Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 187 of 335
Found at i:56276916 original size:79 final size:81
Alignment explanation
Indices: 56276807--56276989 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
56276797 TACTCGTTCA
* *
56276807 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
56276870 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
56276887 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
56276950 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
56276966 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
56276990 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:56276989 original size:40 final size:40
Alignment explanation
Indices: 56276786--56276989 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
56276776 CGGAATTTAA
** *
56276786 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56276826 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56276866 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
56276905 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
56276945 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
56276985 CCGGA
1 CCGGA
56276990 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:56285845 original size:20 final size:19
Alignment explanation
Indices: 56285820--56285858 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
56285810 CAGATAACTT
*
56285820 TTTCTTCTTCCTTTTTGTCA
1 TTTCTT-TTACTTTTTGTCA
*
56285840 TTTCTTTTAGTTTTTGTCA
1 TTTCTTTTACTTTTTGTCA
56285859 AACGACTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.08, C:0.18, G:0.08, T:0.67
Consensus pattern (19 bp):
TTTCTTTTACTTTTTGTCA
Found at i:56286868 original size:27 final size:27
Alignment explanation
Indices: 56286827--56286914 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
56286817 TGATGTTCAC
56286827 ATACCCCCAGA-TTGTAAAATTACCGAA
1 ATACCCCC-GATTTGTAAAATTACCGAA
**
56286854 ATACCCCCGATTTGTAAAATTATTGAA
1 ATACCCCCGATTTGTAAAATTACCGAA
** *
56286881 ATACCCTTG-TAGTGTAAAATTACCGAA
1 ATACCCCCGAT-TTGTAAAATTACCGAA
56286908 ATACCCC
1 ATACCCC
56286915 TATAGGGTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.06
27 48 0.94
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (27 bp):
ATACCCCCGATTTGTAAAATTACCGAA
Found at i:56286924 original size:27 final size:27
Alignment explanation
Indices: 56286839--56286927 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
56286829 ACCCCCAGAT
* *
56286839 TGTAAAATTACCGAAATACCCCCGAT-T
1 TGTAAAATTACCGAAATA-CCCCTATAG
** * *
56286866 TGTAAAATTATTGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCCTATAG
56286893 TGTAAAATTACCGAAATACCCCTATAG
1 TGTAAAATTACCGAAATACCCCTATAG
*
56286920 GGTAAAAT
1 TGTAAAAT
56286928 GACAGTTTTG
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
26 4 0.08
27 46 0.92
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCCTATAG
Found at i:56288691 original size:94 final size:93
Alignment explanation
Indices: 56288570--56288743 Score: 285
Period size: 94 Copynumber: 1.9 Consensus size: 93
56288560 GATAAAAAGG
* * *
56288570 GGATTTGATATATTCCTTATCAAATAAGGAAATAAAAGTTAATTATTATTTAAAAGAGTTTTATA
1 GGATATGATATATTCCTTAACAAATAAGGAAATAAAAGTTAATTATT-TTTAAAAGAGTTTTAAA
56288635 TAAATAATAATTAAAATTCAAAATCAAAA
65 TAAATAATAATTAAAATTCAAAATCAAAA
* * *
56288664 GGATATGATATATTCCTTAACAGATAAGGAAATAGAATTTAATTATTTTTAAAAGAGTTTTAAAT
1 GGATATGATATATTCCTTAACAAATAAGGAAATAAAAGTTAATTATTTTTAAAAGAGTTTTAAAT
56288729 AAATAATAATTAAAA
66 AAATAATAATTAAAA
56288744 AAATTAATTA
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
93 32 0.43
94 42 0.57
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (93 bp):
GGATATGATATATTCCTTAACAAATAAGGAAATAAAAGTTAATTATTTTTAAAAGAGTTTTAAAT
AAATAATAATTAAAATTCAAAATCAAAA
Found at i:56290304 original size:19 final size:19
Alignment explanation
Indices: 56290282--56290318 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
56290272 CAATGATCCC
* *
56290282 TCATCCCTTCATTCCTTAA
1 TCATCCCTACATCCCTTAA
56290301 TCATCCCTACATCCCTTA
1 TCATCCCTACATCCCTTA
56290319 TTCAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.38
Consensus pattern (19 bp):
TCATCCCTACATCCCTTAA
Found at i:56293770 original size:66 final size:67
Alignment explanation
Indices: 56293570--56293793 Score: 396
Period size: 68 Copynumber: 3.3 Consensus size: 67
56293560 ATACTATATA
56293570 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATAC-GGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
56293635 AAT
65 AAT
56293638 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATAC-GGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
56293703 AAT
65 AAT
*
56293706 GTAGCTAGGTCACATGTGTGATAC-GATGTATCCCATGTAGACAAGAAAGCTACGTGAGAGATAA
1 GTAGCTAGGTCACATGTGTGATACGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATAA
56293770 AT
66 AT
* *
56293772 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
56293794 TCCAAGTGAA
Statistics
Matches: 153, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
66 61 0.40
68 92 0.60
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATACGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATAA
AT
Found at i:56293867 original size:66 final size:67
Alignment explanation
Indices: 56293604--56293867 Score: 181
Period size: 66 Copynumber: 3.9 Consensus size: 67
56293594 GGGATGTATC
* * * *
56293604 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAAAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* *
56293666 TGTATC-
62 AGGA-CA
* * * * *
56293672 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-CGA-TGT
1 CCATGTAGACAAGAAAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
*
56293735 A--TC-
62 AGGACA
*
56293738 CCATGTAGACAAGAAAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAAAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
56293803 AGGACA
62 AGGACA
* * *
56293809 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAAAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
56293868 TTCACCATGT
Statistics
Matches: 173, Mismatches: 15, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
66 78 0.45
67 11 0.06
68 62 0.36
69 1 0.01
70 1 0.01
71 20 0.12
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.22
Consensus pattern (67 bp):
CCATGTAGACAAGAAAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:56293885 original size:134 final size:130
Alignment explanation
Indices: 56293572--56293857 Score: 344
Period size: 134 Copynumber: 2.1 Consensus size: 130
56293562 ACTATATAGT
* * *
56293572 AGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATAAA
1 AGCTAGGTCACATGAGTGATAC--AATGTATCCCATGTAGACAAGAAAGCTACGTGAGAGATAAA
* * * *
56293637 TGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGAT
64 TGTAGCTAGGTCACATGAGTGATAAGGGAAGGATCCCATGTAGACAAGAGAGCTAC--G-GAGAT
56293702 AAATG
126 AAATG
* *
56293707 TAGCTAGGTCACATGTGTGATACGATGTATCCCATGTAGACAAGAAAGCTACGTGAGAGATAAAT
1 -AGCTAGGTCACATGAGTGATACAATGTATCCCATGTAGACAAGAAAGCTACGTGAGAGATAAAT
* *
56293772 GTAGCTAGGTCGCATGAGTGATTCCAAGTGAAGGA-CACCATGTAGACAAGAGAGCTAC-GAGAT
65 GTAGCTAGGTCACATGAGTGA-T--AAGGGAAGGATC-CCATGTAGACAAGAGAGCTACGGAGAT
56293835 AAATCG
126 AAAT-G
*
56293841 -GCTAGGTCGCATGAGTG
1 AGCTAGGTCACATGAGTG
56293858 GTACTAAGTG
Statistics
Matches: 136, Mismatches: 9, Indels: 14
0.86 0.06 0.09
Matches are distributed among these distances:
132 15 0.11
133 9 0.07
134 61 0.45
135 1 0.01
136 23 0.17
137 27 0.20
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (130 bp):
AGCTAGGTCACATGAGTGATACAATGTATCCCATGTAGACAAGAAAGCTACGTGAGAGATAAATG
TAGCTAGGTCACATGAGTGATAAGGGAAGGATCCCATGTAGACAAGAGAGCTACGGAGATAAATG
Found at i:56301230 original size:68 final size:67
Alignment explanation
Indices: 56301184--56301341 Score: 280
Period size: 68 Copynumber: 2.3 Consensus size: 67
56301174 ATACTATATA
56301184 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
56301249 AAT
65 AAT
56301252 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
56301317 AAT
65 AAT
* *
56301320 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
56301342 TCCAAGTGAA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 88 1.00
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGGAGAGATAA
AT
Found at i:56301415 original size:66 final size:67
Alignment explanation
Indices: 56301218--56301415 Score: 190
Period size: 68 Copynumber: 2.9 Consensus size: 67
56301208 GGGATGTATC
* * *
56301218 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* * **
56301280 TGTATC
62 AGGAAA
*
56301286 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
56301351 AGGAAA
62 AGGAAA
* *
56301357 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
56301416 TTCACCATGT
Statistics
Matches: 115, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
66 24 0.21
67 9 0.08
68 55 0.48
69 1 0.01
71 26 0.23
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
AA
Found at i:56303742 original size:16 final size:16
Alignment explanation
Indices: 56303721--56303766 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
56303711 ATGTATCGGC
*
56303721 AAAAGCCGAAATGCCA
1 AAAAGCCGAAAAGCCA
*
56303737 AAAAGCTGAAAAGCCA
1 AAAAGCCGAAAAGCCA
* *
56303753 AAATGCTGAAAAGC
1 AAAAGCCGAAAAGC
56303767 TGAAAGTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.52, C:0.20, G:0.20, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAAAGCCA
Found at i:56303756 original size:24 final size:24
Alignment explanation
Indices: 56303721--56303771 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
56303711 ATGTATCGGC
*
56303721 AAAAGCCGAAATGCCAAAAAGCTG
1 AAAAGCCAAAATGCCAAAAAGCTG
**
56303745 AAAAGCCAAAATGCTGAAAAGCTG
1 AAAAGCCAAAATGCCAAAAAGCTG
56303769 AAA
1 AAA
56303772 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.18, G:0.20, T:0.10
Consensus pattern (24 bp):
AAAAGCCAAAATGCCAAAAAGCTG
Found at i:56304034 original size:29 final size:28
Alignment explanation
Indices: 56303982--56304096 Score: 122
Period size: 29 Copynumber: 4.0 Consensus size: 28
56303972 GTGAGCATGA
* * *
56303982 ATATGAATGTGACTGGGCCTAATGGGTC
1 ATATAAATGTGATTGGGCCTAATGGGCC
