Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold165
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: 1947055
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.31
Warning! 52078 characters in sequence are not A, C, G, or T
File 3 of 11
Found at i:678061 original size:97 final size:96
Alignment explanation
Indices: 677536--678045 Score: 264
Period size: 94 Copynumber: 5.3 Consensus size: 96
677526 CATAGAGTTG
* * * * * * *
677536 TGGACCTAAAAGG-AAAAGATGCCACGAAGTTGTAGGCTTTGAAAAGAAAAAGGTGCCACAGAGT
1 TGGACTTAAAAGGAAAAAGGTGCCACGGAGTTATAGAC-TT-AAAA-AAAAAGGTGCCACAAAAT
* * * **
677600 TATGGACTTTGAAAA-GAAAAAGGTGCCACGGAGTTG
63 TGTGGAC-TT-AAAAGGGAAAA-GCGCCACGGAGTCA
* * * * * *
677636 TAGACTTTGAAAA-GAAAAATGTGCCACAGAGTTGTCGACTT-----AAAAGGTGCCACAAAGTT
1 TGGAC-TT-AAAAGGAAAAAGGTGCCACGGAGTTATAGACTTAAAAAAAAAGGTGCCACAAAATT
* * * * *
677695 GTGGACTTTGAAAA--TAAAAGGGTGCCATGAAGTTA
64 GTGGAC-TT-AAAAGGGAAAA--GCGCCACGGAGTCA
* * * * * *
677730 TGGACTTAAAAGGAACAAGGGTGCCACAGAGTTATGGACTTTGACAAGAAAAAGGTGCCACAGAG
1 TGGACTTAAAAGGAA-AAAGGTGCCACGGAGTTATAGAC-TT-A-AAAAAAAAGGTGCCACAAAA
* * **
677795 TTGTGGACTTAAAAGGG--TA---CCACAGAGTTG
62 TTGTGGACTTAAAAGGGAAAAGCGCCACGGAGTCA
* * * * * *
677825 TGAACTTTGAAAA-AAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAAGAAGGTGCCACAAAA
1 TGGAC-TT-AAAAGGAAAAAGGTGCCACGGAGTTATAGACTTAAAA--AAAAAGGTGCCACAAAA
* **
677889 TTGTGGACTTAAAAGGGAAATGCGCCACGGAGTTG
62 TTGTGGACTTAAAAGGGAAAAGCGCCACGGAGTCA
* *
677924 TGGGCTTAAAAGGAAAAAGGTGCCACGGAGTTATAGACTTAAAAAAAAAGGTGCCACAAAGTTGT
1 TGGACTTAAAAGGAAAAAGGTGCCACGGAGTTATAGACTTAAAAAAAAAGGTGCCACAAAATTGT
* *
677989 GGGCTTTAAAA-GGAAAAGATGCCACGGAGTCA
66 GGAC-TTAAAAGGGAAAAG-CGCCACGGAGTCA
*
678021 TGGACTTAGAAGG-AAAAGGATGCCA
1 TGGACTTAAAAGGAAAAAGG-TGCCA
678046 TCGAGTCTTC
Statistics
Matches: 327, Mismatches: 54, Indels: 61
0.74 0.12 0.14
Matches are distributed among these distances:
92 6 0.02
93 10 0.03
94 98 0.30
95 32 0.10
96 38 0.12
97 40 0.12
98 30 0.09
99 13 0.04
100 9 0.03
101 6 0.02
102 45 0.14
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.20
Consensus pattern (96 bp):
TGGACTTAAAAGGAAAAAGGTGCCACGGAGTTATAGACTTAAAAAAAAAGGTGCCACAAAATTGT
GGACTTAAAAGGGAAAAGCGCCACGGAGTCA
Found at i:678134 original size:59 final size:59
Alignment explanation
Indices: 678065--678290 Score: 276
Period size: 59 Copynumber: 3.8 Consensus size: 59
678055 CGACTTAGGG
** *
678065 AAGAGATGCCACTAAGTTGTGGACTTTGGGAAGGGCACCACAGAGTCATGGGCTTGGAA
1 AAGAGATGCCACTAAGTCATGGACTTTGGGAAGGGTACCACAGAGTCATGGGCTTGGAA
* * * *
678124 AAGAGATGCCACTAGGTTATGGACTTTGGGAAGGG-AGCCATAGAGTCATGGACTTGGAA
1 AAGAGATGCCACTAAGTCATGGACTTTGGGAAGGGTA-CCACAGAGTCATGGGCTTGGAA
** *
678183 AAGAGATGCCACTAAGTCATGGACTTT-GGAAGGGTACCACAGAGTCGCGGGATTTTGGGAA
1 AAGAGATGCCACTAAGTCATGGACTTTGGGAAGGGTACCACAGAGTCATGGG--CTT-GGAA
* * * *
678244 AAAAGATGCCACTGAGTCATGGTCTTTGGGAAGGGTGCCACAGAGTC
1 AAGAGATGCCACTAAGTCATGGACTTTGGGAAGGGTACCACAGAGTC
678291 GTAGACTTAG
Statistics
Matches: 146, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
58 19 0.13
59 79 0.54
60 2 0.01
61 28 0.19
62 18 0.12
ACGTcount: A:0.29, C:0.16, G:0.33, T:0.21
Consensus pattern (59 bp):
AAGAGATGCCACTAAGTCATGGACTTTGGGAAGGGTACCACAGAGTCATGGGCTTGGAA
Found at i:678175 original size:29 final size:31
Alignment explanation
Indices: 678006--678290 Score: 156
Period size: 30 Copynumber: 9.5 Consensus size: 31
677996 AAAAGGAAAA
* * *
678006 GATGCCAC-GGAGTCATGGACTTAGAAGGAAAAG
1 GATGCCACTAGAGTCATGGACTTTG--GG-AAGG
* * * * *
678039 GATGCCA-TCGAGTCTTCGACTTAGGGAAGA
1 GATGCCACTAGAGTCATGGACTTTGGGAAGG
**
678069 GATGCCACTA-AGTTGTGGACTTTGGGAAGG
1 GATGCCACTAGAGTCATGGACTTTGGGAAGG
* * *
678099 GCA--CCAC-AGAGTCATGGGC-TTGGAAAAGA
1 G-ATGCCACTAGAGTCATGGACTTTGG-GAAGG
*
678128 GATGCCACTAG-GTTATGGACTTTGGGAAGG
1 GATGCCACTAGAGTCATGGACTTTGGGAAGG
* *
678158 GA-GCCA-TAGAGTCATGGAC-TTGGAAAAGA
1 GATGCCACTAGAGTCATGGACTTTGG-GAAGG
678187 GATGCCACTA-AGTCATGGACTTT-GGAAGG
1 GATGCCACTAGAGTCATGGACTTTGGGAAGG
* ** * **
678216 G-TACCAC-AGAGTCGCGGGATTTTGGGAAAAAA
1 GATGCCACTAGAGTC-ATGGACTTTGGG--AAGG
*
678248 GATGCCACT-GAGTCATGGTCTTTGGGAAGG
1 GATGCCACTAGAGTCATGGACTTTGGGAAGG
678278 G-TGCCAC-AGAGTC
1 GATGCCACTAGAGTC
678291 GTAGACTTAG
Statistics
Matches: 192, Mismatches: 38, Indels: 48
0.69 0.14 0.17
Matches are distributed among these distances:
27 1 0.01
28 22 0.11
29 53 0.28
30 61 0.32
31 14 0.07
32 11 0.06
33 30 0.16
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.21
Consensus pattern (31 bp):
GATGCCACTAGAGTCATGGACTTTGGGAAGG
Found at i:678289 original size:120 final size:118
Alignment explanation
Indices: 678056--678308 Score: 305
Period size: 120 Copynumber: 2.1 Consensus size: 118
678046 TCGAGTCTTC
** ** *
678056 GACTTAGGGAAGAGATGCCACTAAGTTGTGGACTTTGGGAAGGGCACCACAGAGTCATGGGCTTG
1 GACTTAGAAAAGAGATGCCACTAAGTCATGGACTTTGGGAAGGGCACCACAGAGTCACGGGCTTG
* * * *
678121 GAAAAGAGATGCCACTAGGTTATGGACTTTGGGAAGGGAGCCATAGAGTCATG
66 GAAAAAAGATGCCACTAGGTCATGGACTTTGGGAAGGGAGCCACAGAGTCATA
* * * *
678174 GACTTGGAAAAGAGATGCCACTAAGTCATGGACTTT-GGAAGGGTACCACAGAGTCGCGGGATTT
1 GACTTAGAAAAGAGATGCCACTAAGTCATGGACTTTGGGAAGGGCACCACAGAGTCACGGG--CT
* * *
678238 TGGGAAAAAAGATGCCACT-GAGTCATGGTCTTTGGGAAGGGTGCCACAGAGTCGTA
64 T-GGAAAAAAGATGCCACTAG-GTCATGGACTTTGGGAAGGGAGCCACAGAGTCATA
678294 GACTTAGAAAA-AGAT
1 GACTTAGAAAAGAGAT
678309 TTGAAAGATT
Statistics
Matches: 114, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
117 21 0.18
118 31 0.27
119 7 0.06
120 55 0.48
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.21
Consensus pattern (118 bp):
GACTTAGAAAAGAGATGCCACTAAGTCATGGACTTTGGGAAGGGCACCACAGAGTCACGGGCTTG
GAAAAAAGATGCCACTAGGTCATGGACTTTGGGAAGGGAGCCACAGAGTCATA
Found at i:678760 original size:19 final size:21
Alignment explanation
Indices: 678715--678768 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
678705 TTTCAACAAT
678715 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAACAGTAA
* *
678736 TTGTATCGATACATA-AGT-G
1 TTGTATCGATACAAACAGTAA
678755 TTGTATCGATACAA
1 TTGTATCGATACAA
678769 TGTATCGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACAAACAGTAA
Found at i:683121 original size:23 final size:22
Alignment explanation
Indices: 683086--683151 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
683076 CTCCCTTTCC
683086 TTGTTTTAT-TTTTGCACTTTTTT
1 TTGTTTT-TCTTTTG-ACTTTTTT
683109 TTGTTTTTCTTTT--CTTTTTT
1 TTGTTTTTCTTTTGACTTTTTT
*
683129 TGTGCTTTTGCTTTTGACTTTTT
1 T-TG-TTTTTCTTTTGACTTTTT
683152 CGTAATTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
20 8 0.22
21 2 0.05
22 10 0.27
23 11 0.30
24 6 0.16
ACGTcount: A:0.05, C:0.11, G:0.11, T:0.74
Consensus pattern (22 bp):
TTGTTTTTCTTTTGACTTTTTT
Found at i:683137 original size:22 final size:20
Alignment explanation
Indices: 683102--683143 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
683092 TATTTTTGCA
*
683102 CTTTTTTTTGTTTTTCTTTT
1 CTTTTTTTTGTTTTGCTTTT
683122 CTTTTTTTGTGCTTTTGCTTTT
1 CTTTTTTT-TG-TTTTGCTTTT
683144 GACTTTTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 2 0.11
22 9 0.47
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.79
Consensus pattern (20 bp):
CTTTTTTTTGTTTTGCTTTT
Found at i:687649 original size:51 final size:50
Alignment explanation
Indices: 687592--687710 Score: 141
Period size: 51 Copynumber: 2.3 Consensus size: 50
687582 TATTTCCAAG
* *
687592 GGGATACTCCAACCCCGATTTTATTTCTAAAACTTCAATTTTCCA-CAGTC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACCA-TC
* * * *
687642 GAGGATACTTCAACCCTGATTTTTTTTCCAAAACATCGATTTTCCACCATC
1 G-GGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACCATC
*
687693 GGAGATACTCTAACCCCG
1 GG-GATACTCCAACCCCG
687711 TTATTTCCTA
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
50 2 0.04
51 53 0.93
52 2 0.04
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.32
Consensus pattern (50 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACCATC
Found at i:687804 original size:51 final size:51
Alignment explanation
Indices: 687723--687838 Score: 137
Period size: 51 Copynumber: 2.3 Consensus size: 51
687713 ATTTCCTAGG
* **
687723 GGATACTCCAACCCCAGTTTTATTTTTAAAATGTCAATTTTTCACAATCAA
1 GGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCACAATCAA
* * **
687774 GGATACTCCAACTCC-GATTTTATTTCTAAAACATCAATTTTTTACAAT-TG
1 GGATACTCCAACCCCAG-TTTTATTTCTAAAACATCAATTTTTCACAATCAA
*
687824 GGATACTCTAACCCC
1 GGATACTCCAACCCC
687839 GTTATTTCTG
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
50 14 0.25
51 41 0.75
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (51 bp):
GGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCACAATCAA
Found at i:687882 original size:129 final size:129
Alignment explanation
Indices: 687582--687916 Score: 424
Period size: 130 Copynumber: 2.6 Consensus size: 129
687572 ATTCAAAAAG
* * * *
687582 TATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCTAAAACTTCAATTTTCCACAGTCGAGGA
1 TATTTCCTAGGGGATACTCCAACCCCAATTTTATTTCTAAAA-TTCAATTTTTCACAATCGAGGA
* * * *
687647 TACTTCAACCCTGATTTTTTTTCCAAAACATCGATTTTCCACCATCGGAGATACTCTAACCCCGT
65 TACTCCAACCCTGATTTTATTTCCAAAACATCAATTTTCCACAATCGGAGATACTCTAACCCCGT
* * *
687712 TATTTCCTAGGGGATACTCCAACCCCAGTTTTATTTTTAAAATGTCAATTTTTCACAATCAAGGA
1 TATTTCCTAGGGGATACTCCAACCCCAATTTTATTTCTAAAAT-TCAATTTTTCACAATCGAGGA
* ** *
687777 TACTCCAACTCC-GATTTTATTTCTAAAACATCAATTTTTTACAATTGG-GATACTCTAACCCCG
65 TACTCCAAC-CCTGATTTTATTTCCAAAACATCAATTTTCCACAATCGGAGATACTCTAACCCCG
687840 T
129 T
* * ** *
687841 TATTT-CTGAGGGGATACTCGAACCCCAACTTTATTTCTAAAATATTGATTTCTCACAATCGAGG
1 TATTTCCT-AGGGGATACTCCAACCCCAATTTTATTTCTAAAAT-TCAATTTTTCACAATCGAGG
687905 ATACTCCAACCC
64 ATACTCCAACCC
687917 CATTATTTTC
Statistics
Matches: 178, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
128 4 0.02
129 79 0.44
130 93 0.52
131 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.34
Consensus pattern (129 bp):
TATTTCCTAGGGGATACTCCAACCCCAATTTTATTTCTAAAATTCAATTTTTCACAATCGAGGAT
ACTCCAACCCTGATTTTATTTCCAAAACATCAATTTTCCACAATCGGAGATACTCTAACCCCGT
Found at i:687934 original size:79 final size:78
Alignment explanation
Indices: 687774--688081 Score: 302
Period size: 78 Copynumber: 3.9 Consensus size: 78
687764 TCACAATCAA
* * * * * *
687774 GGATACTCCAACTCCGATTTTATTTCTAAAACATCAATTTTTTACAATTG-GGATACTCTAACCC
1 GGATACTCCAACCCCAATTTTATTTCTAAAACATCGA-TTTTCACAATCGAGGATACTCCAACCC
*
687838 CGTTATTTCTGAGG
65 CATTATTTCTGAGG
* * * *
687852 GGATACTCGAACCCCAACTTTATTTCTAAAATATTGATTTCTCACAATCGAGGATACTCCAACCC
1 GGATACTCCAACCCCAATTTTATTTCTAAAACATCGATTT-TCACAATCGAGGATACTCCAACCC
*
687917 CATTATTT-TCGCGG
65 CATTATTTCT-GAGG
* * **
687931 GGATACTCCAATCCCAATTTTATTT-TCAAA-ATACTGATTTTCTATGATC-AGGATACTCCAAC
1 GGATACTCCAACCCCAATTTTATTTCTAAAACAT-C-GATTTTC-ACAATCGAGGATACTCCAAC
*
687993 CCTATTATTTCTGAGG
63 CCCATTATTTCTGAGG
* * * * *
688009 GGATACTCCAACCCCGATTTTTATTTCTAGAACATCGATTTTCCATAATCGGGGATACTCCAGCC
1 GGATACTCCAACCCC-AATTTTATTTCTAAAACATCGATTTT-CACAATCGAGGATACTCCAACC
*
688074 CCGTTATT
64 CCATTATT
688082 ATCTCCAAAA
Statistics
Matches: 188, Mismatches: 30, Indels: 22
0.78 0.12 0.09
Matches are distributed among these distances:
77 5 0.03
78 83 0.44
79 75 0.40
80 23 0.12
81 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (78 bp):
GGATACTCCAACCCCAATTTTATTTCTAAAACATCGATTTTCACAATCGAGGATACTCCAACCCC
ATTATTTCTGAGG
Found at i:695151 original size:20 final size:20
Alignment explanation
Indices: 695105--695159 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
695095 AAATTCCTAG
**
695105 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
*
695125 ATATATCGATACATTGAGT-A
1 ATGTATCGATACATTGA-TCA
695145 ATGTATCGATACATT
1 ATGTATCGATACATT
695160 TCCTTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:695198 original size:13 final size:13
Alignment explanation
Indices: 695182--695213 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
695172 GCTTTGTAGT
695182 GATACATTGTATC
1 GATACATTGTATC
695195 GATACATTGTATC
1 GATACATTGTATC
*
695208 AATACA
1 GATACA
695214 ACACTTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (13 bp):
GATACATTGTATC
Found at i:695924 original size:20 final size:20
Alignment explanation
Indices: 695901--695973 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
695891 ACAATTCAAA
695901 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
695921 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
695942 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
695962 GTATCGATACAT
1 GTATCGATACAT
695974 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:695945 original size:21 final size:21
Alignment explanation
Indices: 695919--695994 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
695909 ACATGTTGCA
695919 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
695940 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
695960 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
695981 ATGTATCGATACAT
1 ATGTATCGATACAT
695995 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:695952 original size:41 final size:41
Alignment explanation
Indices: 695901--695994 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
695891 ACAATTCAAA
*
695901 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
695942 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
695983 GTATCGATACAT
1 GTATCGATACAT
