Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_pilon, whole genome shotgun sequence
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: 6984689
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 29
Found at i:3515201 original size:14 final size:14
Alignment explanation
Indices: 3515182--3515209 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3515172 AAGTGAAAGA
3515182 ATAGTTATATAATT
1 ATAGTTATATAATT
3515196 ATAGTTATATAATT
1 ATAGTTATATAATT
3515210 TTATTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTATATAATT
Found at i:3516282 original size:19 final size:19
Alignment explanation
Indices: 3516260--3516298 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3516250 TAACTGTTAA
*
3516260 ATAATAAAA-TAAAATAAAT
1 ATAAAAAAATTAAAA-AAAT
3516279 ATAAAAAAATTAAAAAAAT
1 ATAAAAAAATTAAAAAAAT
3516298 A
1 A
3516299 ATTAAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
ATAAAAAAATTAAAAAAAT
Found at i:3517470 original size:14 final size:14
Alignment explanation
Indices: 3517461--3517507 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
3517451 AGAATAAAAC
3517461 AAAATAAATAAATA
1 AAAATAAATAAATA
3517475 AAAATAAATATAATA
1 AAAATAAATA-AATA
* *
3517490 TAACTATAAT-AATA
1 AAAATA-AATAAATA
3517504 AAAA
1 AAAA
3517508 AATGTATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 16 0.59
15 8 0.30
16 3 0.11
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAATAAATAAATA
Found at i:3517765 original size:38 final size:38
Alignment explanation
Indices: 3517568--3517977 Score: 496
Period size: 38 Copynumber: 11.0 Consensus size: 38
3517558 ATTTTATATG
* * * *
3517568 TTTTCAAAAGTATTTTTTAAAAACTATATATTATATACG
1 TTTTCAAAA-AATGTTTTCAAAACTATATATTATATACA
* * *
3517607 TTCTC-AAAAATGTTTTCGAAACTATAAATTATAT---
1 TTTTCAAAAAATGTTTTCAAAACTATATATTATATACA
** * *
3517641 TTTT-TTAAAATGTTTTAAAAACTATATATTATATGCA
1 TTTTCAAAAAATGTTTTCAAAACTATATATTATATACA
* * * **
3517678 TTTTCAAAAAAATATTTTAAAAACTAGATATTATATATG
1 TTTTC-AAAAAATGTTTTCAAAACTATATATTATATACA
3517717 TTTTC-AAAAATGTTTTCAAAACTATATATTATATACA
1 TTTTCAAAAAATGTTTTCAAAACTATATATTATATACA
* *
3517754 TTTTCAAAAAATATTTTCAAAACTATATATTATATACC
1 TTTTCAAAAAATGTTTTCAAAACTATATATTATATACA
* *
3517792 TTTTCAAAAAATGTTTTCAAAACTATATATTATAGATA
1 TTTTCAAAAAATGTTTTCAAAACTATATATTATATACA
* *
3517830 TTTTCAAAAAATGTTTTCAAAACTATGTATTATATACG
1 TTTTCAAAAAATGTTTTCAAAACTATATATTATATACA
*
3517868 TTTTCAAAAAATGTTTTCAAAACTCTATATTATATACA
1 TTTTCAAAAAATGTTTTCAAAACTATATATTATATACA
** **
3517906 TTTTTGAAAAATGTTTTCAAAACTATATATTATATTTA
1 TTTTCAAAAAATGTTTTCAAAACTATATATTATATACA
3517944 TTTTC---AAATGTTTTCAAAACTATATATTATATAC
1 TTTTCAAAAAATGTTTTCAAAACTATATATTATATAC
3517978 GTTATATATA
Statistics
Matches: 320, Mismatches: 44, Indels: 18
0.84 0.12 0.05
Matches are distributed among these distances:
34 28 0.09
35 27 0.08
37 57 0.18
38 173 0.54
39 35 0.11
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.44
Consensus pattern (38 bp):
TTTTCAAAAAATGTTTTCAAAACTATATATTATATACA
Found at i:3517848 original size:13 final size:13
Alignment explanation
Indices: 3517830--3517889 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
3517820 ATTATAGATA
3517830 TTTTCAAAAAATG
1 TTTTCAAAAAATG
*
3517843 TTTTCAAAACTATG
1 TTTTCAAAA-AATG
* * * *
3517857 TATT--ATATACG
1 TTTTCAAAAAATG
3517868 TTTTCAAAAAATG
1 TTTTCAAAAAATG
3517881 TTTTCAAAA
1 TTTTCAAAA
3517890 CTCTATATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
11 6 0.17
12 2 0.06
13 22 0.61
14 6 0.17
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.42
Consensus pattern (13 bp):
TTTTCAAAAAATG
Found at i:3526219 original size:73 final size:73
Alignment explanation
Indices: 3526100--3526245 Score: 283
Period size: 73 Copynumber: 2.0 Consensus size: 73
