Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 321 of 352
Found at i:104240014 original size:31 final size:30
Alignment explanation
Indices: 104239962--104240020 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
104239952 TGAAATTCTA
104239962 AAAGATAAATAATAAATAATGAAAGATAAGT
1 AAAGATAAATAATAAATAATGAAA-ATAAGT
* *
104239993 AAAGATAAGTAA-AGATAAATGAAAATAA
1 AAAGATAAATAATAAAT-AATGAAAATAA
104240021 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (30 bp):
AAAGATAAATAATAAATAATGAAAATAAGT
Found at i:104240020 original size:20 final size:19
Alignment explanation
Indices: 104239962--104240020 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
104239952 TGAAATTCTA
104239962 AAAGATAAATAATAAATAATG
1 AAAGATAAAT-A-AAATAATG
*
104239983 AAAGATAAGTAAAGATAA-G
1 AAAGATAAATAAA-ATAATG
104240002 TAAAGATAAATGAAAATAA
1 -AAAGATAAAT-AAAATAA
104240021 ATCCTAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 3 0.09
20 18 0.55
21 12 0.36
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (19 bp):
AAAGATAAATAAAATAATG
Found at i:104240931 original size:18 final size:18
Alignment explanation
Indices: 104240908--104241009 Score: 105
Period size: 18 Copynumber: 5.3 Consensus size: 18
104240898 ACATCGTGAT
104240908 CTGAAGCCCAAAGGCTAA
1 CTGAAGCCCAAAGGCTAA
*
104240926 CTGAAGCACACAAGTGCTAAA
1 CTGAAGCCCA-AAG-GCT-AA
*
104240947 CAGAAGCCCAAAGGCTAA
1 CTGAAGCCCAAAGGCTAA
*
104240965 CTGAAGCACACAAGTGCTAAA
1 CTGAAGCCCA-AAG-GCT-AA
* *
104240986 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCAAAGGCTAA
104241004 CTGAAG
1 CTGAAG
104241010 TTGATCAGAG
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
18 26 0.38
19 12 0.17
20 12 0.17
21 19 0.28
ACGTcount: A:0.40, C:0.25, G:0.24, T:0.11
Consensus pattern (18 bp):
CTGAAGCCCAAAGGCTAA
Found at i:104240953 original size:21 final size:21
Alignment explanation
Indices: 104240928--104240992 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
104240918 AAGGCTAACT
104240928 GAAGCACACAAGTGCTAAACA
1 GAAGCACACAAGTGCTAAACA
* *
104240949 GAAGCCCA-AAG-GCT-AACT
1 GAAGCACACAAGTGCTAAACA
*
104240967 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACA
104240988 GAAGC
1 GAAGC
104240993 CCGAAGGCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
18 10 0.27
19 6 0.16
20 6 0.16
21 15 0.41
ACGTcount: A:0.43, C:0.25, G:0.23, T:0.09
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACA
Found at i:104240964 original size:39 final size:39
Alignment explanation
Indices: 104240910--104241009 Score: 182
Period size: 39 Copynumber: 2.6 Consensus size: 39
104240900 ATCGTGATCT
104240910 GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACA
1 GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACA
*
104240949 GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACA
*
104240988 GAAGCCCGAAGGCTAACTGAAG
1 GAAGCCCAAAGGCTAACTGAAG
104241010 TTGATCAGAG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.41, C:0.25, G:0.24, T:0.10
Consensus pattern (39 bp):
GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACA
Found at i:104253918 original size:27 final size:26
Alignment explanation
Indices: 104253865--104253920 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
104253855 ATTAGTTTTT
104253865 TTTAATATGTATATATTATGTAAATA
1 TTTAATATGTATATATTATGTAAATA
*
104253891 TTTAATAT-TATATTATATATGTATATA
1 TTTAATATGTATA-TAT-TATGTAAATA
104253918 TTT
1 TTT
104253921 TCCTCTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 4 0.15
26 11 0.41
27 12 0.44
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (26 bp):
TTTAATATGTATATATTATGTAAATA
Found at i:104259036 original size:14 final size:15
Alignment explanation
Indices: 104259017--104259049 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
104259007 TCAAAAGCAA
104259017 AAAAAGAAAG-AAAG
1 AAAAAGAAAGAAAAG
104259031 AAAAAGAAAGAAAAG
1 AAAAAGAAAGAAAAG
104259046 AAAA
1 AAAA
104259050 TGGAGAGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAGAAAAG
Found at i:104260837 original size:147 final size:144
Alignment explanation
Indices: 104260593--104261036 Score: 489
Period size: 147 Copynumber: 3.0 Consensus size: 144
104260583 TTAATTCATG
*
104260593 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTT
* ** * **
104260658 CAGTTTATG-TTTCAAAAATTGACTCATTTTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAG
64 CAATTT-TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAG
**
104260722 GTATTCTT-AATTTCTGT
128 GTATT-TTCAATTTCTAC
104260739 TGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 T-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
* *
104260804 AATTTCTAGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGT-ACGCCGA
65 AATTT-T-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGTCACGCTGA
104260868 GGTATTTTCAATTTCTAC
127 GGTATTTTCAATTTCTAC
* * *
104260886 TTTTCAAAAAAATCAACTCATATTGCGAGATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGA
1 TTTTC--AAAAATCAACTC--A-T-----ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
* * * *
104260951 GGTACTTTTAATTTTTGCTTTTCAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCACAG
56 GGTAATTTCAA-TTTTG-TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* *
104261016 GACACACTGAGGTATTTTCAA
117 GTCACGCTGAGGTATTTTCAA
104261037 ATTATGTTTT
Statistics
Matches: 255, Mismatches: 23, Indels: 28
0.83 0.08 0.09
Matches are distributed among these distances:
145 22 0.09
146 8 0.03
147 102 0.40
148 15 0.06
150 1 0.00
151 1 0.00
155 1 0.00
156 48 0.19
157 5 0.02
158 52 0.20
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (144 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
ATTTTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTA
TTTTCAATTTCTAC
Found at i:104260972 original size:83 final size:83
Alignment explanation
Indices: 104260832--104260998 Score: 282
Period size: 83 Copynumber: 2.0 Consensus size: 83
104260822 ATCAACTCAT
*
104260832 ATTGCGAGAGGTGAGTTGAGCCTCGGGGTACGCCGAGGTATTTTCAATTTCTACTTTTCAAAAAA
1 ATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAATTTCTACTTTTCAAAAAA
104260897 ATCAACTCATATTGCGAG
66 ATCAACTCATATTGCGAG
* *
104260915 ATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTACTTTT-AATTTTTGCTTTTCAAAAA
1 ATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTA-TTTTCAATTTCTACTTTTCAAAAA
*
104260979 AATCAATTCATATTGCGAG
65 AATCAACTCATATTGCGAG
104260998 A
1 A
104260999 GGTGAGTTGA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
83 75 0.95
84 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (83 bp):
ATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAATTTCTACTTTTCAAAAAA
ATCAACTCATATTGCGAG
Found at i:104261050 original size:75 final size:72
Alignment explanation
Indices: 104260572--104261046 Score: 501
Period size: 73 Copynumber: 6.3 Consensus size: 72
104260562 TTTAGGTACT
104260572 CTGAGGTATCTTT-AA-TTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 CTGAGGTAT-TTTCAATTTC-TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
104260635 CAGGTCACACG
64 CAGG--ACACG
* * ** * **
104260646 CTGAGGTATTTTCAGTTTATG-TTTCAAAAATTGACTCATTTTGCGAGAGGTGAGTCAAGCCTCA
1 CTGAGGTATTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
104260710 GGTCACG
66 GGACACG
104260717 CTGAGGTATTCTT-AATTTCTGTTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 CTGAGGTATT-TTCAATTTCTG-T-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
104260781 TCAGGACACG
63 TCAGGACACG
*
104260791 CTGAGGTAATTTCAATTTCTAGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 CTGAGGTATTTTCAATTTCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* **
104260856 GGGGTACG
65 AGGACACG
* *
104260864 CCGAGGTATTTTCAATTTCTACTTTTCAAAAAAATCAACTCATATTGCGAGATTGCGAGAGGTGA
1 CTGAGGTATTTTCAATTTCT-GTTTTC--AAAAATCAACTC--A-T-----ATTGCGAGAGGTGA
* *
104260929 GTTGAGCCTCGGGGCACG
55 GTTGAGCCTCAGGACACG
* * *
104260947 CCGAGGTACTTTT-AATTTTTGCTTTTCAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGC
1 CTGAGGTA-TTTTCAATTTCTG-TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
104261011 CACAGGACACA
62 CTCAGGACACG
* *
104261022 CTGAGGTATTTTCAAATTATGTTTT
1 CTGAGGTATTTTCAATTTCTGTTTT
104261047 TCAATTTCTG
Statistics
Matches: 346, Mismatches: 34, Indels: 42
0.82 0.08 0.10
Matches are distributed among these distances:
71 20 0.06
72 2 0.01
73 116 0.34
74 81 0.23
75 56 0.16
77 1 0.00
78 1 0.00
80 1 0.00
81 1 0.00
83 63 0.18
84 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (72 bp):
CTGAGGTATTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
GGACACG
Found at i:104261390 original size:54 final size:56
Alignment explanation
Indices: 104261298--104261409 Score: 165
Period size: 54 Copynumber: 2.0 Consensus size: 56
104261288 TCAATTTCTG
** *
104261298 TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCC
1 TTTTCAATTTATGTTTTTC-AAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCC
*
104261355 TTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCC
1 TTTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCC
104261409 T
1 T
104261410 CAGGGCACGC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 34 0.67
56 13 0.25
57 4 0.08
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (56 bp):
TTTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCC
Found at i:104261437 original size:142 final size:143
Alignment explanation
Indices: 104261078--104261553 Score: 643
Period size: 142 Copynumber: 3.3 Consensus size: 143
104261068 TATATTTCTC
** * * **
104261078 AAAAAAATCAACTCATATTGTGAGAGGTGAGTTAAGCCTC-GGGTCACATGCCAAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGG-CAC--GCTGAGGTATTTTCA
** * * *
104261142 AAATCTGTTTCGCAAATTT-TGTATTTTTCAAAAAGACCAACTCATATTGCGAGAGGTGAGTTGA
63 ATTTCTGTTT-TC-AATTTATG--TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
104261206 GCCTTTTAATTTCTGTTTTTT
124 GCCTTTTAATTTCTG-TTTTT
* * *
104261227 AAAAAAAAATCAACTTATATTGCAAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTCAA
1 --AAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
*
104261292 TTTCTGTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTT
64 TTTCTGTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
104261357 TTAATTTCTGTTTTT
129 TTAATTTCTGTTTTT
*
104261372 -CAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
* *
104261436 TCTGTTTTCAATTTATGTTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTAAGCCTTTT
66 TCTGTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
*
104261501 AATTTCTATTTTT
131 AATTTCTGTTTTT
* *
104261514 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 -AAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCT
104261554 TTTAATTTCT
Statistics
Matches: 295, Mismatches: 26, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
142 134 0.45
144 35 0.12
145 5 0.02
146 53 0.18
147 5 0.02
148 3 0.01
149 20 0.07
151 38 0.13
152 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (143 bp):
AAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
TCTGTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
AATTTCTGTTTTT
Found at i:104261460 original size:14 final size:13
Alignment explanation
Indices: 104261427--104261456 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
104261417 CGCTGAGGTA
*
104261427 TTTTCAATTTCTG
1 TTTTCAATTTATG
104261440 TTTTCAATTTATG
1 TTTTCAATTTATG
104261453 TTTT
1 TTTT
104261457 TCAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:104261604 original size:56 final size:56
Alignment explanation
Indices: 104261440--104261607 Score: 264
Period size: 56 Copynumber: 3.0 Consensus size: 56
104261430 TCAATTTCTG
* * *
104261440 TTTTCAATTTATGTTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTAAGCC
1 TTTT-AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
104261497 TTTTAATTTCTATTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
104261553 TTTTAATTTCTGTTTTTCAAAAAAAGCAACTCATATGGCGAGAGGTGAGTTGAGC
1 TTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
104261608 TTTGGCTCAC
Statistics
Matches: 102, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
56 98 0.96
57 4 0.04
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (56 bp):
TTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:104261672 original size:198 final size:196
Alignment explanation
Indices: 104261311--104261693 Score: 502
Period size: 198 Copynumber: 1.9 Consensus size: 196
104261301 TCAATTTATG
* *
104261311 TTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAA
1 TTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAA
* * * *
104261376 AATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGT
66 AAGCAACTCATATGGCAAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGCTATTTTCAATTTCTAT
* * * **
104261441 TTTCAATTTATGTTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTT
131 TTTCAA-TTATCTCTTT-AAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTT
104261506 CTA
194 CTA