695995 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:696051 original size:13 final size:13
Alignment explanation
Indices: 696033--696058 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
696023 TACAGTAAGT
696033 ATGTATCGATACA
1 ATGTATCGATACA
696046 ATGTATCGATACA
1 ATGTATCGATACA
696059 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:700141 original size:15 final size:15
Alignment explanation
Indices: 700121--700151 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
700111 TAAAAATGTC
*
700121 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
700136 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
700151 C
1 C
700152 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:702244 original size:20 final size:21
Alignment explanation
Indices: 702166--702243 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
702156 ATGTCCAAAA
*
702166 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
702186 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
702210 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
702231 TGTATCGATACAT
1 TGTATCGATACAT
702244 TGTATCGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.28
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:702248 original size:13 final size:13
Alignment explanation
Indices: 702230--702268 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
702220 ACATTTTTTG
702230 TTGTATCGATACA
1 TTGTATCGATACA
702243 TTGTATCGATACA
1 TTGTATCGATACA
*
702256 CTGTATCGATACA
1 TTGTATCGATACA
702269 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:704740 original size:21 final size:21
Alignment explanation
Indices: 704714--704787 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
704704 ACAATTCAAA
704714 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGAAAAAGAT
****
704735 GTATCGATACATGTTGCA-AT
1 GTATCGATACATGAAAAAGAT
*
704755 GTATCGATACATAAAAAAGAT
1 GTATCGATACATGAAAAAGAT
704776 GTATCGATACAT
1 GTATCGATACAT
704788 TTCTTGGCAG
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 15 0.35
21 28 0.65
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (21 bp):
GTATCGATACATGAAAAAGAT
Found at i:704744 original size:41 final size:41
Alignment explanation
Indices: 704694--704786 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 41
704684 ACCCCTAAAA
*
704694 GTATCGATACACAATT-CAAAGTATCGATACATGAAAAAGAT
1 GTATCGATACA-AATTGCAAAGTATCGATACATAAAAAAGAT
** *
704735 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACAAATTGCAAAGTATCGATACATAAAAAAGAT
704776 GTATCGATACA
1 GTATCGATACA
704787 TTTCTTGGCA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
40 2 0.04
41 45 0.96
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (41 bp):
GTATCGATACAAATTGCAAAGTATCGATACATAAAAAAGAT
Found at i:704844 original size:13 final size:13
Alignment explanation
Indices: 704826--704851 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
704816 TACAGTAAGT
704826 ATGTATCGATACA
1 ATGTATCGATACA
704839 ATGTATCGATACA
1 ATGTATCGATACA
704852 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:713747 original size:10 final size:10
Alignment explanation
Indices: 713732--713767 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
713722 TCCCACATTT
713732 AAAAACAAAA
1 AAAAACAAAA
713742 AAAAACAAAA
1 AAAAACAAAA
*
713752 CAAAACAAAGA
1 AAAAACAAA-A
713763 AAAAA
1 AAAAA
713768 AAGAGAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 18 0.78
11 5 0.22
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:714860 original size:61 final size:62
Alignment explanation
Indices: 714734--714983 Score: 314
Period size: 61 Copynumber: 4.1 Consensus size: 62
714724 GAGCATGACG
* * * *
714734 CCTTTTAAAACCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAAGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAAAGCAGGACGCCTTTT
*
714796 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAAAGCAGGATG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAAAGCAGGACGCCTTT-T
* * * * *
714857 CCTTTTAAAGACCACTCGAGTTGGTGGCAC-CTTCCA-TCCTCAAAAAACAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAAAGCAGGACGCCTTTT
* * * *
714917 -CTTTTCAAAGCCCACACGAGTTGGTGGTACTTTT-TAGTCCTCAAAGAGCAGGACGCCTTTT
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAAAGCAGGACGCCTTTT
714978 CCTTTT
1 CCTTTT
714984 CTCCTTTGTC
Statistics
Matches: 163, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
59 5 0.03
60 43 0.26
61 82 0.50
62 33 0.20
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (62 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAAAGCAGGACGCCTTTT
Found at i:714927 original size:121 final size:123
Alignment explanation
Indices: 714734--714983 Score: 314
Period size: 121 Copynumber: 2.0 Consensus size: 123
714724 GAGCATGACG
* * * *
714734 CCTTTTAAAACCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAAGACGCCTTTTCCT
1 CCTTTTAAAACCCACACAAGTTGGTGGCACTCTTCCAGTCCTCAAAAAACAAGACGCCTTTTCCT
*
714799 TTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAAAGCAGGATG-CTTTCT
66 TTTAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAAAGCAGGACGCCTTT-T
* * *
714857 CCTTTTAAAGA-CCACTCGAGTTGGTGGCAC-CTTCCA-TCCTCAAAAAACAGGACGCCTTTT-C
1 CCTTTTAAA-ACCCACACAAGTTGGTGGCACTCTTCCAGTCCTCAAAAAACAAGACGCCTTTTCC
* * * *
714918 TTTTCAAAGCCCACACGAGTTGGTGGTACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
65 TTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAAAGCAGGACGCCTTTT
714978 CCTTTT
1 CCTTTT
714984 CTCCTTTGTC
Statistics
Matches: 111, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
120 5 0.05
121 67 0.60
122 12 0.11
123 26 0.23
124 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (123 bp):
CCTTTTAAAACCCACACAAGTTGGTGGCACTCTTCCAGTCCTCAAAAAACAAGACGCCTTTTCCT
TTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAAAGCAGGACGCCTTTT
Found at i:714996 original size:38 final size:43
Alignment explanation
Indices: 714948--715060 Score: 137
Period size: 45 Copynumber: 2.7 Consensus size: 43
714938 TGGTGGTACT
714948 TTTTAGTCCTCAAAGAGCAGGACGC-CTTTT-CCTT-TTCT-CC
1 TTTT-GTCCTCAAAGAGCAGGACGCACTTTTCCCTTCTTCTCCC
* * *
714988 -TTTGTCCTCAAAGAACAGGACACACTTCATTCCCTTCTTTTCCC
1 TTTTGTCCTCAAAGAGCAGGACGCACTT--TTCCCTTCTTCTCCC
715032 TTTTGTCCTCAAAGAGCAGGACGCACTTT
1 TTTTGTCCTCAAAGAGCAGGACGCACTTT
715061 GTTTTCATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
38 18 0.30
39 6 0.10
41 2 0.03
42 4 0.07
43 4 0.07
44 2 0.03
45 25 0.41
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (43 bp):
TTTTGTCCTCAAAGAGCAGGACGCACTTTTCCCTTCTTCTCCC
Found at i:715095 original size:42 final size:43
Alignment explanation
Indices: 715031--715138 Score: 139
Period size: 42 Copynumber: 2.5 Consensus size: 43
715021 CTTCTTTTCC
*
715031 CTTTTGTCCTCAAAGAGCAGGACGCACTTT-GTTTT-CATTTTT
1 CTTTTGTCCTCAAAGAGTAGGACGCA-TTTCGTTTTCCATTTTT
* *
715073 CTTTTGACCTCAAAGAGTAGGACGCATTTCGTTTTCCTTTTTT
1 CTTTTGTCCTCAAAGAGTAGGACGCATTTCGTTTTCCATTTTT
* * *
715116 CCTTTGTTCTCAAAAAGTAGGAC
1 CTTTTGTCCTCAAAGAGTAGGAC
715139 TGTACTCTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
41 3 0.05
42 29 0.51
43 25 0.44
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (43 bp):
CTTTTGTCCTCAAAGAGTAGGACGCATTTCGTTTTCCATTTTT
Found at i:715202 original size:40 final size:40
Alignment explanation
Indices: 714972--715244 Score: 136
Period size: 40 Copynumber: 6.6 Consensus size: 40
714962 GAGCAGGACG
*
714972 CCTTTTCCTTTTCTCCTTTGTCCTCAAAGAA-CAGGACACACTT
1 CCTTTT-CTTTT-TCCTTTGTCCTC-AAGAAGCAGGACAC-TTT
* *
715015 CATTCCCTTCTTTTCCCTTTTGTCCTCAA-AGAGCAGGACGCACTTT
1 CCTT---TTCTTTTTCC-TTTGTCCTCAAGA-AGCAGGA--CACTTT
* * * * *
715061 -GTTTTCATTTTTCTTTTGACCTCAA-AGAGTAGGACGCATTT
1 CCTTTTC-TTTTTCCTTTGTCCTCAAGA-AGCAGGACAC-TTT
* * * * *
715102 CGTTTTCCTTTTTTCCTTTGTTCTCAAAAAGTAGG--ACTGT
1 CCTTTT-C-TTTTTCCTTTGTCCTCAAGAAGCAGGACACTTT
*
715142 AC---TCTTTTTCACTTTGTCCTCAAGAAGCAGGACACTTT
1 CCTTTTCTTTTTC-CTTTGTCCTCAAGAAGCAGGACACTTT
* *
715180 CCTTTTCTTTTTCCTTTGTCCTCAAGGAGCAAGAC-CTATT
1 CCTTTTCTTTTTCCTTTGTCCTCAAGAAGCAGGACACT-TT
* *
715220 TC-ATTCTCTTTTCCTTTGTCCTCAA
1 CCTTTTCT-TTTTCCTTTGTCCTCAA
715245 AAATTGGGAC
Statistics
Matches: 183, Mismatches: 26, Indels: 45
0.72 0.10 0.18
Matches are distributed among these distances:
35 6 0.03
36 18 0.10
37 1 0.01
38 5 0.03
39 6 0.03
40 44 0.24
41 12 0.07
42 26 0.14
43 31 0.17
44 6 0.03
45 21 0.11
46 4 0.02
47 3 0.02
ACGTcount: A:0.19, C:0.27, G:0.12, T:0.42
Consensus pattern (40 bp):
CCTTTTCTTTTTCCTTTGTCCTCAAGAAGCAGGACACTTT
Found at i:718234 original size:51 final size:51
Alignment explanation
Indices: 718127--718245 Score: 150
Period size: 51 Copynumber: 2.3 Consensus size: 51
718117 TTATTTCCAA
*
718127 GGGGATACTCCAACCCCAATTTTATTTCTAAAACATCAATTTTTCACAATC
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAACATCAATTTTTCACAATC
* * * * * *
718178 AGGGATACTCCAATCTCGATTTTATTTCCAAAACATCGATTTTTCACCA-C
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAACATCAATTTTTCACAATC
*
718228 TGGGGATACTCTAACCCC
1 -GGGGATACTCCAACCCC
718246 GTTATTTCCA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 1 0.02
51 55 0.98
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAATTTTATTTCCAAAACATCAATTTTTCACAATC
Found at i:718287 original size:130 final size:129
Alignment explanation
Indices: 718067--718451 Score: 517
Period size: 130 Copynumber: 3.0 Consensus size: 129
718057 CCAACCCCGG
* * * *
718067 TTTTATTTTCAAAACATCAATTTTTCATAATCGGGGATGCTCCAACCCCATTATTTCCAAGGGGA
1 TTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGA
*
718132 TACTCCAACCCCAATTTTATTTCTAAAACATCAATTTTTCACAATCAGGGATACTCCAA-TCTCG
66 TACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATC-GGGATACTCCAACTCT-G
718196 A
129 A
* * *
718197 TTTTATTTCCAAAACATCGATTTTTCACCA-CTGGGGATACTCTAACCCCGTTATTTCCAAGGGG
1 TTTTATTTCCAAAACATCAATTTTTCACAATC-GGGGATACTCCAACCCCGTTATTTCCAAGGGG
* * *
718261 ATACTCCAGCGCCGATTTTATTTCTAAAAGATCAATTTTTCACAATCGAGGATACTCCAACTCTG
65 ATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCG-GGATACTCCAACTCTG
718326 A
129 A
* *
718327 TTTTATTTCCAAAACATTAATTTTTTACAATCGGGGATACTCCAACCCCGTTATTT-CATCA-GG
1 TTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCA--AGGG
* * ** *
718390 GATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
64 GATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATC-GGGATACTCCAAC
718452 CCCATTATTT
Statistics
Matches: 225, Mismatches: 23, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
129 4 0.02
130 215 0.96
131 6 0.03
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.34
Consensus pattern (129 bp):
TTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGA
TACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGATACTCCAACTCTGA
Found at i:718319 original size:51 final size:51
Alignment explanation
Indices: 718259--718372 Score: 156
Period size: 51 Copynumber: 2.2 Consensus size: 51
718249 ATTTCCAAGG
* * *
718259 GGATACTCCAGCGCCGATTTTATTTCTAAAAGATCAATTTTTCACAATCGA
1 GGATACTCCAACGCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGA
* * * * *
718310 GGATACTCCAACTCTGATTTTATTTCCAAAACATTAATTTTTTACAATCGG
1 GGATACTCCAACGCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGA
718361 GGATACTCCAAC
1 GGATACTCCAAC
718373 CCCGTTATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (51 bp):
GGATACTCCAACGCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGA
Found at i:718395 original size:79 final size:78
Alignment explanation
Indices: 718310--718624 Score: 314
Period size: 79 Copynumber: 4.0 Consensus size: 78
718300 TCACAATCGA
* ** *
718310 GGATACTCCAACTCTGATTTTATTTCCAAAACATTAATTTTTTACAATCGGGGATACTCCAACCC
1 GGATACTCCAACTCCGATTTTATTTCCAAAACATCGATTTTCTACAATCGGGGATACTCCAACCC
718375 CGTTATTTCATCAG
66 CGTTATTTC-TCAG
* * * * *
718389 GGATACTCCAACCCCGACTTTATTTCTAAAATATTGA-TTTCTCACAATCGGGGATACTCCAACC
1 GGATACTCCAACTCCGATTTTATTTCCAAAACATCGATTTTCT-ACAATCGGGGATACTCCAACC
* * *
718453 CCATTATTTTTGCGG
65 CCGTTATTTCT-CAG
* * *
718468 GGATACTCCAA-TCTCGATTTTATTTTCAAAACATCGATTTTCTATAATCGTGGATACTCCAACC
1 GGATACTCCAACTC-CGATTTTATTTCCAAAACATCGATTTTCTACAATCGGGGATACTCCAACC
*
718532 CTGTTATTTC-CGAGG
65 CCGTTATTTCTC-A-G
* * * * * * *
718547 GGATACTCCAAGC-CCGATTTTTATTTCTAGAACACCGATTTTCAATAATCAGGGATACTCCAGC
1 GGATACTCCAA-CTCCGA-TTTTATTTCCAAAACATCGATTTTCTACAATCGGGGATACTCCAAC
718611 CCCGTTATTATCTC
64 CCCGTTATT-TCTC
718625 CAAAATATTA
Statistics
Matches: 194, Mismatches: 31, Indels: 19
0.80 0.13 0.08
Matches are distributed among these distances:
77 1 0.01
78 6 0.03
79 132 0.68
80 52 0.27
81 2 0.01
82 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.34
Consensus pattern (78 bp):
GGATACTCCAACTCCGATTTTATTTCCAAAACATCGATTTTCTACAATCGGGGATACTCCAACCC
CGTTATTTCTCAG
Found at i:718524 original size:158 final size:159
Alignment explanation
Indices: 718310--718619 Score: 396
Period size: 158 Copynumber: 2.0 Consensus size: 159
718300 TCACAATCGA
* *
718310 GGATACTCCAACTCTGATTTTATTTCCAAAACATTAATTTTTTACAATCGGGGATACTCCAACCC
1 GGATACTCCAACTCTGATTTTATTTCCAAAACATCAATTTTCTACAATCGGGGATACTCCAACCC
* **
718375 CGTTATTTCATC-A-GGGATACTCCAACCCCGA-CTTTATTTCTAAAATATTGATTTCTC-ACAA
66 CGTTATTTC--CGAGGGGATACTCCAACCCCGATCTTTATTTCTAAAACACCGATTT-TCAACAA
*
718436 TCGGGGATACTCCAACCCCATTATTTTTGCGG
128 TCAGGGATACTCCAACCCCATTATTTTTGCGG
* * * *
718468 GGATACTCCAA-TCTCGATTTTATTTTCAAAACATCGATTTTCTATAATCGTGGATACTCCAACC
