13 0.27
24 25 0.51
25 3 0.06
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (24 bp):
TATACATTATATTATTTATATTAT
Found at i:50400443 original size:10 final size:10
Alignment explanation
Indices: 50400385--50400496 Score: 51
Period size: 10 Copynumber: 11.1 Consensus size: 10
50400375 TATTTATTGA
50400385 ATTATT-TAT
1 ATTATTATAT
50400394 ATTTCATTATAT
1 A-TT-ATTATAT
50400406 -TTATT-TAT
1 ATTATTATAT
50400414 A-TATT-TATT
1 ATTATTATA-T
*
50400423 ACTTATCATAT
1 A-TTATTATAT
50400434 ATTATTATAT
1 ATTATTATAT
*
50400444 ATTATCT-TCCT
1 ATTAT-TAT-AT
*
50400455 TTTATTATAT
1 ATTATTATAT
50400465 ATTAATTCAT-T
1 ATT-ATT-ATAT
50400476 ATTTATTAT-T
1 A-TTATTATAT
*
50400486 ATTAGTATAT
1 ATTATTATAT
50400496 A
1 A
50400497 AAAATTAAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 29
0.69 0.06 0.25
Matches are distributed among these distances:
8 9 0.11
9 12 0.15
10 28 0.35
11 23 0.28
12 9 0.11
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (10 bp):
ATTATTATAT
Found at i:50406424 original size:22 final size:22
Alignment explanation
Indices: 50406394--50406471 Score: 85
Period size: 21 Copynumber: 3.7 Consensus size: 22
50406384 ACAAATTACA
*
50406394 AATAAAATATATAAATATATA-
1 AATATAATATATAAATATATAT
50406415 AATCATAATA-ATAAATATA-AT
1 AAT-ATAATATATAAATATATAT
*
50406436 AATA-AATATATAAAATGTATAT
1 AATATAATATAT-AAATATATAT
50406458 AATAT-ATATATAAA
1 AATATAATATATAAA
50406472 GAAAGAAAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
19 4 0.08
20 4 0.08
21 24 0.49
22 17 0.35
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (22 bp):
AATATAATATATAAATATATAT
Found at i:50406436 original size:12 final size:12
Alignment explanation
Indices: 50406402--50406445 Score: 61
Period size: 12 Copynumber: 3.4 Consensus size: 12
50406392 CAAATAAAAT
50406402 ATATAAATATATAA
1 ATAT-AATA-ATAA
50406416 ATCATAATAATAA
1 AT-ATAATAATAA
50406429 ATATAATAATAA
1 ATATAATAATAA
50406441 ATATA
1 ATATA
50406446 TAAAATGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 15 0.52
13 6 0.21
14 6 0.21
15 2 0.07
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (12 bp):
ATATAATAATAA
Found at i:50406466 original size:9 final size:9
Alignment explanation
Indices: 50406399--50406467 Score: 67
Period size: 9 Copynumber: 8.1 Consensus size: 9
50406389 TTACAAATAA
50406399 AATATATA-
1 AATATATAT
50406407 AATATATA-
1 AATATATAT
50406415 AATCATA-AT
1 AAT-ATATAT
*
50406424 AATAAATAT
1 AATATATAT
50406433 AATA-ATA-
1 AATATATAT
*
50406440 AATATATAA
1 AATATATAT
*
50406449 AATGTATAT
1 AATATATAT
50406458 AATATATAT
1 AATATATAT
50406467 A
1 A
50406468 TAAAGAAAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
7 4 0.08
8 20 0.38
9 28 0.54
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (9 bp):
AATATATAT
Found at i:50406511 original size:14 final size:15
Alignment explanation
Indices: 50406492--50406535 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
50406482 TATTATAATG
50406492 AATAATA-TAATAAA
1 AATAATAGTAATAAA
50406506 AATAATATGTAATAAA
1 AATAATA-GTAATAAA
*
50406522 AATAGTAGATAATA
1 AATAATAG-TAATA
50406536 TAATGAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 7 0.27
15 1 0.04
16 18 0.69
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AATAATAGTAATAAA
Found at i:50406632 original size:20 final size:20
Alignment explanation
Indices: 50406603--50406645 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
50406593 ACATATAAAA
* *
50406603 ATATAGTAAATAA-ATAATAT
1 ATATAATAAA-AATATAACAT
50406623 ATATAATAAAAATATAACAT
1 ATATAATAAAAATATAACAT
50406643 ATA
1 ATA
50406646 ATATANNNNN
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
ATATAATAAAAATATAACAT
Found at i:50406637 original size:13 final size:15
Alignment explanation
Indices: 50406597--50406638 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
50406587 GTATTTACAT
50406597 ATAAAAATATAGTAA
1 ATAAAAATATAGTAA