3526090 ATAGCTTCTT
3526100 CTTTGGCATTTTTAAGATATATTTTCATTACCATCATCTATTCAACTTAAACACCATCAACCATC
1 CTTTGGCATTTTTAAGATATATTTTCATTACCATCATCTATTCAACTTAAACACCATCAACCATC
3526165 TTCCATTG
66 TTCCATTG
*
3526173 CTTTGGCATTTTTAAGATATATTTTCATTATCATCATCTATTCAACTTAAACACCATCAACCATC
1 CTTTGGCATTTTTAAGATATATTTTCATTACCATCATCTATTCAACTTAAACACCATCAACCATC
3526238 TTCCATTG
66 TTCCATTG
3526246 AAGACCACCA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.40
Consensus pattern (73 bp):
CTTTGGCATTTTTAAGATATATTTTCATTACCATCATCTATTCAACTTAAACACCATCAACCATC
TTCCATTG
Found at i:3531802 original size:32 final size:31
Alignment explanation
Indices: 3531737--3531802 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
3531727 AGTTAAATAA
* * *
3531737 TAAAATAAAATAAAATAATGAAAAAGGATAT
1 TAAAATAAAATAAAAAAATAAAAAAAGATAT
3531768 TAAAATAAATATAAAAAAATTAAAAAAAGA-AT
1 TAAAATAAA-ATAAAAAAA-TAAAAAAAGATAT
3531800 TAA
1 TAA
3531803 GTTTAGGGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 9 0.30
32 13 0.43
33 8 0.27
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (31 bp):
TAAAATAAAATAAAAAAATAAAAAAAGATAT
Found at i:3532873 original size:2 final size:2
Alignment explanation
Indices: 3532866--3532895 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3532856 ATAAAACAAA
3532866 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3532896 ACTATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3532905 original size:14 final size:14
Alignment explanation
Indices: 3532883--3532924 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
3532873 TATATATATA
3532883 TATATATAATATAAC
1 TATA-ATAATATAAC
*
3532898 TATAATAATAAAAAC
1 TATAATAAT-ATAAC
3532913 TAT-ATAATATAA
1 TATAATAATATAA
3532925 AATATGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 3 0.12
14 10 0.42
15 11 0.46
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (14 bp):
TATAATAATATAAC
Found at i:3532958 original size:35 final size:35
Alignment explanation
Indices: 3532919--3532986 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
3532909 AAACTATATA
3532919 ATATAAAATATGTTTTCAAAAATAATTTTTTAATT
1 ATATAAAATATGTTTTCAAAAATAATTTTTTAATT
** * *
3532954 ATATATTATATGTTTTCAAAAGTATTTTTTTAA
1 ATATAAAATATGTTTTCAAAAATAATTTTTTAA
3532987 AAAACTATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51
Consensus pattern (35 bp):
ATATAAAATATGTTTTCAAAAATAATTTTTTAATT
Found at i:3533029 original size:37 final size:37
Alignment explanation
Indices: 3532953--3533166 Score: 213
Period size: 39 Copynumber: 5.7 Consensus size: 37
3532943 ATTTTTTAAT
* *
3532953 TATATATTATAT--GTTTTCAAAAGTATTTTTTTAAAAAAC
1 TATATATTATATACGTTTTCAAAA--A-TGTTTT-CAAAAC
*
3532992 TATATATTATATACGTTTTCAAAAATGTTTTCGAAAC
1 TATATATTATATACGTTTTCAAAAATGTTTTCAAAAC
* *
3533029 TATTTATTATAT--GTTTTTAAAAATGTTTT-AAAAGC
1 TATATATTATATACGTTTTCAAAAATGTTTTCAAAA-C
* * *
3533064 TATATATTATATGCATTTTTAAAAAAATGTTTTCAAAAC
1 TATATATTATATAC-GTTTT-CAAAAATGTTTTCAAAAC
*
3533103 TATATATTATATACGTTTTCAAAAAAATCTTTTCAAAAC
1 TATATATTATATACGTTTTC--AAAAATGTTTTCAAAAC
* *
3533142 TTTATATTATATACATTTTCAAAAA
1 TATATATTATATACGTTTTCAAAAA
3533167 AAATCAAAAA
Statistics
Matches: 150, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
34 3 0.02
35 28 0.19
37 20 0.13
38 13 0.09
39 72 0.48
40 4 0.03
41 10 0.07
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (37 bp):
TATATATTATATACGTTTTCAAAAATGTTTTCAAAAC
Found at i:3533042 original size:111 final size:111
Alignment explanation
Indices: 3532926--3533153 Score: 266
Period size: 111 Copynumber: 2.0 Consensus size: 111
3532916 ATAATATAAA
** * * * *
3532926 ATATGTTTTCAAAAATAATTTTTTAA-TTATATATTATATG-TTTTCAAAAGTATTTTTTTAAAA
1 ATATGTTTTCAAAAAT-ATTTTAAAAGCTATATATTATATGATTTTCAAAA-AAATGTTTT-AAA
* *