104261509 TTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAA
1 TTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC--A
* * ** *
104261574 AAAAGCAACTCATATGGCGAGAGGTGAGTTGAG-CTTTGGCTCACGTGCTGAGCTATTTTCAATT
64 AAAAGCAACTCATATGGCAAGAAGTGAGTTGAGCCTCAGG-GCAC--GCTGAGCTATTTTCAATT
* * * *
104261638 TCTATTTTTAA-TGTCTCTTT-AAAGAGTCAACTCATATTGCGAGAAATGAGTTAAGC
126 TCTATTTTCAATTATCTCTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGC
104261694 TCAAGATCAC
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
198 91 0.57
199 4 0.03
200 39 0.24
202 26 0.16
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.37
Consensus pattern (196 bp):
TTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAA
AAGCAACTCATATGGCAAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGCTATTTTCAATTTCTAT
TTTCAATTATCTCTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTTCT
A
Found at i:104261817 original size:44 final size:44
Alignment explanation
Indices: 104261754--104261863 Score: 202
Period size: 44 Copynumber: 2.5 Consensus size: 44
104261744 CAGATTTGGA
*
104261754 CTCCCTGAAGTTGCAGTGGAGCATGTTAAAGTCGCGAGTCTTGT
1 CTCCCTGAAGTTGCAGTGGAGCATGTTAAAGTCACGAGTCTTGT
104261798 CTCCCTGAAGTTGCAGTGGAGCATGTTAAAGTCACGAGTCTTGT
1 CTCCCTGAAGTTGCAGTGGAGCATGTTAAAGTCACGAGTCTTGT
*
104261842 CTCCCTGAAGTTGCAGTAGAGC
1 CTCCCTGAAGTTGCAGTGGAGC
104261864 TGATCGAGGA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (44 bp):
CTCCCTGAAGTTGCAGTGGAGCATGTTAAAGTCACGAGTCTTGT
Found at i:104262880 original size:30 final size:30
Alignment explanation
Indices: 104262845--104262914 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
104262835 CCACCGTACA
104262845 CGGTGGCCGGCGCCAGCTCCGGCGAGGGTC
1 CGGTGGCCGGCGCCAGCTCCGGCGAGGGTC
104262875 CGGTGGCCGGCGCCAGCTCCGGCGAGGGTC
1 CGGTGGCCGGCGCCAGCTCCGGCGAGGGTC
104262905 CGGTGGCCGG
1 CGGTGGCCGG
104262915 GCTGCCCACC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.06, C:0.36, G:0.49, T:0.10
Consensus pattern (30 bp):
CGGTGGCCGGCGCCAGCTCCGGCGAGGGTC
Found at i:104268365 original size:13 final size:13
Alignment explanation
Indices: 104268347--104268371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104268337 GTATTTGAAA
104268347 AAATAAAAAAACG
1 AAATAAAAAAACG
104268360 AAATAAAAAAAC
1 AAATAAAAAAAC
104268372 TAGTTGTAAA
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:0.80, C:0.08, G:0.04, T:0.08
Consensus pattern (13 bp):
AAATAAAAAAACG
Found at i:104268534 original size:17 final size:17
Alignment explanation
Indices: 104268511--104268552 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
104268501 GTAATACCTA
104268511 AAATATAA-T-AATAATG
1 AAATATAAGTAAATAA-G
104268527 AAAGTATAAGTAAATAAG
1 AAA-TATAAGTAAATAAG
104268545 AAATATAA
1 AAATATAA
104268553 ATAGATGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 10 0.43
18 5 0.22
19 5 0.22
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (17 bp):
AAATATAAGTAAATAAG
Found at i:104268731 original size:27 final size:27
Alignment explanation
Indices: 104268607--104268800 Score: 115
Period size: 27 Copynumber: 7.0 Consensus size: 27
104268597 TAGGCATAAT
* * * *
104268607 ACAATAGTAATAGTAATTACAAAAATG
1 ACAATAGTAATAATAATAATAAAAATA
* *
104268634 ATAATAGTAATAA-AATAAGTTAATAATA
1 ACAATAGTAATAATAATAA--TAAAAATA
* ** * *
104268662 ATAACCGTAGTAGTAATAATAAAAAT-
1 ACAATAGTAATAATAATAATAAAAATA
* * *
104268688 ATAATAGTAATAATAATACTAAATATA
1 ACAATAGTAATAATAATAATAAAAATA
*
104268715 ACAATAGTAATATTAATAATAAAAATAA
1 ACAATAGTAATAATAATAATAAAAAT-A
** * * *
104268743 TAGCAATAAAAATAAAAATAATAACAATG
1 -A-CAATAGTAATAATAATAATAAAAATA
*
104268772 ACAATAAAG-AATAATAATAATAATAATA
1 ACAAT--AGTAATAATAATAATAAAAATA
104268800 A
1 A
104268801 TAATGATAAT
Statistics
Matches: 127, Mismatches: 31, Indels: 17
0.73 0.18 0.10
Matches are distributed among these distances:
26 24 0.19
27 43 0.34
28 33 0.26
29 7 0.06
30 20 0.16
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (27 bp):
ACAATAGTAATAATAATAATAAAAATA
Found at i:104269017 original size:22 final size:22
Alignment explanation
Indices: 104268989--104269067 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
104268979 GTAATAAATA
104268989 AATAATAATAGTAAATAATAAG
1 AATAATAATAGTAAATAATAAG
*
104269011 AATAATAATAG-AAATAAAAAAG
1 AATAATAATAGTAAAT-AATAAG
* * *
104269033 ATTAATAATAAT-AATAATGATG
1 AATAATAATAGTAAATAAT-AAG
*
104269055 -ATGATAATAGTAA
1 AATAATAATAGTAA
104269068 TAGAAAATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
21 14 0.31
22 31 0.69
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (22 bp):
AATAATAATAGTAAATAATAAG
Found at i:104269220 original size:3 final size:3
Alignment explanation
Indices: 104268634--104269201 Score: 134
Period size: 3 Copynumber: 189.0 Consensus size: 3
104268624 TACAAAAATG
* ** * * *
104268634 ATA ATA GTA ATA A-A ATA AGTTA ATA ATA ATA ACC GTA GTA GTA ATA
1 ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
104268680 ATA AAA AT- ATA ATA GTA ATA ATA ATA CTA A-A TATA ACA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * ** * * * *
104268724 ATA TTA ATA ATA AAA ATA ATA GCA ATA AAA ATA AAA ATA ATA ACA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
104268772 ACA ATAA AGA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATG ATGA A-A
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* ** * * * * *
104268818 AT- ATGA GTA ACC ATA ATC ACA A-A TTT ATT ATAA ATA ATAA ATA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT-A ATA ATA
* * * * * ** *
104268864 ATA ATA ATG ATA GTC TTA ATA ATG ATA ACG ACA ATA A-A A-A AGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
** * * *
104268908 GGA ATA ATA ATG ATA ATA TATA A-A ATA ATA ATA ATT GTA A-A A-A
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * ** ** *
104268951 GATA ATA AGA ATA GTA GCA ATA ATA AGG GTA ATAA ATAA ATA ATA ATA
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A ATA ATA ATA
* * * *
104268999 GTAA ATA ATA AGA ATA ATA ATA GA-A ATA A-A A-A AGA TTA ATA ATA
1 AT-A ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
104269043 ATA ATA ATG ATG ATG ATA ATA GTA ATA GAAA ATA A-A A-A GATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA
* * * * * * * **
104269088 GTA AT- ATA GA-A ATA GTA ATA ATA GTC ATA AAA ACA AAA ATA ACG
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
104269132 GTA ATA ATA ATAA ATA GTA ATA ATA ACA ATA AT- ATAA ATA ATA AT-
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
104269177 ATA CAT- ATGA ATA ATA ATA ATA ATA
1 ATA -ATA AT-A ATA ATA ATA ATA ATA
104269202 GCAATAATTT
Statistics
Matches: 402, Mismatches: 125, Indels: 76
0.67 0.21 0.13
Matches are distributed among these distances:
2 36 0.09
3 325 0.81
4 38 0.09
5 3 0.01
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:104269788 original size:6 final size:6
Alignment explanation
Indices: 104269777--104269812 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
104269767 CCAAAAAAGG
104269777 TATTTT TATTTT TATTTT TATTTT TATTTTT TATTT
1 TATTTT TATTTT TATTTT TATTTT TA-TTTT TATTT
104269813 ATAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:104269800 original size:18 final size:19
Alignment explanation
Indices: 104269777--104269812 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
104269767 CCAAAAAAGG
104269777 TATTTTTA-TTTTTATTTT
1 TATTTTTATTTTTTATTTT
104269795 TATTTTTATTTTTTATTT
1 TATTTTTATTTTTTATTT
104269813 ATAATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (19 bp):
TATTTTTATTTTTTATTTT
Found at i:104269901 original size:21 final size:21
Alignment explanation
Indices: 104269875--104269914 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
104269865 ATTCGAAAAG
* *
104269875 AAAAGAAATAAAATAAAAATA
1 AAAAGAAAGAAAAGAAAAATA
104269896 AAAAGAAAGAAAAGAAAAA
1 AAAAGAAAGAAAAGAAAAA
104269915 ATATATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.07
Consensus pattern (21 bp):
AAAAGAAAGAAAAGAAAAATA
Found at i:104272545 original size:246 final size:246
Alignment explanation
Indices: 104272104--104272812 Score: 1301
Period size: 246 Copynumber: 2.9 Consensus size: 246
104272094 ATTGCAAGAA
104272104 ATTCAAGAGATTCACAAATCATTACTGCATCAACACTGCAAATGCTCTTCAATTCAGGTAAAGAA
1 ATTCAAGAGATTCACAAATCATTACTGCATCAACACTGCAAATGCTCTTCAATTCAGGTAAAGAA
*
104272169 CACAATGTCATTTTCTTTAATCGTGGAAGACAAAATTTCATGGTAACCCTTCCTCTTTCCTCTGA
66 CACAATGTCATTTTCTTTAATCGTGGAAGACAAAATTCCATGGTAACCCTTCCTCTTTCCTCTGA
* * *
104272234 TGCTATTATTTCCTCCAGTTGGTCACAACACGAAACCTCAAGCTGTTTTAAATTTAGCGGCACAC
131 TGCTATTATTTCCTCCAGTTGGTCACAATACGAAACCTCAAGCTGTTCTAAATTTGGCGGCACAC
*
104272299 AGTTTGGAGAGAACAGCCTTTTTAATTCCGGACAAGATATTACATCAAGCC
196 AGTTTGGAGAGAACAACCTTTTTAATTCCGGACAAGATATTACATCAAGCC
104272350 ATTCAAGAGATTCACAAATCATTACTGCATCAACACTGCAAATGCTCTTCAATTCAGGTAAAGAA
1 ATTCAAGAGATTCACAAATCATTACTGCATCAACACTGCAAATGCTCTTCAATTCAGGTAAAGAA
104272415 CACAATGTCATTTTCTTTAATCGTGGAAGACAAAATTCCATGGTAACCCTTCCTCTTTCCTCTGA
66 CACAATGTCATTTTCTTTAATCGTGGAAGACAAAATTCCATGGTAACCCTTCCTCTTTCCTCTGA
* * *
104272480 TGCTATTATTTCCTCCAGTTGGTCACATTTCGAAACCTCAAGCTGTTCTAAATTTGGCAGCACAC
131 TGCTATTATTTCCTCCAGTTGGTCACAATACGAAACCTCAAGCTGTTCTAAATTTGGCGGCACAC
*
104272545 AGTTTGGAGAGAACAACCTTTTTGATTCCGGACAAGATATTACATCAAGCC
196 AGTTTGGAGAGAACAACCTTTTTAATTCCGGACAAGATATTACATCAAGCC
*
104272596 ATTCAAGAGATTCACAAACCATTACTGCATCAACACTGCAAATGCTCTTCAATTCAGGTAAAGAA
1 ATTCAAGAGATTCACAAATCATTACTGCATCAACACTGCAAATGCTCTTCAATTCAGGTAAAGAA
104272661 CACAATGTCATTTTCTTTAATCGTGGAAGACAAAATTCCATGGTAACCCTTCCTCTTTCCTCTGA
66 CACAATGTCATTTTCTTTAATCGTGGAAGACAAAATTCCATGGTAACCCTTCCTCTTTCCTCTGA
* * *
104272726 TGCTATTATTTCCTCCAGTTGGTTACAATCCGAAACCTTAAGCTGTTCTAAATTTGGCGGCACAC
131 TGCTATTATTTCCTCCAGTTGGTCACAATACGAAACCTCAAGCTGTTCTAAATTTGGCGGCACAC
104272791 AGTTTGGAGAGAACAACCTTTT
196 AGTTTGGAGAGAACAACCTTTT
104272813 CGTATATTTT
Statistics
Matches: 448, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
246 448 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (246 bp):
ATTCAAGAGATTCACAAATCATTACTGCATCAACACTGCAAATGCTCTTCAATTCAGGTAAAGAA
CACAATGTCATTTTCTTTAATCGTGGAAGACAAAATTCCATGGTAACCCTTCCTCTTTCCTCTGA
TGCTATTATTTCCTCCAGTTGGTCACAATACGAAACCTCAAGCTGTTCTAAATTTGGCGGCACAC
AGTTTGGAGAGAACAACCTTTTTAATTCCGGACAAGATATTACATCAAGCC
Found at i:104277457 original size:6 final size:6
Alignment explanation
Indices: 104277446--104277470 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
104277436 GTATAAAAAG
104277446 TAAGCA TAAGCA TAAGCA TAAGCA T
1 TAAGCA TAAGCA TAAGCA TAAGCA T
104277471 TAATATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (6 bp):
TAAGCA
Found at i:104285052 original size:15 final size:15
Alignment explanation
Indices: 104285034--104285065 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
104285024 AATAATACTA
104285034 AATATATATATACAT
1 AATATATATATACAT
*
104285049 AATATATGTATACAT
1 AATATATATATACAT
104285064 AA
1 AA
104285066 CATGTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (15 bp):
AATATATATATACAT
Found at i:104285292 original size:22 final size:20
Alignment explanation
Indices: 104285259--104285300 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
104285249 CTAATAACAT
104285259 TAAAAATATATACATAATATA
1 TAAAAATATATACAT-ATATA
104285280 TAAAATATATATACATATATA
1 TAAAA-ATATATACATATATA
104285301 CATATATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAATATATACATATATA
Found at i:104285300 original size:30 final size:28
Alignment explanation
Indices: 104285263--104285328 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 28
104285253 TAACATTAAA
104285263 AATATATACATAATATATA-AAAT-ATATAT
1 AATATATACAT-ATAT-TAGAAATGATA-AT
104285292 ACATATATACATATATTAGAAATGATAAT
1 A-ATATATACATATATTAGAAATGATAAT
104285321 AATATATA
1 AATATATA
104285329 AAAAAACTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
28 9 0.26
29 12 0.35
30 13 0.38
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (28 bp):
AATATATACATATATTAGAAATGATAAT
Found at i:104285422 original size:25 final size:26
Alignment explanation
Indices: 104285394--104285444 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
104285384 TGTTAGAAAT
104285394 ATAC-AATATAG-TATTAGAAATATAC
1 ATACAAATATAGTTATTA-AAATATAC
104285419 ATACATAATATAGTTATTAAAATATA
1 ATACA-AATATAGTTATTAAAATATA
104285445 TATATACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 4 0.17
27 14 0.61
28 5 0.22
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (26 bp):
ATACAAATATAGTTATTAAAATATAC
Found at i:104285455 original size:29 final size:27
Alignment explanation
Indices: 104285398--104285526 Score: 113
Period size: 29 Copynumber: 4.7 Consensus size: 27
104285388 AGAAATATAC
*
104285398 AATATAGTATTAGAAATATACATACAT
1 AATATAGTATTAAAAATATACATACAT
*
104285425 AATATAGTTATTAAAATATATATATACAT
1 AATATAG-TATTAAAA-ATATACATACAT
* * * *
104285454 AAGATAATATGTAAGAAAAAATACATAAAT
1 AATATAGTAT-T-A-AAAATATACATACAT
* *
104285484 AATATAGTATTGAAAATAT--GTACAT