1 GGATACTCCAACTCT-GATTTTATTTCCAAAACATCAATTTTCTACAATCGGGGATACTCCAACC
* * * * *
718532 CTGTTATTTCCGAGGGGATACTCCAAGCCCGATTTTTATTTCTAGAACACCGATTTTCAATAATC
65 CCGTTATTTCCGAGGGGATACTCCAACCCCGATCTTTATTTCTAAAACACCGATTTTCAACAATC
* *
718597 AGGGATACTCCAGCCCCGTTATT
130 AGGGATACTCCAACCCCATTATT
718620 ATCTCCAAAA
Statistics
Matches: 130, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
156 1 0.01
157 4 0.03
158 82 0.63
159 43 0.33
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (159 bp):
GGATACTCCAACTCTGATTTTATTTCCAAAACATCAATTTTCTACAATCGGGGATACTCCAACCC
CGTTATTTCCGAGGGGATACTCCAACCCCGATCTTTATTTCTAAAACACCGATTTTCAACAATCA
GGGATACTCCAACCCCATTATTTTTGCGG
Found at i:726954 original size:21 final size:20
Alignment explanation
Indices: 726904--726962 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
726894 CCAATACAAT
726904 AATGCAATGTATCGATA-ATA
1 AATG-AATGTATCGATACATA
726924 AATGAATGTATCGATACATA
1 AATGAATGTATCGATACATA
** *
726944 CCTGAAATGTATCAATACA
1 AATG-AATGTATCGATACA
726963 GGACCATATG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.35
20 9 0.26
21 13 0.38
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.29
Consensus pattern (20 bp):
AATGAATGTATCGATACATA
Found at i:732506 original size:22 final size:22
Alignment explanation
Indices: 732458--732513 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
732448 AATTTGCCTG
*
732458 CATGTATTGATAC-ATTGAATA
1 CATGTATCGATACAATTGAATA
732479 -ATGTATCGATACAATTGTAA-A
1 CATGTATCGATACAATTG-AATA
732500 CATGTATCGATACA
1 CATGTATCGATACA
732514 TTTCCTTGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 11 0.35
21 5 0.16
22 15 0.48
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (22 bp):
CATGTATCGATACAATTGAATA
Found at i:733216 original size:49 final size:49
Alignment explanation
Indices: 733134--733549 Score: 440
Period size: 49 Copynumber: 8.4 Consensus size: 49
733124 CGATGTGACT
* * * * ** *
733134 ATGTGCAGATTCAAGGCCTGCAACACTAAACTTAAAGATGATGGTGCCA
1 ATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCA
* * *
733183 ATGTGCTGATTCAAAGCCAACGACATTGGACTTAAAGATGAAGGTGTCA
1 ATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCA
* * * *
733232 ATGTGCTAATTCAAGGCTAGCAACATTGGACTTAAAGATGAAGTTGCCA
1 ATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCA
* * *** *
733281 ACGTGTTGATTCAAGGCCAGCGACATCAAACTTAAAGATGAAGGTCCCA
1 ATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCA
* * *
733330 ATATGCTCATTCAAGGCTAGCGACATTGGACTT-AAGATGAAGGTGCCA
1 ATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCA
** * * *
733378 ATGTATTGATTCAAGGCCAGTGACATTGGACTTAGGAATG-TTAGAGATGCCA
1 ATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATGA-AGGTGCCA
* * *
733430 ATATGTTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAGGTGCCA
1 ATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCA
* *
733479 ATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGGTAAAGGTGCCA
1 ATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G--AAGGTGCCA
* *
733531 ATATGTTGATTCAAGGCCA
1 ATGTGCTGATTCAAGGCCA
733550 ATGATATTAG
Statistics
Matches: 301, Mismatches: 57, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
48 41 0.14
49 187 0.62
50 5 0.02
51 4 0.01
52 64 0.21
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
ATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCA
Found at i:733601 original size:25 final size:24
Alignment explanation
Indices: 733567--733614 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
733557 TAGACTTAAG
733567 AAAAAAAAGGTGCCACGGAGTTGA
1 AAAAAAAAGGTGCCACGGAGTTGA
*
733591 AAAAGAAAAGGTGCCATGGAGTTG
1 AAAA-AAAAGGTGCCACGGAGTTG
733615 TGGACTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.44, C:0.10, G:0.31, T:0.15
Consensus pattern (24 bp):
AAAAAAAAGGTGCCACGGAGTTGA
Found at i:733770 original size:27 final size:27
Alignment explanation
Indices: 733728--733868 Score: 115
Period size: 27 Copynumber: 5.1 Consensus size: 27
733718 TTTGGAAAGA
733728 AAAAGG-TGCCACGGAGTTGTAGACTT
1 AAAAGGATGCCACGGAGTTGTAGACTT
* * * *
733754 AAAAGGGTGGCATGGAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTAGACTT
* *
733781 AAAAGGATGCCACAGAGTTATAGACTT
1 AAAAGGATGCCACGGAGTTGTAGACTT
* * *
733808 AAAAGGAAAAGGTGCAACAGAGTTGTGGACTT
1 AAAAGG---A--TGCCACGGAGTTGTAGACTT
* * *
733840 AAAAGGGTGCCACAG-GTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTAGACTT
733866 AAA
1 AAA
733869 GGAAAAAGGG
Statistics
Matches: 95, Mismatches: 14, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
26 20 0.21
27 51 0.54
30 1 0.01
32 23 0.24
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (27 bp):
AAAAGGATGCCACGGAGTTGTAGACTT
Found at i:733851 original size:59 final size:59
Alignment explanation
Indices: 733768--733894 Score: 177
Period size: 59 Copynumber: 2.2 Consensus size: 59
733758 GGGTGGCATG
733768 GAGTTGTGGACTTAAAAGGATGCCACAGAGTTATAGACTTAAAAGG-AAAA-GGTGCAACA
1 GAGTTGTGGACTTAAAAGGATGCCACAG-GTTATAGACTT-AAAGGAAAAAGGGTGCAACA
* * * * *
733827 GAGTTGTGGACTTAAAAGGGTGCCACAGGTTGTGGACTTAAAGGAAAAAGGGTGCCACG
1 GAGTTGTGGACTTAAAAGGATGCCACAGGTTATAGACTTAAAGGAAAAAGGGTGCAACA
733886 GAGTTGTGG
1 GAGTTGTGG
733895 GCTTTGAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
57 5 0.08
58 13 0.21
59 43 0.70
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (59 bp):
GAGTTGTGGACTTAAAAGGATGCCACAGGTTATAGACTTAAAGGAAAAAGGGTGCAACA
Found at i:734092 original size:281 final size:278
Alignment explanation
Indices: 733596--734218 Score: 975
Period size: 281 Copynumber: 2.2 Consensus size: 278
733586 GTTGAAAAAG
* * *
733596 AAAAGGTGCCATGGAGTTGTGGAC-TT-AAAAGGAAAAGGTGCCACAGG-GTTGTGGACTTAAAA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCAC-GGAGTTGTGGACTTAAAA
* * * *** *
733658 GGAAAAAGGGTACCATGGAGTTATGGACTTAAAAGGTGAAAGAGCCGTGAAATTATGGGCTTTGG
65 GAAAAAAGGGTACCATGGAATTATAGACTTAAAAGGTGAAAGAGCCACAAAATTATGGGCTTTGA
*
733723 AAAGAAAAAGGTGCCACGGAGTTGTAGACTTAAAAGGGTGGCATGGAGTTGTGGACTTAAAAGGA
130 AAAGAAAAAGGTGCCACAGAGTTGTAGACTTAAAAGGGTGGCATGGAGTTGTGGACTTAAAAGGA
* *
733788 TGCCACAGAGTTATAGACTTAAAAGGAAAAGGTGCAACAGAGTTGTGGACTTAAAAGGGTGCCAC
195 TGCCACAAAGTTATAGACTTAAAAGG-AAAGGTGCAACAGAGTTGTGGACTTAAAAGAGTGCCAC
733853 AG-GTTGTGGACTTAAAGGA
259 AGAGTTGTGGACTTAAAGGA
*
733872 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTTTGGACTTAAAA
1 AAAA-GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA
733937 GAAAAAAGGGTACCATGGAATTATAGACTTAAAAGGTGAAAGAGTGCCACAAAATTATGGGCTTT
65 GAAAAAAGGGTACCATGGAATTATAGACTTAAAAGGTGAAAGA--GCCACAAAATTATGGGCTTT
734002 GAAAAGAAAAAGGTGCCACAGAGTTGTAGACTTAAAAGGGTGGCATGGAGTTGTGGACTTAAAAG
128 GAAAAGAAAAAGGTGCCACAGAGTTGTAGACTTAAAAGGGTGGCATGGAGTTGTGGACTTAAAAG
* * * *
734067 GGTGCCACAAAGTTATGGACTTAAAAGGAAAGGTGCGATAGAGTTGTGGACTTAAAAGAGTGCCA
193 GATGCCACAAAGTTATAGACTTAAAAGGAAAGGTGCAACAGAGTTGTGGACTTAAAAGAGTGCCA
734132 CAGAGTTGTGGACTTAAAGGAA
258 CAGAGTTGTGGACTTAAAGG-A
* * *
734154 AAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGGGCCACGAAGTTGTGGACTTAAAAG
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
734219 GGTGCCACGA
Statistics
Matches: 317, Mismatches: 22, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
276 4 0.01
277 18 0.06
278 4 0.01
279 71 0.22
280 37 0.12
281 178 0.56
282 5 0.02
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.21
Consensus pattern (278 bp):
AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
AAAAAAGGGTACCATGGAATTATAGACTTAAAAGGTGAAAGAGCCACAAAATTATGGGCTTTGAA
AAGAAAAAGGTGCCACAGAGTTGTAGACTTAAAAGGGTGGCATGGAGTTGTGGACTTAAAAGGAT
GCCACAAAGTTATAGACTTAAAAGGAAAGGTGCAACAGAGTTGTGGACTTAAAAGAGTGCCACAG
AGTTGTGGACTTAAAGGA
Found at i:734117 original size:31 final size:28
Alignment explanation
Indices: 734008--734306 Score: 191
Period size: 27 Copynumber: 10.2 Consensus size: 28
733998 CTTTGAAAAG
*
734008 AAAA-AGGTGCCACAGAGTTGTAGACTT
1 AAAAGAGGTGCCACAGAGTTGTGGACTT
* **
734035 AAAAG-GGTGGCATGGAGTTGTGGACTT
1 AAAAGAGGTGCCACAGAGTTGTGGACTT
* *
734062 AAAAG-GGTGCCACAAAGTTATGGACTT
1 AAAAGAGGTGCCACAGAGTTGTGGACTT
* *
734089 AAAAGGAAAGGTGCGATAGAGTTGTGGACTT
1 AAAA-G--AGGTGCCACAGAGTTGTGGACTT
734120 AAAAGA-GTGCCACAGAGTTGTGGACTT
1 AAAAGAGGTGCCACAGAGTTGTGGACTT
* *
734147 AAAGGAAAAAAGGTGCCACAGAGTTGTGGGCTTT
1 -----AAAAGAGGTGCCACAGAGTTGTGGAC-TT
*
734181 GAAAAGAAAAAGGGGCCAC-GAAGTTGTGGACTT
1 -AAAAG----AGGTGCCACAG-AGTTGTGGACTT
* *
734214 AAAAG-GGTGCCAC-GAAGTTATAGACTT
1 AAAAGAGGTGCCACAG-AGTTGTGGACTT
* * *
734241 AAAA-AGGTTCCACGGAGTTGTGGGCTTT
1 AAAAGAGGTGCCACAGAGTTGTGGAC-TT
*
734269 GAAAAAGAAAAGGTGCCATAGAGTTGTGGACTT
1 --AAAAG---AGGTGCCACAGAGTTGTGGACTT
734302 AAAAG
1 AAAAG
734307 GAAAAAGAGT
Statistics
Matches: 215, Mismatches: 31, Indels: 48
0.73 0.11 0.16
Matches are distributed among these distances:
27 104 0.48
28 5 0.02
30 10 0.05
31 27 0.13
32 10 0.05
33 23 0.11
34 36 0.17
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (28 bp):
AAAAGAGGTGCCACAGAGTTGTGGACTT
Found at i:734168 original size:33 final size:32
Alignment explanation
Indices: 733591--734475 Score: 359
Period size: 34 Copynumber: 28.4 Consensus size: 32
733581 ACGGAGTTGA
**
733591 AAAAG-AAAAGGTGCCATGGAGTTGTGGACTT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* *
733622 AAAAGGAAAAGGTGCCACAGGGTTGTGGACTT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* ** *
733654 AAAAGGAAAAAGGGTACCATGGAGTTATGGACTT
1 AAAA-GAAAAA-GGTGCCACAGAGTTGTGGACTT
** * ** * * *
733688 AAAAGGTGAAA-GAGCC-GTGAAATTATGGGCTTT
1 AAAA-GAAAAAGGTGCCACAG-AGTTGTGGAC-TT
* * *
733721 GGAAAGAAAAAGGTGCCACGGAGTTGTAGACTT
1 -AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* **
733754 AAAAG-----GGTGGCATGGAGTTGTGGACTT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* * *
733781 AAAAG-----GATGCCACAGAGTTATAGACTT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* *
733808 AAAAGGAAAAGGTGCAACAGAGTTGTGGACTT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
733840 AAAAG-----GGTGCCACAG-GTTGTGGACTT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* * *
733866 AAAGGAAAAAGGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGAAAAA-GGTGCCACAGAGTTGTGGAC-TT
* *
733900 GAAAAGAAAAAGGTGCCACGGAGTTTTGGACTT
1 -AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* ** * * *
733933 AAAAGAAAAAAGGGTACCATGGAATTATAGACTT
1 AAAAG-AAAAA-GGTGCCACAGAGTTGTGGACTT
** * * * *
733967 AAAAGGTGAAAGAGTGCCACAAAATTATGGGCTTT
1 AAAA-GAAAAAG-GTGCCACAGAGTTGTGGAC-TT
*
734002 GAAAAGAAAAAGGTGCCACAGAGTTGTAGACTT
1 -AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* **
734035 AAAAG-----GGTGGCATGGAGTTGTGGACTT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* *
734062 AAAAG-----GGTGCCACAAAGTTATGGACTT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* * *
734089 AAAAG-GAAAGGTGCGATAGAGTTGTGGACTT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
734120 AAAAG----A-GTGCCACAGAGTTGTGGACTT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* *
734147 AAAGGAAAAAAGGTGCCACAGAGTTGTGGGCTTT
1 AAAAG-AAAAAGGTGCCACAGAGTTGTGGAC-TT
*
734181 GAAAAGAAAAAGGGGCCAC-GAAGTTGTGGACTT
1 -AAAAGAAAAAGGTGCCACAG-AGTTGTGGACTT
* *
734214 AAAAG-----GGTGCCAC-GAAGTTATAGACTT
1 AAAAGAAAAAGGTGCCACAG-AGTTGTGGACTT
* * *
734241 -----AAAAAGGTTCCACGGAGTTGTGGGCTTT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGAC-TT
*
734269 GAAAA-AGAAAAGGTGCCATAGAGTTGTGGACTT
1 -AAAAGA-AAAAGGTGCCACAGAGTTGTGGACTT
**
734302 AAAAGGAAAAAGAGTGCCACTAG-GTCATGGACTT
1 AAAA-GAAAAAG-GTGCCAC-AGAGTTGTGGACTT
** * * **
734336 -GGAG-AAGAGATGCCATTGAG-TGATGGACTT
1 AAAAGAAAAAGGTGCCACAGAGTTG-TGGACTT
**
734366 GGAAGAAAAAGGATGCCACA-AGTCT-TGGACTT
1 AAAAGAAAAAGG-TGCCACAGAGT-TGTGGACTT
* * **
734398 GAAAGGAAAAGGATGCCATTGAGTTGTGGACTT
1 AAAAGAAAAAGG-TGCCACAGAGTTGTGGACTT
** **
734431 TGAAGAAAAAGGATGCCACTA-AGTAATGGACTT
1 AAAAGAAAAAGG-TGCCAC-AGAGTTGTGGACTT
**
734464 GGAAGAAAAAGG
1 AAAAGAAAAAGG
734476 ATGAAGTTAT
Statistics
Matches: 659, Mismatches: 127, Indels: 134
0.72 0.14 0.15
Matches are distributed among these distances:
26 15 0.02
27 155 0.24
28 4 0.01
29 1 0.00
30 13 0.02
31 36 0.05
32 125 0.19
33 112 0.17
34 170 0.26
35 24 0.04
36 4 0.01
ACGTcount: A:0.37, C:0.11, G:0.31, T:0.21
Consensus pattern (32 bp):
AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
Found at i:734216 original size:179 final size:182
Alignment explanation
Indices: 733975--734306 Score: 456
Period size: 179 Copynumber: 1.8 Consensus size: 182
733965 TTAAAAGGTG
*
733975 AAAGAGTGCCACAAAATTATGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTAGACTTAAAAG
1 AAAGAGTGCCACAAAATTATGGGCTTTGAAAAGAAAAAGGGGCCACAGAGTTGTAGACTTAAAAG
* * * * * * *
734040 GGTGGCATGGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTATGGAC-TT-AAAAGGAAAGGTGC
66 GGTGCCACGAAGTTATAGACTTAAAAAGGTGCCACAAAGTTATGGACTTTAAAAAGAAAAGGTGC
*
734103 GATAGAGTTGTGGACTTAAAAGAGTGCCACAGAGTTGTGGACTTAAAGGAAA
131 CATAGAGTTGTGGACTTAAAAGAGTGCCACAGAGTTGTGGACTTAAAGGAAA
* * * *
734155 AAAG-GTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGGGCCAC-GAAGTTGTGGACTTAAAA
1 AAAGAGTGCCACAAAATTATGGGCTTTGAAAAGAAAAAGGGGCCACAG-AGTTGTAGACTTAAAA
* ** * *
734218 GGGTGCCACGAAGTTATAGACTTAAAAAGGTTCCACGGAGTTGTGGGCTTTGAAAAAGAAAAGGT
65 GGGTGCCACGAAGTTATAGACTTAAAAAGGTGCCACAAAGTTATGGACTTT-AAAAAGAAAAGGT
734283 GCCATAGAGTTGTGGACTTAAAAG
129 GCCATAGAGTTGTGGACTTAAAAG
734307 GAAAAAGAGT