56304010 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * * *
56304039 ATATACAGGTGATTTAGGCATAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
56304068 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
56304096 A
1 A
56304097 GATACAGGTA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 26 0.36
29 47 0.64
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.30
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:56308187 original size:45 final size:45
Alignment explanation
Indices: 56308136--56308243 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
56308126 GATGCCGATG
* * *
56308136 TCCCAGACATGGACTTACACGTAACCAGATATATCAATACCAACA
1 TCCCAGACGTGGTCTTACACGTAACCAAATATATCAATACCAACA
* * * * *
56308181 TCCCAGACGTGGTTTTACACGTATCCAAATATATCGATGCCAACG
1 TCCCAGACGTGGTCTTACACGTAACCAAATATATCAATACCAACA
*
56308226 TACCAGACGTGGTCTTAC
1 TCCCAGACGTGGTCTTAC
56308244 TCAAAAACAC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (45 bp):
TCCCAGACGTGGTCTTACACGTAACCAAATATATCAATACCAACA
Found at i:56311818 original size:10 final size:10
Alignment explanation
Indices: 56311805--56311843 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
56311795 ATATATGAAT
56311805 ATATCATGGC
1 ATATCATGGC
56311815 ATATCATGTGC
1 ATATCATG-GC
56311826 ATATCATGGC
1 ATATCATGGC
56311836 ATATCATG
1 ATATCATG
56311844 TATAAAACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:56311831 original size:21 final size:21
Alignment explanation
Indices: 56311805--56311844 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
56311795 ATATATGAAT
56311805 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
56311826 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
56311845 ATAAAACAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:56315505 original size:29 final size:29
Alignment explanation
Indices: 56315471--56315544 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
56315461 TAATCAGCCG
*
56315471 CGCACACTTAGTGCCATATACTTCAAGCT
1 CGCACACTTAGTGCCATACACTTCAAGCT
* *
56315500 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATACACTTCAAGCT
*
56315529 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
56315545 ATCTCTCAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACACTTCAAGCT
Found at i:56319103 original size:27 final size:26
Alignment explanation
Indices: 56319063--56319174 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
56319053 AGCATGGCTG
* *
56319063 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
56319089 CCAGATACAGATAATTGTGGCAGAGCCA
1 CCAGA-ACAGATAA-TGTGGCAGAGCCA
* *
56319117 CTAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* ** *
56319144 TCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
56319171 CCAG
1 CCAG
56319175 GATGCTTCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.08
27 49 0.69
28 16 0.23
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:56319157 original size:54 final size:54
Alignment explanation
Indices: 56319065--56319171 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
56319055 CATGGCTGCC
* *
56319065 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAATTGTGGCAGAGCCACT
1 AGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCCACT
* * * *
56319119 AGAACAGAAATATGTGGCAGAGCCATCAGAT-TAGATAATTGTGGCATAGCCAC
1 AGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCCAC
56319172 CAGGATGCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 29 0.63
55 17 0.37
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (54 bp):
AGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCCACT
Found at i:56320619 original size:24 final size:24
Alignment explanation
Indices: 56320592--56320662 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
56320582 CTAGATTTCC
**
56320592 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
56320616 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
56320640 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
56320663 CTCCTGACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:56331681 original size:49 final size:48
Alignment explanation
Indices: 56331589--56331707 Score: 125
Period size: 48 Copynumber: 2.5 Consensus size: 48
56331579 TCAATTCGAT
* *
56331589 GCCATGTCCTAGACATGGTCTTACACTGACTATCAAAACCGAGGCCGAC
1 GCCATGTCCCAGACAT-GTCTTAAACTGACTATCAAAACCGAGGCCGAC
* * * * *
56331638 GCCATGTCCCAGACATGTCTTAAACTGGCT-TGCATATCTCGAGGCTGAT
1 GCCATGTCCCAGACATGTCTTAAACTGACTAT-CAAAAC-CGAGGCCGAC
*
56331687 G-CATGTGCCAGACATGTCTTA
1 GCCATGTCCCAGACATGTCTTA
56331708 CACTAGCTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.02
48 35 0.58
49 24 0.40
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (48 bp):
GCCATGTCCCAGACATGTCTTAAACTGACTATCAAAACCGAGGCCGAC
Found at i:56335450 original size:2 final size:2
Alignment explanation
Indices: 56335443--56335470 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
56335433 CATATGATTC
56335443 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56335471 GTCACATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56335500 original size:30 final size:29
Alignment explanation
Indices: 56335464--56335530 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 29
56335454 TATATATATA
56335464 TATATATGTCACATAT-TTC-CAATTCATTTG
1 TATATAT-T-ACATATATTCTC-ATTCATTTG
*
56335494 TATATATTGCATATATTCTCATTCATTTG
1 TATATATTACATATATTCTCATTCATTTG
56335523 TCATATAT
1 T-ATATAT
56335531 CATCACTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 5 0.15
29 14 0.42
30 14 0.42
ACGTcount: A:0.30, C:0.15, G:0.06, T:0.49
Consensus pattern (29 bp):
TATATATTACATATATTCTCATTCATTTG
Found at i:56335813 original size:42 final size:43
Alignment explanation
Indices: 56335705--56335817 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 43
56335695 TCGTACAATG
* * * *
56335705 CCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCGATG
1 CCAATGTCCCAGACGTGGTCTTACATGAAATCAAATATCGATA
* *
56335748 CCACTATCCCAGACAG-GGTCTTACATGAAATCAAATA-CGATA
1 CCAATGTCCCAGAC-GTGGTCTTACATGAAATCAAATATCGATA
*
56335790 CCAATGTCCCATACGTGGTCTTACATGA
1 CCAATGTCCCAGACGTGGTCTTACATGA
56335818 TAACTCATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 27 0.46
43 31 0.53
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
CCAATGTCCCAGACGTGGTCTTACATGAAATCAAATATCGATA
Found at i:56344541 original size:13 final size:13
Alignment explanation
Indices: 56344525--56344549 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56344515 CACACAAACA
56344525 ATTAAATTTTCAT
1 ATTAAATTTTCAT
56344538 ATTAAATTTTCA
1 ATTAAATTTTCA
56344550 CACATACTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTAAATTTTCAT
Found at i:56347493 original size:16 final size:16
Alignment explanation
Indices: 56347472--56347515 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
56347462 GGCAAAAGCT
*
56347472 GAAAAGCCAAAATATC
1 GAAAAGCCAAAATACC
*
56347488 GAAAAGCCAAAATGCC
1 GAAAAGCCAAAATACC
56347504 GAAAAGCCAAAA
1 GAAAAGCCAAAA
56347516 GTTTGGCTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.57, C:0.20, G:0.16, T:0.07
Consensus pattern (16 bp):
GAAAAGCCAAAATACC
Found at i:56347782 original size:29 final size:28
Alignment explanation
Indices: 56347750--56347871 Score: 88
Period size: 29 Copynumber: 4.3 Consensus size: 28
56347740 GGGTGTAACT
*
56347750 GGCCATATAAAGGTAATTTGGGTCTAATA
1 GGCCATATAAAGGTAA-TTGGGTCTAATG
* * *
56347779 GGCCATGTGAATATG-AATTGGGTCTGATG
1 GGCCATAT-AA-AGGTAATTGGGTCTAATG
* * *
56347808 GGCCATATAAATGTGAATTGGGCCTGATG
1 GGCCATATAAAGGT-AATTGGGTCTAATG
* * *
56347837 GGCCATATGAATG-AGA-TGGGTCAAATG
1 GGCCATATAAAGGTA-ATTGGGTCTAATG
56347864 GGCCATAT
1 GGCCATAT
56347872 GTATGTATGT
Statistics
Matches: 78, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
27 20 0.26
28 3 0.04
29 49 0.63
30 4 0.05
31 2 0.03
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (28 bp):
GGCCATATAAAGGTAATTGGGTCTAATG
Found at i:56353375 original size:24 final size:21
Alignment explanation
Indices: 56353333--56353375 Score: 50
Period size: 21 Copynumber: 1.9 Consensus size: 21
56353323 ATTATTCCTT
*
56353333 AAATAAAAAAATTAGTTTTTC
1 AAATAAAAAAATTAATTTTTC
56353354 AAATAATAAAAATGTCAATTTT
1 AAATAA-AAAAAT-T-AATTTT
56353376 GATCTAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 6 0.33
22 6 0.33
23 1 0.06
24 5 0.28
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (21 bp):
AAATAAAAAAATTAATTTTTC
Found at i:56354312 original size:25 final size:26
Alignment explanation
Indices: 56354270--56354323 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
56354260 TTCTCCTAAA
*
56354270 TTTCAATTTTATTTAATTATTTAAT-T
1 TTTCAATTTTATTAAATTA-TTAATAT
56354296 TTTCAA-TTTATTAAATTATTAATAT
1 TTTCAATTTTATTAAATTATTAATAT
56354321 TTT
1 TTT
56354324 ATACTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 15 0.58
26 6 0.23
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTAAATTATTAATAT
Found at i:56355685 original size:27 final size:27
Alignment explanation
Indices: 56355561--56355706 Score: 159
Period size: 27 Copynumber: 5.4 Consensus size: 27
56355551 ATAAATACAT
* *
56355561 CACAT-AGGGCAAAACAGTCATCTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * * **
56355587 CATATGAGGGCAAAACAGTCATCCTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
56355614 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
56355641 CACATAAGGGTAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* ** *
56355668 CACATAAGGCCATGATAGCCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
56355695 CTCATAGGGGCA
1 CACATAAGGGCA
56355707 GAACAGACAT
Statistics
Matches: 103, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 4 0.04
27 99 0.96
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:56360762 original size:40 final size:39
Alignment explanation
Indices: 56360717--56360924 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
56360707 CGGAATACAA
*
56360717 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56360757 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56360797 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
56360837 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