1 AATATAGTATTAAAAATATACATACAT
104285509 AATATA-TA-TAAAAATATA
1 AATATAGTATTAAAAATATA
104285527 ATATTAAAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 15
0.74 0.13 0.14
Matches are distributed among these distances:
23 8 0.10
24 2 0.02
25 10 0.12
27 13 0.16
28 10 0.12
29 18 0.22
30 18 0.22
31 3 0.04
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (27 bp):
AATATAGTATTAAAAATATACATACAT
Found at i:104285536 original size:14 final size:13
Alignment explanation
Indices: 104285509--104285578 Score: 51
Period size: 14 Copynumber: 5.5 Consensus size: 13
104285499 ATATGTACAT
104285509 AATAT-ATATAAA
1 AATATAATATAAA
104285521 AATATAATATTAAA
1 AATATAATA-TAAA
* *
104285535 AATAT-ATA-CAT
1 AATATAATATAAA
104285546 AATATAA-AGTTAAA
1 AATATAATA--TAAA
104285560 AATA-ATATATAAA
1 AATATA-ATATAAA
104285573 AATATA
1 AATATA
104285579 TACATAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
11 7 0.16
12 6 0.13
13 15 0.33
14 16 0.36
15 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (13 bp):
AATATAATATAAA
Found at i:104285558 original size:25 final size:24
Alignment explanation
Indices: 104285512--104285578 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 24
104285502 TGTACATAAT
104285512 ATATATAAAAATATAATATTAAAA
1 ATATATAAAAATATAATATTAAAA
*
104285536 ATATATACATAATATAA-AGTTAAAAATA
1 ATATATA-AAAATATAATA-TT--AAA-A
104285564 ATATATAAAAATATA
1 ATATATAAAAATATA
104285579 TACATAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
24 8 0.22
25 10 0.28
27 10 0.28
28 8 0.22
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (24 bp):
ATATATAAAAATATAATATTAAAA
Found at i:104285562 original size:62 final size:63
Alignment explanation
Indices: 104285469--104285615 Score: 140
Period size: 62 Copynumber: 2.3 Consensus size: 63
104285459 AATATGTAAG
* * * * * *
104285469 AAAAAATACATAAATAATATAGTATTGAAAATATGTACAT-AATATATATA-AAAATATAATATT
1 AAAAAATATATACATAATATAGAATTAAAAATA-ATACATAAAAATATATACAAAATAT-ATATT
* * *
104285532 -AAAAATATATACATAATATA-AAGTTAAAAATAATATATAAAAATATATACATAATATCTATT
1 AAAAAATATATACATAATATAGAA-TTAAAAATAATACATAAAAATATATACAAAATATATATT
*
104285594 AAAAGAATATACACATAATATA
1 AAAA-AATATATACATAATATA
104285616 TATGCATGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
61 5 0.07
62 39 0.57
63 9 0.13
64 16 0.23
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (63 bp):
AAAAAATATATACATAATATAGAATTAAAAATAATACATAAAAATATATACAAAATATATATT
Found at i:104285582 original size:38 final size:37
Alignment explanation
Indices: 104285478--104285588 Score: 143
Period size: 37 Copynumber: 2.9 Consensus size: 37
104285468 GAAAAAATAC
* * * *
104285478 ATAAATAATATAGTATTGAAAATATGTACATAATATAT
1 ATAAA-AATATAATATTAAAAATATATACATAATATAA
104285516 ATAAAAATATAATATTAAAAATATATACATAATATAA
1 ATAAAAATATAATATTAAAAATATATACATAATATAA
*
104285553 AGTTAAAA-ATAATATATAAAAATATATACATAATAT
1 A-TAAAAATATAATAT-TAAAAATATATACATAATAT
104285589 CTATTAAAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.55
38 30 0.45
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (37 bp):
ATAAAAATATAATATTAAAAATATATACATAATATAA
Found at i:104287401 original size:25 final size:23
Alignment explanation
Indices: 104287372--104287428 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 23
104287362 AGAAGGGGGG
104287372 TTGGGAAGTGAGAGAAGTAAAAGTT
1 TTGGGAAGTGA-AG-AGTAAAAGTT
* *
104287397 TTGGGAGGGTGATGAGTAAAAGTT
1 TTGGGA-AGTGAAGAGTAAAAGTT
104287421 TTGGGAAG
1 TTGGGAAG
104287429 AAAGTGGGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 1 0.04
24 16 0.57
25 7 0.25
26 4 0.14
ACGTcount: A:0.33, C:0.00, G:0.40, T:0.26
Consensus pattern (23 bp):
TTGGGAAGTGAAGAGTAAAAGTT
Found at i:104295315 original size:22 final size:22
Alignment explanation
Indices: 104295272--104295321 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
104295262 AAAAATGGAA
104295272 ATTTTTATAAAATAAATGAGTTT
1 ATTTTTATAAAATAAATGAG-TT
*
104295295 ATTTTTA-AAAA-AAATATAGTT
1 ATTTTTATAAAATAAAT-GAGTT
104295316 ATTTTT
1 ATTTTT
104295322 GAAATTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 12 0.48
22 6 0.24
23 7 0.28
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (22 bp):
ATTTTTATAAAATAAATGAGTT
Found at i:104296454 original size:22 final size:21
Alignment explanation
Indices: 104296412--104296452 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
104296402 TGACACAAAC
104296412 AGTTAAAAACAATAAAAAAAT
1 AGTTAAAAACAATAAAAAAAT
* *
104296433 AGTTGAAAACAGTAAAAAAA
1 AGTTAAAAACAATAAAAAAA
104296453 ATTGAATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (21 bp):
AGTTAAAAACAATAAAAAAAT
Found at i:104296521 original size:27 final size:27
Alignment explanation
Indices: 104296491--104296546 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
104296481 ATAATAAAAT
**
104296491 ACTGGTATTGCCTCTGTCAGAGGTGGC
1 ACTGGTATTGCCTCTACCAGAGGTGGC
*
104296518 ACTGGTCTTGCCTCTACCAGAGGTGGC
1 ACTGGTATTGCCTCTACCAGAGGTGGC
104296545 AC
1 AC
104296547 CAGTTGGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.16, C:0.27, G:0.30, T:0.27
Consensus pattern (27 bp):
ACTGGTATTGCCTCTACCAGAGGTGGC
Found at i:104297213 original size:21 final size:21
Alignment explanation
Indices: 104297187--104297231 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
104297177 CAGATTCAAT
104297187 TTTTTTTACTATTTTCAACTG
1 TTTTTTTACTATTTTCAACTG
* *
104297208 TTTTTTTATTGTTTTCAACTG
1 TTTTTTTACTATTTTCAACTG
104297229 TTT
1 TTT
104297232 GTATCAGGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.11, G:0.07, T:0.67
Consensus pattern (21 bp):
TTTTTTTACTATTTTCAACTG
Found at i:104298193 original size:126 final size:126
Alignment explanation
Indices: 104297976--104298513 Score: 812
Period size: 126 Copynumber: 4.3 Consensus size: 126
104297966 AAAAGCTTCT
* *
104297976 ACGTGGACGCTCTTTTGTTACAGTAGTCTCTGAAAAAATTAA-TTTGAGAAGACGTGTCTGCTCA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAA-TAATTTTGAGAAGACGTGTCTGCGCA
*
104298040 AATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGTAAAAGTACTGAAAGAAGCTCCC
65 AATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
104298102 ACCTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * * * *
104298167 ATAGTGTAAAAAAAGCTTCAAGCAGGATGCATTGTCAGCAAAAGTATTGAAAGAAGCTTCT
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
*
104298228 ACGTAGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * * * *
104298293 ATAGTGGT-AAAAATGCTTCAAGCAGGATGCATTTTTAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * **
104298354 ATGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAAAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
104298419 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATT-TCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
104298479 ACGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
104298514 TAACTTGGGC
Statistics
Matches: 372, Mismatches: 37, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
125 61 0.16
126 309 0.83
127 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:104301692 original size:116 final size:116
Alignment explanation
Indices: 104301512--104302011 Score: 883
Period size: 116 Copynumber: 4.3 Consensus size: 116
104301502 TTTATATTTT
* * *
104301512 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * * *
104301577 AAAATATATAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* *
104301628 ATCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTGTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
104301693 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
104301744 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCTATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATT-
104301809 AAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
65 AAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
104301861 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCTTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
104301926 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
104301977 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
104302012 TGTACAAATA
Statistics
Matches: 368, Mismatches: 15, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
116 254 0.69
117 114 0.31
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:104301918 original size:233 final size:232
Alignment explanation
Indices: 104301512--104302011 Score: 885
Period size: 233 Copynumber: 2.2 Consensus size: 232
104301502 TTTATATTTT
* *
104301512 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
* * *
104301577 AAAATATATAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATTATCACATGAAATAA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATATAATCACATGAAATAA
104301642 TATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTGTATTAAAAATATAAAAGTA
131 TATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTGTATTAAAAATATAAAAGTA
104301707 AATTACAATTACTTTATTTAAAACAACCTTTTATCTA
196 AATTACAATTACTTTATTTAAAACAACCTTTTATCTA
104301744 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAA-TTTCTATTTTATT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTC-ATTTTATT
* *
104301808 AAAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTACATGAAAT
65 -AAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATATAATCACATGAAAT
* *
104301873 AATATAAAAATATTCAAAATGTTGCTTTATTTAAAATAATTTCCATTTTATTAAAAATATAAAAG
129 AATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTGTATTAAAAATATAAAAG
104301938 TAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
194 TAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
104301977 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
104302012 TGTACAAATA
Statistics
Matches: 256, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
231 4 0.02
232 57 0.22
233 195 0.76
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (232 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATATAATCACATGAAATAA
TATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTGTATTAAAAATATAAAAGTA
AATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:104302427 original size:17 final size:18
Alignment explanation
Indices: 104302401--104302440 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
104302391 GATAAAGGAA
*
104302401 ACATATAAGGGCT-AGAT
1 ACATAAAAGGGCTCAGAT
104302418 ACATAAAAGGGCTCAGAT
1 ACATAAAAGGGCTCAGAT
104302436 ACATA
1 ACATA
104302441 CCTGGCATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (18 bp):
ACATAAAAGGGCTCAGAT
Found at i:104302548 original size:30 final size:30
Alignment explanation
Indices: 104302491--104302549 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
104302481 GTTGAACTGT
* **
104302491 TGGGCCCGGTGACTGTGTAGGTTCTGTTGC
1 TGGGCCAGGTGACTGTGTAGGCGCTGTTGC
* *
104302521 TGGGCCAGGTGATTGTGTGGGCGCTGTTG
1 TGGGCCAGGTGACTGTGTAGGCGCTGTTG
104302550 ATGAGCCTGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.07, C:0.17, G:0.44, T:0.32
Consensus pattern (30 bp):
TGGGCCAGGTGACTGTGTAGGCGCTGTTGC
Found at i:104304197 original size:16 final size:16
Alignment explanation
Indices: 104304176--104304207 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
104304166 TTTTTATTTT
*
104304176 AAAAAATAAATTTAGA
1 AAAAAATAAAATTAGA
104304192 AAAAAATAAAATTAGA
1 AAAAAATAAAATTAGA
104304208 GCTTTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (16 bp):
AAAAAATAAAATTAGA
Found at i:104304267 original size:20 final size:22
Alignment explanation
Indices: 104304234--104304280 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
104304224 TAACGAGAGT
104304234 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
*
104304256 TTTGAGA-G-ATTTGAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
104304276 TTTGA
1 TTTGA
104304281 AAGAATATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 16 0.67
21 1 0.04
22 7 0.29
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:104304279 original size:11 final size:11
Alignment explanation
Indices: 104304234--104304285 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
104304224 TAACGAGAGT
*
104304234 TTTGAGAGGAA
1 TTTGAGAGAAA
*
104304245 TTTAAGAGAAA
1 TTTGAGAGAAA
104304256 TTTGAGAG--A
1 TTTGAGAGAAA
104304265 TTTGAGAGAAA
1 TTTGAGAGAAA
*
104304276 TTTGAAAGAA
1 TTTGAGAGAA
104304286 TATTGAAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
9 9 0.26
11 26 0.74
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:104304297 original size:31 final size:31
Alignment explanation
Indices: 104304234--104304297 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
104304224 TAACGAGAGT
* *
104304234 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
104304265 TTTGAGAGAAATTTGAA-AG-AATATTGAAAGA
1 TTTGAGAGAAATTT-AAGAGAAAT-TTGAAAGA
104304296 TT
1 TT
104304298 GAAGATTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 3 0.10
31 24 0.83
32 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:104306960 original size:20 final size:21