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
178 1 0.01
179 89 0.68
180 6 0.05
182 34 0.26
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.22
Consensus pattern (182 bp):
AAAGAGTGCCACAAAATTATGGGCTTTGAAAAGAAAAAGGGGCCACAGAGTTGTAGACTTAAAAG
GGTGCCACGAAGTTATAGACTTAAAAAGGTGCCACAAAGTTATGGACTTTAAAAAGAAAAGGTGC
CATAGAGTTGTGGACTTAAAAGAGTGCCACAGAGTTGTGGACTTAAAGGAAA
Found at i:734294 original size:88 final size:88
Alignment explanation
Indices: 733713--734307 Score: 447
Period size: 88 Copynumber: 6.5 Consensus size: 88
733703 CGTGAAATTA
* ** * * * *
733713 TGGGCTTTGGAAAGAAAAAGGTGCCACGGAGTTGTAGACTTAAAAGGGTGGCATGGAGTTGTGGA
1 TGGGCTTTGAAAAGAAAAAGGTGCCATAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGA
*
733778 CTT-AAAAGGATGCCACAGAGTTA
66 CTTAAAAAGG-TGCCACAGAGTTG
* * * * * *
733801 TAGAC-TT-AAAAGGAAAAGGTGCAACAGAGTTGTGGACTTAAAAGGGTGCCAC-AGGTTGTGGA
1 TGGGCTTTGAAAAGAAAAAGGTGCCATAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGA
*
733863 CTTAAAGGAAAAAGGGTGCCACGGAGTTG
66 CTT-----AAAAA-GGTGCCACAGAGTTG
** * * *
733892 TGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTTTGGACTTAAAAGAAAAAAGGGTACCATGGAA
1 TGGGCTTTGAAAAGAAAAAGGTGCCATAGAGTTGTGGACTT-------AAAAGGGTGCCA-CGAA
* * * * *
733957 -TTATAGACTTAAAAGGTGAAAGAGTGCCACAAAATTA
58 GTTGTGGACTT--AA----AAAG-GTGCCACAGAGTTG
* * * * *
733994 TGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTAGACTTAAAAGGGTGGCATGGAGTTGTGGA
1 TGGGCTTTGAAAAGAAAAAGGTGCCATAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGA
* * *
734059 CTTAAAAGGGTGCCACAAAGTTA
66 CTTAAAAAGGTGCCACAGAGTTG
* * * *
734082 TGGAC-TT-AAAAG-GAAAGGTGCGATAGAGTTGTGGACTTAAAAGAGTGCCAC-AGAGTTGTGG
1 TGGGCTTTGAAAAGAAAAAGGTGCCATAGAGTTGTGGACTTAAAAGGGTGCCACGA-AGTTGTGG
734143 ACTTAAAGGAAAAAAGGTGCCACAGAGTTG
65 ACTT------AAAAAGGTGCCACAGAGTTG
* * * *
734173 TGGGCTTTGAAAAGAAAAAGGGGCCA-CGAAGTTGTGGACTTAAAAGGGTGCCACGAAGTTATAG
1 TGGGCTTTGAAAAGAAAAAGGTGCCATAG-AGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGG
* *
734237 ACTTAAAAAGGTTCCACGGAGTTG
65 ACTTAAAAAGGTGCCACAGAGTTG
734261 TGGGCTTTGAAAA-AGAAAAGGTGCCATAGAGTTGTGGACTTAAAAGG
1 TGGGCTTTGAAAAGA-AAAAGGTGCCATAGAGTTGTGGACTTAAAAGG
734308 AAAAAGAGTG
Statistics
Matches: 404, Mismatches: 65, Indels: 76
0.74 0.12 0.14
Matches are distributed among these distances:
85 55 0.14
86 43 0.11
87 5 0.01
88 79 0.20
89 4 0.01
91 39 0.10
92 6 0.01
93 36 0.09
94 44 0.11
95 19 0.05
98 2 0.00
100 11 0.03
101 9 0.02
102 52 0.13
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.22
Consensus pattern (88 bp):
TGGGCTTTGAAAAGAAAAAGGTGCCATAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGA
CTTAAAAAGGTGCCACAGAGTTG
Found at i:734384 original size:63 final size:63
Alignment explanation
Indices: 734307--734777 Score: 503
Period size: 65 Copynumber: 7.4 Consensus size: 63
734297 GACTTAAAAG
* *
734307 GAAAAA-GAGTGCCACTAGGTCATGGACTTGGAGAAGAGATGCCATTGAGTGATGGACTTGGAA
1 GAAAAAGGA-TGCCACTAAGTCATGGACTTGGAGAAGAGATGCCATTGAGTCATGGACTTGGAA
* * * ** *
734370 GAAAAAGGATGCCAC-AAGTCTTGGACTTGAAAGGAAAAGGATGCCATTGAGTTGTGGACTTTGA
1 GAAAAAGGATGCCACTAAGTCATGGACTTG-GA-GAAGA-GATGCCATTGAGTCATGGACTTGGA
734434 A
63 A
* * *
734435 GAAAAAGGATGCCACTAAGTAATGGACTTGGAAGAAAAAGGATG-AAGTT-ATGTCATGGA-TTG
1 GAAAAAGGATGCCACTAAGTCATGGACTTGG-AG-AAGA-GATGCCA-TTGA-GTCATGGACTTG
734497 GAA
61 GAA
*
734500 GAAAAAGGATGCCACTAAGTCATGGACTTGGAAGAAAAAGGATGCCATT-ATGTCATGGA-TTGG
1 GAAAAAGGATGCCACTAAGTCATGGACTTGG-AG-AAGA-GATGCCATTGA-GTCATGGACTTGG
734563 AA
62 AA
* * **
734565 GAAAAAGGATGCCACTAAGTCATGGAATTAGAGAAGAGATGCCACGGAGTCATGGACTTGGAA
1 GAAAAAGGATGCCACTAAGTCATGGACTTGGAGAAGAGATGCCATTGAGTCATGGACTTGGAA
* * * * *
734628 GAAAAAGGATGCCACTAGGTCGTGGACTTGGAGAAGAGATGCCACTGAGTCGTGGACTTAGAA
1 GAAAAAGGATGCCACTAAGTCATGGACTTGGAGAAGAGATGCCATTGAGTCATGGACTTGGAA
* * * * * *
734691 -AAAAA--AAGCCACTAAGTCATGGACTTAGAGAAGAGATGCCACTAAGCCATGGACCTGGAA
1 GAAAAAGGATGCCACTAAGTCATGGACTTGGAGAAGAGATGCCATTGAGTCATGGACTTGGAA
*
734751 GAAAAAGGATGCCACTAAGTCGTGGAC
1 GAAAAAGGATGCCACTAAGTCATGGAC
734778 AGGGAAGAAA
Statistics
Matches: 354, Mismatches: 39, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
60 46 0.13
61 5 0.01
62 32 0.09
63 96 0.27
64 8 0.02
65 136 0.38
66 31 0.09
ACGTcount: A:0.37, C:0.14, G:0.30, T:0.20
Consensus pattern (63 bp):
GAAAAAGGATGCCACTAAGTCATGGACTTGGAGAAGAGATGCCATTGAGTCATGGACTTGGAA
Found at i:734421 original size:65 final size:66
Alignment explanation
Indices: 734275--734812 Score: 456
Period size: 65 Copynumber: 8.4 Consensus size: 66
734265 CTTTGAAAAA
* ** ** *
734275 GAAAAGG-TGCCATAGAGTTGTGGACTTAAAAGGAAAAA-GAGTGCCACTAGGTCATGGACTTG-
1 GAAAAGGATGCCATTGAGTCATGGACTTGGAA-GAAAAAGGA-TGCCACTAAGTCATGGACTTGA
*
734337 GA-
64 AAG
* * *
734339 GAAGA-GATGCCATTGAGTGATGGACTTGGAAGAAAAAGGATGCCAC-AAGTCTTGGACTTGAAA
1 GAAAAGGATGCCATTGAGTCATGGACTTGGAAGAAAAAGGATGCCACTAAGTCATGGACTTGAAA
734402 G
66 G
** * * *
734403 GAAAAGGATGCCATTGAGTTGTGGACTTTGAAGAAAAAGGATGCCACTAAGTAATGGACTTGGAA
1 GAAAAGGATGCCATTGAGTCATGGACTTGGAAGAAAAAGGATGCCACTAAGTCATGGACTTGAAA
734468 G
66 G
* * *
734469 AAAAAGGATG-AAGTT-ATGTCATGGA-TTGGAAGAAAAAGGATGCCACTAAGTCATGGACTTGG
1 GAAAAGGATGCCA-TTGA-GTCATGGACTTGGAAGAAAAAGGATGCCACTAAGTCATGGACTTGA
734531 AAG
64 AAG
* * *
734534 AAAAAGGATGCCATT-ATGTCATGGA-TTGGAAGAAAAAGGATGCCACTAAGTCATGGAATT-AG
1 GAAAAGGATGCCATTGA-GTCATGGACTTGGAAGAAAAAGGATGCCACTAAGTCATGGACTTGAA
734596 A-
65 AG
* ** * * *
734597 GAAGA-GATGCCACGGAGTCATGGACTTGGAAGAAAAAGGATGCCACTAGGTCGTGGACTTG-GA
1 GAAAAGGATGCCATTGAGTCATGGACTTGGAAGAAAAAGGATGCCACTAAGTCATGGACTTGAAA
734660 -
66 G
* * * * * *
734660 GAAGA-GATGCCACTGAGTCGTGGACTTAGAA-AAAAA--AAGCCACTAAGTCATGGACTT-AGA
1 GAAAAGGATGCCATTGAGTCATGGACTTGGAAGAAAAAGGATGCCACTAAGTCATGGACTTGAAA
734720 -
66 G
* * * * * * ** *
734720 GAAGA-GATGCCACTAAGCCATGGACCTGGAAGAAAAAGGATGCCACTAAGTCGTGGACAGGGAA
1 GAAAAGGATGCCATTGAGTCATGGACTTGGAAGAAAAAGGATGCCACTAAGTCATGGACTTGAAA
734784 G
66 G
* * * *
734785 AAAAAGGATGCCACTAAGTCGTGGACTT
1 GAAAAGGATGCCATTGAGTCATGGACTT
734813 TAGGAAGGGT
Statistics
Matches: 400, Mismatches: 55, Indels: 36
0.81 0.11 0.07
Matches are distributed among these distances:
60 46 0.12
61 5 0.01
62 32 0.08
63 97 0.24
64 31 0.08
65 137 0.34
66 52 0.13
ACGTcount: A:0.37, C:0.14, G:0.30, T:0.20
Consensus pattern (66 bp):
GAAAAGGATGCCATTGAGTCATGGACTTGGAAGAAAAAGGATGCCACTAAGTCATGGACTTGAAA
G
Found at i:734470 original size:98 final size:99
Alignment explanation
Indices: 734295--734812 Score: 502
Period size: 98 Copynumber: 5.4 Consensus size: 99
734285 CATAGAGTTG
* * * * *
734295 TGGACTTAAAAGGAAAAA-GAGTGCCACTAGGTCATGGACTTGG-AG-AAGA-GATGCCATTGAG
1 TGGACTTGAAA-GAAAAAGGA-TGCCACTAAGTCATGGACTTGGAAGAAAAAGGATGCCACTAAG
* *
734356 TGATGGACTTGGAAGAAAAAGGATGCCAC-AAGTCT
64 TCATGGACTTGGAAGAAAAAGGATGCCACTAAGTCA
* * * ** * *
734391 TGGACTTGAAAGGAAAAGGATGCCATTGAGTTGTGGACTTTGAAGAAAAAGGATGCCACTAAGTA
1 TGGACTTGAAAGAAAAAGGATGCCACTAAGTCATGGACTTGGAAGAAAAAGGATGCCACTAAGTC
* * *
734456 ATGGACTTGGAAGAAAAAGGATG-AAGTTATGTCA
66 ATGGACTTGGAAGAAAAAGGATGCCA-CTAAGTCA
* * *
734490 TGGA-TTGGAAGAAAAAGGATGCCACTAAGTCATGGACTTGGAAGAAAAAGGATGCCATTATGTC
1 TGGACTTGAAAGAAAAAGGATGCCACTAAGTCATGGACTTGGAAGAAAAAGGATGCCACTAAGTC
734554 ATGGA-TTGGAAGAAAAAGGATGCCACTAAGTCA
66 ATGGACTTGGAAGAAAAAGGATGCCACTAAGTCA
* * * ** *
734587 TGGAATT-AGAG-AAGA-GATGCCACGGAGTCATGGACTTGGAAGAAAAAGGATGCCACTAGGTC
1 TGGACTTGAAAGAAAAAGGATGCCACTAAGTCATGGACTTGGAAGAAAAAGGATGCCACTAAGTC
* * * *
734649 GTGGACTTGG-AG-AAGA-GATGCCACTGAGTCG
66 ATGGACTTGGAAGAAAAAGGATGCCACTAAGTCA
* * *
734680 TGGACTTAGAAA-AAAAA--A-GCCACTAAGTCATGGACTTAG-AG-AAGA-GATGCCACTAAGC
1 TGGACTT-GAAAGAAAAAGGATGCCACTAAGTCATGGACTTGGAAGAAAAAGGATGCCACTAAGT
* *
734738 CATGGACCTGGAAGAAAAAGGATGCCACTAAGTCG
65 CATGGACTTGGAAGAAAAAGGATGCCACTAAGTCA
** * *
734773 TGGACAGGGAAGAAAAAGGATGCCACTAAGTCGTGGACTT
1 TGGACTTGAAAGAAAAAGGATGCCACTAAGTCATGGACTT
734813 TAGGAAGGGT
Statistics
Matches: 346, Mismatches: 57, Indels: 38
0.78 0.13 0.09
Matches are distributed among these distances:
90 20 0.06
91 5 0.01
92 8 0.02
93 61 0.18
94 4 0.01
95 76 0.22
96 39 0.11
97 33 0.10
98 92 0.27
99 8 0.02
ACGTcount: A:0.37, C:0.14, G:0.30, T:0.19
Consensus pattern (99 bp):
TGGACTTGAAAGAAAAAGGATGCCACTAAGTCATGGACTTGGAAGAAAAAGGATGCCACTAAGTC
ATGGACTTGGAAGAAAAAGGATGCCACTAAGTCA
Found at i:734476 original size:33 final size:33
Alignment explanation
Indices: 734307--734812 Score: 503
Period size: 33 Copynumber: 15.9 Consensus size: 33
734297 GACTTAAAAG
*
734307 GAAAAA-GAGTGCCACTAGGTCATGGACTTGG-A
1 GAAAAAGGA-TGCCACTAAGTCATGGACTTGGAA
* * * *
734339 G-AAGA-GATGCCATTGAGTGATGGACTTGGAA
1 GAAAAAGGATGCCACTAAGTCATGGACTTGGAA
* *
734370 GAAAAAGGATGCCAC-AAGTCTTGGACTTGAAA
1 GAAAAAGGATGCCACTAAGTCATGGACTTGGAA
* * * ** *
734402 GGAAAAGGATGCCATTGAGTTGTGGACTTTGAA
1 GAAAAAGGATGCCACTAAGTCATGGACTTGGAA
*
734435 GAAAAAGGATGCCACTAAGTAATGGACTTGGAA
1 GAAAAAGGATGCCACTAAGTCATGGACTTGGAA
* * *
734468 GAAAAAGGATG-AAGTTATGTCATGGA-TTGGAA
1 GAAAAAGGATGCCA-CTAAGTCATGGACTTGGAA
734500 GAAAAAGGATGCCACTAAGTCATGGACTTGGAA
1 GAAAAAGGATGCCACTAAGTCATGGACTTGGAA
* *
734533 GAAAAAGGATGCCATTATGTCATGGA-TTGGAA
1 GAAAAAGGATGCCACTAAGTCATGGACTTGGAA
* *
734565 GAAAAAGGATGCCACTAAGTCATGGAATTAG-A
1 GAAAAAGGATGCCACTAAGTCATGGACTTGGAA
* **
734597 G-AAGA-GATGCCACGGAGTCATGGACTTGGAA
1 GAAAAAGGATGCCACTAAGTCATGGACTTGGAA
* *
734628 GAAAAAGGATGCCACTAGGTCGTGGACTTGG-A
1 GAAAAAGGATGCCACTAAGTCATGGACTTGGAA
* * * *
734660 G-AAGA-GATGCCACTGAGTCGTGGACTTAGAA
1 GAAAAAGGATGCCACTAAGTCATGGACTTGGAA
* *
734691 -AAAAA--AAGCCACTAAGTCATGGACTTAG-A
1 GAAAAAGGATGCCACTAAGTCATGGACTTGGAA
* * *
734720 G-AAGA-GATGCCACTAAGCCATGGACCTGGAA
1 GAAAAAGGATGCCACTAAGTCATGGACTTGGAA
* **
734751 GAAAAAGGATGCCACTAAGTCGTGGACAGGGAA
1 GAAAAAGGATGCCACTAAGTCATGGACTTGGAA
*
734784 GAAAAAGGATGCCACTAAGTCGTGGACTT
1 GAAAAAGGATGCCACTAAGTCATGGACTT
734813 TAGGAAGGGT
Statistics
Matches: 390, Mismatches: 66, Indels: 35
0.79 0.13 0.07
Matches are distributed among these distances:
29 4 0.01
30 98 0.25
31 21 0.05
32 98 0.25
33 169 0.43
ACGTcount: A:0.37, C:0.14, G:0.30, T:0.19
Consensus pattern (33 bp):
GAAAAAGGATGCCACTAAGTCATGGACTTGGAA
Found at i:735831 original size:16 final size:17
Alignment explanation
Indices: 735799--735831 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
735789 TTTCTCTTTC
*
735799 TTTCTTTTTTTTTTGCT
1 TTTCTTTTTTTTATGCT
735816 TTTC-TTTTTTTATGCT
1 TTTCTTTTTTTTATGCT
735832 GTTTTGCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.03, C:0.12, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTCTTTTTTTTATGCT
Found at i:743123 original size:19 final size:20
Alignment explanation
Indices: 743099--743152 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
743089 ATCGATACAT
743099 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGTA
** *
743118 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-AAACTGTA
743139 TGTATCGATACAAA
1 TGTATCGATACAAA
743153 TTGTAGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAAAACTGTA
Found at i:749804 original size:30 final size:30
Alignment explanation
Indices: 749765--750103 Score: 293
Period size: 30 Copynumber: 11.4 Consensus size: 30
749755 GTAGCATCCC
*
749765 TTCTT-AAAGTCCATGACTCAGTGGAATCT
1 TTCTTCAAAGTCCATGACTCAGTGGCATCT
**
749794 TTCTTCAAAGTCCACAACTCAGTGGCATC-
1 TTCTTCAAAGTCCATGACTCAGTGGCATCT
* **
749823 TCCTTTTAAGTCCATGACTCAGTGGCATCT
1 TTCTTCAAAGTCCATGACTCAGTGGCATCT
* * *
749853 CTT-TTCAAAGTCC-CGACTTAGTGGCCTCT
1 -TTCTTCAAAGTCCATGACTCAGTGGCATCT
* * ** * **
749882 CTT-TT-TAAGTACACAACTTAGTGGTGTCT
1 -TTCTTCAAAGTCCATGACTCAGTGGCATCT
* *
749911 TTC-TCAAAGTCCATGATTCAGTGGGATCT
1 TTCTTCAAAGTCCATGACTCAGTGGCATCT
**
749940 CTTCTTCAAAGTCCATGACTCAGTGGTGTCT
1 -TTCTTCAAAGTCCATGACTCAGTGGCATCT
*
749971 CTTC-TCAAAGTCCATGACTTAGTGGCATCTT
1 -TTCTTCAAAGTCCATGACTCAGTGGCATC-T
* *
750002 TTATTCAAAATCCATGACTCAGTGGCATCT
1 TTCTTCAAAGTCCATGACTCAGTGGCATCT
750032 CTT-TTCAAAGTCCATGACTCAGTGGCATCT
1 -TTCTTCAAAGTCCATGACTCAGTGGCATCT
* * * *
750062 TT-TCTCAAAGTCTACGACACAGTGGCTTCT
1 TTCT-TCAAAGTCCATGACTCAGTGGCATCT
*
750092 TTCCTCAAAGTC
1 TTCTTCAAAGTC
750104 TACAACTCTG
Statistics
Matches: 255, Mismatches: 42, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
28 8 0.03
29 79 0.31
30 114 0.45
31 54 0.21
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (30 bp):
TTCTTCAAAGTCCATGACTCAGTGGCATCT
Found at i:749842 original size:29 final size:29
Alignment explanation
Indices: 749753--750432 Score: 275
Period size: 30 Copynumber: 22.8 Consensus size: 29
749743 CGACAACCAC
* *
749753 CAGTAGCATCCCTTCTTAAAGTCCATGACT
1 CAGTGGCATCTCTT-TTAAAGTCCATGACT
* **
749783 CAGTGGAATCT-TTCTTCAAAGTCCACAACT
1 CAGTGGCATCTCTT-TT-AAAGTCCATGACT
749813 CAGTGGCATCTCCTTTT-AAGTCCATGACT
1 CAGTGGCATCT-CTTTTAAAGTCCATGACT
*
749842 CAGTGGCATCTCTTTTCAAAGTCC-CGACT
1 CAGTGGCATCTCTTTT-AAAGTCCATGACT
* * * * **
749871 TAGTGGCCTCTCTTTTTAAGTACACAACT
1 CAGTGGCATCTCTTTTAAAGTCCATGACT
* * *
749900 TAGTGG--TGTCTTTCTCAAAGTCCATGATT
1 CAGTGGCATCTCTTT-T-AAAGTCCATGACT
*
749929 CAGTGGGATCTCTTCTTCAAAGTCCATGACT
1 CAGTGGCATCTCTT-TT-AAAGTCCATGACT
** *
749960 CAGTGGTGTCTCTTCTCAAAGTCCATGACT
1 CAGTGGCATCTCTT-TTAAAGTCCATGACT
* * *
749990 TAGTGGCATCTTTTATTCAAAATCCATGACT
1 CAGTGGCATCTCTT-TT-AAAGTCCATGACT
750021 CAGTGGCATCTCTTTTCAAAGTCCATGACT
1 CAGTGGCATCTCTTTT-AAAGTCCATGACT
* * *
750051 CAGTGGCATCT-TTTCTCAAAGTCTACGACA
1 CAGTGGCATCTCTTT-T-AAAGTCCATGACT
* **