56360877 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
56360917 CCGGATAT
1 CCGGATAT
56360925 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56360857 original size:80 final size:81
Alignment explanation
Indices: 56360717--56360922 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
56360707 CGGAATACAA
* * *
56360717 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
56360781 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
56360797 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
56360860 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
56360877 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
56360923 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:56368778 original size:40 final size:39
Alignment explanation
Indices: 56368733--56368938 Score: 223
Period size: 40 Copynumber: 5.2 Consensus size: 39
56368723 CGGAATACGA
*
56368733 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56368773 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56368813 CCGGATTTAACAACTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
* ** * *
56368852 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * * *
56368892 CCGGATATAATTACAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
56368931 CCGGATAT
1 CCGGATAT
56368939 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 61 0.44
40 78 0.56
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56368851 original size:79 final size:79
Alignment explanation
Indices: 56368733--56368937 Score: 243
Period size: 79 Copynumber: 2.6 Consensus size: 79
56368723 CGGAATACGA
* *
56368733 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAA-CGACTTGCACAAAT
1 CCGGATATAACAAC-TGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGC-ACTAGCACAAAT
*
56368797 GCCTTCGGGTATTAGC
64 GCCTTCGGGTATTAAC
* * *
56368813 CCGGATTTAACAACTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGTCACTAGCACAATTG
1 CCGGATATAACAACTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAG-CACTAGCACAAATG
*
56368877 CCTTCGGGTCTTAAC
65 CCTTCGGGTATTAAC
** * ** * *
56368892 CCGGATATAATTACAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
56368938 TCATTCAATT
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
78 2 0.02
79 92 0.86
80 13 0.12
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
CCGGATATAACAACTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTAGCACAAATGC
CTTCGGGTATTAAC
Found at i:56374690 original size:79 final size:80
Alignment explanation
Indices: 56374581--56374842 Score: 372
Period size: 79 Copynumber: 3.3 Consensus size: 80
56374571 TACTCGTTCA
* * * ** *
56374581 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGA
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
56374644 ATTTAGTAACTCGCACC
64 ATTTAGTAACTCGCACC
56374661 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
56374725 TTAGTAACTCGCACC
66 TTAGTAACTCGCACC
56374740 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
* * *
56374804 ATAGTCACTTAGCA-C
66 TTAGTAAC-TCGCACC
*
56374819 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
56374843 CATCATTCGA
Statistics
Matches: 168, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
78 3 0.02
79 137 0.82
80 28 0.17
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
TTAGTAACTCGCACC
Found at i:56374765 original size:119 final size:121
Alignment explanation
Indices: 56374579--56374842 Score: 346
Period size: 119 Copynumber: 2.2 Consensus size: 121
56374569 GCTACTCGTT
*
56374579 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCG
* *
56374643 AATTTAGTAACTCGCACCAATGCCTTCGG-GCTTAGCCCGGA-ATTAGTAAC-TCGCA
66 AA-TTAGTAACTCGCACAAATGCCTTCGGAGCTTAGCCCGGATA-TAGTAACTTAGCA
* * * *
56374698 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAACTCACACAAATGCCTTCGGGACTTAACCC
* * *
56374760 GGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
65 -GAATTAGTAACTCGCACAAATGCCTTCGGAGCTTAGCCCGGATATAGTAACTTAGCA
56374818 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56374843 CATCATTCGA
Statistics
Matches: 127, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
118 35 0.28
119 78 0.61
120 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCG
AATTAGTAACTCGCACAAATGCCTTCGGAGCTTAGCCCGGATATAGTAACTTAGCA
Found at i:56374842 original size:40 final size:40
Alignment explanation
Indices: 56374560--56374842 Score: 321
Period size: 40 Copynumber: 7.1 Consensus size: 40
56374550 CCGAATTTAT
** *
56374560 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
56374600 CCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
56374640 CCGAATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
56374679 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
56374719 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
56374758 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
56374798 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
56374838 CCGGA
1 CCGGA
56374843 CATCATTCGA
Statistics
Matches: 206, Mismatches: 25, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
38 4 0.02
39 64 0.31
40 124 0.60
41 14 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:56385500 original size:37 final size:37
Alignment explanation
Indices: 56385431--56385691 Score: 238
Period size: 37 Copynumber: 7.0 Consensus size: 37
56385421 CGTATCAATG
* **
56385431 GATAATGCTCGTTTGAGCATGCATTCCTTATAATCAGTA
1 GATATTGCTCGTTTGAGCA--CATTCAGTATAATCAGTA
* * * * * *
56385470 GATATCGCTCATTTGAGCCCATTCAATATAATCAATG
1 GATATTGCTCGTTTGAGCACATTCAGTATAATCAGTA
* * *
56385507 GACATTGCTCGTTTGAGTAACTTTCAGTATAATCAGTA
1 GATATTGCTCGTTTGAG-CACATTCAGTATAATCAGTA
* * * * * *
56385545 GACATTTCTCTTTTGAGCACGTTCAGTATATTCAATA
1 GATATTGCTCGTTTGAGCACATTCAGTATAATCAGTA
* * * *
56385582 GATATTGCTCGTTTGAGCCCATTCAATATAATTAGTG
1 GATATTGCTCGTTTGAGCACATTCAGTATAATCAGTA
* *
56385619 GATATCGCTCGTTTGAGCAACTTTCAGTATAATCAGTA
1 GATATTGCTCGTTTGAGC-ACATTCAGTATAATCAGTA
* *
56385657 GATATTGCT--TTTGAGCACGTTCAGTATATTCAGTA
1 GATATTGCTCGTTTGAGCACATTCAGTATAATCAGTA
56385692 TTCCATTTTT
Statistics
Matches: 178, Mismatches: 42, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
35 17 0.10
36 7 0.04
37 88 0.49
38 51 0.29
39 15 0.08
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (37 bp):
GATATTGCTCGTTTGAGCACATTCAGTATAATCAGTA
Found at i:56385580 original size:75 final size:75
Alignment explanation
Indices: 56385459--56385691 Score: 204
Period size: 75 Copynumber: 3.1 Consensus size: 75
56385449 ATGCATTCCT
* * *
56385459 TATAATCAGTAGATATCGCTCATTTGAGCCCATTCAATATAATCAATGGACATTGCTCGTTTGAG
1 TATAATCAGTAGACATCGCTCATTTGAGCACATTCAATATAATCAATAGACATTGCTCGTTTGAG
56385524 TAACTTTCAG
66 TAACTTTCAG
** * * * * *
56385534 TATAATCAGTAGACATTTCTCTTTTGAGCACGTTCAGTATATTCAATAGATATTGCTCGTTTGAG
1 TATAATCAGTAGACATCGCTCATTTGAGCACATTCAATATAATCAATAGACATTGCTCGTTTGAG
** * *
56385599 -CCCATTCAA
66 TAACTTTCAG
* * * * * * * *
56385608 TATAATTAGTGGATATCGCTCGTTTGAGCAACTTTCAGTATAATCAGTAGATATTGCT--TTTGA
1 TATAATCAGTAGACATCGCTCATTTGAGC-ACATTCAATATAATCAATAGACATTGCTCGTTTGA
* *
56385671 G-CACGTTCAG
65 GTAACTTTCAG
*
56385681 TATATTCAGTA
1 TATAATCAGTA
56385692 TTCCATTTTT
Statistics
Matches: 128, Mismatches: 29, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
73 20 0.16
74 28 0.22
75 80 0.62
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (75 bp):
TATAATCAGTAGACATCGCTCATTTGAGCACATTCAATATAATCAATAGACATTGCTCGTTTGAG
TAACTTTCAG
Found at i:56385629 original size:112 final size:110
Alignment explanation
Indices: 56385459--56385688 Score: 343
Period size: 112 Copynumber: 2.1 Consensus size: 110
56385449 ATGCATTCCT
* * *
56385459 TATAATCAGTAGATATCGCTCATTTGAGCCCATTCAATATAATCAATGGACATTGCTCGTTTGAG
1 TATATTCAATAGATATCGCTCATTTGAGCCCATTCAATATAATCAATGGACATCGCTCGTTTGAG
* *
56385524 TAACTTTCAGTATAATCAGTAGACATTTCTCTTTTGAGCACGTTCAG
66 CAACTTTCAGTATAATCAGTAGACA-TT-GCTTTTGAGCACGTTCAG
* * * * *
56385571 TATATTCAATAGATATTGCTCGTTTGAGCCCATTCAATATAATTAGTGGATATCGCTCGTTTGAG
1 TATATTCAATAGATATCGCTCATTTGAGCCCATTCAATATAATCAATGGACATCGCTCGTTTGAG
*
56385636 CAACTTTCAGTATAATCAGTAGATATTGCTTTTGAGCACGTTCAG
66 CAACTTTCAGTATAATCAGTAGACATTGCTTTTGAGCACGTTCAG
56385681 TATATTCA
1 TATATTCA
56385689 GTATTCCATT
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
110 25 0.23
111 2 0.02
112 80 0.75
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (110 bp):
TATATTCAATAGATATCGCTCATTTGAGCCCATTCAATATAATCAATGGACATCGCTCGTTTGAG
CAACTTTCAGTATAATCAGTAGACATTGCTTTTGAGCACGTTCAG
Found at i:56387769 original size:18 final size:18
Alignment explanation
Indices: 56387746--56387788 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
56387736 TAAGTTTCTA
*
56387746 AAAATGGAAATAGAAATG
1 AAAATGAAAATAGAAATG
*
56387764 AAAATGAAAATGGAAATG
1 AAAATGAAAATAGAAATG
56387782 AAAATGA
1 AAAATGA
56387789 TGCATTCGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (18 bp):
AAAATGAAAATAGAAATG
Found at i:56387786 original size:6 final size:6
Alignment explanation
Indices: 56387746--56387788 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
56387736 TAAGTTTCTA
* *
56387746 AAAATG GAAAT- AGAAATG AAAATG AAAATG GAAATG AAAATG A
1 AAAATG AAAATG A-AAATG AAAATG AAAATG AAAATG AAAATG A
56387789 TGCATTCGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
6 30 0.97
7 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:56396044 original size:13 final size:13
Alignment explanation
Indices: 56396026--56396050 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56396016 TCAAATTACG
56396026 AGAAGAAAAAAAA
1 AGAAGAAAAAAAA
56396039 AGAAGAAAAAAA
1 AGAAGAAAAAAA
56396051 TTGATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AGAAGAAAAAAAA
Found at i:56396973 original size:2 final size:2
Alignment explanation
Indices: 56396966--56396990 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
56396956 TTATTATTAT
56396966 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
56396991 TTTGTTAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56397761 original size:13 final size:13
Alignment explanation
Indices: 56397702--56397765 Score: 69