3532989 AACTATATATTATATACGTTTTC-AAAAATGTTTTCGAAACTATT-TATT
63 AACTATATATTATATACGTTTTCAAAAAATCTTTTCAAAACT-TTATATT
* * * *
3533037 ATATGTTTTTAAAAATGTTTTAAAAGCTATATATTATATGCATTTTTAAAAAAATGTTTTCAAAA
1 ATATGTTTTCAAAAATATTTTAAAAGCTATATATTATATG-ATTTTCAAAAAAATGTTTTAAAAA
3533102 CTATATATTATATACGTTTTCAAAAAAATCTTTTCAAAACTTTATATT
65 CTATATATTATATACGTTTTC-AAAAAATCTTTTCAAAACTTTATATT
3533150 ATAT
1 ATAT
3533154 ACATTTTCAA
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
110 6 0.06
111 53 0.54
112 8 0.08
113 32 0.32
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (111 bp):
ATATGTTTTCAAAAATATTTTAAAAGCTATATATTATATGATTTTCAAAAAAATGTTTTAAAAAC
TATATATTATATACGTTTTCAAAAAATCTTTTCAAAACTTTATATT
Found at i:3533175 original size:49 final size:47
Alignment explanation
Indices: 3533121--3533247 Score: 161
Period size: 49 Copynumber: 2.7 Consensus size: 47
3533111 ATATACGTTT
* *
3533121 TCAAAAAAATCTTTTCAAAACTTTATATTATATACATTTTCAAAAAAAA
1 TCAAAAAAATATTTTCAAAACTATATATTATATACATTTTC--AAAAAA
** *
3533170 TCAAAAAAATATTTTCAAAACTATATATTATATAGGTTTTCAAAAAG
1 TCAAAAAAATATTTTCAAAACTATATATTATATACATTTTCAAAAAA
*
3533217 T---AAAAATGTTTTCAAAACTATATATTATATA
1 TCAAAAAAATATTTTCAAAACTATATATTATATA
3533248 TGTTATATAT
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
44 29 0.40
47 6 0.08
49 37 0.51
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (47 bp):
TCAAAAAAATATTTTCAAAACTATATATTATATACATTTTCAAAAAA
Found at i:3533269 original size:46 final size:45
Alignment explanation
Indices: 3533085--3533247 Score: 160
Period size: 39 Copynumber: 3.7 Consensus size: 45
3533075 TGCATTTTTA
* *
3533085 AAAAAATGTTTTCAAAACTATATATTATATACGTTTTC----A--
1 AAAAAATATTTTCAAAACTATATATTATATAGGTTTTCAAAAACT
* * ** *
3533124 AAAAAATCTTTTCAAAACTTTATATTATATACATTTTCAAAAAAAATCA
1 AAAAAATATTTTCAAAACTATATATTATATAGGTTTTC---AAAAA-CT
*
3533173 AAAAAATATTTTCAAAACTATATATTATATAGGTTTTCAAAAAGT
1 AAAAAATATTTTCAAAACTATATATTATATAGGTTTTCAAAAACT
*
3533218 -AAAAATGTTTTCAAAACTATATATTATATA
1 AAAAAATATTTTCAAAACTATATATTATATA
3533248 TGTTATATAT
Statistics
Matches: 104, Mismatches: 10, Indels: 15
0.81 0.08 0.12
Matches are distributed among these distances:
39 35 0.34
44 29 0.28
46 6 0.06
49 34 0.33
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (45 bp):
AAAAAATATTTTCAAAACTATATATTATATAGGTTTTCAAAAACT
Found at i:3536922 original size:31 final size:31
Alignment explanation
Indices: 3536871--3537031 Score: 186
Period size: 31 Copynumber: 5.2 Consensus size: 31
3536861 AACTCTTCGA
* * *
3536871 TAGGCTCTGCGGCCCCGAGATCATTT-TTGGG
1 TAGGCCCTGTGGCCCTGAGATC-TTTCTTGGG
* *
3536902 TAGGCCCTGTGACCCTGAGAT-TTTCTTAGG
1 TAGGCCCTGTGGCCCTGAGATCTTTCTTGGG
*
3536932 TAGGCCCCGTGGCCCTGAGAT-TATTCTTGGG
1 TAGGCCCTGTGGCCCTGAGATCT-TTCTTGGG
*
3536963 TAGGCCCTGTGGCCCTGAGATCTTTCTTGAG
1 TAGGCCCTGTGGCCCTGAGATCTTTCTTGGG
* *
3536994 TAGG-CTTCGTGGCCCTGAGAACTTTCTTGGG
1 TAGGCCCT-GTGGCCCTGAGATCTTTCTTGGG
3537025 TAGGCCC
1 TAGGCCC
3537032 ATAGGCCCCA
Statistics
Matches: 111, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.03
30 26 0.23
31 80 0.72
32 2 0.02
ACGTcount: A:0.14, C:0.25, G:0.30, T:0.30
Consensus pattern (31 bp):
TAGGCCCTGTGGCCCTGAGATCTTTCTTGGG
Found at i:3536952 original size:61 final size:62
Alignment explanation
Indices: 3536881--3537031 Score: 200
Period size: 61 Copynumber: 2.5 Consensus size: 62
3536871 TAGGCTCTGC
*
3536881 GGCCCCGAGATCATTTTTGGGTAGGCCCTGTGACCCTGAGAT-TTTCTT-AGGTAGGCCCCGT
1 GGCCCTGAGATCATTTTTGGGTAGGCCCTGTGACCCTGAGATCTTTCTTGA-GTAGGCCCCGT
* * * **
3536942 GGCCCTGAGATTATTCTTGGGTAGGCCCTGTGGCCCTGAGATCTTTCTTGAGTAGGCTTCGT
1 GGCCCTGAGATCATTTTTGGGTAGGCCCTGTGACCCTGAGATCTTTCTTGAGTAGGCCCCGT
*
3537004 GGCCCTGAGAAC-TTTCTTGGGTAGGCCC
1 GGCCCTGAGATCATTT-TTGGGTAGGCCC
3537032 ATAGGCCCCA