Alignment explanation
Indices: 104306935--104306974 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
104306925 AAATCATTGA
104306935 TAAATCCAA-CCAACTTTTCT
1 TAAATCCAAGCCAACTTTTCT
* *
104306955 TAAATCTAAGCCATCTTTTC
1 TAAATCCAAGCCAACTTTTC
104306975 ATAGGCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.38
Consensus pattern (21 bp):
TAAATCCAAGCCAACTTTTCT
Found at i:104308085 original size:12 final size:12
Alignment explanation
Indices: 104308068--104308092 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104308058 TATTATGTAT
104308068 AAAATAAAAGGC
1 AAAATAAAAGGC
104308080 AAAATAAAAGGC
1 AAAATAAAAGGC
104308092 A
1 A
104308093 TATTAACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAATAAAAGGC
Found at i:104308949 original size:107 final size:107
Alignment explanation
Indices: 104308759--104308968 Score: 323
Period size: 107 Copynumber: 2.0 Consensus size: 107
104308749 CACACAAAAA
* *
104308759 TTTAATTCAATGTTTTTCAATTGGCAGGTCTAAGTTAATTAGAATTTTAAAAGTTTTGAGTTAGA
1 TTTAATTCAATGTTTTTCAATTGACAGGTCTAAGTTAATTAGAATTATAAAAGTTTTGAGTTAGA
*
104308824 TTTTGTTTAATAAAAGAATTTTATTCAATC-AAATTTTAAAT
66 TTTTGTTTAATAAAAGAATTTTATTCAACCAAAATTTTAAAT
* * *
104308865 TTTAATTCAATTTTTTTTCAATTGATAGGTCTTAGTTAATTAGAATTATAAAAGTTTTGAGTTAG
1 TTTAATTCAA-TGTTTTTCAATTGACAGGTCTAAGTTAATTAGAATTATAAAAGTTTTGAGTTAG
* * *
104308930 ATTTTGTTTAGTGATAGAATTTTATTCAACCAAAATTTT
65 ATTTTGTTTAATAAAAGAATTTTATTCAACCAAAATTTT
104308969 TTTTTAAGTC
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
106 10 0.11
107 76 0.82
108 7 0.08
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (107 bp):
TTTAATTCAATGTTTTTCAATTGACAGGTCTAAGTTAATTAGAATTATAAAAGTTTTGAGTTAGA
TTTTGTTTAATAAAAGAATTTTATTCAACCAAAATTTTAAAT
Found at i:104309064 original size:18 final size:17
Alignment explanation
Indices: 104309037--104309075 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
104309027 AAAAATTAAA
104309037 AAATATATTTTAAATTT
1 AAATATATTTTAAATTT
**
104309054 AAATAATATTTTTTATTT
1 AAAT-ATATTTTAAATTT
104309072 AAAT
1 AAAT
104309076 TGATGTTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AAATATATTTTAAATTT
Found at i:104312227 original size:25 final size:25
Alignment explanation
Indices: 104312199--104312268 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
104312189 TTCTATTATA
*
104312199 TTCTAGTTTGTCCTGTTCTGATATG
1 TTCTAGTCTGTCCTGTTCTGATATG
* *
104312224 TTCTA-TCCTGTCTTGTTCTAATATG
1 TTCTAGT-CTGTCCTGTTCTGATATG
104312249 TTCT-GCTCTGTCCTGTTCTG
1 TTCTAG-TCTGTCCTGTTCTG
104312269 CTCTATTCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
24 1 0.03
25 35 0.95
26 1 0.03
ACGTcount: A:0.10, C:0.21, G:0.17, T:0.51
Consensus pattern (25 bp):
TTCTAGTCTGTCCTGTTCTGATATG
Found at i:104312756 original size:21 final size:21
Alignment explanation
Indices: 104312718--104312773 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 21
104312708 AATTAAAATT
104312718 TAAAATTTAAATTAAAAAAAC
1 TAAAATTTAAATTAAAAAAAC
* *
104312739 TAAACTTTAAA-TACAAAAA-
1 TAAAATTTAAATTAAAAAAAC
*
104312758 -AATATTTAAA-TAAAAA
1 TAAAATTTAAATTAAAAA
104312774 TTTTCCACCG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 13 0.43
20 7 0.23
21 10 0.33
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAATTTAAATTAAAAAAAC
Found at i:104315193 original size:26 final size:26
Alignment explanation
Indices: 104315164--104315216 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
104315154 CAAAAGAAAC
*
104315164 AGAGAATTAGGAATTAAAGTTACCTG
1 AGAGAATTAGAAATTAAAGTTACCTG
104315190 AGAGAATTAGAAATTAAAGTTACCTG
1 AGAGAATTAGAAATTAAAGTTACCTG
104315216 A
1 A
104315217 TACTTCTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.26
Consensus pattern (26 bp):
AGAGAATTAGAAATTAAAGTTACCTG
Found at i:104318494 original size:26 final size:24
Alignment explanation
Indices: 104318451--104318508 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 24
104318441 CTTGTTTTAA
* *
104318451 TATTTATTTTTATGTTTTTAAATG
1 TATTTATTTTTATATTTTAAAATG
104318475 TATTTGATTTATTATATTTTAAAAT-
1 TATTT-ATTT-TTATATTTTAAAATG
*
104318500 TTTTTATTT
1 TATTTATTT
104318509 AATGAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 9 0.31
25 8 0.28
26 12 0.41
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (24 bp):
TATTTATTTTTATATTTTAAAATG
Found at i:104319067 original size:23 final size:23
Alignment explanation
Indices: 104319041--104319115 Score: 63
Period size: 23 Copynumber: 3.5 Consensus size: 23
104319031 TAAAAACATC
104319041 AAAATATATTTCCTAACAAATTA
1 AAAATATATTTCCTAACAAATTA
* * *
104319064 AAAATA-A----ATAA-AAACATC
1 AAAATATATTTCCTAACAAA-TTA
104319082 AAAATATATTTCCTAACAAATTA
1 AAAATATATTTCCTAACAAATTA
*
104319105 AAAATAAATTT
1 AAAATATATTT
104319116 TAAAAAATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
17 3 0.08
18 10 0.26
19 1 0.03
22 1 0.03
23 20 0.53
24 3 0.08
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATATATTTCCTAACAAATTA
Found at i:104319081 original size:41 final size:41
Alignment explanation
Indices: 104319020--104319113 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
104319010 TATATAATAC
*
104319020 ATTAAAAAT-ACTAAAAACATCAAAATATATTTCCTAACAA
1 ATTAAAAATAAATAAAAACATCAAAATATATTTCCTAACAA
104319060 ATTAAAAATAAATAAAAACATCAAAATATATTTCCTAACAA
1 ATTAAAAATAAATAAAAACATCAAAATATATTTCCTAACAA
104319101 ATTAAAAATAAAT
1 ATTAAAAATAAAT
104319114 TTTAAAAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 9 0.17
41 43 0.83
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.28
Consensus pattern (41 bp):
ATTAAAAATAAATAAAAACATCAAAATATATTTCCTAACAA
Found at i:104319823 original size:27 final size:26
Alignment explanation
Indices: 104319782--104319877 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 26
104319772 TTGTTATTTA
**
104319782 ATTTTAATAGGATTATAATTTAATCAT
1 ATTTTAATAAAATTATAATTTAAT-AT
* *
104319809 ATTTTAATAAAATTATTATTAAATAT
1 ATTTTAATAAAATTATAATTTAATAT
* * *
104319835 AATTTAAAAATAATATATAATTTAATAAC
1 ATTTTAATAA-AAT-TATAATTTAAT-AT
104319864 ATTCTTAATAAAAT
1 ATT-TTAATAAAAT
104319878 AATTATTAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
26 10 0.19
27 23 0.43
28 9 0.17
29 6 0.11
30 6 0.11
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTTTAATAAAATTATAATTTAATAT
Found at i:104319909 original size:18 final size:21
Alignment explanation
Indices: 104319888--104319932 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
104319878 AATTATTAAA
104319888 ATATAA-ATTA-ATAAA-AAT
1 ATATAATATTAGATAAATAAT
104319906 ATATAATATTAGATAAATAAT
1 ATATAATATTAGATAAATAAT
*
104319927 GTATAA
1 ATATAA
104319933 CCTACTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 4 0.17
20 5 0.22
21 8 0.35
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (21 bp):
ATATAATATTAGATAAATAAT
Found at i:104323272 original size:5 final size:6
Alignment explanation
Indices: 104323258--104323282 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
104323248 ATCCTAGCCC
104323258 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
104323283 TTATCCTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:104323424 original size:6 final size:6
Alignment explanation
Indices: 104323413--104323446 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
104323403 ATCCTAGCCC
*
104323413 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAC AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
104323447 CTTTAGATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:104325898 original size:29 final size:28
Alignment explanation
Indices: 104325856--104325928 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 28
104325846 CATGAGATTG
104325856 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGGGTTCAAATAT-TA-A
* * *
104325885 GCACTAAGTGTGCGAGTTCGACTATTAA
1 GCACTAAGTGTGCGGGTTCAAATATTAA
104325913 GCACTAAGTGTGCGGG
1 GCACTAAGTGTGCGGG
104325929 CTTATTATAC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 16 0.41
29 22 0.56
30 1 0.03
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.27
Consensus pattern (28 bp):
GCACTAAGTGTGCGGGTTCAAATATTAA
Found at i:104333861 original size:28 final size:27
Alignment explanation
Indices: 104333821--104333891 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
104333811 CATGAGATTG
104333821 GCACTAAGTGTGCGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGGTTCAAATAT-TA-A
* *
104333849 GCACTAAGTGTGCGAGTTCGACTATTAA
1 GCACTAAGTGTGCG-GTTCAAATATTAA
104333877 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
104333892 GCTTATTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 1 0.03
28 29 0.74
29 8 0.21
30 1 0.03
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGGTTCAAATATTAA
Found at i:104336080 original size:43 final size:43
Alignment explanation
Indices: 104336033--104336135 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 43
104336023 AATCAAAATA
* * *
104336033 GGGACACATGCTCGTGTGCCCAAGCCGTGTGAGTCTCGAAGTT
1 GGGACACACGCTCGTGTGCCCAAGCCGCGTGACTCTCGAAGTT
* *
104336076 GGGACACACGC-CTGTGTGTCCAAGCCGCGTGACTCTTGAAGTT
1 GGGACACACGCTC-GTGTGCCCAAGCCGCGTGACTCTCGAAGTT
*
104336119 GGGACACACGGTCGTGT
1 GGGACACACGCTCGTGT
104336136 CTCAGTTCAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.02
43 50 0.96
44 1 0.02
ACGTcount: A:0.18, C:0.26, G:0.33, T:0.22
Consensus pattern (43 bp):
GGGACACACGCTCGTGTGCCCAAGCCGCGTGACTCTCGAAGTT
Found at i:104336204 original size:30 final size:30
Alignment explanation
Indices: 104336165--104336229 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
104336155 TGACTTCGGT
*
104336165 CACACGCCCATATGTGTTGCCCGCGTATGA
1 CACATGCCCATATGTGTTGCCCGCGTATGA
* * *
104336195 CACATGCCCATGTGTGTTGCCCGTGTGTGA
1 CACATGCCCATATGTGTTGCCCGCGTATGA
104336225 CACAT
1 CACAT
104336230 ACCCCTGTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.18, C:0.31, G:0.25, T:0.26
Consensus pattern (30 bp):
CACATGCCCATATGTGTTGCCCGCGTATGA
Found at i:104336207 original size:28 final size:28
Alignment explanation
Indices: 104336176--104336238 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 28
104336166 ACACGCCCAT
*
104336176 ATGTGTTGCCCGCGTATGACACATGCCC
1 ATGTGTTGCCCGCGTATGACACATACCC
* *
104336204 ATGTGTGTTGCCCGTGTGTGACACATACCC
1 A--TGTGTTGCCCGCGTATGACACATACCC
*
104336234 CTGTG
1 ATGTG
104336239 GCCAGGCCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 5 0.17
30 24 0.83
ACGTcount: A:0.16, C:0.29, G:0.27, T:0.29
Consensus pattern (28 bp):
ATGTGTTGCCCGCGTATGACACATACCC
Found at i:104337111 original size:27 final size:25
Alignment explanation
Indices: 104337081--104337132 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 25
104337071 TTCATATCTC
*
104337081 ATTTCTCATCTCATAATGATTTCTCAT
1 ATTTCTCATCTCAAAAT--TTTCTCAT
* *
104337108 ATTTGTCATTTCAAAATTTTCTCAT
1 ATTTCTCATCTCAAAATTTTCTCAT
104337133 CTCATATTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 8 0.36
27 14 0.64
ACGTcount: A:0.27, C:0.19, G:0.04, T:0.50
Consensus pattern (25 bp):
ATTTCTCATCTCAAAATTTTCTCAT
Found at i:104337132 original size:43 final size:43
Alignment explanation
Indices: 104337082--104337164 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
104337072 TCATATCTCA
* *
104337082 TTTCTCATCTCATAATGATTTCTCATATTTGTCATTTCAAAAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAAAAT
* *
104337125 TTTCTCATCTCATATTCATTTCTCATCTTTGCCATTTCAA
1 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAA
104337165 TATTAATCAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.24, C:0.23, G:0.04, T:0.49
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAAAAT
Found at i:104337585 original size:15 final size:16
Alignment explanation
Indices: 104337565--104337594 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
104337555 TCTCAATACA
104337565 AATATA-TTCATAATC
1 AATATATTTCATAATC
104337580 AATATATTTCATAAT
1 AATATATTTCATAAT
104337595 ATACAAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATTTCATAATC
Found at i:104339996 original size:12 final size:12
Alignment explanation
Indices: 104339979--104340009 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
104339969 GACCACACAC
104339979 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
104339991 CCGTGTGCTAGG
1 CCGTGTGCCAGG
104340003 CCGTGTG
1 CCGTGTG
104340010 AAAACTGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.29, G:0.42, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:104341630 original size:21 final size:21
Alignment explanation
Indices: 104341597--104341674 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 21
104341587 CATTTCTTCC
*
104341597 CTATACAAACCTAGTCAAATT
1 CTATACAAGCCTAGTCAAATT
* ****
104341618 CTATATAAGCCTA-TAGCAGCCC
1 CTATACAAGCCTAGT--CAAATT
104341640 CCTATACAAGCCTAGTCAAATT
1 C-TATACAAGCCTAGTCAAATT
*
104341662 CTATATAAGCCTA
1 CTATACAAGCCTA
104341675 TAGCAGCCCA
Statistics
Matches: 41, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