Period size: 13 Copynumber: 4.9 Consensus size: 13
56397692 AGTTTGACAA
56397702 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
56397715 TGCTGTAT-AAAAG
1 TGCT-TTTGAAAAG
*
56397728 TACTTTT-AAGAAG
1 TGCTTTTGAA-AAG
*
56397741 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
56397754 TGCTTTTGAAAA
1 TGCTTTTGAAAA
56397766 ATTTAAGTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
12 4 0.10
13 35 0.83
14 3 0.07
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:56397943 original size:8 final size:9
Alignment explanation
Indices: 56397925--56397972 Score: 50
Period size: 8 Copynumber: 5.6 Consensus size: 9
56397915 TTATTATACT
56397925 TATTATTAA
1 TATTATTAA
56397934 TATT-TTAATA
1 TATTATT-A-A
56397944 TATTATTAA
1 TATTATTAA
56397953 TATT-TTAA
1 TATTATTAA
56397961 TA-TA-TAA
1 TATTATTAA
56397968 TATTA
1 TATTA
56397973 ATTTTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
7 6 0.18
8 10 0.29
9 10 0.29
10 6 0.18
11 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TATTATTAA
Found at i:56397971 original size:21 final size:19
Alignment explanation
Indices: 56397925--56397983 Score: 84
Period size: 19 Copynumber: 3.1 Consensus size: 19
56397915 TTATTATACT
56397925 TATTATTAATATTTTAATA
1 TATTATTAATATTTTAATA
56397944 TATTATTAATATTTTAATA
1 TATTATTAATATTTTAATA
*
56397963 TATAATATTAAT-TTTAAATA
1 TAT--TATTAATATTTTAATA
56397983 T
1 T
56397984 TTCTAAGTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
19 22 0.59
20 8 0.22
21 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATTATTAATATTTTAATA
Found at i:56400126 original size:72 final size:72
Alignment explanation
Indices: 56399790--56400100 Score: 509
Period size: 72 Copynumber: 4.3 Consensus size: 72
56399780 AAAATCATAT
** *
56399790 ATAAACAACTATTGATAAAACTA-ATTTA-GTATAAATAAGTAGAACATAAATTTAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
*
56399853 TACCAAAC
65 AACCAAAC
*
56399861 ATAAACAACTATTAATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
56399926 ACCAAAC
66 ACCAAAC
* *
56399933 ATAAACAACTATTAATAAAACTAGATTACACATAAAAAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
56399998 ACCAAAC
66 ACCAAAC
* *
56400005 ATAAACAACCATTGGTAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
56400070 ACCAAAC
66 ACCAAAC
*
56400077 ATAAATAACTATTGATAAAACTAG
1 ATAAACAACTATTGATAAAACTAG
56400101 TTTAGCATTT
Statistics
Matches: 225, Mismatches: 13, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
71 25 0.11
72 200 0.89
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.23
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:56400550 original size:18 final size:18
Alignment explanation
Indices: 56400529--56400576 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
56400519 TCCATCAATT
*
56400529 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
56400547 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
56400565 TGAACATCATTT
1 TGAACATCATTT
56400577 CTCACATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:56401531 original size:21 final size:21
Alignment explanation
Indices: 56401505--56401574 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
56401495 AGATAATATA
56401505 TATAAATATATATGGTCATAG
1 TATAAATATATATGGTCATAG
* **
56401526 TATAAAAATATTACAGTCAATA-
1 TATAAATATA-TATGGTC-ATAG
56401548 TATAAATATATATGGTCATAG
1 TATAAATATATATGGTCATAG
*
56401569 TCTAAA
1 TATAAA
56401575 CCAATGGAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
20 3 0.08
21 19 0.49
22 14 0.36
23 3 0.08
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (21 bp):
TATAAATATATATGGTCATAG
Found at i:56401551 original size:22 final size:23
Alignment explanation
Indices: 56401499--56401560 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
56401489 CGCATAAGAT
* **
56401499 AATATATATAAATATATATGGTC
1 AATATATAAAAATATATACAGTC
56401522 -ATAGTATAAAAATAT-TACAGTC
1 AATA-TATAAAAATATATACAGTC
*
56401544 AATATATAAATATATAT
1 AATATATAAAAATATAT
56401561 GGTCATAGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (23 bp):
AATATATAAAAATATATACAGTC
Found at i:56404338 original size:5 final size:5
Alignment explanation
Indices: 56404328--56404352 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
56404318 TGGCTCATTT
56404328 CTGTC CTGTC CTGTC CTGTC CTGTC
1 CTGTC CTGTC CTGTC CTGTC CTGTC
56404353 AACCCCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (5 bp):
CTGTC
Found at i:56411755 original size:124 final size:122
Alignment explanation
Indices: 56411535--56411757 Score: 304
Period size: 124 Copynumber: 1.8 Consensus size: 122
56411525 GAATTATGTG
* * ** * * *
56411535 AAATGAAATATGGATGTGTAGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGGGC
1 AAATGAAATATGAATGTCTAGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGGGC
* * **
56411600 TAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 TAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
56411657 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCT-A-GATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
56411722 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
64 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
56411758 CCGGGTTAAG
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
122 17 0.20
123 2 0.02
124 67 0.78
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (122 bp):
AAATGAAATATGAATGTCTAGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGGGC
TAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:56411879 original size:40 final size:40
Alignment explanation
Indices: 56411752--56411881 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
56411742 ATGCTGGAAA
* *
56411752 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
56411792 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
56411832 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
56411872 TTATATCCGG
1 TTATATCCGG
56411882 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:56411880 original size:80 final size:80
Alignment explanation
Indices: 56411714--56411881 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
56411704 CAATTGAATG
* * *
56411714 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
56411779 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
56411794 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
56411858 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
56411874 ATATCCGG
1 ATATCCGG
56411882 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:56419803 original size:124 final size:124
Alignment explanation
Indices: 56419581--56419805 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
56419571 GAATTATGTG
* * * * * * *
56419581 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
56419646 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
56419705 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
56419770 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
56419806 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 1 0.01
124 87 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:56419927 original size:40 final size:40
Alignment explanation
Indices: 56419800--56419929 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
56419790 ATGCTGGAAA
* *
56419800 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
56419840 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
56419880 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
56419920 TTATATCCGG
1 TTATATCCGG
56419930 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:56419928 original size:80 final size:80
Alignment explanation
Indices: 56419762--56419929 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
56419752 CAATTGAATG
* * *
56419762 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
56419827 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
56419842 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
56419906 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
56419922 ATATCCGG
1 ATATCCGG
56419930 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:56422737 original size:37 final size:37
Alignment explanation
Indices: 56422695--56422813 Score: 148
Period size: 38 Copynumber: 3.1 Consensus size: 37
56422685 TTTAAACTTA
*
56422695 GATATAATACCAGCATAGGCCTGCGGGATTTAACCCG
1 GATATAATACCAGCATAAGCCTGCGGGATTTAACCCG
* *
56422732 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCA
1 GATATAATACCAGCA-TAAGCCTGCGGGATTTAACCCG
* * *
56422770 GATATAATTCTAGCATATAGCCTGCGGGTCTTTAAGCCCG
1 GATATAATACCAGCATA-AGCCTGCGGG-ATTTAA-CCCG
56422810 GATA
1 GATA
56422814 CACATCAAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
37 16 0.23
38 42 0.60
39 5 0.07
40 7 0.10
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (37 bp):
GATATAATACCAGCATAAGCCTGCGGGATTTAACCCG
Found at i:56422751 original size:77 final size:78
Alignment explanation
Indices: 56422658--56422813 Score: 192
Period size: 77 Copynumber: 2.0 Consensus size: 78
56422648 AAACCCAAAC
* ** *
56422658 ATAACACCAGCGCGAAGCCTACGGGACTTTAAACTTAGATATAATACCAGCATA-GGCCTGCGGG
1 ATAACACCAGCACGAAGCCTACGGGA-TTT-AACCCAGATATAATACCAGCATATAGCCTGCGGG
56422722 -ATTTAA-CCCGGAT
64 TATTTAAGCCCGGAT
* * * * *
56422735 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAATTCTAGCATATAGCCTGCGGGTC
1 ATAACACCAGCACGAAGCCTACGGGATTTAACCCAGATATAATACCAGCATATAGCCTGCGGGTA
56422800 TTTAAGCCCGGAT
66 TTTAAGCCCGGAT
56422813 A
1 A
56422814 CACATCAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
75 19 0.28
76 12 0.18
77 28 0.42
78 8 0.12
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (78 bp):
ATAACACCAGCACGAAGCCTACGGGATTTAACCCAGATATAATACCAGCATATAGCCTGCGGGTA
TTTAAGCCCGGAT
Found at i:56422755 original size:38 final size:37
Alignment explanation
Indices: 56422671--56422797 Score: 137
Period size: 38 Copynumber: 3.3 Consensus size: 37
56422661 ACACCAGCGC
* **
56422671 GAAGCCTACGGGACTTTAAACTTAGATATAATACCAGCA
1 GAAGCCTGCGGGA-TTT-AACCCAGATATAATACCAGCA
* * *
56422710 TAGGCCTGCGGGATTTAACCCGGATATAATACCAGCA
1 GAAGCCTGCGGGATTTAACCCAGATATAATACCAGCA
* *
56422747 CGAAGCCTGCGGGATTTAACCCAGATATAATTCTAGCA
1 -GAAGCCTGCGGGATTTAACCCAGATATAATACCAGCA