50406612 ATAAATAATATA-TATA
1 ATAAA-AATATAGTA-A
50406628 ATAAAAATATA
1 ATAAAAATATA
50406639 ACATATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAAATATAGTAA
Found at i:50417149 original size:79 final size:79
Alignment explanation
Indices: 50417027--50417204 Score: 279
Period size: 79 Copynumber: 2.3 Consensus size: 79
50417017 CTCGTCAAAT
* * *
50417027 CCTTCGGGACATAGCCCGG-TTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATTTAAC
1 CCTTCGGGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGATTTAAC
50417091 AACTCGCACGAATG
66 AACTCGCACGAATG
* * * *
50417105 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGATGCCTTCGGGACTTAACCCGGATTTAAT
1 CCTTCGGGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGATTTAAC
50417170 AACTCGCACGAATG
66 AACTCGCACGAATG
50417184 CCTTCGGGACTTAA-CCGGATT
1 CCTTCGGGACTTAACCCGGATT
50417205 AGTTCTCGCA
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
78 24 0.26
79 68 0.74
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGATTTAAC
AACTCGCACGAATG
Found at i:50417156 original size:39 final size:40
Alignment explanation
Indices: 50417027--50417204 Score: 274
Period size: 39 Copynumber: 4.5 Consensus size: 40
50417017 CTCGTCAAAT
* * * *
50417027 CCTTCGGGACATAGCCCGG-TTTAGTAACTCACAC-AATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
* *
50417065 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
50417105 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACG-ATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
50417144 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
50417184 CCTTCGGGACTTAA-CCGGATT
1 CCTTCGGGACTTAACCCGGATT
50417205 AGTTCTCGCA
Statistics
Matches: 131, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
38 18 0.14
39 58 0.44
40 55 0.42
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
Found at i:50417279 original size:40 final size:39
Alignment explanation
Indices: 50417027--50417279 Score: 266
Period size: 39 Copynumber: 6.5 Consensus size: 39
50417017 CTCGTCAAAT
* * * *
50417027 CCTTCGGGACATAGCCCGG-TTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACAATG
* *
50417065 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AATG
*
50417105 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACAATG
50417144 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AATG
* * *
50417184 CCTTCGGGACTTAA-CCGGA-TTAGT-TCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AATG
* * * * * *
50417221 CCTTC-GGATCTT-ATCCGGATATATTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACAATG
*
50417260 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
50417280 CAGCATTCAA
Statistics
Matches: 186, Mismatches: 19, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
36 4 0.02
37 23 0.12
38 25 0.13
39 67 0.36
40 67 0.36
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAATAACTCGCACAATG
Found at i:50424664 original size:40 final size:40
Alignment explanation
Indices: 50424566--50424827 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
50424556 TCCTCGTTCA
* * * * *
50424566 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
50424605 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
50424645 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
50424685 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
50424725 AATGCCTTCGGGACTTAACCCGGATTTAGT-TCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
50424764 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
50424804 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
50424828 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
38 3 0.02
39 63 0.32
40 125 0.63
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:50424760 original size:119 final size:119
Alignment explanation
Indices: 50424566--50424827 Score: 323
Period size: 119 Copynumber: 2.2 Consensus size: 119
50424556 TCCTCGTTCA