750081 CAGTGGC-T-TCTTTCCTCAAAGTCTACAACT
1 CAGTGGCATCTCTTT--T-AAAGTCCATGACT
* * * **
750111 CTGTGGCACCTCATTTAAAGTCCACAACT
1 CAGTGGCATCTCTTTTAAAGTCCATGACT
* * **
750140 CTA-TGGCACTTTTTTCTTCAAAGTCCACAACT
1 C-AGTGGCA-TCTCTT-TT-AAAGTCCATGACT
* **
750172 CAGTGGCA-CCCTTTT-AAGTCCACAACT
1 CAGTGGCATCTCTTTTAAAGTCCATGACT
* * **
750199 ACCA-TGGCACATTTATTTTCAAAGTCCACAACT
1 --CAGTGG--CATCTCTTTT-AAAGTCCATGACT
* * * **
750232 CCGTGGCA-CCCTTTT-ATGTCCAAAACT
1 CAGTGGCATCTCTTTTAAAGTCCATGACT
* * *
750259 CCGTGGCA-C-CTTTTCAAAGTCCATAACA
1 CAGTGGCATCTCTTTT-AAAGTCCATGACT
* * * * **
750287 CTGTGACA-CCCTTTT-AAGTCTACAACT
1 CAGTGGCATCTCTTTTAAAGTCCATGACT
* *
750314 CTGTGGCACCTTTTTCTTTTCAAAGTCCAT-ACT
1 CAGTGGCA----TCTCTTTT-AAAGTCCATGACT
* * *
750347 TAGTGGCATCCCTTTTTTTAAAGTCTATGACT
1 CAGTGGCAT--C-TCTTTTAAAGTCCATGACT
* *
750379 CAATGGCATCTCTTTTCAAGGTCCATGACT
1 CAGTGGCATCTCTTTT-AAAGTCCATGACT
* *
750409 TAGTGGCA-CCCTTATTAAAGTCCA
1 CAGTGGCATCTCTT-TTAAAGTCCA
750433 CAACTCCATG
Statistics
Matches: 515, Mismatches: 89, Indels: 93
0.74 0.13 0.13
Matches are distributed among these distances:
26 5 0.01
27 53 0.10
28 31 0.06
29 122 0.24
30 153 0.30
31 75 0.15
32 49 0.10
33 21 0.04
34 6 0.01
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (29 bp):
CAGTGGCATCTCTTTTAAAGTCCATGACT
Found at i:749905 original size:58 final size:58
Alignment explanation
Indices: 749780--750362 Score: 211
Period size: 61 Copynumber: 9.8 Consensus size: 58
749770 AAAGTCCATG
* **
749780 ACTCAGTGGAATCT-TTCTTCAAAGTCCACAACTCAGTGGCATCTCCTTTTAAGTCCATG
1 ACTCAGTGG-ATCTCTT-TTCAAAGTCCACAACTCAGTGGCATCTCCTTTTAAGTACACA
* * * *
749839 ACTCAGTGGCATCTCTTTTCAAAGTCC-CGACTTAGTGGCCTCTCTTTTTAAGTACACA
1 ACTCAGTGG-ATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTCCTTTTAAGTACACA
* * ** * * * **
749897 ACTTAGTGG-TGTCTTTCTCAAAGTCCATGATTCAGTGGGATCT-CTTCTTCAAAGTCCATG
1 ACTCAGTGGATCTCTTT-TCAAAGTCCACAACTCAGTGGCATCTCCTT-TT--AAGTACACA
* * ** * * * * **
749957 ACTCAGTGGTGTCTCTTCTCAAAGTCCATGACTTAGTGGCATCT-TTTATTCAAAATCCATG
1 ACTCAGTGG-ATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTCCTT-TT--AAGTACACA
** *
750018 ACTCAGTGGCATCTCTTTTCAAAGTCCATGACTCAGTGGCATCT--TTTCTCAAAGT-CTACG
1 ACTCAGTGG-ATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTCCTTT-T--AAGTAC-ACA
* * * * * * * *
750078 ACACAGTGGCT-TCTTTCCTCAAAGTCTACAACTCTGTGGCACCTCATTTAAAGTCCACA
1 ACTCAGTGGATCTCTTT--TCAAAGTCCACAACTCAGTGGCATCTCCTTTTAAGTACACA
* * *
750137 ACTCTA-TGGCACTTTTTTCTTCAAAGTCCACAACTCAGTGGCA-C-CCTTTTAAGTCCACA
1 ACTC-AGTGG-A-TCTCTT-TTCAAAGTCCACAACTCAGTGGCATCTCCTTTTAAGTACACA
* * * * * *
750196 ACTACCA-TGGCACATTTATTTTCAAAGTCCACAACTCCGTGGCA-C-CCTTTTATGTCCAAA
1 ACT--CAGTGG---ATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTCCTTTTAAGTACACA
* * * * *
750256 ACTCCGTGGCA-C-CTTTTCAAAGTCCATAACACTGTGACA-C-CCTTTTAAGT-CTACA
1 ACTCAGTGG-ATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTCCTTTTAAGTAC-ACA
* * * *
750311 ACTCTGTGGCACCTTTTTCTTTTCAAAGTCCA-TACTTAGTGGCATC-CCTTTT
1 ACTCAGTGG-A----TCTCTTTTCAAAGTCCACAACTCAGTGGCATCTCCTTTT
750363 TTTAAAGTCT
Statistics
Matches: 421, Mismatches: 70, Indels: 64
0.76 0.13 0.12
Matches are distributed among these distances:
54 1 0.00
55 44 0.10
56 6 0.01
57 13 0.03
58 51 0.12
59 57 0.14
60 109 0.26
61 126 0.30
62 13 0.03
63 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.33
Consensus pattern (58 bp):
ACTCAGTGGATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTCCTTTTAAGTACACA
Found at i:749982 original size:61 final size:59
Alignment explanation
Indices: 749753--750103 Score: 293
Period size: 61 Copynumber: 5.9 Consensus size: 59
749743 CGACAACCAC
* * * ** *
749753 CAGTAGCATCCCTTCTTAAAGTCCATGACTCAGTGGAATCTTTCTTCAAAGTCCACAACT
1 CAGTGGCATCTCTTCTTAAAGTCCATGACTCAGTGGTATCTTTC-TCAAAGTCCATGATT
* * *
749813 CAGTGGCATCTCCTT-TT-AAGTCCATGACTCAGTGGCATCTCTTTTCAAAGTCC-CGACTT
1 CAGTGGCATCT-CTTCTTAAAGTCCATGACTCAGTGGTATCT-TTCTCAAAGTCCATGA-TT
* * * ** * *
749872 -AGTGGCCTCTCTT-TTTAAGTACACAACTTAGTGGTGTCTTTCTCAAAGTCCATGATT
1 CAGTGGCATCTCTTCTTAAAGTCCATGACTCAGTGGTATCTTTCTCAAAGTCCATGATT
* *
749929 CAGTGGGATCTCTTCTTCAAAGTCCATGACTCAGTGGTGTCTCTTCTCAAAGTCCATGACTT
1 CAGTGGCATCTCTTCTT-AAAGTCCATGACTCAGTGGTATCT-TTCTCAAAGTCCATGA-TT
* * * * * *
749991 -AGTGGCATCTTTTATTCAAAATCCATGACTCAGTGGCATCTCTTTTCAAAGTCCATGACT
1 CAGTGGCATCTCTTCTT-AAAGTCCATGACTCAGTGGTATCT-TTCTCAAAGTCCATGATT
* * * * *
750051 CAGTGGCATCTTTTCTCAAAGTCTACGACACAGTGGCT-TCTTTCCTCAAAGTC
1 CAGTGGCATCTCTTCTTAAAGTCCATGACTCAGTGG-TATCTTT-CTCAAAGTC
750104 TACAACTCTG
Statistics
Matches: 240, Mismatches: 38, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
57 18 0.08
58 41 0.17
59 36 0.15
60 59 0.25
61 84 0.35
62 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.34
Consensus pattern (59 bp):
CAGTGGCATCTCTTCTTAAAGTCCATGACTCAGTGGTATCTTTCTCAAAGTCCATGATT
Found at i:750168 original size:32 final size:30
Alignment explanation
Indices: 750096--750232 Score: 106
Period size: 29 Copynumber: 4.5 Consensus size: 30
750086 GCTTCTTTCC
* * * *
750096 TCAAAGTCTACAACTCTGTGGCACCTCA-TT
1 TCAAAGTCCACAACTC-ATGGCACTTTATTT
*
750126 T-AAAGTCCACAACTCTATGGCACTTTTTTCT
1 TCAAAGTCCACAACTC-ATGGCACTTTATT-T
**
750157 TCAAAGTCCACAACTCAGTGGCAC--CCTTT
1 TCAAAGTCCACAACTCA-TGGCACTTTATTT
750186 T--AAGTCCACAACTACCATGGCACATTTATTT
1 TCAAAGTCCACAACT--CATGGCAC-TTTATTT
750217 TCAAAGTCCACAACTC
1 TCAAAGTCCACAACTC
750233 CGTGGCACCC
Statistics
Matches: 87, Mismatches: 9, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
27 12 0.14
28 6 0.07
29 25 0.29
30 4 0.05
31 8 0.09
32 20 0.23
33 12 0.14
ACGTcount: A:0.29, C:0.30, G:0.11, T:0.30
Consensus pattern (30 bp):
TCAAAGTCCACAACTCATGGCACTTTATTT
Found at i:750198 original size:27 final size:28
Alignment explanation
Indices: 750018--750480 Score: 179
Period size: 30 Copynumber: 15.6 Consensus size: 28
750008 AAAATCCATG
* **
750018 ACTCAGTGGCATCTCTTTTCAAAGTCCATG
1 ACTCAGTGGCA-CCCTTTT-AAAGTCCACA
* * * *
750048 ACTCAGTGGCATCTTTTCTCAAAGTCTACG
1 ACTCAGTGGCACCCTTT-T-AAAGTCCACA
* ** *
750078 ACACAGTGGC-TTCTTTCCTCAAAGTCTACA
1 ACTCAGTGGCACCCTTT--T-AAAGTCCACA
* *
750108 ACTCTGTGGCACCTCATTTAAAGTCCACA
1 ACTCAGTGGCACC-CTTTTAAAGTCCACA
**
750137 ACTCTA-TGGCACTTTTTTCTTCAAAGTCCACA
1 ACTC-AGTGGCAC--CCTT-TT-AAAGTCCACA
750169 ACTCAGTGGCACCCTTTT-AAGTCCACA
1 ACTCAGTGGCACCCTTTTAAAGTCCACA
**
750196 ACTACCA-TGGCACATTTATTTTCAAAGTCCACA
1 ACT--CAGTGGCAC---CCTTTT-AAAGTCCACA
* * *
750229 ACTCCGTGGCACCCTTTT-ATGTCCAAA
1 ACTCAGTGGCACCCTTTTAAAGTCCACA
* *
750256 ACTCCGTGGCA-CCTTTTCAAAGTCCATA
1 ACTCAGTGGCACCCTTTT-AAAGTCCACA
* * * *
750284 ACACTGTGACACCCTTTT-AAGTCTACA
1 ACTCAGTGGCACCCTTTTAAAGTCCACA
* *
750311 ACTCTGTGGCACCTTTTTCTTTTCAAAGTCCA-T
1 ACTCAGTGGCACC-----CTTTT-AAAGTCCACA
* * **
750344 ACTTAGTGGCATCCCTTTTTTTAAAGTCTATG
1 ACTCAGTGGCA-CCC---TTTTAAAGTCCACA
* * * **
750376 ACTCAATGGCATCTCTTTTCAAGGTCCATG
1 ACTCAGTGGCA-CCCTTTT-AAAGTCCACA
*
750406 ACTTAGTGGCACCCTTATTAAAGTCCACA
1 ACTCAGTGGCACCCTT-TTAAAGTCCACA
* *
750435 ACTCCA-TGGCACCTTTTTTAAGTCCACA
1 ACT-CAGTGGCACCCTTTTAAAGTCCACA
**
750463 ACTTTGTGGCACCCTTTT
1 ACTCAGTGGCACCCTTTT
750481 CTTTTTAAGT
Statistics
Matches: 336, Mismatches: 60, Indels: 76
0.71 0.13 0.16
Matches are distributed among these distances:
26 6 0.02
27 48 0.14
28 46 0.14
29 68 0.20
30 74 0.22
31 15 0.04
32 50 0.15
33 21 0.06
34 8 0.02
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.33
Consensus pattern (28 bp):
ACTCAGTGGCACCCTTTTAAAGTCCACA
Found at i:750222 original size:60 final size:58
Alignment explanation
Indices: 750096--750480 Score: 300
Period size: 61 Copynumber: 6.5 Consensus size: 58
750086 GCTTCTTTCC
* * * * *
750096 TCAAAGTCTACAACTCTGTGGCACCTCATTTAAAGTCCACAACTCTATGGCACTTTTTTCT
1 TCAAAGTCCACAACTCAGTGGCACC-C-TTTTAAGTCCACAACTCCATGGCACTTTCTT-T
*
750157 TCAAAGTCCACAACTCAGTGGCACCCTTTTAAGTCCACAACTACCATGGCACATTTATTT
1 TCAAAGTCCACAACTCAGTGGCACCCTTTTAAGTCCACAACT-CCATGGCAC-TTTCTTT
* * * *
750217 TCAAAGTCCACAACTCCGTGGCACCCTTTTATGTCCAAAACTCCGTGGCAC---CTTT
1 TCAAAGTCCACAACTCAGTGGCACCCTTTTAAGTCCACAACTCCATGGCACTTTCTTT
* * * * * **
750272 TCAAAGTCCATAACACTGTGACACCCTTTTAAGTCTACAACTCTGTGGCACCTTTTTCTTT
1 TCAAAGTCCACAACTCAGTGGCACCCTTTTAAGTCCACAACTCCATGGCA-C--TTTCTTT
* * * ** * *
750333 TCAAAGTCCA-TACTTAGTGGCATCCCTTTTTTTAAAGTCTATGACTCAATGGCA-TCTCTTT
1 TCAAAGTCCACAACTCAGTGGCA-CCC---TTTT-AAGTCCACAACTCCATGGCACTTTCTTT
* ** * *
750394 TCAAGGTCCATGACTTAGTGGCACCCTTATTAAAGTCCACAACTCCATGGCACCTT-TTT
1 TCAAAGTCCACAACTCAGTGGCACCCTT-TT-AAGTCCACAACTCCATGGCACTTTCTTT
**
750453 T--AAGTCCACAACTTTGTGGCACCCTTTT
1 TCAAAGTCCACAACTCAGTGGCACCCTTTT
750481 CTTTTTAAGT
Statistics
Matches: 268, Mismatches: 40, Indels: 37
0.78 0.12 0.11
Matches are distributed among these distances:
55 45 0.17
56 3 0.01
57 21 0.08
58 2 0.01
59 46 0.17
60 57 0.21
61 63 0.24
62 11 0.04
64 4 0.01
65 16 0.06
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (58 bp):
TCAAAGTCCACAACTCAGTGGCACCCTTTTAAGTCCACAACTCCATGGCACTTTCTTT
Found at i:750298 original size:55 final size:55
Alignment explanation
Indices: 750156--750327 Score: 173
Period size: 55 Copynumber: 3.0 Consensus size: 55
750146 CACTTTTTTC
* * * * * *
750156 TTCAAAGTCCACAACTCAGTGGCACCCTTTTAAGTCCACAACTACCATGGCACATTTATT
1 TTCAAAGTCCACAACACCGTGACACCCTTTTAAGTCCAAAACT-CCGTGGCAC----CTT
* * *
750216 TTCAAAGTCCACAACTCCGTGGCACCCTTTTATGTCCAAAACTCCGTGGCACCTT
1 TTCAAAGTCCACAACACCGTGACACCCTTTTAAGTCCAAAACTCCGTGGCACCTT
* * * * *
750271 TTCAAAGTCCATAACACTGTGACACCCTTTTAAGTCTACAACTCTGTGGCACCTT
1 TTCAAAGTCCACAACACCGTGACACCCTTTTAAGTCCAAAACTCCGTGGCACCTT
750326 TT
1 TT
750328 TCTTTTCAAA
Statistics
Matches: 99, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
55 51 0.52
59 8 0.08
60 40 0.40
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.30
Consensus pattern (55 bp):
TTCAAAGTCCACAACACCGTGACACCCTTTTAAGTCCAAAACTCCGTGGCACCTT
Found at i:750458 original size:28 final size:29
Alignment explanation
Indices: 750412--750512 Score: 105
Period size: 33 Copynumber: 3.4 Consensus size: 29
750402 CATGACTTAG
* *
750412 TGGCACCCTTATTAAAGTCCACAACTCCA
1 TGGCACCCTTTTTTAAGTCCACAACTCCA
***
750441 TGGCA-CCTTTTTTAAGTCCACAACTTTG
1 TGGCACCCTTTTTTAAGTCCACAACTCCA
750469 TGGCACCCTTTTCTTTTTAAGTCCACAACTCCA
1 TGGCACCC---T-TTTTTAAGTCCACAACTCCA
*
750502 TGGCGCCCTTT
1 TGGCACCCTTT
750513 AAAGCCACAT
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
28 23 0.40
29 9 0.16
30 1 0.02
32 1 0.02
33 24 0.41
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.34
Consensus pattern (29 bp):
TGGCACCCTTTTTTAAGTCCACAACTCCA
Found at i:750617 original size:33 final size:33
Alignment explanation
Indices: 750512--750786 Score: 346
Period size: 33 Copynumber: 8.5 Consensus size: 33
750502 TGGCGCCCTT
* * *
750512 TAAAG-CCACATAAGTCGATAGCAACCC-T-TC
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
*
750542 TAAAGCCCACACAAGTCGGTGGTAACCCTTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
750575 -AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
* ** *
750607 TAAAGCCCACATAAGTCAATGGCAACTCTTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
**
750640 TAAAGCCCACACAAGTTAGTGGCAACCCTTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
* * ** *
750673 -AAAACCCACACATGTCAATGGAAACCCTTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
750705 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
** *
750738 TAAAGCCCACACAAGTCGGTGAAAACCCTTTTC
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
750771 -AAAGCCCACACAAGTC
1 TAAAGCCCACACAAGTC
750787 TATGGCTTCT
Statistics
Matches: 214, Mismatches: 26, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
30 5 0.02
31 18 0.08
32 75 0.35
33 116 0.54
ACGTcount: A:0.32, C:0.33, G:0.15, T:0.19
Consensus pattern (33 bp):
TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
Found at i:750638 original size:65 final size:66
Alignment explanation
Indices: 750512--750786 Score: 355
Period size: 65 Copynumber: 4.3 Consensus size: 66
750502 TGGCGCCCTT
* * * ** *
750512 TAAAG-CCACATAAGTCGATAGCAACCC-T-TCTAAAGCCCACACAAGTCGGTGGTAACCCTTCT
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCAATGGAAACCCTTCT
750574 C
66 C
* * *
750575 -AAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACATAAGTCAATGGCAACTCTTCT
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCAATGGAAACCCTTCT
750639 C
66 C
** * *
750640 TAAAGCCCACACAAGTTAGTGGCAACCCTTCTC-AAAACCCACACATGTCAATGGAAACCCTTCT
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCAATGGAAACCCTTCT
750704 C
66 C
** * *
750705 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGAAAACCCTTTT
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCAATGGAAACCCTTCT
750770 C
66 C
750771 -AAAGCCCACACAAGTC
1 TAAAGCCCACACAAGTC
750787 TATGGCTTCT
Statistics
Matches: 184, Mismatches: 23, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
62 4 0.02
63 19 0.10
64 1 0.01
65 104 0.57
66 56 0.30
ACGTcount: A:0.32, C:0.33, G:0.15, T:0.19
Consensus pattern (66 bp):
TAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCAATGGAAACCCTTCT
C
Found at i:750684 original size:98 final size:97
Alignment explanation
Indices: 750512--750791 Score: 375
Period size: 98 Copynumber: 2.9 Consensus size: 97
750502 TGGCGCCCTT
* * *
750512 TAAAG-CCACATAAGTCGATAGCAACCCT-TCTAAAGCCCACACAAGTCGGTGGTAACCCTTCTC