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
61 40 0.51
62 37 0.47
63 1 0.01
ACGTcount: A:0.14, C:0.25, G:0.30, T:0.30
Consensus pattern (62 bp):
GGCCCTGAGATCATTTTTGGGTAGGCCCTGTGACCCTGAGATCTTTCTTGAGTAGGCCCCGT
Found at i:3539590 original size:31 final size:31
Alignment explanation
Indices: 3539506--3539653 Score: 91
Period size: 31 Copynumber: 4.8 Consensus size: 31
3539496 TAGGCTCTGC
* * * * **
3539506 GGCCCCAAGATCATTCTTCGATAAGCCTTGT
1 GGCCCTAAGATCATTCTTGGGTAGGCCCCGT
** *
3539537 GGCCCTGGGAT-ATTTCTCGGGTAGGCCCCGT
1 GGCCCTAAGATCA-TTCTTGGGTAGGCCCCGT
* ** *
3539568 GGCCCTAAGATCATTCTTGGGTAAGCCTTGC
1 GGCCCTAAGATCATTCTTGGGTAGGCCCCGT
* * * *
3539599 GACCCTCAGATCTTTCTTGGGTAGGCCCCAT
1 GGCCCTAAGATCATTCTTGGGTAGGCCCCGT
* * * *
3539630 GGCCTTGAGAACTTTCTTGGGTAG
1 GGCCCTAAGATCATTCTTGGGTAG
3539654 ACCCATAGGC
Statistics
Matches: 87, Mismatches: 28, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
30 1 0.01
31 85 0.98
32 1 0.01
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (31 bp):
GGCCCTAAGATCATTCTTGGGTAGGCCCCGT
Found at i:3539593 original size:62 final size:62
Alignment explanation
Indices: 3539506--3539652 Score: 168
Period size: 62 Copynumber: 2.4 Consensus size: 62
3539496 TAGGCTCTGC
* * * * * ** *
3539506 GGCCCCAAGATCATTCTTCGATAAGCCTTGTGGCCCTGGGATATTTCTCGGGTAGGCCCCGT
1 GGCCCTAAGATCATTCTTGGGTAAGCCTTGCGACCCTCAGATATTTCTCGGGTAGGCCCCAT
* *
3539568 GGCCCTAAGATCATTCTTGGGTAAGCCTTGCGACCCTCAGATCTTTCTTGGGTAGGCCCCAT
1 GGCCCTAAGATCATTCTTGGGTAAGCCTTGCGACCCTCAGATATTTCTCGGGTAGGCCCCAT
* * * *
3539630 GGCCTTGAGAACTTTCTTGGGTA
1 GGCCCTAAGATCATTCTTGGGTA
3539653 GACCCATAGG
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 71 1.00
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (62 bp):
GGCCCTAAGATCATTCTTGGGTAAGCCTTGCGACCCTCAGATATTTCTCGGGTAGGCCCCAT
Found at i:3544166 original size:31 final size:30
Alignment explanation
Indices: 3544128--3544288 Score: 148
Period size: 31 Copynumber: 5.2 Consensus size: 30
3544118 AATGTGACTC
* *
3544128 TTGGGTAGGCTCTGCGGCCCCGAGATCATTT
1 TTGGGTAGGC-CTGTGGCCCTGAGATCATTT
* * *
3544159 TTGGGTAGGCCCTCG-GGCCATGGGAT-TTTT
1 TTGGGTAGG-CCT-GTGGCCCTGAGATCATTT
*
3544189 CTTGGGTAGGCCTGTGGCCCTGAGATCATTC
1 -TTGGGTAGGCCTGTGGCCCTGAGATCATTT
3544220 TTGGGTAGGCCTTGTGGCCCTGAGATC-TTT
1 TTGGGTAGGCC-TGTGGCCCTGAGATCATTT
* * * *
3544250 CTTGGGTTGGCCCTGTAGCCCTGAGAACTTTT
1 -TTGGGTAGG-CCTGTGGCCCTGAGATCATTT
3544282 TTGGGTA
1 TTGGGTA
3544289 CGCCCATAGG
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
29 1 0.01
30 28 0.26
31 72 0.67
32 7 0.06
ACGTcount: A:0.12, C:0.22, G:0.33, T:0.33
Consensus pattern (30 bp):
TTGGGTAGGCCTGTGGCCCTGAGATCATTT
Found at i:3544224 original size:61 final size:62
Alignment explanation
Indices: 3544126--3544293 Score: 196
Period size: 61 Copynumber: 2.7 Consensus size: 62
3544116 CTAATGTGAC
* * * *
3544126 TCTTGGGTAGGCTCTGCGGCCCCGAGATCATTTTTGGGTAGGCCCTCG-GGCCATGGGATTTT
1 TCTTGGGTAGGC-CTGTGGCCCTGAGATCATTTTTGGGTAGGCCCTCGTGGCCATGAGATCTT
* * *
3544188 TCTTGGGTAGGCCTGTGGCCCTGAGATCATTCTTGGGTAGG-CCTTGTGGCCCTGAGATCTT
1 TCTTGGGTAGGCCTGTGGCCCTGAGATCATTTTTGGGTAGGCCCTCGTGGCCATGAGATCTT
* * * * *
3544249 TCTTGGGTTGGCCCTGTAGCCCTGAGAACTTTTTTGGGTACGCCC
1 TCTTGGGTAGG-CCTGTGGCCCTGAGATCATTTTTGGGTAGGCCC
3544294 ATAGGCCCCA
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
60 4 0.04
61 47 0.52
62 37 0.41
63 2 0.02
ACGTcount: A:0.11, C:0.24, G:0.32, T:0.32
Consensus pattern (62 bp):
TCTTGGGTAGGCCTGTGGCCCTGAGATCATTTTTGGGTAGGCCCTCGTGGCCATGAGATCTT
Found at i:3547951 original size:21 final size:20
Alignment explanation
Indices: 3547892--3547957 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
3547882 AGTAGAATCC
*
3547892 TTTTTCTTAAAATTATTTAA
1 TTTTGCTTAAAATTATTTAA
***
3547912 TTTTGCTTACAAGGAATTTAA