* * *
50424566 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGATT
* * * *
50424631 TAACAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
66 TAACAACTCGCACAAAGGCCTTC-GGATCTTAACCCGGATATAATAACTTAGCAC
* * *
50424684 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACATAACCCGGA
*** * * *
50424749 TTT-AGTTCTCGCACAAAGGCCTTCGGATCTTAATCCGGATATATTCACTTAGCAC
64 TTTAACAACTCGCACAAAGGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
*
50424804 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
50424828 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
118 3 0.02
119 88 0.72
120 31 0.25
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGATT
TAACAACTCGCACAAAGGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
Found at i:50424811 original size:79 final size:80
Alignment explanation
Indices: 50424569--50424827 Score: 274
Period size: 79 Copynumber: 3.3 Consensus size: 80
50424559 TCGTTCAAAT
* * * * * * * *
50424569 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* * *
50424633 ACAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * *
50424648 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
50424713 ATAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * *
50424728 GCCTTCGGGACTTAACCCGGATTTAGT-TCTCGCACAAAGGCCTTC-GGATCTTAATCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
* *
50424791 ATTCACTTAGCAC-AAA
65 AATAAC-TAGCACGAAA
*
50424807 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
50424828 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
78 3 0.02
79 84 0.53
80 72 0.45
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ATAACTAGCACGAAA
Found at i:50426898 original size:39 final size:40
Alignment explanation
Indices: 50426804--50426983 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
50426794 TATTCGGATG
** * *
50426804 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
50426844 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGAC-
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
50426883 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
* ** *
50426923 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
*
50426963 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
50426984 ATACTTGGGT
Statistics
Matches: 128, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 52 0.41
40 74 0.58
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
Found at i:50426935 original size:79 final size:80
Alignment explanation
Indices: 50426804--50426983 Score: 249
Period size: 79 Copynumber: 2.3 Consensus size: 80
50426794 TATTCGGATG
** * *
50426804 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
50426869 TTCATGCTAG-TGAC-
66 TTCATGCGAGTTG-CT
*
50426883 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
**
50426948 TTTGTGCGAGTTGCT
66 TTCATGCGAGTTGCT
*
50426963 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
50426984 ATACTTGGGT
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 82 0.91
80 8 0.09
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCATGCGAGTTGCT
Found at i:50434151 original size:15 final size:14
Alignment explanation
Indices: 50434131--50434164 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
50434121 CCACCTTCTA
50434131 AAAATCTAAATTTTG
1 AAAATC-AAATTTTG
*
50434146 AAAATCGAATTTTG
1 AAAATCAAATTTTG
50434160 AAAAT
1 AAAAT
50434165 TGAGTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (14 bp):
AAAATCAAATTTTG
Found at i:50435206 original size:27 final size:26
Alignment explanation
Indices: 50435171--50435282 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
50435161 AGCATTGCTG
* *
50435171 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGTAGAGCCA
50435197 CCAGATACAGATAAGTGTGGTAGAGCCA
1 CCAGA-ACAGATAA-TGTGGTAGAGCCA
*
50435225 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGTAGAGCCA
* * * *