1 TAAAGCCCACATAAGTCGATGGCAACCTTCTCTAAAGCCCACACAAGTCGGTGGAAACCCTTCTC
** *
750575 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
66 AAAGCCCACACAAGTCAATGGAAACCCTTCTC
* ** *
750607 TAAAGCCCACATAAGTCAATGGCAACTCTTCTCTAAAGCCCACACAAGTTAGTGGCAACCCTTCT
1 TAAAGCCCACATAAGTCGATGGCAAC-CTTCTCTAAAGCCCACACAAGTCGGTGGAAACCCTTCT
* *
750672 CAAAACCCACACATGTCAATGGAAACCCTTCTC
65 CAAAGCCCACACAAGTCAATGGAAACCCTTCTC
* * * *
750705 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGAAAACCCTTTT
1 TAAAGCCCACATAAGTCGATGGCAA-CCTTCTCTAAAGCCCACACAAGTCGGTGGAAACCCTTCT
*
750770 CAAAGCCCACACAAGTCTATGG
65 CAAAGCCCACACAAGTCAATGG
750792 CTTCTAAGCC
Statistics
Matches: 159, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
95 5 0.03
96 18 0.11
97 2 0.01
98 133 0.84
99 1 0.01
ACGTcount: A:0.32, C:0.33, G:0.15, T:0.20
Consensus pattern (97 bp):
TAAAGCCCACATAAGTCGATGGCAACCTTCTCTAAAGCCCACACAAGTCGGTGGAAACCCTTCTC
AAAGCCCACACAAGTCAATGGAAACCCTTCTC
Found at i:750928 original size:52 final size:51
Alignment explanation
Indices: 750855--751050 Score: 153
Period size: 52 Copynumber: 3.8 Consensus size: 51
750845 CATCTCTTTC
* * * *
750855 TAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTTTTTTCTTTCT
1 TAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCAC-TTTTTCTATCT
* * * **
750907 TAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTTGGTATCT
1 TAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACTTTTTCTATCT
** ** * *
750958 TCAAGTCCAAGGTCATTGGCCTTGAATCAGCACATTGGCACCTTTGTC-ATCTT
1 T-AAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCA-CTTTTTCTATC-T
* * * * *
751011 TAAG-CCTAATATAGCCAGCCTTGAATTAGAATATTGGCAC
1 TAAGTCC-AATATCGCTAGCCTTGAATCAGCACATTGGCAC
751051 CTTTATCATT
Statistics
Matches: 110, Mismatches: 30, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
51 11 0.10
52 94 0.85
53 5 0.05
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (51 bp):
TAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACTTTTTCTATCT
Found at i:750988 original size:104 final size:104
Alignment explanation
Indices: 750856--751054 Score: 276
Period size: 104 Copynumber: 1.9 Consensus size: 104
750846 ATCTCTTTCT
* * * * *
750856 AAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTTTTTTC-TTTCTTAAGTCC-AATAT
1 AAGTCCAAGGTCATTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCT-TTAAG-CCTAATAT
* * * *
750919 CGCTAGCCTTGAATCAGCATATTGGCGCCTTTGGTATCTTC
64 AGCCAGCCTTGAATCAGAATATTGGCACCTTTGGTATCTTC
750960 AAGTCCAAGGTCATTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGCCTAATATAG
1 AAGTCCAAGGTCATTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGCCTAATATAG
*
751025 CCAGCCTTGAATTAGAATATTGGCACCTTT
66 CCAGCCTTGAATCAGAATATTGGCACCTTT
751055 ATCATTCTTC
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
103 2 0.02
104 79 0.95
105 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (104 bp):
AAGTCCAAGGTCATTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGCCTAATATAG
CCAGCCTTGAATCAGAATATTGGCACCTTTGGTATCTTC
Found at i:751854 original size:20 final size:21
Alignment explanation
Indices: 751810--751862 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
751800 TTCAACAATT
751810 TGTATCGATACAATAGGGCAA
1 TGTATCGATACAATAGGGCAA
* * *
751831 TGTATCGATATATTAGTG-AA
1 TGTATCGATACAATAGGGCAA
751851 TGTATCGATACA
1 TGTATCGATACA
751863 GGACCATGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (21 bp):
TGTATCGATACAATAGGGCAA
Found at i:761305 original size:20 final size:20
Alignment explanation
Indices: 761276--761313 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
761266 CTACCACTAT
* *
761276 TTGTATCGATACATTGTACA
1 TTGTACCGATACAATGTACA
761296 TTGTACCGATACAATGTA
1 TTGTACCGATACAATGTA
761314 TCAATACATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (20 bp):
TTGTACCGATACAATGTACA
Found at i:761321 original size:33 final size:33
Alignment explanation
Indices: 761277--761341 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
761267 TACCACTATT
* *
761277 TGTATCGATACATTG-TACATTGTACCGATACAA
1 TGTATCAATACA-TGATAAATTGTACCGATACAA
*
761310 TGTATCAATACATGATAAATTGTATCGATACA
1 TGTATCAATACATGATAAATTGTACCGATACA
761342 TTGCTTCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCAATACATGATAAATTGTACCGATACAA
Found at i:767506 original size:13 final size:13
Alignment explanation
Indices: 767488--767514 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
767478 ACAATATTCC
767488 TTGTATCGATACA
1 TTGTATCGATACA
767501 TTGTATCGATACA
1 TTGTATCGATACA
767514 T
1 T
767515 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:769429 original size:39 final size:36
Alignment explanation
Indices: 769349--769439 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 36
769339 ACAAAAAAGG
* *
769349 GGGAGAAATATTGTTTTGAAAATATTTTTTATCAAAT
1 GGGAGAAAT-TTTTTTTGAAAATAATTTTTATCAAAT
*
769386 GGGAGAAATTTTTTTGATGAAAATAAATTTTTGTCAAGA-
1 GGGAGAAATTTTTTT--TGAAAAT-AATTTTTATCAA-AT
769425 GGGAGAAATTTTTTT
1 GGGAGAAATTTTTTT
769440 ACGAGGCCCT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
36 5 0.11
37 9 0.19
38 7 0.15
39 25 0.53
40 1 0.02
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (36 bp):
GGGAGAAATTTTTTTTGAAAATAATTTTTATCAAAT
Found at i:770035 original size:33 final size:33
Alignment explanation
Indices: 769993--770071 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
769983 CACACCCAGA
* * * *
769993 TGTATCGATACATTATGCTTTGTATCCATACAT
1 TGTATCGATACATTAGGCTTTATATCAACACAT
770026 TGTATCGATACATTAGGCTTTATATCAACACAT
1 TGTATCGATACATTAGGCTTTATATCAACACAT
770059 TGTATCGATACAT
1 TGTATCGATACAT
770072 GTTCATTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTAGGCTTTATATCAACACAT
Found at i:770105 original size:20 final size:19
Alignment explanation
Indices: 770055--770111 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
770045 TTATATCAAC
*
770055 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
770074 TCATTATATCGATACATGG
1 ACATTGTATCGATACATGG
770093 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
770112 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:770183 original size:33 final size:33
Alignment explanation
Indices: 770141--770205 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
770131 TACCACTATT
* *
770141 TGTATCGATACATGGTACATTATATCGATACAA
1 TGTATCGATACATGATAAATTATATCGATACAA
*
770174 TGTATCGATACATGATAAATTGTATCGATACA
1 TGTATCGATACATGATAAATTATATCGATACA
770206 TTGCTTCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGATAAATTATATCGATACAA
Found at i:772192 original size:39 final size:38
Alignment explanation
Indices: 772129--772220 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 38
772119 ACAAAAAGGG
* * *
772129 GGGAGAAATATTGTTTTGAAAATAATTTTTTATCAA-A
1 GGGAGAAATTTTTTTTTGAAAATAAATTTTTATCAAGA
*
772166 TGGGAGAAATTTTTTTTATGAAAATAAATTTTTGTCAAGA
1 -GGGAGAAATTTTTTTT-TGAAAATAAATTTTTATCAAGA
772206 GGGAGAAATTTTTTT
1 GGGAGAAATTTTTTT
772221 ACGAGGCCCT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
38 14 0.29
39 33 0.69
40 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.42
Consensus pattern (38 bp):
GGGAGAAATTTTTTTTTGAAAATAAATTTTTATCAAGA
Found at i:772821 original size:33 final size:33
Alignment explanation
Indices: 772774--772852 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
772764 CACACCCAGA
* * *
772774 TGTATCGATACATTATGCTTTATATCCATACAT
1 TGTATCGATACATTAGGCTTTATATCAACACAT
*
772807 TGTATCGATGCATTAGGCTTTATATCAACACAT
1 TGTATCGATACATTAGGCTTTATATCAACACAT
772840 TGTATCGATACAT
1 TGTATCGATACAT
772853 GTTCATTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTAGGCTTTATATCAACACAT
Found at i:772886 original size:20 final size:19
Alignment explanation
Indices: 772836--772892 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
772826 TTATATCAAC
*
772836 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
772855 TCATTATATCGATACATGG
1 ACATTGTATCGATACATGG
772874 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
772893 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:772964 original size:33 final size:33
Alignment explanation
Indices: 772922--772984 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
772912 TACCACTATT
* *
772922 TGTATCGATACATGGTACATTATATCGATATAA
1 TGTATCGATACATGATAAATTATATCGATATAA
*
772955 TGTATCGATACATGATAAATTGTATCGATA
1 TGTATCGATACATGATAAATTATATCGATA
772985 CATTGCTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (33 bp):
TGTATCGATACATGATAAATTATATCGATATAA
Found at i:774569 original size:17 final size:17
Alignment explanation
Indices: 774544--774577 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
774534 ATCTTTTTTT
* *
774544 AGCAGCAAAAAAGTCCC
1 AGCAACAAAAAAATCCC
774561 AGCAACAAAAAAATCCC
1 AGCAACAAAAAAATCCC
774578 TTTGATACTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.29, G:0.12, T:0.06
Consensus pattern (17 bp):
AGCAACAAAAAAATCCC
Found at i:776542 original size:78 final size:79
Alignment explanation
Indices: 776420--776651 Score: 220
Period size: 78 Copynumber: 2.9 Consensus size: 79
776410 TCTTTGATGT
* * *
776420 TTTTATTTTTAAAATACCGATTTTCCACCATCGGGGATAGTCCAA-CCTCATTATTTCCAAGGAG
1 TTTTATTTCTAAAATACCGATTTTCCACAATCGAGGATAGTCCAATCC-CATTATTTCCAAGGAG
*
776484 ATACTCCAACCTCGA
65 ATACTCCAACCCCGA
* * * * * * *
776499 TTTTGTTTCTAAAATACTGA-TTTCCACAATTGAGGATATTCCAATCCCATTATTTTCGAGGGGA
1 TTTTATTTCTAAAATACCGATTTTCCACAATCGAGGATAGTCCAATCCCATTATTTCCAAGGAGA
*
776563 TACTCTAACCCCGA
66 TACTCCAACCCCGA
* * ** * * * * *
776577 TCTTATTTCTAAAATACCAATTTTCTGCAATC-AGGGATACTCCAA-CTCCGTTATTTTCGAGGG
1 TTTTATTTCTAAAATACCGATTTTCCACAATCGA-GGATAGTCCAATC-CCATTATTTCCAAGGA
776640 GATACTCCAACC
64 GATACTCCAACC
776652 ATGTACCTCG
Statistics
Matches: 127, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
78 64 0.50
79 63 0.50
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (79 bp):
TTTTATTTCTAAAATACCGATTTTCCACAATCGAGGATAGTCCAATCCCATTATTTCCAAGGAGA
TACTCCAACCCCGA
Found at i:779615 original size:19 final size:20
Alignment explanation
Indices: 779591--779643 Score: 99
Period size: 19 Copynumber: 2.7 Consensus size: 20
779581 ATCGATACAA
779591 TGTATCGATACATGCTC-AT
1 TGTATCGATACATGCTCAAT
779610 TGTATCGATACATGCTCAAT
1 TGTATCGATACATGCTCAAT
779630 TGTATCGATACATG
1 TGTATCGATACATG
779644 AAACTAGCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:779697 original size:20 final size:20
Alignment explanation
Indices: 779672--779757 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
779662 CTAAGTGAAA
*
779672 TGTATCGATACATG-GGATAT
1 TGTATCGATACATGAAGA-AT
779692 TGTATCGATACATGAAGAAT
1 TGTATCGATACATGAAGAAT
779712 TGTATCGATAC-------AT
1 TGTATCGATACATGAAGAAT
*
779725 TATATCGATACATGAAGAAT
1 TGTATCGATACATGAAGAAT
779745 TGTATCGATACAT
1 TGTATCGATACAT
779758 TATTCCCAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
13 12 0.22
20 41 0.75
21 2 0.04
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAT
Found at i:779736 original size:33 final size:33
Alignment explanation
Indices: 779694--779760 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
779684 TGGGATATTG
779694 TATCGATACATGAAGAATTGTATCGATACATTA
1 TATCGATACATGAAGAATTGTATCGATACATTA
779727 TATCGATACATGAAGAATTGTATCGATACATTA
1 TATCGATACATGAAGAATTGTATCGATACATTA
779760 T
1 T
779761 TCCCAATAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (33 bp):
TATCGATACATGAAGAATTGTATCGATACATTA
Found at i:781361 original size:3 final size:3
Alignment explanation
Indices: 781353--781381 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
781343 AATCGTTGAA
781353 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
781382 AGAAGTTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:782418 original size:13 final size:13
Alignment explanation
Indices: 782400--782424 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
782390 AGATTGCACA
782400 GTATCGATACATT
1 GTATCGATACATT
782413 GTATCGATACAT
1 GTATCGATACAT
782425 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:782437 original size:20 final size:21
Alignment explanation
Indices: 782412--782464 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
782402 ATCGATACAT
*
782412 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
782432 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
782453 TGTATCGATACA
1 TGTATCGATACA
782465 AGTCATTCGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:788709 original size:13 final size:13
Alignment explanation
Indices: 788691--788726 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
788681 GCATTCTCTA
*
788691 TATCGATACATTG
1 TATCGATACAGTG
788704 TATCGATACAGTG
1 TATCGATACAGTG
788717 TATCGATACA
1 TATCGATACA
788727 AAGGGTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:789201 original size:20 final size:22
Alignment explanation
Indices: 789172--789212 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
789162 CACTCACCAG
*
789172 GTCGCGACC-GGC-ACCCCCAA
1 GTCGCAACCGGGCAACCCCCAA
789192 GTCGCAACCGGGCAACCCCCA
1 GTCGCAACCGGGCAACCCCCA
789213 CACTAGCAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 7 0.39
ACGTcount: A:0.22, C:0.49, G:0.24, T:0.05
Consensus pattern (22 bp):
GTCGCAACCGGGCAACCCCCAA
Found at i:790616 original size:22 final size:22
Alignment explanation
Indices: 790588--790654 Score: 118
Period size: 22 Copynumber: 3.0 Consensus size: 22
790578 AGATATTGCT
790588 AAATTATTTTATTAAGGGGGAG