1 TTTTGCTTA-AAATTATTTAA
3547933 TTTTGCTTGAAAATTATTT-A
1 TTTTGCTT-AAAATTATTTAA
3547953 TTTTG
1 TTTTG
3547958 TTTTCAATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 14 0.38
21 22 0.59
22 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTGCTTAAAATTATTTAA
Found at i:3552178 original size:17 final size:18
Alignment explanation
Indices: 3552150--3552183 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
3552140 CCCTACTATT
3552150 ATTATATATTATATTTTC
1 ATTATATATTATATTTTC
3552168 ATTAT-TATTATATTTT
1 ATTATATATTATATTTT
3552184 TATATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTATATATTATATTTTC
Found at i:3552260 original size:25 final size:24
Alignment explanation
Indices: 3552204--3552261 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
3552194 TCCCGTATAC
* * *
3552204 ATATGTATTTTATATACATCATTT
1 ATATTTATTATATATACATCATAT
*
3552228 TTATTTTATTATATATACATACATAT
1 ATA-TTTATTATATATACAT-CATAT
3552254 ATATTTAT
1 ATATTTAT
3552262 AGCTAACATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
24 2 0.07
25 19 0.70
26 6 0.22
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (24 bp):
ATATTTATTATATATACATCATAT
Found at i:3552357 original size:20 final size:20
Alignment explanation
Indices: 3552315--3552357 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
3552305 TACATATATA
* *
3552315 TTTTTATTTCTTTTCTTTTC
1 TTTTTATTTCATTTCTTTAC
3552335 TTTTTATTT-ATTTCATTTAC
1 TTTTTATTTCATTTC-TTTAC
3552355 TTT
1 TTT
3552358 ACTTATCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTATTTCATTTCTTTAC
Found at i:3552557 original size:18 final size:18
Alignment explanation
Indices: 3552522--3552572 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
3552512 GTATATTTTT
*
3552522 TTCTTTTTATT-TACTATA
1 TTCTTTTT-TTATATTATA
3552540 TTCTTTTTTTATATTATA
1 TTCTTTTTTTATATTATA
*
3552558 TT-TTTATTATATATT
1 TTCTTT-TTTTATATT
3552573 TTATATCGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 5 0.17
18 24 0.83
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (18 bp):
TTCTTTTTTTATATTATA
Found at i:3561285 original size:21 final size:21
Alignment explanation
Indices: 3561260--3561300 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3561250 GCCCTAAATT
*
3561260 GAAAAA-AAAAAGAAAAAAGA
1 GAAAAAGAAAAAAAAAAAAGA
*
3561280 GAAAAAGAACAAAAAAAAAGA
1 GAAAAAGAAAAAAAAAAAAGA
3561301 ATAAGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (21 bp):
GAAAAAGAAAAAAAAAAAAGA
Found at i:3564480 original size:17 final size:16
Alignment explanation
Indices: 3564454--3564485 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
3564444 ATTGTTATAT
3564454 ATTATATTATATTTTC
1 ATTATATTATATTTTC
3564470 ATTATTATTATATTTT
1 ATTA-TATTATATTTT
3564486 TATATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTATATTATATTTTC
Found at i:3564854 original size:18 final size:18
Alignment explanation
Indices: 3564819--3564869 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
3564809 GTATATTTTT
*
3564819 TTCTTTTTATT-TACTATA
1 TTCTTTTT-TTATATTATA
3564837 TTCTTTTTTTATATTATA
1 TTCTTTTTTTATATTATA
*
3564855 TT-TTTATTATATATT
1 TTCTTT-TTTTATATT
3564870 TTATATCGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 5 0.17
18 24 0.83
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (18 bp):
TTCTTTTTTTATATTATA
Found at i:3566082 original size:306 final size:308
Alignment explanation
Indices: 3565529--3566189 Score: 1191
Period size: 306 Copynumber: 2.2 Consensus size: 308
3565519 CGGTTCCGAC
3565529 AGTACCTAAGTCATATTTATGTATGCATTCATGCATATATGTATACGTGATAATTTCATGTTGCA
1 AGTACCTAAGTCATATTTATGTATGCATTCATGCATATATGTATACGTGATAATTTCATGTTGCA
3565594 TATTACATTTATATGTTAGGCGTAATTAATTTGGAATGATTAGTATATATTTATATTGTGTTATA