50435252 CCAGATCTGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGTAGAGCCA
50435279 CCAG
1 CCAG
50435283 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGTAGAGCCA
Found at i:50435235 original size:54 final size:54
Alignment explanation
Indices: 50435171--50435282 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
50435161 AGCATTGCTG
* * *
50435171 CCAGAACAGATA-ATGTGATAGAGTCACCAGATACAGATAAGTGTGGTAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAAGTGTGGCAGAGCCA
* * * *
50435225 CCAGAACAGATATATGTGGCAGAGCCACCAGATCTGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAAGTGTGGCAGAGCCA
50435279 CCAG
1 CCAG
50435283 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAAGTGTGGCAGAGCCA
Found at i:50435725 original size:8 final size:8
Alignment explanation
Indices: 50435699--50435728 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
50435689 CAAAATACCA
50435699 GCTTTTCG
1 GCTTTTCG
*
50435707 GCATTTCG
1 GCTTTTCG
50435715 GCTTTTCG
1 GCTTTTCG
50435723 GCTTTT
1 GCTTTT
50435729 ACCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.50
Consensus pattern (8 bp):
GCTTTTCG
Found at i:50436744 original size:24 final size:24
Alignment explanation
Indices: 50436717--50436809 Score: 159
Period size: 24 Copynumber: 3.9 Consensus size: 24
50436707 ATTCTCTCTA
*
50436717 ATCAGCTCCTGAATCCTCTCCCTT
1 ATCAGCTCCTAAATCCTCTCCCTT
50436741 ATCAGCTCCTAAATCCTCTCCCTT
1 ATCAGCTCCTAAATCCTCTCCCTT
50436765 ATCAGCTCCTAAATCCTCTCCCTT
1 ATCAGCTCCTAAATCCTCTCCCTT
* *
50436789 ATCAGCTCCCAAATCTTCTCC
1 ATCAGCTCCTAAATCCTCTCC
50436810 TGACAGCCTT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.20, C:0.42, G:0.05, T:0.32
Consensus pattern (24 bp):
ATCAGCTCCTAAATCCTCTCCCTT
Found at i:50439476 original size:33 final size:32
Alignment explanation
Indices: 50439432--50439504 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 32
50439422 AAAGAAGATG
50439432 TTAAAAATGGATATGTCTACTAAGTTATTAGA
1 TTAAAAATGGATATGTCTACTAAGTTATTAGA
* *
50439464 TTAAAAGATGGATATGTCTGCTAAGTTATTGGA
1 TTAAAA-ATGGATATGTCTACTAAGTTATTAGA
50439497 TTGAAAAA
1 TT-AAAAA
50439505 ATAGTCTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 6 0.16
33 27 0.73
34 4 0.11
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.36
Consensus pattern (32 bp):
TTAAAAATGGATATGTCTACTAAGTTATTAGA
Found at i:50440561 original size:27 final size:27
Alignment explanation
Indices: 50440521--50440823 Score: 412
Period size: 27 Copynumber: 11.3 Consensus size: 27
50440511 TTAGCTTACC
*
50440521 AAAA-TACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
50440547 AAAATCACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
50440574 AAAATCACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
50440601 -AAATTACCAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
*
50440627 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
** * * *
50440654 AAAATTATTAAAATACCCTTTGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
50440681 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
50440708 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
50440735 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
50440762 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
50440789 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
50440816 GAAATTAC
1 AAAATTAC
50440824 TGAAATATCC
Statistics
Matches: 242, Mismatches: 33, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
26 26 0.11
27 216 0.89
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:50440589 original size:54 final size:53
Alignment explanation
Indices: 50440521--50440904 Score: 423
Period size: 54 Copynumber: 7.2 Consensus size: 53
50440511 TTAGCTTACC
* *
50440521 AAAA-TACCAAAATACCCCTAGTTTGTAAAATCACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCT-GTTTGTAAAATTACCAAAATACCCTTGGTTTAT
* *