1 AAATTATTTTATTAAGGGGGAG
790610 AAATTATTTTATTAAGGGGGAG
1 AAATTATTTTATTAAGGGGGAG
790632 AAATT-TTTTGATTAAGGGGGAG
1 AAATTATTTT-ATTAAGGGGGAG
790654 A
1 A
790655 GAAAAGAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.09
22 40 0.91
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (22 bp):
AAATTATTTTATTAAGGGGGAG
Found at i:791228 original size:13 final size:13
Alignment explanation
Indices: 791210--791234 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
791200 AGATTGCACA
791210 GTATCGATACATT
1 GTATCGATACATT
791223 GTATCGATACAT
1 GTATCGATACAT
791235 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:795653 original size:21 final size:20
Alignment explanation
Indices: 795616--795663 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
795606 AAAATTCGTC
*
795616 TCAAAATTTTTCATTTTCACA
1 TCAAAATTATTCATTTT-ACA
*
795637 TCAAAATTATT-AGTTTTTCA
1 TCAAAATTATTCA-TTTTACA
795657 TCAAAAT
1 TCAAAAT
795664 CATCAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.46
Consensus pattern (20 bp):
TCAAAATTATTCATTTTACA
Found at i:795793 original size:21 final size:21
Alignment explanation
Indices: 795751--795794 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
795741 ATCCTTCAAA
* **
795751 TCTTACAATTTAGGTTGTTTT
1 TCTTAAAATTTAGGTTCCTTT
795772 TCTTAAAATTTAGGTTCCTTT
1 TCTTAAAATTTAGGTTCCTTT
795793 TC
1 TC
795795 ACTCATAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.14, G:0.11, T:0.55
Consensus pattern (21 bp):
TCTTAAAATTTAGGTTCCTTT
Found at i:797976 original size:19 final size:20
Alignment explanation
Indices: 797952--798004 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
797942 ATTAATACAA
797952 TGTATCGATACATGCTC-AT
1 TGTATCGATACATGCTCAAT
*
797971 TGTATCGATGCATGCTCAAT
1 TGTATCGATACATGCTCAAT
797991 TGTATCGATACATG
1 TGTATCGATACATG
798005 AAACTAGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:800562 original size:62 final size:62
Alignment explanation
Indices: 800487--800976 Score: 635
Period size: 62 Copynumber: 7.9 Consensus size: 62
800477 TAGTGACATC
* *
800487 TCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTTGTCCT-AGAAGAGTAGGACGCCTTTT
1 TCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCA-AAGAGCAGGACGCCTTTT
* * * *
800549 TCTTTTCAAAGCCCACATGAGTTGGTGGAACCCTTTAGTCCTCAAAGAGCAGGCCACC-TTT
1 TCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
800610 TCTTTTTTAAAGCCAACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTT
1 TC-TTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
800673 CCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGTCTTTT
1 TCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
800735 TCTTTTCAAAGCCTATACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGAACGCCTTTT
1 TCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * * *
800797 TCTTTTCAAATCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGTAGGATGCCTTTTT
1 TCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCC-TTTT
* * * * *
800860 TATTTTCAAAGCCCACATGAGTTGGTGGCACCCTTTAGTCCTCAAAAAGCAAGACGCATTTT
1 TCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTT
** * * *
800922 TC-TTTCAAAAGCCCACACGAGTTGGTTACACCTTTTAGTCCTCAAGGAGTAGGAC
1 TCTTTTC-AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGAC
800977 ACTTTCCTCA
Statistics
Matches: 371, Mismatches: 52, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
61 9 0.02
62 304 0.82
63 58 0.16
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (62 bp):
TCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:801077 original size:44 final size:44
Alignment explanation
Indices: 800982--801095 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 44
800972 AGGACACTTT
* ** *
800982 CCTCATTTCCTTGTTTTCCCTTTGTCCTCAAAGAGCAGGGCGTA
1 CCTCATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCACAGCGCA
*
801026 -CTGCATTTCCTTATTTTCCTTTTGTCCTCAAAGAGCACAGCGCA
1 CCT-CATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCACAGCGCA
* *
801070 CCTCATTT-CTTCCTTTTTCCTTTGTC
1 CCTCATTTCCTT-ATTTTCCCTTTGTC
801096 TTAGAGAGTA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
43 5 0.08
44 52 0.88
45 2 0.03
ACGTcount: A:0.15, C:0.31, G:0.13, T:0.41
Consensus pattern (44 bp):
CCTCATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCACAGCGCA
Found at i:801751 original size:30 final size:30
Alignment explanation
Indices: 801715--801785 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 30
801705 CCTTTCATTG
801715 TATCGATACATTATGGGTTTTACCCAAATA
1 TATCGATACATTATGGGTTTTACCCAAATA
* * *
801745 TATCGATACATTTTGGGTTTTACCCAGATG
1 TATCGATACATTATGGGTTTTACCCAAATA
*
801775 TATCAATACAT
1 TATCGATACAT
801786 CCTTCATTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (30 bp):
TATCGATACATTATGGGTTTTACCCAAATA
Found at i:801799 original size:50 final size:51
Alignment explanation
Indices: 801745--801854 Score: 170
Period size: 51 Copynumber: 2.2 Consensus size: 51
801735 TACCCAAATA
* *
801745 TATCGATACATTTTGGGTTTT-ACCCAGATGTATCAATACA-TCCTTCATTG
1 TATCGATACATTATGGGTTTTAACCCAGATGTATCAATACATTCCTT-AATG
*
801795 TATCGATACATTATGGGTTTTAACCCAGATGTATCAATACATTTCTTAATG
1 TATCGATACATTATGGGTTTTAACCCAGATGTATCAATACATTCCTTAATG
801846 TATCGATAC
1 TATCGATAC
801855 GTTCAAGCAT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
50 20 0.36
51 31 0.56
52 4 0.07
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (51 bp):
TATCGATACATTATGGGTTTTAACCCAGATGTATCAATACATTCCTTAATG
Found at i:802367 original size:13 final size:13
Alignment explanation
Indices: 802349--802373 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
802339 CATAAAATGT
802349 TGTATCGATACAA
1 TGTATCGATACAA
802362 TGTATCGATACA
1 TGTATCGATACA
802374 TATTTTTTTT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:802456 original size:13 final size:13
Alignment explanation
Indices: 802438--802463 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
802428 ATTACTCAAA
802438 TGTATCGATACAT
1 TGTATCGATACAT
802451 TGTATCGATACAT
1 TGTATCGATACAT
802464 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:802514 original size:52 final size:51
Alignment explanation
Indices: 802451--802591 Score: 196
Period size: 52 Copynumber: 2.7 Consensus size: 51
802441 ATCGATACAT
* *
802451 TGTATCGATACATCGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATCTAT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
802503 TGTATCGATACAT-TATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATCTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
802555 TGTATCGATACA-CTATTAAATGTATCGATACATGCAG
1 TGTATCGATACATCTATT--ATGTATCGATACATGCAG
802592 ATAAATTTTC
Statistics
Matches: 80, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (51 bp):
TGTATCGATACATCTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:802599 original size:52 final size:52
Alignment explanation
Indices: 802471--802591 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
802461 CATCGATCTT
*
802471 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
802523 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
802575 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
802592 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:807910 original size:79 final size:79
Alignment explanation
Indices: 807769--808021 Score: 247
Period size: 79 Copynumber: 3.2 Consensus size: 79
807759 TCATTGATGT
* * * * ** * * **
807769 TTTTATTTCTAAAATACCAATTTTTCACCATTGGGGATACTTTAACCCCGTTA-TCTCCGAGGGG
1 TTTTATTTCCAAAATACCAATTTTTCACAATCGAGGATACTCCAATCCCATTAGT-TTTGAGGGG
* *
807833 ATACTCCAACCTTAG
65 ATACTCTAACCTCAG
** * * * * *
807848 TTTTATTTCCAAAATACTGATTTTTCACAATCGGGGATATTCCAATCTCATTATTTTTGAGGGAA
1 TTTTATTTCCAAAATACCAATTTTTCACAATCGAGGATACTCCAATCCCATTAGTTTTGAGGGGA
807913 TACTCTAACCTCAG
66 TACTCTAACCTCAG
* * * * *
807927 TCTCATTTCTAAAATACCAATTTTTCACAATCGAGGATACTCCAATCCCGTTAGTTTTGAGGAGA
1 TTTTATTTCCAAAATACCAATTTTTCACAATCGAGGATACTCCAATCCCATTAGTTTTGAGGGGA
* *
807992 TACTCTAACCCCAT
66 TACTCTAACCTCAG
*
808006 TTTTATCTCCAAAATA
1 TTTTATTTCCAAAATA
808022 TTAAACTTTT
Statistics
Matches: 139, Mismatches: 34, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
79 138 0.99
80 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (79 bp):
TTTTATTTCCAAAATACCAATTTTTCACAATCGAGGATACTCCAATCCCATTAGTTTTGAGGGGA
TACTCTAACCTCAG
Found at i:811121 original size:18 final size:18
Alignment explanation
Indices: 811090--811128 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
811080 CTCTCCTCCT
*
811090 TCTATCATCCCTCATCTC
1 TCTATCATCCCTCATATC
* *
811108 TCTATTATCTCTCATATC
1 TCTATCATCCCTCATATC
811126 TCT
1 TCT
811129 CCTCCTATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.36, G:0.00, T:0.46
Consensus pattern (18 bp):
TCTATCATCCCTCATATC
Found at i:818048 original size:19 final size:21
Alignment explanation
Indices: 818002--818055 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
817992 TTTTAATAAT
818002 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAACAGTAA
* *
818023 ATGTATCGATACATA-AGT-A
1 TTGTATCGATACAAACAGTAA
818042 TTGTATCGATACAA
1 TTGTATCGATACAA
818056 TGTATCGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (21 bp):
TTGTATCGATACAAACAGTAA
Found at i:818061 original size:13 final size:13
Alignment explanation
Indices: 818043--818068 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
818033 ACATAAGTAT
818043 TGTATCGATACAA
1 TGTATCGATACAA
818056 TGTATCGATACAA
1 TGTATCGATACAA
818069 AGCTACCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:829396 original size:33 final size:33
Alignment explanation
Indices: 829359--829425 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
829349 TTCAACGATT
829359 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
829392 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
829425 T
1 T
829426 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:829397 original size:13 final size:13
Alignment explanation
Indices: 829379--829403 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
829369 CATAAAATGT
829379 TGTATCGATACAA
1 TGTATCGATACAA
829392 TGTATCGATACA
1 TGTATCGATACA
829404 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:829485 original size:13 final size:13
Alignment explanation
Indices: 829467--829491 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
829457 ATTACTCACA
829467 TGTATCGATACAT
1 TGTATCGATACAT
829480 TGTATCGATACA
1 TGTATCGATACA
829492 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:829556 original size:52 final size:52
Alignment explanation
Indices: 829500--829620 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
829490 CACTGATCTT
* *
829500 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATAAAA
*
829552 TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATAAAA
829604 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
829621 ATAAATTTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATAAAA
Found at i:836815 original size:15 final size:15
Alignment explanation
Indices: 836795--836828 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
836785 TCCAAACACA
*
836795 AAAAAAAGAAAAAAG
1 AAAAAAACAAAAAAG
*
836810 AAAAAAACAAAACAG
1 AAAAAAACAAAAAAG
836825 AAAA
1 AAAA
836829 TCTCGGTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAAAAAG
Found at i:836901 original size:14 final size:13
Alignment explanation
Indices: 836868--836893 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
836858 CCTACTCTTC
836868 ACAAAAAAAAAAA
1 ACAAAAAAAAAAA
836881 ACAAAAAAAAAAA
1 ACAAAAAAAAAAA
836894 GGGAAAAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
ACAAAAAAAAAAA
Found at i:837874 original size:30 final size:31
Alignment explanation
Indices: 837838--837919 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 31
837828 ATACCTTTTT
837838 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* * * *
837868 AAAGTCCACGACTTAGTGGTATTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* * *
837899 AAAGCCCACAACTCTGTGGCA
1 AAAGTCCACGACTCAGTGGCA
837920 CCTTGTTCCT
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 25 0.60
31 17 0.40
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:837941 original size:33 final size:33
Alignment explanation
Indices: 837890--838664 Score: 776
Period size: 33 Copynumber: 23.1 Consensus size: 33
837880 TTAGTGGTAT
* * *
837890 TTTTTCTTTAAAGCCCACAACTCTGTGGCAC-C
1 TTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
*
837922 TTGTTCCTTTTAAGTCCACAACTCCGTGGCACTC
1 TT-TTCCTTTTAAGCCCACAACTCCGTGGCACTC
*
837956 TTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCACTC
1 -TTTTC-CTTTT--AAGCCCACAACTCCGTGGCACTC
* *
837993 --TT-C---AAAGCCCACAACTCCGTGGTAC-C
1 TTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
*
838019 TTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTC
1 TTTTCCT-TTT-AAGCCCACAACTCCGTGGCACTC
*
838054 TTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA--C
1 -TTTTC-CTTTT--AAGCCCACAACTCCGTGGCACTC
* *
838089 ---T-CTTTAAAGCCCACAACTCCATGGCAC-C
1 TTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
838117 TTCTT-CTGTTTAAAGCCCACAACTCCGTGGCACTC
1 TT-TTCCT-TTT-AAGCCCACAACTCCGTGGCACTC
838152 TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTC
1 -TTTT-CCTTTT--AAGCCCACAACTCCGTGGCACTC
* * *
838189 TTTTCCTTTAAAGCCCACAATTACGTGGCACTC
1 TTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