20 1 0.02
21 22 0.54
22 6 0.15
23 11 0.27
24 1 0.02
ACGTcount: A:0.37, C:0.27, G:0.09, T:0.27
Consensus pattern (21 bp):
CTATACAAGCCTAGTCAAATT
Found at i:104341658 original size:44 final size:44
Alignment explanation
Indices: 104341595--104341683 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
104341585 GTCATTTCTT
104341595 CCCTATACAAACCTAGTCAAATTCTATATAAGCCTATAGCAGCC
1 CCCTATACAAACCTAGTCAAATTCTATATAAGCCTATAGCAGCC
*
104341639 CCCTATACAAGCCTAGTCAAATTCTATATAAGCCTATAGCAGCC
1 CCCTATACAAACCTAGTCAAATTCTATATAAGCCTATAGCAGCC
104341683 C
1 C
104341684 ATACATTTCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.35, C:0.30, G:0.10, T:0.25
Consensus pattern (44 bp):
CCCTATACAAACCTAGTCAAATTCTATATAAGCCTATAGCAGCC
Found at i:104346487 original size:16 final size:16
Alignment explanation
Indices: 104346439--104346488 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
104346429 TCAATATCTG
*
104346439 TAAACACATA-AATAAA
1 TAAAAACATATAAT-AA
*
104346455 TAAAAA-ATAATACTAA
1 TAAAAACAT-ATAATAA
104346471 TAAAAACATATAATAA
1 TAAAAACATATAATAA
104346487 TA
1 TA
104346489 TAATAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 2 0.07
16 22 0.79
17 4 0.14
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAAAACATATAATAA
Found at i:104347725 original size:5 final size:5
Alignment explanation
Indices: 104347717--104347742 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
104347707 ATTTTGTTTA
104347717 TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT T
104347743 TTTTTTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:104358845 original size:75 final size:75
Alignment explanation
Indices: 104358722--104358872 Score: 232
Period size: 75 Copynumber: 2.0 Consensus size: 75
104358712 ATTTGTTGAT
* *
104358722 ACACTAATGAGGAGATAAGGAAGAAAGCATAGTGGTTGTCAAAGAAGACGGTTCACCTAATCGAG
1 ACACTAATAAGGAGATAAGGAAGAAAGCATAATGGTTGTCAAAGAAGACGGTTCACCTAATCGAG
104358787 GCGGAGAGCC
66 GCGGAGAGCC
* * *
104358797 ACACTGATAAGGAGATAAGGATA-AAAGCATAATGGTTGTTAAGGAAGACGGTTCACCTAATCGA
1 ACACTAATAAGGAGATAAGGA-AGAAAGCATAATGGTTGTCAAAGAAGACGGTTCACCTAATCGA
*
104358861 GGTGGAGAGCC
65 GGCGGAGAGCC
104358872 A
1 A
104358873 AAGGGTATAA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
75 68 0.99
76 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.18
Consensus pattern (75 bp):
ACACTAATAAGGAGATAAGGAAGAAAGCATAATGGTTGTCAAAGAAGACGGTTCACCTAATCGAG
GCGGAGAGCC
Found at i:104358892 original size:75 final size:75
Alignment explanation
Indices: 104358731--104358892 Score: 211
Period size: 75 Copynumber: 2.2 Consensus size: 75
104358721 TACACTAATG
* *
104358731 AGGAGATAAGGA-AGAAAGCATAGTGGTTGTCAAAGAAGACGGTTCACCTAATCGAGGCGGAGAG
1 AGGAGAGAAGGATA-AAAGCATAATGGTTGTCAAAGAAGACGGTTCACCTAATCGAGGCGGAGAG
* *
104358795 CCACACTGATA
65 CCAAACGGATA
* * * *
104358806 AGGAGATAAGGATAAAAGCATAATGGTTGTTAAGGAAGACGGTTCACCTAATCGAGGTGGAGAGC
1 AGGAGAGAAGGATAAAAGCATAATGGTTGTCAAAGAAGACGGTTCACCTAATCGAGGCGGAGAGC
*
104358871 CAAAGGGTATA
66 CAAACGG-ATA
104358882 AGGA-AGAAGGA
1 AGGAGAGAAGGA
104358893 GAATAAGTGG
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
75 69 0.90
76 8 0.10
ACGTcount: A:0.39, C:0.12, G:0.32, T:0.17
Consensus pattern (75 bp):
AGGAGAGAAGGATAAAAGCATAATGGTTGTCAAAGAAGACGGTTCACCTAATCGAGGCGGAGAGC
CAAACGGATA
Found at i:104365573 original size:18 final size:18
Alignment explanation
Indices: 104365550--104365596 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
104365540 GCACTCTCCC
*
104365550 TCACTTGATTCATCAGAA
1 TCACTTGAATCATCAGAA
104365568 TCACTTGAATCATCAGAA
1 TCACTTGAATCATCAGAA
*
104365586 TCACTAGAATC
1 TCACTTGAATC
104365597 TATAGCATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (18 bp):
TCACTTGAATCATCAGAA
Found at i:104366790 original size:3 final size:3
Alignment explanation
Indices: 104366782--104366810 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
104366772 TATATAAGGG
104366782 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
104366811 GACTAATAAT
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:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:104377088 original size:49 final size:49
Alignment explanation
Indices: 104377019--104377118 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
104377009 TTACTTGTGC
104377019 AGTTGAGGCCAGTTTTCTCACAATCTAATTCTATTGTTTCTTTCTTTTG
1 AGTTGAGGCCAGTTTTCTCACAATCTAATTCTATTGTTTCTTTCTTTTG
104377068 AGTTGAGGCCAGTTTTCTCACAATCTAATTCTATTGTTTCTTTCTTTTG
1 AGTTGAGGCCAGTTTTCTCACAATCTAATTCTATTGTTTCTTTCTTTTG
104377117 AG
1 AG
104377119 AAGTGCTTCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (49 bp):
AGTTGAGGCCAGTTTTCTCACAATCTAATTCTATTGTTTCTTTCTTTTG
Found at i:104378361 original size:41 final size:41
Alignment explanation
Indices: 104378304--104378386 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
104378294 AAACTAAGGC
104378304 TACACACATGTACTGTTCATGTTTCCACTGTTGAGAACCAT
1 TACACACATGTACTGTTCATGTTTCCACTGTTGAGAACCAT
104378345 TACACACATGTACTGTTCATGTTTCCACTGTTGAGAACCAT
1 TACACACATGTACTGTTCATGTTTCCACTGTTGAGAACCAT
104378386 T
1 T
104378387 CTTTTTGGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (41 bp):
TACACACATGTACTGTTCATGTTTCCACTGTTGAGAACCAT
Found at i:104380038 original size:21 final size:21
Alignment explanation
Indices: 104379997--104380039 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
104379987 GGTGATGCTA
* *
104379997 CAAAAGATAGTTCTGCGGCTG
1 CAAAAGATAGTTCTCCAGCTG
*
104380018 CAAAAGATTGTTCTCCAGCTG
1 CAAAAGATAGTTCTCCAGCTG
104380039 C
1 C
104380040 TGATAAACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (21 bp):
CAAAAGATAGTTCTCCAGCTG
Found at i:104382732 original size:63 final size:63
Alignment explanation
Indices: 104382654--104382781 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
104382644 CGGATGTCAC
104382654 CTGGTTTGCGTCTTGCCTCCTGCTCCAAGTTCATCCTTCTGTGTTCCAGCATGATTTTCCTGG
1 CTGGTTTGCGTCTTGCCTCCTGCTCCAAGTTCATCCTTCTGTGTTCCAGCATGATTTTCCTGG
104382717 CTGGTTTGCGTCTTGCCTCCTGCTCCAAGTTCATCCTTCTGTGTTCCAGCATGATTTTCCTGG
1 CTGGTTTGCGTCTTGCCTCCTGCTCCAAGTTCATCCTTCTGTGTTCCAGCATGATTTTCCTGG
104382780 CT
1 CT
104382782 TCTTTAATCA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.09, C:0.30, G:0.20, T:0.40
Consensus pattern (63 bp):
CTGGTTTGCGTCTTGCCTCCTGCTCCAAGTTCATCCTTCTGTGTTCCAGCATGATTTTCCTGG
Found at i:104384319 original size:82 final size:83
Alignment explanation
Indices: 104384164--104384328 Score: 314
Period size: 82 Copynumber: 2.0 Consensus size: 83
104384154 TCTCTCCCTC
*
104384164 CCATATCCCTTAGTTCAGCATGTTGACCCCCATTTTTTTTTATAACTACTTTTTGATAAGTTCAT
1 CCATATCCCTTAGTTCAGCATGTTGACCCCCATTTTTTTTTATAACCACTTTTTGATAAGTTCAT
104384229 TCAAAAAGCTATAAGTAA
66 TCAAAAAGCTATAAGTAA
104384247 CCATATCCCTTAGTTCAGCATGTTGACCCCCA-TTTTTTTTATAACCACTTTTTGATAAGTTCAT
1 CCATATCCCTTAGTTCAGCATGTTGACCCCCATTTTTTTTTATAACCACTTTTTGATAAGTTCAT
104384311 TCAAAAAGCTATAAGTAA
66 TCAAAAAGCTATAAGTAA
104384329 AGGTTTGAAC
Statistics
Matches: 81, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
82 49 0.60
83 32 0.40
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (83 bp):
CCATATCCCTTAGTTCAGCATGTTGACCCCCATTTTTTTTTATAACCACTTTTTGATAAGTTCAT
TCAAAAAGCTATAAGTAA
Found at i:104388150 original size:24 final size:21
Alignment explanation
Indices: 104388104--104388144 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
104388094 TTCCTATGCT
104388104 CTGCCTCCCTCGCTGCTGCCG
1 CTGCCTCCCTCGCTGCTGCCG
*
104388125 CTGCCTCCCTCTCTGCTGCC
1 CTGCCTCCCTCGCTGCTGCC
104388145 TCCGCTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.54, G:0.20, T:0.27
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCTGCCG
Found at i:104388581 original size:13 final size:14
Alignment explanation
Indices: 104388556--104388584 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
104388546 TGATGAATTG
104388556 AATTAAACAATTAT
1 AATTAAACAATTAT
104388570 AATTAAAC-ATTAT
1 AATTAAACAATTAT
104388583 AA
1 AA
104388585 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:104388787 original size:16 final size:17
Alignment explanation
Indices: 104388750--104388788 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
104388740 AAAATATTTT
*
104388750 TTAATATTAGAAAGTTA
1 TTAATATTAGAAAGTAA
*
104388767 TTAATATTTGAAAG-AA
1 TTAATATTAGAAAGTAA
104388783 TTAATA
1 TTAATA
104388789 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (17 bp):
TTAATATTAGAAAGTAA
Found at i:104392160 original size:9 final size:9
Alignment explanation
Indices: 104392146--104392371 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
104392136 TATTTAAGTA
104392146 TTATGTAAG
1 TTATGTAAG
104392155 TTATGTAAG
1 TTATGTAAG
*
104392164 TTATGATATG
1 TTATG-TAAG
* * *
104392174 ATATAT-AT
1 TTATGTAAG
*
104392182 TTATGTAAA
1 TTATGTAAG
* *
104392191 TTATAT-AT
1 TTATGTAAG
*
104392199 TTATCTAAG
1 TTATGTAAG
*
104392208 TTATATAAG
1 TTATGTAAG
104392217 TTATGTAAG
1 TTATGTAAG
*
104392226 TTATGTAAA
1 TTATGTAAG
*
104392235 TTATGATATAAAA
1 TTATG---T-AAG
*
104392248 TATATTTAAG
1 T-TATGTAAG
104392258 TATTATGTAAG
1 --TTATGTAAG
104392269 TTATGTAAG
1 TTATGTAAG
* *
104392278 TTATAT-AT
1 TTATGTAAG
*
104392286 TTATCTAAG
1 TTATGTAAG
*
104392295 TTATATAAG
1 TTATGTAAG
*
104392304 TTATATAAG
1 TTATGTAAG
*
104392313 TTATGTATG
1 TTATGTAAG
*
104392322 TTATATAAG
1 TTATGTAAG
104392331 TTATGTAAG
1 TTATGTAAG
* *
104392340 TTATATATG
1 TTATGTAAG
**
104392349 TTACATAAG
1 TTATGTAAG
*
104392358 TTATGTAAA
1 TTATGTAAG
104392367 TTATG
1 TTATG
104392372 ATATCAAATA
Statistics
Matches: 171, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
8 16 0.09
9 130 0.76
10 8 0.05
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:104392225 original size:18 final size:18
Alignment explanation
Indices: 104392146--104392371 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
104392136 TATTTAAGTA
*
104392146 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATATAAG
* * *
104392164 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
104392182 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
104392199 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
104392217 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
104392235 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
104392258 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
104392278 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
104392295 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
104392313 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
104392331 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
** * *
104392349 TTACATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
104392367 TTATG
1 TTATG
104392372 ATATCAAATA
Statistics
Matches: 164, Mismatches: 34, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
17 37 0.23
18 94 0.57
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.04
25 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:104392256 original size:114 final size:114
Alignment explanation
Indices: 104392133--104392343 Score: 318
Period size: 114 Copynumber: 1.9 Consensus size: 114
104392123 AGGATATGAT
* *
104392133 ATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATAT-ATTTATGTAAATTATAT
1 ATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTATATAAATTATAT
*
104392197 -ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
64 AAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
* * *
104392247 ATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATATAA
1 ATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATATAAATTATATAA
* *
104392312 GTTATGTATGTTATATAAGTTATGTAAGTTAT
66 GTTATCTAAGTTATATAAGTTATGTAAGTTAT
104392344 ATATGTTACA
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
112 4 0.05
113 18 0.21
114 65 0.75
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (114 bp):
ATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATATAAATTATATAA
GTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
Found at i:104392366 original size:132 final size:131
Alignment explanation
Indices: 104392155--104392402 Score: 354
Period size: 132 Copynumber: 1.9 Consensus size: 131
104392145 ATTATGTAAG
* * * *
104392155 TTATGTAAGTTATGATATGATATATATTTATGTAAATTATATATTTATCTAAGTTATATAAGTTA
1 TTATCTAAGTTATGATAAGATATATAGTTATGTAAATTATATAGTTATCTAAGTTATATAAGTTA
**
104392220 TGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATA
66 CATAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATA
104392285 T
131 T
* ** * *
104392286 TTATCTAAGTTAT-ATAAGTTATATAAGTTATGTATGTTATATAAGTTATGTAAGTTATATATGT
1 TTATCTAAGTTATGATAAGATATAT-AGTTATGTAAATTATAT-AGTTATCTAAGTTATATAAGT
* *
104392350 TACATAAGTTATGTAAATTATGATATCAAATATATTTATGTATTATGTAAGTT
64 TACATAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTT
104392403 TTTTATTTCA
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
130 9 0.09
131 26 0.25
132 67 0.66