*
56422785 TATAGCCTGCGGG
1 GA-AGCCTGCGGG
56422798 TCTTTAAGCC
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
37 19 0.26
38 45 0.61
39 10 0.14
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (37 bp):
GAAGCCTGCGGGATTTAACCCAGATATAATACCAGCA
Found at i:56434209 original size:13 final size:13
Alignment explanation
Indices: 56434191--56434215 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56434181 AATATTGCAT
56434191 GAAAATTTTTATA
1 GAAAATTTTTATA
56434204 GAAAATTTTTAT
1 GAAAATTTTTAT
56434216 CAATTATGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
GAAAATTTTTATA
Found at i:56434692 original size:20 final size:22
Alignment explanation
Indices: 56434669--56434710 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
56434659 TGCTGTAAAC
*
56434669 TGAAAGTTTA-TGATA-AGAAA
1 TGAAAGGTTATTGATAGAGAAA
56434689 TGAAAGGTTATTGATAGAGAAA
1 TGAAAGGTTATTGATAGAGAAA
56434711 CCACTTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 5 0.26
22 5 0.26
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.29
Consensus pattern (22 bp):
TGAAAGGTTATTGATAGAGAAA
Found at i:56435384 original size:32 final size:32
Alignment explanation
Indices: 56435343--56435404 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
56435333 AAAGGGTGAT
*
56435343 ACTTCAAAAGGTTACGTGCACTTTGTGTGTAC
1 ACTTCAAAAGGTTACGTACACTTTGTGTGTAC
*
56435375 ACTTGAAAAGGTTACGTACACTTTGTGTGT
1 ACTTCAAAAGGTTACGTACACTTTGTGTGT
56435405 GCAACACCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (32 bp):
ACTTCAAAAGGTTACGTACACTTTGTGTGTAC
Found at i:56442751 original size:40 final size:40
Alignment explanation
Indices: 56442706--56442872 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
56442696 CGGAATATAA
56442706 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
56442746 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
56442786 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
56442826 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
56442865 CCGGATAT
1 CCGGATAT
56442873 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56442856 original size:80 final size:79
Alignment explanation
Indices: 56442722--56442872 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
56442712 ATAATCACGT
*
56442722 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
56442787 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
56442802 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
56442865 CCGGATAT
64 CCGGATAT
56442873 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:56450758 original size:40 final size:40
Alignment explanation
Indices: 56450713--56450879 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
56450703 CGGAATATAA
56450713 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
56450753 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
56450793 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
56450833 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
56450872 CCGGATAT
1 CCGGATAT
56450880 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56450863 original size:80 final size:79
Alignment explanation
Indices: 56450729--56450879 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
56450719 ATAATCACGT
*
56450729 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
56450794 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
56450809 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
56450872 CCGGATAT
64 CCGGATAT
56450880 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:56460678 original size:20 final size:20
Alignment explanation
Indices: 56460612--56460678 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
56460602 ATTTTAGTAA
*
56460612 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
56460632 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
56460652 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
56460672 ACATGAT
1 ACATGAT
56460679 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:56460807 original size:24 final size:24
Alignment explanation
Indices: 56460728--56460845 Score: 188
Period size: 23 Copynumber: 5.0 Consensus size: 24
56460718 GAGGAAGTGC
56460728 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
56460752 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
56460775 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
56460798 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
56460822 AAAAGAGGC-TATGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
56460846 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
23 46 0.52
24 32 0.36
25 11 0.12
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:56463843 original size:47 final size:47
Alignment explanation
Indices: 56463792--56464314 Score: 803
Period size: 47 Copynumber: 11.1 Consensus size: 47
56463782 TTAGGATTTT
* * *
56463792 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCAAATGGCAA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
56463839 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
56463886 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
56463933 ATGTGATGATTGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
56463980 ATATGATGAATATGAACATGCATATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
56464027 ATATGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
56464074 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
56464121 ATATGATGAATATGAACATGCATATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * * *
56464168 ATATGTTGACTATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
56464215 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
56464262 ATATGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
56464309 ATGTGA
1 ATGTGA
56464315 CATATGTATG
Statistics
Matches: 440, Mismatches: 36, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 440 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:56463892 original size:22 final size:22
Alignment explanation
Indices: 56463865--56463939 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
56463855 CATGCATATG
56463865 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
56463887 TGTGATGAATGTG-AGCAT-G-CATA
1 TGTGAT-AA-G-GCCGAATGGCCA-A
56463910 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
56463934 TGTGAT
1 TGTGAT
56463940 GATTGTGAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:56464353 original size:48 final size:48
Alignment explanation
Indices: 56464284--56464418 Score: 216
Period size: 48 Copynumber: 2.8 Consensus size: 48
56464274 TGAACATGCA
* * * *
56464284 TATATGTGATAAGGCCGAATGGCTAATGTGACATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
* *
56464332 TATATGTGGTAAAGCCGAATGGCTAGTGCGAAATATGTATGAGGTATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
56464380 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
56464419 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
Found at i:56464619 original size:37 final size:37
Alignment explanation
Indices: 56464565--56464714 Score: 210
Period size: 37 Copynumber: 4.1 Consensus size: 37
56464555 GGAAATATAT
* * *
56464565 TCCGGGTGAGACTCGATGACTACGTGTGGAAATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
56464602 TCTGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
56464639 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
56464676 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
56464713 TC
1 TC
56464715 TGAGCTAAAG
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:56472842 original size:27 final size:27
Alignment explanation
Indices: 56472811--56473166 Score: 310
Period size: 27 Copynumber: 13.2 Consensus size: 27
56472801 TTAGTTTACC
* *
56472811 AAATTACCAAAATACCCTCGATTAGTA
1 AAATTACCAAAATACCCTCGATTTGCA
*
56472838 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGCA
*** ***
56472865 AAATTATTGAAATACCCTCGATTAAAA
1 AAATTACCAAAATACCCTCGATTTGCA
*
56472892 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGCA
* * *
56472919 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGCA
* *
56472946 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGCA
*
56472973 AAATTACCAAAATACCC-CTGATTTGTA
1 AAATTACCAAAATACCCTC-GATTTGCA
**
56473000 AAATTACTGAAATACCCT-GAATTTGCA
1 AAATTACCAAAATACCCTCG-ATTTGCA
*
56473027 AAATTACCGAAATACCC-CGATTTGCA
1 AAATTACCAAAATACCCTCGATTTGCA
*
56473053 AAATTACCGAAATA-CCTCCGATTTGCA
1 AAATTACCAAAATACCCT-CGATTTGCA
* * ** * * *
56473080 AAATTACTAAAATACCTTTAACTGGTA
1 AAATTACCAAAATACCCTCGATTTGCA
* * *
56473107 AAATTACGAAAGTACTCC-CGATTTTCA
1 AAATTACCAAAATAC-CCTCGATTTGCA
**** *
56473134 AAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGCA
56473161 AAATTA
1 AAATTA
56473167 TCGAAACAAC
Statistics
Matches: 276, Mismatches: 44, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
25 2 0.01
26 24 0.09
27 247 0.89
28 3 0.01
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGCA
Found at i:56473249 original size:27 final size:27
Alignment explanation
Indices: 56473162--56473231 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
56473152 CGATTTACAA
* * *
56473162 AATTATCGAAACAACCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
56473189 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
*
56473216 AATTACCGAGATACCC
1 AATTACCGAAATACCC
56473232 TCGTGGGGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (27 bp):
AATTACCGAAATACCCCTATAGGGTAG
Found at i:56473630 original size:22 final size:22
Alignment explanation
Indices: 56473597--56473655 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
56473587 CACTTTATCG
56473597 ATGGC-TCTGTGCCAACCTAAAT
1 ATGGCTTC-GTGCCAACCTAAAT
* * * *
56473619 ATGGCTTCGTGCCATCTTGACT
1 ATGGCTTCGTGCCAACCTAAAT
56473641 ATGGCTTCGTGCCAA
1 ATGGCTTCGTGCCAA
56473656 ATGTATTTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGGCTTCGTGCCAACCTAAAT
Found at i:56473865 original size:27 final size:27
Alignment explanation
Indices: 56473835--56473920 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
56473825 CATTATCTAA
*
56473835 TTCTGGTGACTATGCCACAAATATCTG
1 TTCTGGTGACTCTGCCACAAATATCTG
*