66 TATTACATTTATATGTTAGGCGTAATTAATTTGGAATGATTAGTATATATTTATATTGTGTTATA
* *
3565659 ATCTCATATATATCATACATTTAATAGTTTGTCATCTAGGTCCAAATTTACGTAAGCATGGCATT
131 ATCTCATATATATCATACATTTAATAGCTTGTCATCTAAGTCCAAATTTACGTAAGCATGGCATT
*
3565724 TATTTCATTTACATTTGCATGTGTTATTCTGATTGCATTTCATTTCATTCATATTATATGATTAC
196 TATTTCATTTACATTTGCATGTGTTATTCTGATTGAATTTCATTTCATTCATATTATATGATTAC
3565789 ATAC-A-ATATATTATATGGTTCACATTTACATATGATCATTCATGTT
261 ATACAATATATATTATATGGTTCACATTTACATATGATCATTCATGTT
* *
3565835 AGTACCTAAGTCATATTTATGTATGCATTCATGCATATACGTATACGTGATCATTTCATGTTGCA
1 AGTACCTAAGTCATATTTATGTATGCATTCATGCATATATGTATACGTGATAATTTCATGTTGCA
* * * *
3565900 TATTACATTTATATGTTAGGCGTGATTGATTTGGAATGATTATTATATATTTATATTGTTTTATA
66 TATTACATTTATATGTTAGGCGTAATTAATTTGGAATGATTAGTATATATTTATATTGTGTTATA
** *
3565965 ATCTCATATATATCATACATTTAATAGCTTGTCATCTAAGTTTAAATTTATGTAAGCATGGCATT
131 ATCTCATATATATCATACATTTAATAGCTTGTCATCTAAGTCCAAATTTACGTAAGCATGGCATT
3566030 TATTTCATTTACATTTGCATGTGTTATTCTGATTGAATTTCATTTCATTCATATTATATGATTAC
196 TATTTCATTTACATTTGCATGTGTTATTCTGATTGAATTTCATTTCATTCATATTATATGATTAC
*
3566095 ATACAATATATATTATATGGTTCACATTTTCATATGATCATTCATGTT
261 ATACAATATATATTATATGGTTCACATTTACATATGATCATTCATGTT
3566143 AGTACCTAAGTCATATTTATGTATGCATTCATGCATATATGTATACG
1 AGTACCTAAGTCATATTTATGTATGCATTCATGCATATATGTATACG
3566190 AGATTACCTA
Statistics
Matches: 339, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
306 252 0.74
307 1 0.00
308 86 0.25
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (308 bp):
AGTACCTAAGTCATATTTATGTATGCATTCATGCATATATGTATACGTGATAATTTCATGTTGCA
TATTACATTTATATGTTAGGCGTAATTAATTTGGAATGATTAGTATATATTTATATTGTGTTATA
ATCTCATATATATCATACATTTAATAGCTTGTCATCTAAGTCCAAATTTACGTAAGCATGGCATT
TATTTCATTTACATTTGCATGTGTTATTCTGATTGAATTTCATTTCATTCATATTATATGATTAC
ATACAATATATATTATATGGTTCACATTTACATATGATCATTCATGTT
Found at i:3566203 original size:49 final size:49
Alignment explanation
Indices: 3566145--3566238 Score: 188
Period size: 49 Copynumber: 1.9 Consensus size: 49
3566135 TTCATGTTAG
3566145 TACCTAAGTCATATTTATGTATGCATTCATGCATATATGTATACGAGAT
1 TACCTAAGTCATATTTATGTATGCATTCATGCATATATGTATACGAGAT
3566194 TACCTAAGTCATATTTATGTATGCATTCATGCATATATGTATACG
1 TACCTAAGTCATATTTATGTATGCATTCATGCATATATGTATACG
3566239 TGATAATTTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (49 bp):
TACCTAAGTCATATTTATGTATGCATTCATGCATATATGTATACGAGAT
Found at i:3566730 original size:35 final size:37
Alignment explanation
Indices: 3566691--3566775 Score: 124
Period size: 36 Copynumber: 2.4 Consensus size: 37
3566681 CAAAGGGCGC
*
3566691 CTTTCCAAAG-GTCACAATGCTACATCA-AAAGGTGT
1 CTTTCCAAAGAGACACAATGCTACATCATAAAGGTGT
*
3566726 CTTTCC-AAGAGACACAATGCTTCATCATAAAGGTGT
1 CTTTCCAAAGAGACACAATGCTACATCATAAAGGTGT
3566762 CTTTCC-AAGAGACA
1 CTTTCCAAAGAGACA
3566776 TGATGTTTCA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
34 3 0.07
35 21 0.46
36 22 0.48
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (37 bp):
CTTTCCAAAGAGACACAATGCTACATCATAAAGGTGT
Found at i:3566765 original size:36 final size:35
Alignment explanation
Indices: 3566703--3566775 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 35
3566693 TTCCAAAGGT
3566703 CACAATGCTACATCAAAAGGTGTCTTTCCAAGAGA
1 CACAATGCTACATCAAAAGGTGTCTTTCCAAGAGA
*
3566738 CACAATGCTTCATCATAAAGGTGTCTTTCCAAGAGA
1 CACAATGCTACATCA-AAAGGTGTCTTTCCAAGAGA
3566774 CA
1 CA
3566776 TGATGTTTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 14 0.39
36 22 0.61
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (35 bp):
CACAATGCTACATCAAAAGGTGTCTTTCCAAGAGA
Found at i:3566854 original size:35 final size:35
Alignment explanation
Indices: 3566785--3566854 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
3566775 ATGATGTTTC
* * * *
3566785 ACCAAGAGGTGTCTTCAAAAGACATGTTGATTCAT