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (131 bp):
TTATCTAAGTTATGATAAGATATATAGTTATGTAAATTATATAGTTATCTAAGTTATATAAGTTA
CATAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATA
T
Found at i:104392496 original size:15 final size:15
Alignment explanation
Indices: 104392476--104392522 Score: 94
Period size: 15 Copynumber: 3.1 Consensus size: 15
104392466 AAGTAGCGGG
104392476 ATTAAATAATATTTA
1 ATTAAATAATATTTA
104392491 ATTAAATAATATTTA
1 ATTAAATAATATTTA
104392506 ATTAAATAATATTTA
1 ATTAAATAATATTTA
104392521 AT
1 AT
104392523 CACATGGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:104392926 original size:14 final size:14
Alignment explanation
Indices: 104392904--104392943 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
104392894 TTTTTAACTA
104392904 AAAAT-ATAATTAT
1 AAAATAATAATTAT
**
104392917 AAAATAATAACAAT
1 AAAATAATAATTAT
104392931 AAAATAATAATTA
1 AAAATAATAATTA
104392944 ATTTATAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAATAATAATTAT
Found at i:104393793 original size:213 final size:213
Alignment explanation
Indices: 104393486--104397915 Score: 6298
Period size: 213 Copynumber: 20.8 Consensus size: 213
104393476 ATCTGTGTTG
* * * *
104393486 TTTT-CCAGAAATCATGGGCACCATGGAGGAACTATATGAACTTGATTTAAGCGAAACGGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* * * * * **
104393550 AAAGAATTACCATCCTCAATTGGCAATCTTACTGGTCTTTACTATTGGAGAATGACCAACTGTAA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
*
104393615 AAACCTTGTTTGCCTTCCTGATAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
104393680 GTTGCTCGAGATTGGAGA
196 GTTGCTCGAGATTGGAGA
* * *
104393698 TTTTCCCAGAAGTCATGGACACCATGAAGGAACTGTATGAACTTGATTTAAGTGGAACAGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* * ** * * * * *
104393763 AAGGAATTATCATCCTCATTTGAAAATCTTATTGGTCTTAAGAAATTGAGACTTAAAAACTGTGA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
* * *
104393828 AAACCTTGTCTGCCTTCCTGACAACTTTTATAAATTGAAATCTCTTAAGACACTCGATCTTGAAG
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
104393893 GTTGCTCGAGATTGGAGA
196 GTTGCTCGAGATTGGAGA
* * *
104393911 TTTTCCCAGAAGTCATGGACAACATGGAGGAACTGGATGAACTTGATTTAAGAGGAACGGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* *
104393976 AAGGAATTACCATTCTCAATTGGCAATCTTATTGGTATTAAGTATTTGAGAATGAAAAACTGTAA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
* * *
104394041 AAACCTTGTTTGCCTTCCTGACAGTTTTTATAAATTAAAATCTCTTAAGACATTCGGTCTTGAAG
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
*
104394106 GTTGCTCGAGATTAGAGA
196 GTTGCTCGAGATTGGAGA
* *
104394124 TTTTCCCAGAAGTCATGGACACCATGGACGAACTGTATGAACTT-AGTTTAAGTGGAACGGCTTT
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGA-TTTAAGCGGAACGGCTTT
*
104394188 GAAGGAATTACCA-CTCTCAATTGGCAATCTTATTGGTCTTGAGTATTTG-GTAATGAAAAACTG
65 GAAGGAATTACCATC-CTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAG-AATGAAAAACTG
* * *
104394251 TAAAAACCTTGTTTGCCTTCCTGATAGTTTTTATAAATTGAAATCTCTTAAGACATTCAATCTTG
128 TAAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTG
*
104394316 AAGGTTGCTTGAGATTGGAGA
193 AAGGTTGCTCGAGATTGGAGA
* * ** * *
104394337 TTTTCCCAGAAGTCATGGACACCATGAAGAGG--TTG-ACGGGTCTTGGTTTAAGC-TATACGGC
1 TTTTCCCAGAAGTCATGGACACCATG--GAGGAACTGTA-TGAACTTGATTTAAGCGGA-ACGGC
* *
104394398 TTTGAAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGGT-TTTGAGAATGCAATAC
62 TTTGAAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAA-GTATTTGAGAATGAAAAAC
* * *
104394462 TGTAGAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAAGCTCTTAAGACATTCAATCT
126 TGTAAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCT
104394527 TGAAGGTTGCTCGAGATTGGAGA
191 TGAAGGTTGCTCGAGATTGGAGA
* * *
104394550 TTTTCCCAGAAGTCATGGACACTATGAAGGAACTGTATGAACTTGATTTAAGCAGAACGGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* * * *
104394615 AAGGAATTACCATCCTCAGTTGGCAATCTTATTGGTATTAAGTATTTGAGAATGGAAAATTGTAA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
*
104394680 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAAGCTCTTAAGACATTCGATCTTGAAG
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
* *
104394745 GTTGTTCGAGATTAGAGA
196 GTTGCTCGAGATTGGAGA
* * *
104394763 TTTTCCCAGAAGTCATGGACACTATGAAGGAACTGTATGAACTTGATTTAAGCAGAACGGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* * *
104394828 AAGGAATTACCATCCTCAGTTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGGAAAATTGTAA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
** **
104394893 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGAGTTTATATCTTGAAG
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
104394958 GTTGCTCGAGATTGGAGA
196 GTTGCTCGAGATTGGAGA
* * * *
104394976 TTTTCCCAGAAGTCATGGACACCATGGAGGGACTGTATAAACTTGATTTAAGTGGAACAGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
** ** **
104395041 AAGGAATTACCATCCTCAATTGATAATCTTATTGGTCTTCAA-TATTTGAGCTTGAAGGACTGTA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTT-AAGTATTTGAGAATGAAAAACTGTA
* ** * *
104395105 ACAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTCTGATATTCAATCTTGAA
130 AAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAA
*
104395170 GGTT-CATTGAGATTGGAGA
195 GGTTGC-TCGAGATTGGAGA
* * * * * *
104395189 TTTTTCGAGAAGTCATGGACATCGTGGA-G-A-GGT-TGAAGTTGCTTGATTTAAACGGAACGGC
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAA----CTTGATTTAAGCGGAACGGC
*
104395250 TTTGAAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTAAGTATTTG-GAAATGAAAAAC
62 TTTGAAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAG-AATGAAAAAC
* * ** *
104395314 TGTAAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAGTTGAAATCTCTTGAGGGATTCTATCT
126 TGTAAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCT
* *
104395379 TAAAGGTTTCTCGAGATTGGAGA
191 TGAAGGTTGCTCGAGATTGGAGA
* ** * ** * * *
104395402 TTTTTCCAGAAGTCATGGACACCATGGA-GAGGT-TGACGGTTCTTGGTTTAAGTGGAACAGCTT
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGT-A-TGAACTTGATTTAAGCGGAACGGCTT
* * *
104395465 TGAACGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAATATTTGAGAATAAAAAACTGT
64 TGAAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGT
*
104395530 AAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTTGATCTTGA
129 AAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGA
*
104395595 AGGTTGCTCGAGACTGGAGA
194 AGGTTGCTCGAGATTGGAGA
* **
104395615 TTTTTCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGTAGAACGGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* ** *
104395680 AAGGGATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGGGTTTGAGATTGAAAAACTGTAA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
* * * * * *
104395745 AAGCCTTATTTGCATTCCTGACAGCTTTTATAAATTGAAATCCCTTAAGACATTCCATCTTTG-T
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATC-TTGAA
104395809 GGTTGCTCGAGATTGGAGA
195 GGTTGCTCGAGATTGGAGA
*
104395828 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATAAACTTGATTTAAGCGGAACGGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
104395893 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTGAA-TATTTGAGAATGAAAAACTGTA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTT-AAGTATTTGAGAATGAAAAACTGTA
* * * *
104395957 AAAGCCTTGTTTGCCTTCCTGACAGCTTTTATAATTTGAAATCTCTTGAGATATTCGATCTTGAA
130 AAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAA
104396022 GGTTGCTCGAGATTGGAGA
195 GGTTGCTCGAGATTGGAGA
*
104396041 TTTTCCCAGAAGTCATGGACACCATAGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* *
104396106 AAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTCAGTATTTGAGAATGAAAAACTGTAA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
*
104396171 CAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
104396236 GTTGCTCGAGATTGGAGA
196 GTTGCTCGAGATTGGAGA
* **
104396254 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATAAACTTGATTTAAGCGGAACACCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* * * * * * *
104396319 AAGGAATTACCATCCTCATTTGACAATCTTATTGGTCTTAAGAAATTGAGACTTAAAAATTGTGA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGT-A
* *
104396384 AAAA-CTTGTCTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACGTTCGATCTTGAA
130 AAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAA
* *
104396448 GGTTGTTTGAGATTGGAGA
195 GGTTGCTCGAGATTGGAGA
** * ** * ** *
104396467 TTTTCTTAGAAATCATGGACACCATGGA-GAGGT-TGACGGTTCTTGATTTAAG-TGAAGCGGCT
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGT-A-TGAACTTGATTTAAGCGGAA-CGGCT
* * *
104396529 TTGAAGGAATTACCATCCTCAATTGACAACCTTATTGGTATTAAGTATTTGAGAATGAAAAACTG
63 TTGAAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTG
* **
104396594 TAAAAATCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGAGGTTCGATCTTG
128 TAAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTG
* *
104396659 AAGGTAGCTTGAGATTGGAGA
193 AAGGTTGCTCGAGATTGGAGA
* **
104396680 TTTTCCCAGAAGTCATGGACACTATGGAGGAACTGTATGAACTTGATTTAAGCGGAATAGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* * *
104396745 AAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTCAGTATTTGAGAATGAAAAATTGTAA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
*
104396810 CAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
104396875 GTTGCTCGAGATTGGAGA
196 GTTGCTCGAGATTGGAGA
* * *
104396893 TTTTCCCAGAAGTCATGGACACTATGGAGGAACTGTATGAACTCGATTTAAGAGGAATC-GCTTT
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAA-CGGCTTT
* * ** ** *
104396957 GAAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTCAGTATTTGAGCTTGAAGGACTGTG
65 GAAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTA
* *
104397022 AAAACCTTGTTTGCCTTCCTGACAGTTTTTATAAATTGAAATCTCTTGAGACATTCGATCTTGAA
130 AAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAA
104397087 GGTTGCTCGAGATTGGAGA
195 GGTTGCTCGAGATTGGAGA
* **
104397106 TTTTCCCAGAAGTCATGGACACCATGGAAGAACTGTATGAACTTGATTTAAGTAGAACGGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* * * *
104397171 AAGGAATTACCATCATCAGTTGGAAAATCTTATTGGTCTTGAGTATTTGAGAATGAAAAACTGTA
66 AAGGAATTACCATCCTCAATTGG-CAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTA
*
104397236 AAAACCTTGTTTGCCTTCCTGATAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAA
130 AAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAA
104397301 GGTTGCTCGAGATTGGAGA
195 GGTTGCTCGAGATTGGAGA
*
104397320 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCAGAACGAG-TTT
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACG-GCTTT
** * * *
104397384 GAAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGGGTTTGAGATTGAAATACTGTG
65 GAAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTA
* * * * * *
104397449 AAAACTTTATTTGCCTTCCTGACAACCTTTATAAATTGAAATCTCTTATGACATTCCATCTTTG-
130 AAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATC-TTGA
*
104397513 TGGTTGCTCGAGATTGGAGA
194 AGGTTGCTCGAGATTGGAGA
* * * *
104397533 TTTTCCCAGAAGTTATGGACACCATGGGGGAACTGTATGACCTTGATTTAAGCGGAACGGCATTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
104397598 AAGGAATTACCATCCTCAATTGGCAATCTTA------TTAAGTATTTGAGAATGAAAAACTGTAA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
* * * * *
104397657 AAACCTTGTTTGCCTTCGTGACGGTTTTTATAAATTGAAATCTCTTAAGACATTCAATGTTGAAG
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
104397722 GTTGCTCGAGATTGGAGA
196 GTTGCTCGAGATTGGAGA
* *
104397740 TTTTCCCAGAAGTCATGAACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAATGGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* * * * * * *
104397805 AAGGAATTACCGTCCTCAATTGACAATCTTATTGGTCTTAAGGAATTGAGATTTAAAAACTGTGA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
* * *
104397870 AAACATTGTCTGCCTTCCTGACAGCTTTTATAAATTTAAATCTCTT
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTT
104397916 TTATGTCTTA
Statistics
Matches: 3784, Mismatches: 375, Indels: 117
0.88 0.09 0.03
Matches are distributed among these distances:
206 3 0.00
207 179 0.05
209 3 0.00
210 2 0.00
211 5 0.00
212 33 0.01
213 3321 0.88
214 231 0.06
215 6 0.00
217 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (213 bp):
TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
GTTGCTCGAGATTGGAGA
Found at i:104399803 original size:9 final size:9
Alignment explanation
Indices: 104399789--104400005 Score: 134
Period size: 9 Copynumber: 23.6 Consensus size: 9
104399779 TATTTAAGTA
104399789 TTATGTAAG
1 TTATGTAAG
104399798 TTATGTAAG
1 TTATGTAAG
*
104399807 TTATGATATG
1 TTATG-TAAG
* * *
104399817 ATATAT-AT
1 TTATGTAAG
*
104399825 TTATGTAAA
1 TTATGTAAG
* *
104399834 TTATAT-AT
1 TTATGTAAG
*
104399842 TTATCTAAG
1 TTATGTAAG
*
104399851 TTATATAAG
1 TTATGTAAG
104399860 TTATGTAAG
1 TTATGTAAG
*
104399869 TTATGTAAA
1 TTATGTAAG
*
104399878 TTATGATATAAAA
1 TTATG---T-AAG
*
104399891 TATATTTAAG
1 T-TATGTAAG
104399901 TATTATGTAAG
1 --TTATGTAAG
104399912 TTATGTAAG
1 TTATGTAAG
* *
104399921 TTATAT-AT
1 TTATGTAAG
*
104399929 TTATCTAAG
1 TTATGTAAG
*
104399938 TTATATAAG
1 TTATGTAAG