56473862 TTCTGGTGGCTCTGCCA-AAATATCTG
1 TTCTGGTGACTCTGCCACAAATATCTG
**
56473888 TATCTGGTGACTCTATCAC-AATATCTG
1 T-TCTGGTGACTCTGCCACAAATATCTG
56473915 TTCTGG
1 TTCTGG
56473921 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.29
27 37 0.71
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (27 bp):
TTCTGGTGACTCTGCCACAAATATCTG
Found at i:56473878 original size:54 final size:53
Alignment explanation
Indices: 56473813--56473920 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 53
56473803 ATTCTGTTAA
* * * *
56473813 GTGGCTTTGCCACATTATCTA-ATTCTGGTGACTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAAAATATCTATA-TCTGGTGACTATACCAC-AATATCTGTTCTG
* * *
56473867 GTGGCTCTGCCAAAATATCTGTATCTGGTGACTCTATCACAATATCTGTTCTG
1 GTGGCTCTGCCAAAATATCTATATCTGGTGACTATACCACAATATCTGTTCTG
56473920 G
1 G
56473921 CAGCCATGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
53 14 0.30
54 31 0.67
55 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (53 bp):
GTGGCTCTGCCAAAATATCTATATCTGGTGACTATACCACAATATCTGTTCTG
Found at i:56474077 original size:6 final size:6
Alignment explanation
Indices: 56474038--56474128 Score: 87
Period size: 6 Copynumber: 14.8 Consensus size: 6
56474028 TTGCATTCAC
* * *
56474038 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
56474087 ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTTTG ATTCT
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
56474129 AATTTTGATA
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
5 3 0.04
6 58 0.84
7 6 0.09
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:56474128 original size:43 final size:43
Alignment explanation
Indices: 56474038--56474137 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 43
56474028 TTGCATTCAC
*
56474038 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTA
1 ATTCTGATTTTGATTCTGTCACCTGATACTGATTCTGATTCTA
* * * *
56474081 ATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTGATTTTG
1 ATTCTGATTTTGATTCTGTCACCTGATACTGATTCTGATTCTA
*
56474124 ATTCTAATTTTGAT
1 ATTCTGATTTTGAT
56474138 AATGTTTCTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (43 bp):
ATTCTGATTTTGATTCTGTCACCTGATACTGATTCTGATTCTA
Found at i:56476119 original size:27 final size:27
Alignment explanation
Indices: 56476080--56476494 Score: 354
Period size: 27 Copynumber: 15.4 Consensus size: 27
56476070 TTAGTTTACC
*
56476080 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGCA
*** *
56476107 AAATTATTGAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGCA
*** *
56476134 AAATTATTGAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGCA
** * * *
56476161 AAATTATTAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGCA
*
56476188 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGCA
* *
56476215 AAATTACCAAAATACCCT-TAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGCA
* * *
56476242 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGCA
* **
56476269 AAATTACCAAAATACCCTAG-TTTATA
1 AAATTACCAAAATACCCTCGATTTGCA
*
56476295 AAATTACCAAAATACCC-CTGATTTGTA
1 AAATTACCAAAATACCCTC-GATTTGCA
* *
56476322 AAATTACTAAAATACCCCCGATTTGCA
1 AAATTACCAAAATACCCTCGATTTGCA
*
56476349 AAATTACCGAAATA-CCTCCGATTTGCA
1 AAATTACCAAAATACCCT-CGATTTGCA
*** * *
56476376 AAATTATTGAAATACCCT-AATTTGTA
1 AAATTACCAAAATACCCTCGATTTGCA
* * * * *
56476402 AAATTACTAAAATGCCTTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGCA
* * *
56476429 AAATTACCAAAGTACCCCCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGCA
**** * *
56476456 AAATTACCGTTTTACCCTCAATTTACA
1 AAATTACCAAAATACCCTCGATTTGCA
56476483 AAATTACCAAAA
1 AAATTACCAAAA
56476495 CAACCCTATA
Statistics
Matches: 324, Mismatches: 56, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
26 46 0.14
27 274 0.85
28 4 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGCA
Found at i:56476352 original size:107 final size:107
Alignment explanation
Indices: 56476071--56476488 Score: 421
Period size: 107 Copynumber: 3.9 Consensus size: 107
56476061 TAGAATACTT
** *** * *
56476071 TAGTTTACCAAATTACCAAAATACCCTCGATTAGCAAAATTATTGAAATACCCTCGATTAGCAAA
1 TAGTTTATAAAATTACCAAAATACCCTCGATTAGCAAAATTACCAAAATACCCCCGATTTGCAAA
** *
56476136 ATTATTGAAATACCCTCGATTAGCAAAATTATTAAAATACCC
66 ATTACCGAAATACCCTCGATTTGCAAAATTATTAAAATACCC
* * ** *
56476178 TTGGTTTGTAAAATTACCAAAATACCCTCGATTAGCAAAATTACCAAAATA-CCCTTAGTTTGTA
1 -TAGTTTATAAAATTACCAAAATACCCTCGATTAGCAAAATTACCAAAATACCCCCGA-TTTGCA
* * * * **
56476242 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCC
64 AAATTACCGAAATACCCTCGATTTGCAAAATTATTAAAATACCC
* * *
56476286 TAGTTTATAAAATTACCAAAATACCC-CTGATTTGTAAAATTACTAAAATACCCCCGATTTGCAA
1 TAGTTTATAAAATTACCAAAATACCCTC-GATTAGCAAAATTACCAAAATACCCCCGATTTGCAA
*
56476350 AATTACCGAAATA-CCTCCGATTTGCAAAATTATTGAAATACCC
65 AATTACCGAAATACCCT-CGATTTGCAAAATTATTAAAATACCC
* * * * * * * *
56476393 TAATTTGTAAAATTACTAAAATGCCTTCGACTT-GTAAAATTACCAAAGTACCCCCGATTTACAA
1 TAGTTTATAAAATTACCAAAATACCCTCGA-TTAGCAAAATTACCAAAATACCCCCGATTTGCAA
*** * *
56476457 AATTACCGTTTTACCCTCAATTTACAAAATTA
65 AATTACCGAAATACCCTCGATTTGCAAAATTA
56476489 CCAAAACAAC
Statistics
Matches: 254, Mismatches: 49, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
106 4 0.02
107 158 0.62
108 92 0.36
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (107 bp):
TAGTTTATAAAATTACCAAAATACCCTCGATTAGCAAAATTACCAAAATACCCCCGATTTGCAAA
ATTACCGAAATACCCTCGATTTGCAAAATTATTAAAATACCC
Found at i:56476568 original size:107 final size:106
Alignment explanation
Indices: 56476482--56476692 Score: 278
Period size: 107 Copynumber: 2.0 Consensus size: 106
56476472 CTCAATTTAC
*
56476482 AAAATTACCAAAACAACCCTATAGGGTAGAATTACCGAAATACCCCTCTAGGGCAGAATTACCGA
1 AAAATTACCAAAACAACCCTATAAGGTAGAATTACCGAAATACCCCTCTAGGGCAGAATTACCGA
56476547 AATACCCTATAGGGTCGAATTACCAAAATACCCTTGTATCG
66 AATACCCTATAGGGTCGAATTACCAAAATACCCTTGTATCG
* * * * * * * *
56476588 TAGAATTACTAAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTCTAGGGTAGAATTACTG
1 -AAAATTACCAAAACAACCCTATAAGGTAGAATTACCGAAATACCCCTCTAGGGCAGAATTACCG
* * * * *
56476653 AAATACCCTTGTAAGGTTGAATTATCGAAATACCCTTGTA
65 AAATACCC-TATAGGGTCGAATTACCAAAATACCCTTGTA
56476693 GGGTAGAATT
Statistics
Matches: 89, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
107 63 0.71
108 26 0.29
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (106 bp):
AAAATTACCAAAACAACCCTATAAGGTAGAATTACCGAAATACCCCTCTAGGGCAGAATTACCGA
AATACCCTATAGGGTCGAATTACCAAAATACCCTTGTATCG
Found at i:56476676 original size:81 final size:80
Alignment explanation
Indices: 56476507--56476733 Score: 267
Period size: 81 Copynumber: 2.8 Consensus size: 80
56476497 ACCCTATAGG
* * * * * *
56476507 GTAGAATTACCGAAATACCCCTCTAGGGCAGAATTACCGAAATACCCTATAGGGTCGAATTACCA
1 GTAGAATTACTGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTCTAGGGTAGAATTACCA
*
56476572 AAATACCCTTGTATC
66 AAATACCCTTGTAAC
* * *
56476587 GTAGAATTACTAAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTCTAGGGTAGAATTACT
1 GTAGAATTACTGAAATACCCCTGTAGGGTAGAATTATCGAAATA-CCCTCTAGGGTAGAATTACC
* *
56476652 GAAATACCCTTGTAAG
65 AAAATACCCTTGTAAC
* * * * *
56476668 GTTGAATTA-TCGAAATACCCTTGTAGGGTAGAATTATCGAGATACCCTCGTGGGGTAAAATTAC
1 GTAGAATTACT-GAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTC-TAGGGTAGAATTAC
56476732 CA
64 CA
56476734 TTTTGCCCCT
Statistics
Matches: 123, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
80 44 0.36
81 79 0.64
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (80 bp):
GTAGAATTACTGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTCTAGGGTAGAATTACCA
AAATACCCTTGTAAC
Found at i:56476704 original size:27 final size:27
Alignment explanation
Indices: 56476503--56476732 Score: 237
Period size: 27 Copynumber: 8.6 Consensus size: 27
56476493 AACAACCCTA
* *
56476503 TAGGGTAGAATTACCGAAATACCCCTC
1 TAGGGTAGAATTACCGAAATACCCTTG
* *
56476530 TAGGGCAGAATTACCGAAATACCC-TA
1 TAGGGTAGAATTACCGAAATACCCTTG
* *
56476556 TAGGGTCGAATTACCAAAATACCCTTG
1 TAGGGTAGAATTACCGAAATACCCTTG
** ** *
56476583 TATCGTAGAATTACTAAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCTTG
* * * *
56476610 TAAGGTAGAATTATCGAAATACCCCTC
1 TAGGGTAGAATTACCGAAATACCCTTG
*
56476637 TAGGGTAGAATTACTGAAATACCCTTG
1 TAGGGTAGAATTACCGAAATACCCTTG
* * *
56476664 TAAGGTTGAATTATCGAAATACCCTTG
1 TAGGGTAGAATTACCGAAATACCCTTG
* * *
56476691 TAGGGTAGAATTATCGAGATACCCTCG
1 TAGGGTAGAATTACCGAAATACCCTTG
* *
56476718 TGGGGTAAAATTACC
1 TAGGGTAGAATTACC
56476733 ATTTTGCCCC
Statistics
Matches: 169, Mismatches: 33, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 22 0.13
27 147 0.87
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (27 bp):
TAGGGTAGAATTACCGAAATACCCTTG
Found at i:56477348 original size:27 final size:27
Alignment explanation
Indices: 56477318--56477456 Score: 160
Period size: 27 Copynumber: 5.2 Consensus size: 27
56477308 CATTATCTAA
*
56477318 TTCTGGTGACTATGCCACAAATATCTG
1 TTCTGGTGACTCTGCCACAAATATCTG
*
56477345 TTCTGGTGGCTCTGCCA-AAATATCTG
1 TTCTGGTGACTCTGCCACAAATATCTG
**
56477371 TATCTGGTGACTCTATCAC-AATATCTG
1 T-TCTGGTGACTCTGCCACAAATATCTG
* *
56477398 CTCTGGTGGCTCTGCCA-AAATATCTG
1 TTCTGGTGACTCTGCCACAAATATCTG
**
56477424 TATCTGGTGACTCTATCAC-AATATCTG
1 T-TCTGGTGACTCTGCCACAAATATCTG
56477451 TTCTGG
1 TTCTGG
56477457 CAGCCATGCT
Statistics
Matches: 94, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
26 36 0.38
27 58 0.62
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (27 bp):
TTCTGGTGACTCTGCCACAAATATCTG
Found at i:56477415 original size:53 final size:53
Alignment explanation
Indices: 56477319--56477456 Score: 231
Period size: 53 Copynumber: 2.6 Consensus size: 53
56477309 ATTATCTAAT
* **
56477319 TCTGGTGACTATGCCACAAATATCTGTTCTGGTGGCTCTGCCAAAATATCTGTA
1 TCTGGTGACTCTATCAC-AATATCTGTTCTGGTGGCTCTGCCAAAATATCTGTA
*
56477373 TCTGGTGACTCTATCACAATATCTGCTCTGGTGGCTCTGCCAAAATATCTGTA
1 TCTGGTGACTCTATCACAATATCTGTTCTGGTGGCTCTGCCAAAATATCTGTA
56477426 TCTGGTGACTCTATCACAATATCTGTTCTGG
1 TCTGGTGACTCTATCACAATATCTGTTCTGG
56477457 CAGCCATGCT
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 65 0.82
54 14 0.18
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (53 bp):