* *
838222 TTTTCCTTCTAAGCCCACAATTCCGTGGCACTC
1 TTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
* * *
838255 TTTTCTTTTTAAAGCCCACAACTCTGTGGCACCC
1 TTTTCCTTTT-AAGCCCACAACTCCGTGGCACTC
838289 TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTC
1 -TTTT-CCTTTT--AAGCCCACAACTCCGTGGCACTC
* * * *
838326 TTTTCCTTTAAAGCCCACAATTACATGGCACTC
1 TTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
* * * *
838359 TTTTCCTTTAAAGCCCACAATTACATGGCACTC
1 TTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
* *
838392 TTTTCCTTCTAAGCCCACAACTCCGTGGCATTC
1 TTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
* * *
838425 TTTTTCTTTTAAAGCCCACAACTCTGTGGCACAC
1 TTTTCCTTTT-AAGCCCACAACTCCGTGGCACTC
*
838459 TTTTCCTTCTAAGCCCACAACTCCGTGGCACTC
1 TTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
* *
838492 TTTTCCTTCTAAGCCCACAACTCTGTGGCACTC
1 TTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
* *
838525 TTTTTCCTTCTAAGCCCACAACTTCGTGGCACTC
1 -TTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
*
838559 TTTTTCCTTCTAAGCCCACAACTCCGTGGCACTC
1 -TTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
838593 TTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACT-
1 --TTTT-CCTTTT-AAGCCCACAACTCCGTGGCACTC
* * *
838629 TTGTTCTTTTTAAGTCCACAACTTCGTGGCA-TC
1 TT-TTCCTTTTAAGCCCACAACTCCGTGGCACTC
838662 TTT
1 TTT
838665 CACCCTTTCT
Statistics
Matches: 643, Mismatches: 59, Indels: 82
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.00
27 37 0.06
28 3 0.00
29 5 0.01
31 1 0.00
32 8 0.01
33 247 0.38
34 165 0.26
35 33 0.05
36 30 0.05
37 113 0.18
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.33
Consensus pattern (33 bp):
TTTTCCTTTTAAGCCCACAACTCCGTGGCACTC
Found at i:838058 original size:98 final size:96
Alignment explanation
Indices: 837894--838684 Score: 651
Period size: 98 Copynumber: 7.9 Consensus size: 96
837884 TGGTATTTTT
* * * *
837894 TCTTTAAAGCCCACAACTCTGTGGCACCTTGTTCCTTTT-AAGTCCACAACTCCGTGGCACTCTT
1 TCTTCAAAGCCCACAACTCCGTGGCACCTT-TTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
*
837958 TTTCTCTTTTCAAAGCCCACGACTCCGTGGCAC
65 TTTC-CTTTTCAAAGCCCACAACTCCGTGGCAC
*
837991 TCTTCAAAGCCCACAACTCCGTGGTACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTT
1 TCTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTT
*
838056 TTTCTCTTTTCAAAGCCCACGACTCCGTGGCAC
65 TTTC-CTTTTCAAAGCCCACAACTCCGTGGCAC
* * *
838089 TCTTTAAAGCCCACAACTCCATGGCACCTTCTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTT
1 TCTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTT
838154 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC
65 TTT-CCTTTTCAAAGCCCACAACTCCGTGGCAC
* * * * *
838187 TCTTTTCCTTTAAAGCCCACAATTACGTGGCACTCTTTTCCTTCT-AAGCCCACAATTCCGTGGC
1 TC--TT-C---AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTAAAGCCCACAACTCCGTGGC
* *
838251 ACTC-TTTT-CTTTTTAAAGCCCACAACTCTGTGGCACCC
59 ACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCA--C
* * * *
838289 TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA-CTCTTTTCCTTTAAAGCCCACAATTACATG
1 ----T--C--TTCAAAGCCCACAACTCCGTGGCACCT-TTTTCTTTTAAAGCCCACAACTCCGTG
* * *
838353 GCACTC-TTTTCC-TTT-AAAGCCCACAATTACATGGCACTC
57 GCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCA--C
* * *
838392 TTTTCCTTCTAAGCCCACAACTCCGTGGCATTCTTTTTCTTTTAAAGCCCACAACTCTGTGGCAC
1 ---T-CTTCAAAGCCCACAACTCCGTGGCA-CCTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC
* *
838457 AC-TTTTCC--TTCTAAGCCCACAACTCCGTGGCACTC
61 TCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCA--C
* * * *
838492 TTTTCCTTCTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCT-AAGCCCACAACTTCGTGGCA
1 ---T-CTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTAAAGCCCACAACTCCGTGGCA
*
838556 CTCTTTTTCC--TTCTAAGCCCACAACTCCGTGGCAC
60 CTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCAC
* * *
838591 TCTTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCA-CTTTGTTCTTTTTAAGTCCACAACTTCG
1 TC----TT--C----AAAGCCCACAACTCCGTGGCACCTTT-TTCTTTTAAAGCCCACAACTCCG
** *
838655 TGGCA-TCTTTCACCCTTTCTAAAGCCCACA
55 TGGCACTCTTTTTCCTTTTC-AAAGCCCACA
838685 CAAGTCGGTG
Statistics
Matches: 596, Mismatches: 56, Indels: 75
0.82 0.08 0.10
Matches are distributed among these distances:
95 1 0.00
96 5 0.01
97 30 0.05
98 150 0.25
99 29 0.05
100 135 0.23
101 39 0.07
102 11 0.02
103 62 0.10
104 89 0.15
105 29 0.05
106 10 0.02
107 1 0.00
108 5 0.01
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (96 bp):
TCTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
TTCCTTTTCAAAGCCCACAACTCCGTGGCAC
Found at i:838097 original size:27 final size:27
Alignment explanation
Indices: 838067--838154 Score: 95
Period size: 34 Copynumber: 3.0 Consensus size: 27
838057 TTCTCTTTTC
*
838067 AAAGCCCACGACTCCGTGGCACTCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTT
*
838094 AAAGCCCACAACTCCATGGCACCTTCTTCTGTTT
1 AAAGCCCACAACTCCGTGGCA----C-TC--TTT
838128 AAAGCCCACAACTCCGTGGCACTCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTT
838155 TTCCCTTTTC
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
27 22 0.43
29 2 0.04
30 1 0.02
31 1 0.02
32 2 0.04
34 23 0.45
ACGTcount: A:0.24, C:0.36, G:0.15, T:0.25
Consensus pattern (27 bp):
AAAGCCCACAACTCCGTGGCACTCTTT
Found at i:838709 original size:33 final size:33
Alignment explanation
Indices: 838668--838738 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
838658 CATCTTTCAC
838668 CCTT-TCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
*
838700 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
838733 CCTTCT
1 CCTTCT
838739 AAGCCCAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 4 0.11
33 33 0.89
ACGTcount: A:0.27, C:0.35, G:0.17, T:0.21
Consensus pattern (33 bp):
CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
Found at i:838802 original size:49 final size:49
Alignment explanation
Indices: 838738--840122 Score: 1818
Period size: 49 Copynumber: 28.7 Consensus size: 49
838728 GCAACCCTTC
* * * *
838738 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
838787 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
838836 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
838885 TAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
838928 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-T
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
838979 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
839028 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
839077 TAAGTCCAAT-TAAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGT-AGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
839126 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-T
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
839177 TAGGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
839226 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
839275 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
839324 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-CCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
839372 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
839415 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
839467 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAACTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
839516 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
839559 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
839608 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
839651 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
839700 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
839749 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
839798 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-CATCTT
* * *
839847 TAAG-CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
839895 TAAGTCCAATGTAGCTAGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
839944 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
839992 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
840035 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
840087 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
840123 ACATCCTTTT
Statistics
Matches: 1175, Mismatches: 112, Indels: 95
0.85 0.08 0.07
Matches are distributed among these distances:
43 192 0.16
45 4 0.00
47 2 0.00
48 136 0.12
49 675 0.57
50 6 0.01
51 79 0.07
52 81 0.07
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:839547 original size:241 final size:239
Alignment explanation
Indices: 838738--840131 Score: 1890
Period size: 241 Copynumber: 5.8 Consensus size: 239
838728 GCAACCCTTC
* * * *
838738 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* *
838803 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGCACCTT-ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
* * *
838868 ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGGCACCTTTAAGT
130 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
838933 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-T
195 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT-CATCTT
* * *
838979 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* *
839044 GGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAAT-TAAGCTGGCCTTGAATCAGCA
66 GGCCTTGAATCAGCACATTGGCACCTT-ATCTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCA
* *
839108 CATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCC
129 CATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTT--
* * *
839173 ATCTTAGGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TTCATCTT
191 A----A-GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTT
* * * *
839226 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* *
839291 GGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGAATCAGCACATTGGCACC-TTATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
* * * *
839356 ATTGGCACC-CCACCATTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGT
130 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
*
839420 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
195 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT-CATCTT
* *
839467 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAACTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* *
839532 GGCCTTGAATCAGCACATTGGCA-C----CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
66 GGCCTTGAATCAGCACATTGGCACCTTATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACA
*
839592 TTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTC
131 TTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTC
* * *
839657 CAATATCGCTGGCCTTGAATCAGCATATTGGCATC-ATCATCTT
196 CAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTT
* * * *
839700 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * *
839765 GGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
66 GGCCTTGAATCAGCACATTGGCACC-TTATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
* * * *
839830 ATTGGCA-CTTGCACCATTAAG-CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
130 ATTGGCACCTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----C
* * * *
839893 TTTAAGTCCAATGTAGCTAGCCTTGACTCAGCACATTGGCACC-TTCATCTT
188 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTT
*
839944 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
840008 GGCCTTGAATCAGCACATTGGCA-C----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
66 GGCCTTGAATCAGCACATTGGCACCTTATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACA
* *
840068 TCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
131 TTGGCACC--TT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
840132 TTCATCATCT
Statistics
Matches: 1030, Mismatches: 90, Indels: 71
0.86 0.08 0.06
Matches are distributed among these distances:
233 90 0.09
234 2 0.00
235 40 0.04
236 90 0.09
237 38 0.04
238 70 0.07
239 48 0.05
240 14 0.01
241 289 0.28
242 4 0.00
243 44 0.04
244 86 0.08
245 3 0.00
246 46 0.04
247 127 0.12
248 4 0.00
249 35 0.03
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (239 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACCTTATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACA
TTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTC
CAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTT
Found at i:841034 original size:33 final size:33
Alignment explanation
Indices: 840997--841063 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
840987 TTCAACGATT
840997 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
841030 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
841063 T
1 T
841064 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:841035 original size:13 final size:13
Alignment explanation
Indices: 841017--841041 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
841007 CATAAAATGT
841017 TGTATCGATACAA
1 TGTATCGATACAA
841030 TGTATCGATACA
1 TGTATCGATACA
841042 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:841123 original size:13 final size:13
Alignment explanation
Indices: 841105--841129 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
841095 ATTACTCACA
841105 TGTATCGATACAT
1 TGTATCGATACAT
841118 TGTATCGATACA
1 TGTATCGATACA
841130 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Done.