*
104399947 TTATGTATG
1 TTATGTAAG
*
104399956 TTATATAAG
1 TTATGTAAG
104399965 TTATGTAAG
1 TTATGTAAG
* *
104399974 TTATATATG
1 TTATGTAAG
**
104399983 TTACATAAG
1 TTATGTAAG
*
104399992 TTATGTAAA
1 TTATGTAAG
104400001 TTATG
1 TTATG
104400006 ATATCAAATA
Statistics
Matches: 162, Mismatches: 35, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
8 16 0.10
9 121 0.75
10 8 0.05
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:104399868 original size:18 final size:18
Alignment explanation
Indices: 104399789--104400005 Score: 162
Period size: 18 Copynumber: 12.3 Consensus size: 18
104399779 TATTTAAGTA
*
104399789 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATATAAG
* * *
104399807 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
104399825 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
104399842 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
104399860 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
*
104399878 TTATG--A--TATA-AAA
1 TTATGTAAGTTATATAAG
* *
104399891 TATATTTAAGTATTATGTAAG
1 T-TATGTAAG--TTATATAAG
*
104399912 TTATGTAAGTTATAT-AT
1 TTATGTAAGTTATATAAG
*
104399929 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
104399947 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
104399965 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
** * *
104399983 TTACATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
104400001 TTATG
1 TTATG
104400006 ATATCAAATA
Statistics
Matches: 155, Mismatches: 33, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
13 4 0.03
14 6 0.04
16 2 0.01
17 37 0.24
18 86 0.55
19 7 0.05
20 10 0.06
21 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:104399899 original size:114 final size:119
Alignment explanation
Indices: 104399776--104400036 Score: 345
Period size: 123 Copynumber: 2.2 Consensus size: 119
104399766 AGGATATGAT
104399776 ATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATA-TGA-T-A-TATAT-TTATGTAAATT
1 ATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATATTGACTAAGTATATATTATGTAAATT
* **
104399836 ATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
65 ATATAAGTTATCTAAGTTATATAAGTTACATAAGTTATGTAAATTATGATATAAA
* *
104399890 ATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAT
1 ATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTGA-CTAAG-TATAT-A-TTATGTAA
* * * *
104399955 GTTATATAAGTTATGTAAGTTATATATGTTACATAAGTTATGTAAATTATGATATCAA
62 ATTATATAAGTTATCTAAGTTATATAAGTTACATAAGTTATGTAAATTATGATATAAA
*
104400013 ATATATTTATGTATTATGTAAGTT
1 ATATATTTAAGTATTATGTAAGTT
104400037 TTTTATTTCA
Statistics
Matches: 127, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
113 3 0.02
114 37 0.29
116 1 0.01
117 1 0.01
119 5 0.04
122 13 0.10
123 67 0.53
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.47
Consensus pattern (119 bp):
ATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTGACTAAGTATATATTATGTAAATTA
TATAAGTTATCTAAGTTATATAAGTTACATAAGTTATGTAAATTATGATATAAA
Found at i:104400130 original size:15 final size:15
Alignment explanation
Indices: 104400110--104400165 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
104400100 AAGTAGCGGG
104400110 ATTAAATAATATTTA
1 ATTAAATAATATTTA
104400125 ATTAAATAATATTT-
1 ATTAAATAATATTTA
104400139 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
104400154 ATTAAATAATAT
1 ATTAAATAATAT
104400166 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:104400374 original size:24 final size:24
Alignment explanation
Indices: 104400342--104400409 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
104400332 ACTTAAATGG
104400342 TAAAACGGACGATAATATTTGTGA
1 TAAAACGGACGATAATATTTGTGA
104400366 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTGA
* *
104400390 TAAAACGGGCGAGAATATTT
1 TAAAACGGACGATAATATTT
104400410 CAATAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.03
24 38 0.95
25 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTGA
Found at i:104405263 original size:15 final size:15
Alignment explanation
Indices: 104405245--104405276 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
104405235 AAATAATAAT
*
104405245 TTATATATATTTATC
1 TTATATACATTTATC
104405260 TTATATACATTTATC
1 TTATATACATTTATC
104405275 TT
1 TT
104405277 CTACATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:104405273 original size:25 final size:24
Alignment explanation
Indices: 104405212--104405257 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
104405202 ACCACTTTTC
*
104405212 ATATATATATTTATATATTTTTAAA
1 ATATATA-ATTTATATATATTTAAA
104405237 ATA-ATAATTTATATATATTTA
1 ATATATAATTTATATATATTTA
104405258 TCTTATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 3 0.15
25 3 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
ATATATAATTTATATATATTTAAA
Found at i:104405722 original size:18 final size:18
Alignment explanation
Indices: 104405699--104405743 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
104405689 TTACACCCTA
*
104405699 AATATATATTATAA-TCTT
1 AATATATATTAGAAGT-TT
104405717 AATATATATTAGAAGTTT
1 AATATATATTAGAAGTTT
104405735 AATATATAT
1 AATATATAT
104405744 AACAAGGGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 24 0.96
19 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (18 bp):
AATATATATTAGAAGTTT
Found at i:104406097 original size:41 final size:40
Alignment explanation
Indices: 104406052--104406241 Score: 265
Period size: 41 Copynumber: 4.7 Consensus size: 40
104406042 TTACTTTTTT
*
104406052 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACACCGGCCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAAC-CCGACCTATA
* *
104406093 GCGGCGTTTTTCCAAAAACGCCGCTAAAACACC-AGCTTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAAC-CCGA-CCTATA
* *
104406134 GCGGCGTTTTTCCAAAAGCGCCGCTAAAATCTCTACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAA-CCCGACCTATA
* *
104406175 GCTGCGTTTTTCCAGAAGCGCCGCTAAAACCTCGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACC-CGACCTATA
104406216 GCGGCGTTTTTCCAAAAGCGCCGCTA
1 GCGGCGTTTTTCCAAAAGCGCCGCTA
104406242 TTGTTCAGTT
Statistics
Matches: 133, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
40 1 0.01
41 130 0.98
42 2 0.02
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (40 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCCGACCTATA
Found at i:104406272 original size:41 final size:41
Alignment explanation
Indices: 104406214--104406346 Score: 169
Period size: 41 Copynumber: 3.3 Consensus size: 41
104406204 CCTCGACCTA
** * *
104406214 TAGCGGCGTTT-TTCCAAAAGCGCCGCTATTGTTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
*
104406254 TAGCGGCGTTTGGGCCAAAAACGCCGCTATTGCTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
* * *
104406295 TAGCGGCGTTTGGATCAAAAACACCGCTATTGCTCTGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
* *
104406336 TTGCTGCGTTT
1 TAGCGGCGTTT
104406347 TATTACAAAC
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 11 0.13
41 71 0.87
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (41 bp):
TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
Found at i:104406279 original size:123 final size:123
Alignment explanation
Indices: 104406055--104406282 Score: 307
Period size: 123 Copynumber: 1.9 Consensus size: 123
104406045 CTTTTTTGCG
*
104406055 GCGTTTTTCCAAAAGCGCCGCTAAAACACCGGCCTATAGCGGCGTTTTTCCAAAAACGCCGCTAA
1 GCGTTTTTCCAAAAGCGCCGCTAAAACACCGACCTATAGCGGCGTTTTTCCAAAAACGCCGCTAA
** *
104406120 AACACCAGCTTATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAATCTCTACCTATAGCT
66 AACACCAGCTTATAGCGGCGTTTGGCCAAAAACGCCGCTAAAATCTCTACCTATAGCT
* *
104406178 GCGTTTTTCCAGAAGCGCCGCTAAAAC-CTCGACCTATAGCGGCGTTTTTCCAAAAGCGCCGCT-
1 GCGTTTTTCCAAAAGCGCCGCTAAAACAC-CGACCTATAGCGGCGTTTTTCCAAAAACGCCGCTA
***** * *
104406241 ATTGTTCAGTTTTTAGCGGCGTTTGGGCCAAAAACGCCGCTA
65 AAACACCAGCTTATAGCGGCGTTT-GGCCAAAAACGCCGCTA
104406283 TTGCTCAGTT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
122 18 0.20
123 72 0.80
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (123 bp):
GCGTTTTTCCAAAAGCGCCGCTAAAACACCGACCTATAGCGGCGTTTTTCCAAAAACGCCGCTAA
AACACCAGCTTATAGCGGCGTTTGGCCAAAAACGCCGCTAAAATCTCTACCTATAGCT
Found at i:104410131 original size:14 final size:14
Alignment explanation
Indices: 104410109--104410148 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
104410099 TTTTTAACTA
104410109 AAAAT-ATAATTAT
1 AAAATAATAATTAT
**
104410122 AAAATAATAACAAT
1 AAAATAATAATTAT
104410136 AAAATAATAATTA
1 AAAATAATAATTA
104410149 ATTTATAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAATAATAATTAT
Found at i:104410998 original size:213 final size:213
Alignment explanation
Indices: 104410691--104415119 Score: 6289
Period size: 213 Copynumber: 20.8 Consensus size: 213
104410681 ATCTGTGTTG
* * * *
104410691 TTTT-CCAGAAATCATGGGCACCATGGAGGAACTATATGAACTTGATTTAAGCGAAACGGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* * * * * **
104410755 AAAGAATTACCATCCTCAATTGGCAATCTTACTGGTCTTTACTATTGGAGAATGACCAACTGTAA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
*
104410820 AAACCTTGTTTGCCTTCCTGATAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
104410885 GTTGCTCGAGATTGGAGA
196 GTTGCTCGAGATTGGAGA
* * *
104410903 TTTTCCCAGAAGTCATGGACACCATGAAGGAACTGTATGAACTTGATTTAAGTGGAACAGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* * ** * * * * *
104410968 AAGGAATTATCATCCTCATTTGAAAATCTTATTGGTCTTAAGAAATTGAGACTTAAAAACTGTGA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
* * *
104411033 AAACCTTGTCTGCCTTCCTGACAACTTTTATAAATTGAAATCTCTTAAGACACTCGATCTTGAAG
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
104411098 GTTGCTCGAGATTGGAGA
196 GTTGCTCGAGATTGGAGA
* * *
104411116 TTTTCCCAGAAGTCATGGACAACATGGAGGAACTGGATGAACTTGATTTAAGAGGAACGGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* *
104411181 AAGGAATTACCATTCTCAATTGGCAATCTTATTGGTATTAAGTATTTGAGAATGAAAAACTGTAA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
* * *
104411246 AAACCTTGTTTGCCTTCCTGACAGTTTTTATAAATTAAAATCTCTTAAGACATTCGGTCTTGAAG
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
*
104411311 GTTGCTCGAGATTAGAGA
196 GTTGCTCGAGATTGGAGA
* *
104411329 TTTTCCCAGAAGTCATGGACACCATGGACGAACTGTATGAACTT-AGTTTAAGTGGAACGGCTTT
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGA-TTTAAGCGGAACGGCTTT
*
104411393 GAAGGAATTACCA-CTCTCAATTGGCAATCTTATTGGTCTTGAGTATTTG-GTAATGAAAAACTG
65 GAAGGAATTACCATC-CTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAG-AATGAAAAACTG
* * *
104411456 TAAAAACCTTGTTTGCCTTCCTGATAGTTTTTATAAATTGAAATCTCTTAAGACATTCAATCTTG
128 TAAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTG
*
104411521 AAGGTTGCTTGAGATTGGAGA
193 AAGGTTGCTCGAGATTGGAGA
* * ** * *
104411542 TTTTCCCAGAAGTCATGGACACCATGAAGAGG--TTG-ACGGGTCTTGGTTTAAGC-TATACGGC
1 TTTTCCCAGAAGTCATGGACACCATG--GAGGAACTGTA-TGAACTTGATTTAAGCGGA-ACGGC
* *
104411603 TTTGAAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGGT-TTTGAGAATGCAATAC
62 TTTGAAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAA-GTATTTGAGAATGAAAAAC
* * *
104411667 TGTAGAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAAGCTCTTAAGACATTCAATCT
126 TGTAAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCT
104411732 TGAAGGTTGCTCGAGATTGGAGA
191 TGAAGGTTGCTCGAGATTGGAGA
* * *
104411755 TTTTCCCAGAAGTCATGGACACTATGAAGGAACTGTATGAACTTGATTTAAGCAGAACGGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* * * *
104411820 AAGGAATTACCATCCTCAGTTGGCAATCTTATTGGTATTAAGTATTTGAGAATGGAAAATTGTAA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
*
104411885 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAAGCTCTTAAGACATTCGATCTTGAAG
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
* *
104411950 GTTGTTCGAGATTAGAGA
196 GTTGCTCGAGATTGGAGA
* * *
104411968 TTTTCCCAGAAGTCATGGACACTATGAAGGAACTGTATGAACTTGATTTAAGCAGAACGGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* * *
104412033 AAGGAATTACCATCCTCAGTTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGGAAAATTGTAA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
** **
104412098 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGAGTTTATATCTTGAAG
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
104412163 GTTGCTCGAGATTGGAGA
196 GTTGCTCGAGATTGGAGA
* * * *
104412181 TTTTCCCAGAAGTCATGGACACCATGGAGGGACTGTATAAACTTGATTTAAGTGGAACAGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
** ** **
104412246 AAGGAATTACCATCCTCAATTGATAATCTTATTGGTCTTCAA-TATTTGAGCTTGAAGGACTGTA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTT-AAGTATTTGAGAATGAAAAACTGTA
* ** * *
104412310 ACAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTCTGATATTCAATCTTGAA
130 AAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAA
*
104412375 GGTT-CATTGAGATTGGAGA
195 GGTTGC-TCGAGATTGGAGA
* * * * * *
104412394 TTTTTCGAGAAGTCATGGACATCGTGGA-G-A-GGT-TGAAGTTGCTTGATTTAAACGGAACGGC
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAA----CTTGATTTAAGCGGAACGGC