TCTGGTGACTCTATCACAATATCTGTTCTGGTGGCTCTGCCAAAATATCTGTA
Found at i:56477604 original size:6 final size:6
Alignment explanation
Indices: 56477573--56477651 Score: 81
Period size: 6 Copynumber: 12.8 Consensus size: 6
56477563 TTGCATTCAC
* *
56477573 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
56477622 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
56477652 AGTTCTGGTA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
5 3 0.05
6 50 0.82
7 6 0.10
8 2 0.03
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:56477608 original size:31 final size:31
Alignment explanation
Indices: 56477573--56477651 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
56477563 TTGCATTCAC
* *
56477573 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
56477604 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
56477635 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
56477652 AGTTCTGGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:56482659 original size:55 final size:53
Alignment explanation
Indices: 56482600--56482717 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 53
56482590 CGTGTGTGAC
* * * **
56482600 ACTGACTTTAGGGCGCGGCCATGACACACGCCCGTGTGGCCTACCCGTGGGCAAT
1 ACTGACTTTA-GACACGGCCATGACACA-GCCCGTGTGGCCTAACCGTGGAAAAT
* *
56482655 ACTGACTTATAGACACGGCTATGGCACAGCCCGTGTGGCCTAACCGTGGAAAAT
1 ACTGACTT-TAGACACGGCCATGACACAGCCCGTGTGGCCTAACCGTGGAAAAT
56482709 ACTGA-TTTA
1 ACTGACTTTA
56482718 AAAGTTTAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
52 2 0.04
53 2 0.04
54 28 0.51
55 21 0.38
56 2 0.04
ACGTcount: A:0.24, C:0.28, G:0.27, T:0.21
Consensus pattern (53 bp):
ACTGACTTTAGACACGGCCATGACACAGCCCGTGTGGCCTAACCGTGGAAAAT
Found at i:56483634 original size:47 final size:47
Alignment explanation
Indices: 56483567--56483743 Score: 173
Period size: 47 Copynumber: 3.8 Consensus size: 47
56483557 CACGAAACTT
56483567 AGCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCAT-CG
1 AGCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATGCG
* * * * *
56483613 AGGCCGACGCATGTCCTAGACATGTCTTACACGGGCTATCATGATGCG
1 A-GCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATGCG
* * ** * *
56483661 A-CTGATGCATGTCCCAGACACGTCTTACACTAGCCCTCGTC-T-CA
1 AGCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATGCG
* *
56483705 ATGCCGATGCCATGTCCCAGACATGGTCTTATACTGGCT
1 A-GCCGATG-CATGTCCCAGACA-CGTCTTACACTGGCT
56483744 CTCACATAAC
Statistics
Matches: 104, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
44 2 0.02
45 1 0.01
46 36 0.35
47 51 0.49
48 14 0.13
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (47 bp):
AGCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATGCG
Found at i:56493261 original size:40 final size:40
Alignment explanation
Indices: 56493216--56493383 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
56493206 CGGAATACAA
56493216 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
56493256 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
56493296 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
56493336 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
56493376 CCGGATAT
1 CCGGATAT
56493384 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:56501310 original size:40 final size:40
Alignment explanation
Indices: 56501265--56501432 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
56501255 CGGAATACAA
56501265 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
56501305 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
56501345 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
56501385 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
56501425 CCGGATAT
1 CCGGATAT
56501433 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:56504021 original size:13 final size:13
Alignment explanation
Indices: 56504003--56504033 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
56503993 TGTATGGCTC
56504003 ACACGGTCGAGAG
1 ACACGGTCGAGAG
56504016 ACACGGTCGAGAG
1 ACACGGTCGAGAG
56504029 ACACG
1 ACACG
56504034 CCCGTGTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.26, G:0.35, T:0.06
Consensus pattern (13 bp):
ACACGGTCGAGAG
Found at i:56510524 original size:20 final size:20
Alignment explanation
Indices: 56510495--56510539 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
56510485 AGCACATGTA
* *
56510495 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
56510515 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
56510535 TTCAT
1 TTCAT
56510540 TTTATTTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:56516029 original size:2 final size:2
Alignment explanation
Indices: 56516024--56516049 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
56516014 AAAAACATCA
56516024 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
56516050 GTCATAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56518389 original size:27 final size:27
Alignment explanation
Indices: 56518330--56518490 Score: 137
Period size: 27 Copynumber: 6.0 Consensus size: 27
56518320 AAACATACAT
* * ** *
56518330 CACATAGGGGCAAAACAGTCATCCTAC
1 CACATAAGGGCAAAATAGTCATTTTAA
*
56518357 CACATAAGGGCAAAATAGTCATTTTAT
1 CACATAAGGGCAAAATAGTCATTTTAA
**
56518384 TTCATAAGGGCAAAACT-GTCATTTTAA
1 CACATAAGGGCAAAA-TAGTCATTTTAA
* **
56518411 CACATAAGGGTAAAATAGTCATTTTTC
1 CACATAAGGGCAAAATAGTCATTTTAA
* * *
56518438 CACATAAAGGCAAAATCA-TCTTTTTAT
1 CACATAAGGGCAAAAT-AGTCATTTTAA
* * *
56518465 CACATAAGGGAAAAACAGTTATTTTA
1 CACATAAGGGCAAAATAGTCATTTTA
56518491 CCTTATAAGG
Statistics
Matches: 107, Mismatches: 23, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
26 2 0.02
27 103 0.96
28 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAA
Found at i:56518444 original size:54 final size:54
Alignment explanation
Indices: 56518328--56518490 Score: 159
Period size: 54 Copynumber: 3.0 Consensus size: 54
56518318 ATAAACATAC
* * ** * *
56518328 ATCACATAGGGGCAAAACAGTCATCCTACCACATAAGGGCAAAATAGTCATTTT
1 ATCACATAAGGGCAAAACTGTCATTTTAACACATAAGGGAAAAATAGTCATTTT
** *
56518382 ATTTCATAAGGGCAAAACTGTCATTTTAACACATAAGGGTAAAATAGTCATTTT
1 ATCACATAAGGGCAAAACTGTCATTTTAACACATAAGGGAAAAATAGTCATTTT
* * * * * *
56518436 -TCCACATAAAGGCAAAA-TCATCTTTTTATCACATAAGGGAAAAACAGTTATTTT
1 AT-CACATAAGGGCAAAACT-GTCATTTTAACACATAAGGGAAAAATAGTCATTTT
56518490 A
1 A
56518491 CCTTATAAGG
Statistics
Matches: 89, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
53 2 0.02
54 87 0.98
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (54 bp):
ATCACATAAGGGCAAAACTGTCATTTTAACACATAAGGGAAAAATAGTCATTTT
Found at i:56518514 original size:81 final size:81
Alignment explanation
Indices: 56518356--56518516 Score: 180
Period size: 81 Copynumber: 2.0 Consensus size: 81
56518346 AGTCATCCTA
* ** * *
56518356 CCACATAAGGGCAAAATAGTCATTTTATTTCATAAGGGCAAAACTGTCATTTTAACACATAAGGG
1 CCACATAAAGGCAAAATAGTCATTTTATCACATAAGGGAAAAACAGTCATTTTAACACATAAGGG
* *
56518421 TAAAATAGTCATTTTT
66 TAAAACAATCATTTTT
* * * **
56518437 CCACATAAAGGCAAAATCA-TCTTTTTATCACATAAGGGAAAAACAGTTATTTTACCTTATAAGG
1 CCACATAAAGGCAAAAT-AGTCATTTTATCACATAAGGGAAAAACAGTCATTTTAACACATAAGG
**
56518501 GTATTACAATCATTTT
65 GTAAAACAATCATTTT
56518517 ACCCTACAGG
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
81 64 0.98
82 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.33
Consensus pattern (81 bp):
CCACATAAAGGCAAAATAGTCATTTTATCACATAAGGGAAAAACAGTCATTTTAACACATAAGGG
TAAAACAATCATTTTT
Found at i:56518540 original size:27 final size:27
Alignment explanation
Indices: 56518510--56518572 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
56518500 GGTATTACAA
56518510 TCATTTTACCCTACAGGGCTATTTCGG
1 TCATTTTACCCTACAGGGCTATTTCGG
* ** * **
56518537 TCATTTTATCCTATGGGGGTATTTTTG
1 TCATTTTACCCTACAGGGCTATTTCGG
56518564 TCATTTTAC
1 TCATTTTAC
56518573 AAGTAAATAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.46
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGCTATTTCGG
Found at i:56525034 original size:27 final size:27
Alignment explanation
Indices: 56524975--56525162 Score: 161
Period size: 27 Copynumber: 7.0 Consensus size: 27
56524965 AAACATACAT
* ** *
56524975 CACAT-AGGGACAAAACAGTCATCCTAC
1 CACATAAGGG-CAAAATAGTCATTTTAA
56525002 CACATAAGGGCAAAATAGTCATTTT-A
1 CACATAAGGGCAAAATAGTCATTTTAA
* * * *
56525028 CTTCATAAAGGCAAAATCGTCATTTTAC
1 C-ACATAAGGGCAAAATAGTCATTTTAA
* * *
56525056 CACATAAGGGAAAAACCA-ACATTTTAA
1 CACATAAGGGCAAAA-TAGTCATTTTAA
* **
56525083 CACATAAGGGCAAAATAGTTATTTTGC
1 CACATAAGGGCAAAATAGTCATTTTAA
*
56525110 CATATAAGGGCAAAACT-GTCATTTTAA
1 CACATAAGGGCAAAA-TAGTCATTTTAA
56525137 CACATAAGGGCAAAA-AGGTCATTTTA
1 CACATAAGGGCAAAATA-GTCATTTTA
56525163 CCTTACAGGG
Statistics
Matches: 127, Mismatches: 26, Indels: 16
0.75 0.15 0.09
Matches are distributed among these distances:
26 2 0.02
27 119 0.94
28 6 0.05
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAA
Found at i:56525094 original size:81 final size:82
Alignment explanation
Indices: 56525002--56525152 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 82
56524992 GTCATCCTAC
*
56525002 CACATAAGGGCAAAATAGTCATTTTACTTCATA-AA-GGCAAAA-TCGTCATTTTACCACATAAG
1 CACATAAGGGCAAAATAGTCATTTTAC--CATATAAGGGCAAAACT-GTCATTTTAACACATAAG
56525064 GG-AAAAACCAACATTTTAA
63 GGCAAAAACCAACATTTTAA
* *
56525083 CACATAAGGGCAAAATAGTTATTTTGCCATATAAGGGCAAAACTGTCATTTTAACACATAAGGGC
1 CACATAAGGGCAAAATAGTCATTTTACCATATAAGGGCAAAACTGTCATTTTAACACATAAGGGC
56525148 AAAAA
66 AAAAA
56525153 GGTCATTTTA
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
79 4 0.06
80 2 0.03
81 51 0.81
82 6 0.10
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (82 bp):
CACATAAGGGCAAAATAGTCATTTTACCATATAAGGGCAAAACTGTCATTTTAACACATAAGGGC
AAAAACCAACATTTTAA
Found at i:56525185 original size:54 final size:54
Alignment explanation
Indices: 56524975--56525189 Score: 168
Period size: 54 Copynumber: 4.0 Consensus size: 54
56524965 AAACATACAT
* ** * * *
56524975 CACAT-AGGGACAAAACAGTCATCCTACCACATAAGGGCAAAATAGTCATTTT-A
1 CACATAAGGG-CAAAATAGTCATTTTACCATACAAGGGCAAAACAGTCATTTTAA
* * * * * * *
56525028 CTTCATAAAGGCAAAATCGTCATTTTACCACATAAGGGAAAAACCA-ACATTTTAA