50440574 AAAATCACCAAAATACCCCTGGTTTGT-AAATTACCAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCT-GTTTGTAAAATTACCAAAATACCCTTGGTTTAT
** *
50440627 AAAATTACCAAAATACCCCTGATTTGTAAAATTATTAAAATACCCTTTGTTTAT
1 AAAATTACCAAAATACCCCTG-TTTGTAAAATTACCAAAATACCCTTGGTTTAT
* *
50440681 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCT-GTTTGTAAAATTACCAAAATACCCTTGGTTTAT
* * * *
50440735 AAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCT-GTTTGTAAAATTACCAAAATACCCTTGGTTTAT
* ** * * *** *
50440789 AAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATATCCTCGACCTGT
1 AAAATTACCAAAATACCCCTG-TTTGTAAAATTACCAAAATACCCTTGGTTTAT
*** * * *
50440843 AAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCTTGATTTAT
1 AAAATTACCAAAATACCCCT-G-TTTGTAAAATTACCAAAATACCCTTGGTTTAT
50440897 AAAATTAC
1 AAAATTAC
50440905 TATTTTACCC
Statistics
Matches: 282, Mismatches: 43, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
52 1 0.00
53 56 0.20
54 224 0.79
55 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (53 bp):
AAAATTACCAAAATACCCCTGTTTGTAAAATTACCAAAATACCCTTGGTTTAT
Found at i:50440829 original size:27 final size:27
Alignment explanation
Indices: 50440521--50440904 Score: 379
Period size: 27 Copynumber: 14.3 Consensus size: 27
50440511 TTAGCTTACC
50440521 AAAA-TACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* * * * *
50440547 AAAATCACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGATTTGT
* *
50440574 AAAATCACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * **
50440601 -AAATTACCAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
50440627 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
** * *
50440654 AAAATTATTAAAATACCCTTTG-TTTAT
1 AAAATTACCAAAATACCC-CTGATTTGT
*
50440681 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
*
50440708 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
*
50440735 AAAATTATCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
50440762 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
50440789 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* ** * **
50440816 GAAATTACTGAAATA-TCCTCGACCTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
*** *
50440843 AAAATTATTGAAATA-CCCTCGACTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* * *
50440870 AAAATTACCAAAGTACCCTTGATTTAT
1 AAAATTACCAAAATACCCCTGATTTGT
50440897 AAAATTAC
1 AAAATTAC
50440905 TATTTTACCC
Statistics
Matches: 305, Mismatches: 44, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
26 31 0.10
27 268 0.88
28 6 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:50440830 original size:81 final size:81
Alignment explanation
Indices: 50440521--50440906 Score: 422
Period size: 81 Copynumber: 4.8 Consensus size: 81
50440511 TTAGCTTACC
* * * * * * *
50440521 AAAA-TACCAAAATACCCCTAGTTTGTAAAATCACTAAAATACCCTTGGTTTATAAAATCACCAA
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAA
*
50440585 AATACCCCTGGTTTGT
66 AATACCCCTAGTTTGT
* * ** *
50440601 -AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTATTAA
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAA
* * *
50440665 AATACCCTTTGTTTAT
66 AATACCCCTAGTTTGT
* *
50440681 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTA-TCA
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACT-A
50440745 AAATACCCCTAGTTTGT
65 AAATACCCCTAGTTTGT
* *
50440762 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGA
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAA
* * **
50440827 AATA-TCCTCGACCTGT
66 AATACCCCTAG-TTTGT
*** * * * * *
50440843 AAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCTTGATTTATAAAATTACTA
1 AAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTA
50440907 TTTTACCCTC
Statistics
Matches: 260, Mismatches: 40, Indels: 11
0.84 0.13 0.04
Matches are distributed among these distances:
79 3 0.01
80 71 0.27
81 185 0.71
82 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAA
AATACCCCTAGTTTGT