1 ACCAAGAGGTGGCTCCAAAACACATGGTGATTCAT
* *
3566820 ACCAAGAGGTGGCTCCAAAACTCATGGTGCTTCAT
1 ACCAAGAGGTGGCTCCAAAACACATGGTGATTCAT
3566855 CAGACCTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (35 bp):
ACCAAGAGGTGGCTCCAAAACACATGGTGATTCAT
Found at i:3567124 original size:6 final size:6
Alignment explanation
Indices: 3567115--3567151 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
3567105 TTGATTTTGA
*
3567115 TATAAT TAT-AT TATTAT TATAAT TATAAT TAT-AT TAT
1 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TAT
3567152 TTTTATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (6 bp):
TATAAT
Found at i:3567135 original size:11 final size:11
Alignment explanation
Indices: 3567119--3567164 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
3567109 TTTTGATATA
3567119 ATTATATTATT
1 ATTATATTATT
*
3567130 ATTATAATTATA
1 ATTAT-ATTATT
3567142 ATTATATTATT
1 ATTATATTATT
*
3567153 TTTATATTATT
1 ATTATATTATT
3567164 A
1 A
3567165 ATAGTTACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 20 0.67
12 10 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
ATTATATTATT
Found at i:3567166 original size:23 final size:23
Alignment explanation
Indices: 3567115--3567162 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
3567105 TTGATTTTGA
3567115 TATAATTATATTATTATTATAAT
1 TATAATTATATTATTATTATAAT
*
3567138 TATAATTATATTATTTTTAT-AT
1 TATAATTATATTATTATTATAAT
3567160 TAT
1 TAT
3567163 TAATAGTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TATAATTATATTATTATTATAAT
Found at i:3567435 original size:25 final size:25
Alignment explanation
Indices: 3567405--3567454 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
3567395 TTGGATCTGG
3567405 AGAGATCCAATGGTCGCAAGTGCAA
1 AGAGATCCAATGGTCGCAAGTGCAA
3567430 AGAGATCCAATGGTCGCAAGTGCAA
1 AGAGATCCAATGGTCGCAAGTGCAA
3567455 CTAGCAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.28, T:0.16
Consensus pattern (25 bp):
AGAGATCCAATGGTCGCAAGTGCAA
Found at i:3572032 original size:21 final size:20
Alignment explanation
Indices: 3572008--3572046 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
3571998 CAACACCTTG
*
3572008 CATTTTACATAAACATTTTTT
1 CATTTCACAT-AACATTTTTT
*
3572029 CATTTCACATTACATTTT
1 CATTTCACATAACATTTT
3572047 CCATACTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (20 bp):
CATTTCACATAACATTTTTT
Found at i:3579662 original size:89 final size:89
Alignment explanation
Indices: 3579466--3579723 Score: 313
Period size: 89 Copynumber: 2.9 Consensus size: 89
3579456 TGCAGATTTG
* * * * * *
3579466 ATCTCCACGGAAGAGTAGTGGAAGAAAATCAACCTTAAATCTGGTCTTCATGAAAAAAGTAGTGA
1 ATCTACACGGAAGAGTAGTGGAAGCAAATCAACCTT-AATCTAGTCTTCACG-AAAGAGTAGTAA
*
3579531 AATAGATTCTTTCC-AGATCAATCCA
64 AACAGATTCTTTCCAAGATCAATCCA
* * *
3579556 ATCTCCACGAAAGAGTAGTGGAAGCAATTCAACCTTAACTCTAGTCTTCACGAAAGAGTAGTAAA
1 ATCTACACGGAAGAGTAGTGGAAGCAAATCAACCTTAA-TCTAGTCTTCACGAAAGAGTAGTAAA
* *
3579621 ACATATTCTTTCCAAG-TCAATCCC
65 ACAGATTCTTTCCAAGATCAATCCA
* * * *
3579645 ATCTACATGGAAGAGTAGTGGTAGCAAATCAACCTTGAATCTTGTCTTCACGGAAGAGTAGTAAA
1 ATCTACACGGAAGAGTAGTGGAAGCAAATCAACCTT-AATCTAGTCTTCACGAAAGAGTAGTAAA
*
3579710 ACAGATTATTTCCA
65 ACAGATTCTTTCCA
3579724 TGCAAATCAA
Statistics
Matches: 146, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
89 98 0.67
90 48 0.33
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.26
Consensus pattern (89 bp):
ATCTACACGGAAGAGTAGTGGAAGCAAATCAACCTTAATCTAGTCTTCACGAAAGAGTAGTAAAA
CAGATTCTTTCCAAGATCAATCCA
Found at i:3579748 original size:89 final size:87
Alignment explanation
Indices: 3579476--3579753 Score: 246
Period size: 89 Copynumber: 3.1 Consensus size: 87
3579466 ATCTCCACGG
* * * * * *
3579476 AAGAGTAGTGGAAGAAAATCAACCTTAAATCTGGTCTTCATGAAAAAAGTAGTGAAATAGATTCT