1 C-ACATAAGGGCAAAATAGTCATTTTACCATACAAGGGCAAAA-CAGTCATTTTAA
* * * *
56525083 CACATAAGGGCAAAATAGTTATTTTGCCATATAAGGGCAAAACTGTCATTTTAA
1 CACATAAGGGCAAAATAGTCATTTTACCATACAAGGGCAAAACAGTCATTTTAA
* * * **
56525137 CACATAAGGGCAAAA-AGGTCATTTTACCTTACAGGGGTATTACAGTCATTTTA
1 CACATAAGGGCAAAATA-GTCATTTTACCATACAAGGGCAAAACAGTCATTTTA
56525190 CCCTACAGGT
Statistics
Matches: 129, Mismatches: 27, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
53 3 0.02
54 120 0.93
55 6 0.05
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (54 bp):
CACATAAGGGCAAAATAGTCATTTTACCATACAAGGGCAAAACAGTCATTTTAA
Found at i:56525232 original size:27 final size:27
Alignment explanation
Indices: 56525154--56525244 Score: 101
Period size: 27 Copynumber: 3.4 Consensus size: 27
56525144 GGGCAAAAAG
*
56525154 GTCATTTTACCTTACAGGGGTATTACA
1 GTCATTTTACCTTACAGGGGTATTTCA
* *
56525181 GTCATTTTACCCTACAGGTGTATTTCA
1 GTCATTTTACCTTACAGGGGTATTTCA
* * ** *
56525208 TTCATTTTATCTTATGGGGGTATTTCG
1 GTCATTTTACCTTACAGGGGTATTTCA
*
56525235 GCCATTTTAC
1 GTCATTTTAC
56525245 AAGTAAATAA
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCTTACAGGGGTATTTCA
Found at i:56529343 original size:28 final size:29
Alignment explanation
Indices: 56529293--56529444 Score: 145
Period size: 29 Copynumber: 5.3 Consensus size: 29
56529283 ACCCCTACAT
* *
56529293 ACATGCATATGACCCA-CTTGGCCCAA-TC
1 ACATTCATATGACCCATC-AGGCCCAATTC
* * *
56529321 TCATTTATATGACCCATCCGGCCCAATTC
1 ACATTCATATGACCCATCAGGCCCAATTC
56529350 ACATTCATATTG-CCCATCAGGCCCAATTC
1 ACATTCATA-TGACCCATCAGGCCCAATTC
* *
56529379 ACATTCATATGGCCCATTAGGCCCAA-T-
1 ACATTCATATGACCCATCAGGCCCAATTC
* * *
56529406 ATCATTCATATGGCCCATCTGGCCCAAATC
1 A-CATTCATATGACCCATCAGGCCCAATTC
56529436 ACATT-ATAT
1 ACATTCATAT
56529445 TCATGCTCAC
Statistics
Matches: 107, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
27 1 0.01
28 50 0.47
29 53 0.50
30 3 0.03
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.28
Consensus pattern (29 bp):
ACATTCATATGACCCATCAGGCCCAATTC
Found at i:56529412 original size:57 final size:55
Alignment explanation
Indices: 56529312--56529444 Score: 151
Period size: 57 Copynumber: 2.3 Consensus size: 55
56529302 TGACCCACTT
* * *
56529312 GGCCCAATCTCATTTATATGACCCATCCGGCCCAATTCACATTCATATTGCCCATCA
1 GGCCCAATCACA-TTATATGACCCATCAGGCCCAATT-ACATTCATATGGCCCATCA
* * *
56529369 GGCCCAATTCACATTCATATGGCCCATTAGGCCCAA-TATCATTCATATGGCCCATCT
1 GGCCCAA-TCACATT-ATATGACCCATCAGGCCCAATTA-CATTCATATGGCCCATCA
56529426 GGCCCAAATCACATTATAT
1 GGCCC-AATCACATTATAT
56529445 TCATGCTCAC
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
56 5 0.08
57 38 0.58
58 23 0.35
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.28
Consensus pattern (55 bp):
GGCCCAATCACATTATATGACCCATCAGGCCCAATTACATTCATATGGCCCATCA
Found at i:56531569 original size:28 final size:28
Alignment explanation
Indices: 56531529--56531584 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
56531519 AGGGAATGAG
56531529 TATACCAACCCCAAAGTCAAATTCTTTC
1 TATACCAACCCCAAAGTCAAATTCTTTC
56531557 TATACCAACCCCAAAGTCAAATTCTTTC
1 TATACCAACCCCAAAGTCAAATTCTTTC
56531585 CCCAAAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.32, G:0.04, T:0.29
Consensus pattern (28 bp):
TATACCAACCCCAAAGTCAAATTCTTTC
Found at i:56533679 original size:57 final size:58
Alignment explanation
Indices: 56533579--56533706 Score: 143
Period size: 57 Copynumber: 2.2 Consensus size: 58
56533569 AGGATTACTA
* * * * * * *
56533579 GTCCAGGCTAAATCCTATCTGTAGCATATGCTCTAGAGAGCTTA-ATTTAG-ATTAACC
1 GTCCGGGCTAAATCCAAACTATAACATAAGCTCAAGAGAGCTTACA-TTAGAATTAACC
* * *
56533636 GTCTGGGCTAAATCCAAACTATAACATAAGCTCAAGAGGGCTTACATTAGAATTACCC
1 GTCCGGGCTAAATCCAAACTATAACATAAGCTCAAGAGAGCTTACATTAGAATTAACC
56533694 GTCCGGGCTAAAT
1 GTCCGGGCTAAAT
56533707 TCTATTTCCA
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
57 39 0.67
58 19 0.33
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (58 bp):
GTCCGGGCTAAATCCAAACTATAACATAAGCTCAAGAGAGCTTACATTAGAATTAACC
Found at i:56538148 original size:23 final size:23
Alignment explanation
Indices: 56538118--56538166 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
56538108 TATTCTTATA
*
56538118 GTTAGGTATATTTGATTGTTTGT
1 GTTAGGTATATTTGATAGTTTGT
56538141 GTTAGGTATATTTGATAGTTTGT
1 GTTAGGTATATTTGATAGTTTGT
56538164 GTT
1 GTT
56538167 TGTGGTGCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (23 bp):
GTTAGGTATATTTGATAGTTTGT
Found at i:56541859 original size:50 final size:49
Alignment explanation
Indices: 56541741--56541925 Score: 199
Period size: 50 Copynumber: 3.7 Consensus size: 49
56541731 CTGGTATGCA
* ** *
56541741 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
*
56541790 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGATACACG
** * ** * * * *
56541840 TAGTAGTTTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-CCATCCGATACACG
* *
56541891 TAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAA
56541926 AGCCTGCACT
Statistics
Matches: 114, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
49 32 0.28
50 46 0.40
51 36 0.32
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
Found at i:56541933 original size:31 final size:31
Alignment explanation
Indices: 56541895--56541974 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
56541885 TACGCATAGT
**
56541895 AGCCTGCACTTAGTACTACACATGCGACCAA
1 AGCCTGCACTTAGTACTACACATGCGAAAAA
56541926 AGCCTGCACTTAGTACTACACATGCGAAAAA
1 AGCCTGCACTTAGTACTACACATGCGAAAAA
56541957 AGCCTGCACTTAGTACTA
1 AGCCTGCACTTAGTACTA
56541975 TAGACGTGAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (31 bp):
AGCCTGCACTTAGTACTACACATGCGAAAAA
Found at i:56543274 original size:26 final size:26
Alignment explanation
Indices: 56543245--56543294 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
56543235 CTGGGCATTC
56543245 TATGTGTAC-ATTT-ATTCTTAGAAGTA
1 TATGTG-ACTATTTAATT-TTAGAAGTA
56543271 TATGTGACTATTTAATTTTAGAAG
1 TATGTGACTATTTAATTTTAGAAG
56543295 GAATTCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 2 0.09
26 17 0.77
27 3 0.14
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.46
Consensus pattern (26 bp):
TATGTGACTATTTAATTTTAGAAGTA
Found at i:56549567 original size:17 final size:16
Alignment explanation
Indices: 56549531--56549573 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
56549521 ATTTATTTTC
*
56549531 TAAAAAATTTAATTAA
1 TAAAAAATTTAATGAA
*
56549547 TAAAAAATATTAATGAT
1 TAAAAAAT-TTAATGAA
56549564 TAAATAAATT
1 TAAA-AAATT
56549574 GAAAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 8 0.35
17 11 0.48
18 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAAAAATTTAATGAA
Found at i:56549578 original size:25 final size:25
Alignment explanation
Indices: 56549550--56549608 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
56549540 TAATTAATAA
56549550 AAAATATTAATGATTA-AAT-AAATT
1 AAAATATTAAT-ATTAGAATAAAATT
56549574 GAAAA-ATTAAATATTAGAATAAAATT
1 -AAAATATT-AATATTAGAATAAAATT
56549600 AAAAT-TTAA
1 AAAATATTAA
56549609 GAGAAAATCG
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
24 9 0.30
25 16 0.53
26 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (25 bp):
AAAATATTAATATTAGAATAAAATT
Found at i:56551163 original size:40 final size:39
Alignment explanation
Indices: 56551110--56551285 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 39
56551100 GGATATAACG
* *
56551110 ACTCGCTCAAATGCCTTCGGGAC-AAACCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGG-CTTAA-CCCGGATT-TAGTA
* *
56551150 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGG-CTTAACCCGGATTTAGTA
56551190 ACTCGCACAAATGCCTTCGGGCTTAACCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGCTTAACCCGGATTTAGTA
*
56551229 ACT--CACAAATGCCTTCGGGCTTAACCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGCTTAACCCGGATTTAGTA
* *
56551266 ACTCGCACGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
56551286 ATCTTAGTCC
Statistics
Matches: 124, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
37 36 0.29
39 33 0.27
40 51 0.41
41 4 0.03
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGCTTAACCCGGATTTAGTA
Found at i:56551245 original size:37 final size:39
Alignment explanation
Indices: 56551117--56551338 Score: 206
Period size: 40 Copynumber: 5.7 Consensus size: 39
56551107 ACGACTCGCT
*
56551117 CAAATGCCTTCGGGAC-AAACCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAA-CCCGGATT-TAGTAACTC-CA
* *
56551157 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTC-CA
56551197 CAAATGCCTTCGGG-CTTAACCCGGATTTAGTAACT-CA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCCA
*
56551234 CAAATGCCTTCGGG-CTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTC-CA
* * ** * * * *
56551273 CGAACGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAACA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-T-CCA
*
56551314 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
56551339 CATCATTCAA
Statistics
Matches: 157, Mismatches: 16, Indels: 18
0.82 0.08 0.09
Matches are distributed among these distances:
37 36 0.23
38 2 0.01
39 31 0.20
40 75 0.48
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCCA
Found at i:56559359 original size:39 final size:40
Alignment explanation
Indices: 56559196--56559425 Score: 240
Period size: 40 Copynumber: 5.8 Consensus size: 40
56559186 GGATATAACG
* *
56559196 ACTCGCTCAAATGCCTTCGGGAC-AAACCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAA-CCCGGATT-TAGTA
* *
56559236 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
56559276 ACTCGCACAAATGCCTTCGGG-CTTAACCC-GATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
*
56559314 ACTCGCACAAATGCCTTCGGG-CTTAACCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * ** * * *
56559353 ACTCGCACGAACGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTA
** *
56559393 ACTTAACACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAACCCGGA
56559426 CATCATTCAA
Statistics
Matches: 165, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
38 39 0.24
39 32 0.19
40 81 0.49
41 13 0.08
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
Done.