Found at i:50440928 original size:81 final size:81
Alignment explanation
Indices: 50440627--50440942 Score: 230
Period size: 81 Copynumber: 3.9 Consensus size: 81
50440617 CTTGGTTTAC
* * * * ** * *
50440627 AAAATTACCAAAATACCCCTGATTTGTAAAATTATTAAAATACCCTTTG-TTTATAAAATTACCA
1 AAAATTACCAAAATACCCCTGATTTATAAAATTACTGAAATACCC-TCGACCTACAAAATTACCG
**
50440691 AAATACCC-CTGGTTTGT
65 AAATACCCTC-GACTTGT
* * * * ** **
50440708 AAAATTACCAAAATACCCCTGGTTTGTAAAATTA-TCAAAATACCC-CTAGTTTGTAAAATTACC
1 AAAATTACCAAAATACCCCTGATTTATAAAATTACT-GAAATACCCTCGA-CCTACAAAATTACC
* * *
50440771 AAAATACCC-CTAGTTTGT
64 GAAATACCCTCGA-CTTGT
* * * ** **
50440789 AAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATATCCTCGACCTGTAAAATTATTGA
1 AAAATTACCAAAATACCCCTGATTTATAAAATTACTGAAATACCCTCGACCTACAAAATTACCGA
50440854 AATACCCTCGACTTGT
66 AATACCCTCGACTTGT
* * ** **
50440870 AAAATTACCAAAGTACCCTTGATTTATAAAATTACT-ATTTTACCCTCGAGTTACAAAATTACCG
1 AAAATTACCAAAATACCCCTGATTTATAAAATTACTGA-AATACCCTCGACCTACAAAATTACCG
50440934 AAATACCCT
65 AAATACCCT
50440943 TGTAGGGTAG
Statistics
Matches: 196, Mismatches: 31, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
80 2 0.01
81 189 0.96
82 5 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTGATTTATAAAATTACTGAAATACCCTCGACCTACAAAATTACCGA
AATACCCTCGACTTGT
Found at i:50440940 original size:27 final size:27
Alignment explanation
Indices: 50440601--50440942 Score: 108
Period size: 27 Copynumber: 12.7 Consensus size: 27
50440591 CCTGGTTTGT
* * ** *
50440601 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCGAAATACCCTCGACTTATA
* * *
50440628 AAATTACCAAAATACCC-CTGATTTGTA
1 AAATTACCGAAATACCCTC-GACTTATA
*** * *
50440655 AAATTATTAAAATACCCTTTG-TTTATA
1 AAATTACCGAAATACCC-TCGACTTATA
* ** *
50440682 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCGAAATACCCTC-GACTTATA
* ** *
50440709 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCGAAATACCCTC-GACTTATA
* * * * *
50440736 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCGAAATACCCTCGA-CTTATA
* * * *
50440763 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCGAAATACCCTCGA-CTTATA
* * * *
50440790 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCGAAATACCCTC-GACTTATA
* * * *
50440817 AAATTACTGAAATATCCTCGACCTGTA
1 AAATTACCGAAATACCCTCGACTTATA
** *
50440844 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCGAAATACCCTCGACTTATA
* *
50440871 AAATTACC-AAAGTACCCTTGATTTATA
1 AAATTACCGAAA-TACCCTCGACTTATA
* ** * *
50440898 AAATTA-CTATTTTACCCTCGAGTTACA
1 AAATTACCGA-AATACCCTCGACTTATA
50440925 AAATTACCGAAATACCCT
1 AAATTACCGAAATACCCT
50440943 TGTAGGGTAG
Statistics
Matches: 263, Mismatches: 40, Indels: 24
0.80 0.12 0.07
Matches are distributed among these distances:
26 5 0.02
27 253 0.96
28 5 0.02
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGACTTATA
Found at i:50440959 original size:27 final size:27
Alignment explanation
Indices: 50440926--50441173 Score: 320
Period size: 27 Copynumber: 9.3 Consensus size: 27
50440916 CGAGTTACAA
*
50440926 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
50440953 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
50440980 AATTACCGAAATACCCCTGTAGTGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
50441007 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
50441034 AATTACTGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
50441061 AATTATCGCAATA-CCCTGTAGGGTAC
1 AATTACCGAAATACCCCTGTAGGGTAG
50441087 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
50441114 AATTACTAAAATATCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
50441141 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
50441167 AATTACC
1 AATTACC
50441174 ATTTTGCCCC
Statistics
Matches: 196, Mismatches: 24, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
26 39 0.20
27 157 0.80
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Done.