*
104412455 TTTGAAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTAAGTATTTG-GAAATGAAAAAC
62 TTTGAAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAG-AATGAAAAAC
* * ** *
104412519 TGTAAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAGTTGAAATCTCTTGAGGGATTCTATCT
126 TGTAAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCT
* *
104412584 TAAAGGTTTCTCGAGATTGGAGA
191 TGAAGGTTGCTCGAGATTGGAGA
* ** * ** * * *
104412607 TTTT-TCAGAAGTCATGGACACCATGGA-GAGGT-TGACGGTTCTTGGTTTAAGTGGAACAGCTT
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGT-A-TGAACTTGATTTAAGCGGAACGGCTT
* *
104412669 TGAACGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAATATTTGAGAATGAAAAACTGT
64 TGAAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGT
*
104412734 AAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTTGATCTTGA
129 AAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGA
*
104412799 AGGTTGCTCGAGACTGGAGA
194 AGGTTGCTCGAGATTGGAGA
* **
104412819 TTTTTCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGTAGAACGGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* ** *
104412884 AAGGGATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGGGTTTGAGATTGAAAAACTGTAA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
* * * * *
104412949 AAGCCTTATTTGCATTCCTGACAGCTTTTATAAATTGAAATCCCTTAAAGACATTCCATCTTTG-
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTT-AAGACATTCGATC-TTGA
*
104413013 TGGTTGCTCGAGATTGGAGA
194 AGGTTGCTCGAGATTGGAGA
*
104413033 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATAAACTTGATTTAAGCGGAACGGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
104413098 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTGAA-TATTTGAGAATGAAAAACTGTA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTT-AAGTATTTGAGAATGAAAAACTGTA
* * * * *
104413162 AAAGCCTTGTTTGCCTTCCTGACAACTTTTATAATTTGAAATCTCTTGAGATATTCGATCTTGAA
130 AAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAA
104413227 GGTTGCTCGAGATTGGAGA
195 GGTTGCTCGAGATTGGAGA
*
104413246 TTTTCCCAGAAGTCATGGACACCATAGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* *
104413311 AAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTCAGTATTTGAGAATGAAAAACTGTAA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
*
104413376 CAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
104413441 GTTGCTCGAGATTGGAGA
196 GTTGCTCGAGATTGGAGA
* **
104413459 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATAAACTTGATTTAAGCGGAACACCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* * * * * * *
104413524 AAGGAATTACCATCCTCATTTGACAATCTTATTGGTCTTAAGAAATTGAGACTTAAAAATTGTGA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGT-A
* *
104413589 AAAA-CTTGTCTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACGTTCGATCTTGAA
130 AAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAA
* *
104413653 GGTTGTTTGAGATTGGAGA
195 GGTTGCTCGAGATTGGAGA
** * ** * ** *
104413672 TTTTCTTAGAAATCATGGACACCATGGA-GAGGT-TGACGGTTCTTGATTTAAG-TGAAGCGGCT
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGT-A-TGAACTTGATTTAAGCGGAA-CGGCT
* * *
104413734 TTGAAGGAATTACCATCCTCAATTGACAACCTTATTGGTATTAAGTATTTGAGAATGAAAAACTG
63 TTGAAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTG
* **
104413799 TAAAAATCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGAGGTTCGATCTTG
128 TAAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTG
* *
104413864 AAGGTAGCTTGAGATTGGAGA
193 AAGGTTGCTCGAGATTGGAGA
* **
104413885 TTTTCCCAGAAGTCATGGACACTATGGAGGAACTGTATGAACTTGATTTAAGCGGAATAGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* * *
104413950 AAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTCAGTATTTGAGAATGAAAAATTGTAA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
*
104414015 CAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
104414080 GTTGCTCGAGATTGGAGA
196 GTTGCTCGAGATTGGAGA
* * *
104414098 TTTTCCCAGAAGTCATGGACACTATGGAGGAACTGTATGAACTCGATTTAAGAGGAATC-GCTTT
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAA-CGGCTTT
* * ** ** *
104414162 GAAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTCAGTATTTGAGCTTGAAGGACTGTG
65 GAAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTA
* *
104414227 AAAACCTTGTTTGCCTTCCTGACAGTTTTTATAAATTGAAATCTCTTGAGACATTCGATCTTGAA
130 AAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAA
104414292 GGTTGCTCGAGATTGGAGA
195 GGTTGCTCGAGATTGGAGA
* **
104414311 TTTTCCCAGAAGTCATGGACACCATGGAAGAACTGTATGAACTTGATTTAAGTAGAACGGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* * *
104414376 AAGGAATTACCATCATCAGTTGGCAATCTTATTGGTCTTGAGTATTTGAGAATGAAAAACTGTAA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
*
104414441 AAACCTTGTTTGCCTTCCTGATAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
104414506 GTTGCTCGAGATTGGAGA
196 GTTGCTCGAGATTGGAGA
*
104414524 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCAGAACGAG-TTT
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACG-GCTTT
** * * *
104414588 GAAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGGGTTTGAGATTGAAATACTGTG
65 GAAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTA
* * * * * * *
104414653 AAAACTTTATTTGCCTTCCTGACAACCTTTATAAATTGAAATCTCTTATGACATTCCACCTTTG-
130 AAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATC-TTGA
*
104414717 TGGTTGCTCGAGATTGGAGA
194 AGGTTGCTCGAGATTGGAGA
* * * *
104414737 TTTTCCCAGAAGTTATGGACACCATGGGGGAACTGTATGACCTTGATTTAAGCGGAACGGCATTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
104414802 AAGGAATTACCATCCTCAATTGGCAATCTTA------TTAAGTATTTGAGAATGAAAAACTGTAA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
* * * * *
104414861 AAACCTTGTTTGCCTTCGTGACGGTTTTTATAAATTGAAATCTCTTAAGACATTCAATGTTGAAG
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
104414926 GTTGCTCGAGATTGGAGA
196 GTTGCTCGAGATTGGAGA
* *
104414944 TTTTCCCAGAAGTCATGAACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAATGGCTTTG
1 TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
* * * * * * *
104415009 AAGGAATTACCGTCCTCAATTGACAATCTTATTGGTCTTAAGGAATTGAGATTTAAAAACTGTGA
66 AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
* * *
104415074 AAACATTGTCTGCCTTCCTGACAGCTTTTATAAATTTAAATCTCTT
131 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTT
104415120 TTATGTCTTA
Statistics
Matches: 3780, Mismatches: 377, Indels: 119
0.88 0.09 0.03
Matches are distributed among these distances:
206 3 0.00
207 178 0.05
209 3 0.00
210 2 0.00
211 5 0.00
212 211 0.06
213 3150 0.83
214 217 0.06
215 10 0.00
216 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (213 bp):
TTTTCCCAGAAGTCATGGACACCATGGAGGAACTGTATGAACTTGATTTAAGCGGAACGGCTTTG
AAGGAATTACCATCCTCAATTGGCAATCTTATTGGTCTTAAGTATTTGAGAATGAAAAACTGTAA
AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGACATTCGATCTTGAAG
GTTGCTCGAGATTGGAGA
Found at i:104417639 original size:40 final size:40
Alignment explanation
Indices: 104417595--104417675 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
104417585 AAATGCATGG
* *
104417595 TGCCTTTTTGGTTAGAAGTTAGAACTTGTATATTTTAGTT
1 TGCCTCTTTGGTTAGAAGTTAGAACTTGGATATTTTAGTT
*
104417635 TGCCTCTTTGGTTAGAAGTTAGAACTTGGATGTTTTAGTT
1 TGCCTCTTTGGTTAGAAGTTAGAACTTGGATATTTTAGTT
104417675 T
1 T
104417676 TCTTTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.21, C:0.09, G:0.22, T:0.48
Consensus pattern (40 bp):
TGCCTCTTTGGTTAGAAGTTAGAACTTGGATATTTTAGTT
Found at i:104419849 original size:15 final size:16
Alignment explanation
Indices: 104419829--104419863 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
104419819 TTTGAACTCG
*
104419829 AATTA-TTTTTATTCA
1 AATTATTTTTTATGCA
104419844 AATTATTTTTTATGCA
1 AATTATTTTTTATGCA
104419860 AATT
1 AATT
104419864 TTAAAGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (16 bp):
AATTATTTTTTATGCA
Found at i:104420185 original size:44 final size:46
Alignment explanation
Indices: 104420130--104420222 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 46
104420120 TACAACATTT
104420130 ATTCCATTTAACCAAAC-ACAAAAATGA-T-ATTACAGCTCTATTCC
1 ATTCCATTTAACCAAACAAC-AAAATGACTGATTACAGCTCTATTCC
* ** *
104420174 ATTCTATTTAACCAAACAACTGAATTACTGATTACAGCTCTATTCC
1 ATTCCATTTAACCAAACAACAAAATGACTGATTACAGCTCTATTCC
104420220 ATT
1 ATT
104420223 ACAACTCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
44 20 0.48
45 3 0.07
46 19 0.45
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (46 bp):
ATTCCATTTAACCAAACAACAAAATGACTGATTACAGCTCTATTCC
Found at i:104420225 original size:16 final size:16
Alignment explanation
Indices: 104420204--104420257 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
104420194 TGAATTACTG
*
104420204 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCA
* *
104420220 ATTACAACTCTATTCT
1 ATTACAGCTCTATTCA
104420236 ATTACAG-TCCTATTCA
1 ATTACAGCT-CTATTCA
104420252 ATTACA
1 ATTACA
104420258 ACCTTATTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 1 0.03
16 32 0.97
ACGTcount: A:0.31, C:0.26, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:104420241 original size:32 final size:32
Alignment explanation
Indices: 104420204--104420273 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
104420194 TGAATTACTG
*
104420204 ATTACAG-CTCTATTCCATTACAA-CTCTATTCT
1 ATTACAGTC-CTATTCAATTACAACCT-TATTCT
104420236 ATTACAGTCCTATTCAATTACAACCTTATTCT
1 ATTACAGTCCTATTCAATTACAACCTTATTCT
*
104420268 ACTACA
1 ATTACA
104420274 ATGAACTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 31 0.91
33 3 0.09
ACGTcount: A:0.31, C:0.27, G:0.03, T:0.39
Consensus pattern (32 bp):
ATTACAGTCCTATTCAATTACAACCTTATTCT
Found at i:104428283 original size:13 final size:13
Alignment explanation
Indices: 104428265--104428291 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
104428255 TTGGATCATC
104428265 ACTATTAGAATTG
1 ACTATTAGAATTG
104428278 ACTATTAGAATTG
1 ACTATTAGAATTG
104428291 A
1 A
104428292 GTGACCTGAA
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:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
ACTATTAGAATTG
Found at i:104428580 original size:83 final size:88
Alignment explanation
Indices: 104428435--104428609 Score: 261
Period size: 83 Copynumber: 2.0 Consensus size: 88
104428425 AATTTAGGTT
104428435 ATTTTTAGGTTATCTACTTCAGTGGTTAAGTGTTATAAGTATACCTTTGTCAAAGTTCTATGTTC
1 ATTTTTAGGTTATCTACTTCA--GGTTAAGTGTTATAAGTAT--CTTTGTCAAAGTTCTATGTTC
104428500 GAATTCTTGCATGGGTATGAATTTTTG
62 GAATTCTTGCATGGGTATGAATTTTTG
* *
104428527 ATTTTTAGGTTATCTACTTC-GGTTAAGTGTTAT-A-T-T-TTTGTTAAGGTTCTATGTTCGAAT
1 ATTTTTAGGTTATCTACTTCAGGTTAAGTGTTATAAGTATCTTTGTCAAAGTTCTATGTTCGAAT
104428587 TCTTGCATGGGTATGAATTTTTG
66 TCTTGCATGGGTATGAATTTTTG
104428610 CGCAGTGGAA
Statistics
Matches: 81, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
83 45 0.56
86 1 0.01
87 1 0.01
88 1 0.01
89 13 0.16
92 20 0.25
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.48
Consensus pattern (88 bp):
ATTTTTAGGTTATCTACTTCAGGTTAAGTGTTATAAGTATCTTTGTCAAAGTTCTATGTTCGAAT
TCTTGCATGGGTATGAATTTTTG
Found at i:104430967 original size:32 final size:32
Alignment explanation
Indices: 104430926--104430990 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
104430916 GGAAAATTCT
104430926 TAGAGAAGCTATTAGTGAATACTGTGCAACGC
1 TAGAGAAGCTATTAGTGAATACTGTGCAACGC
104430958 TAGAGAAGCTATTAGTGAATACTGTGCAACGC
1 TAGAGAAGCTATTAGTGAATACTGTGCAACGC
104430990 T
1 T
104430991 TCTACTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (32 bp):
TAGAGAAGCTATTAGTGAATACTGTGCAACGC
Found at i:104433948 original size:30 final size:30
Alignment explanation
Indices: 104433914--104433977 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
104433904 ATAATAAAAT
*
104433914 AATAATAAATATCTTATTAAAT-ATTAATAA
1 AATAATAAATATCTAATTAAATAATT-ATAA
** *
104433944 AATAATATTTTTCTAATTAAATAATTATAA
1 AATAATAAATATCTAATTAAATAATTATAA
104433974 AATA
1 AATA
104433978 TCATCAACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (30 bp):
AATAATAAATATCTAATTAAATAATTATAA
Found at i:104436378 original size:22 final size:23
Alignment explanation
Indices: 104436345--104436388 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
104436335 CAATTTATAT
104436345 TTTATTTTATATATAAATATTTA
1 TTTATTTTATATATAAATATTTA
* *
104436368 TTTA-TTTATATTTATATATTT
1 TTTATTTTATATATAAATATTT
104436389 GTTCGCTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTATTTTATATATAAATATTTA
Found at i:104436387 original size:14 final size:14
Alignment explanation
Indices: 104436337--104436388 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
104436327 AAATTATTCA
104436337 ATTTATAT-TTTAT
1 ATTTATATATTTAT
**
104436350 -TTTATATATAAAT
1 ATTTATATATTTAT
*
104436363 ATTTATTTATTTAT
1 ATTTATATATTTAT
104436377 ATTTATATATTT
1 ATTTATATATTT
104436389 GTTCGCTAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 21 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTTATATATTTAT
Done.