1 AAGAGTAGTGGAAGCAAATCAACCTT-AATCTAGTCTTCACG-AAAGAGTAGTAAAACAGATTCT
*
3579541 TTCCAG---ATCAATCCAATCTCCACGA
64 TTCCAGCAAATCAA-CC-AT-T-CACAA
* *
3579566 AAGAGTAGTGGAAGCAATTCAACCTTAACTCTAGTCTTCACGAAAGAGTAGTAAAACATATTCTT
1 AAGAGTAGTGGAAGCAAATCAACCTTAA-TCTAGTCTTCACGAAAGAGTAGTAAAACAGATTCTT
*
3579631 TCCAAGTC-AATC--CCA-TCTACATGG
65 TCC-AG-CAAATCAACCATTC-ACA--A
* * * *
3579655 AAGAGTAGTGGTAGCAAATCAACCTTGAATCTTGTCTTCACGGAAGAGTAGTAAAACAGATTATT
1 AAGAGTAGTGGAAGCAAATCAACCTT-AATCTAGTCTTCACGAAAGAGTAGTAAAACAGATTCTT
*
3579720 TCCATGCAAATCAAGCATTCACAA
65 TCCA-GCAAATCAACCATTCACAA
3579744 AAGAGTAGTG
1 AAGAGTAGTG
3579754 AAACAATGCA
Statistics
Matches: 156, Mismatches: 18, Indels: 29
0.77 0.09 0.14
Matches are distributed among these distances:
86 1 0.01
87 3 0.02
88 2 0.01
89 99 0.63
90 41 0.26
91 5 0.03
92 2 0.01
93 3 0.02
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (87 bp):
AAGAGTAGTGGAAGCAAATCAACCTTAATCTAGTCTTCACGAAAGAGTAGTAAAACAGATTCTTT
CCAGCAAATCAACCATTCACAA
Found at i:3579994 original size:17 final size:17
Alignment explanation
Indices: 3579972--3580004 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3579962 TTTTGATATA
3579972 ATTATATTATTATTATT
1 ATTATATTATTATTATT
*
3579989 ATTATATTATTTTTAT
1 ATTATATTATTATTAT
3580005 ATTGTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTATATTATTATTATT
Found at i:3581150 original size:2 final size:2
Alignment explanation
Indices: 3581143--3581177 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3581133 TAGTCATTAA
3581143 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3581178 GAATAAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3583612 original size:19 final size:20
Alignment explanation
Indices: 3583590--3583636 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
3583580 TAATAACATC
3583590 CTTAAAAATTAATTT-ATTA
1 CTTAAAAATTAATTTAATTA
* *
3583609 CTTAATAATTTATTTTAATTA
1 CTTAA-AAATTAATTTAATTA
3583630 CTTAAAA
1 CTTAAAA
3583637 GTAAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 10 0.42
21 9 0.38
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (20 bp):
CTTAAAAATTAATTTAATTA
Found at i:3592060 original size:18 final size:18
Alignment explanation
Indices: 3592037--3592088 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 18
3592027 TTATGGGATT
3592037 ATCATTAATGAGTTTTAG
1 ATCATTAATGAGTTTTAG
3592055 ATCATTTTGAGCATGAGTTTTAG
1 ATCA--TT-A--ATGAGTTTTAG
3592078 ATCATTAATGA
1 ATCATTAATGA
3592089 ATCTTAAGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
18 8 0.28
20 3 0.10
21 3 0.10
23 15 0.52
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (18 bp):
ATCATTAATGAGTTTTAG
Found at i:3598889 original size:24 final size:23
Alignment explanation
Indices: 3598839--3598907 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 23
3598829 AAACCATTCG
* *
3598839 TTTATGTTCATTAATTATGTTCC
1 TTTATGTTCGTTAATTATGTTCA
3598862 TTTATGTTCGTTAAGTTATGTTCA
1 TTTATGTTCGTTAA-TTATGTTCA
* *
3598886 TTTATTTTCGTTCATTTATGTT
1 TTTATGTTCGTT-AATTATGTT
3598908 TGCGTATGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
23 13 0.32
24 26 0.65
25 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.12, T:0.59
Consensus pattern (23 bp):
TTTATGTTCGTTAATTATGTTCA
Found at i:3599518 original size:23 final size:23
Alignment explanation
Indices: 3599492--3599548 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
3599482 TGTTTGTGCA
** *
3599492 TGTTCATTTATTTTCATTTGTTG
1 TGTTCATTTACGTTCATTTATTG
* *
3599515 TGTTCTTTTACGTTCGTTTATTG
1 TGTTCATTTACGTTCATTTATTG
3599538 TGTTCATTTAC
1 TGTTCATTTAC
3599549 ATCCATTCGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.12, C:0.12, G:0.14, T:0.61
Consensus pattern (23 bp):
TGTTCATTTACGTTCATTTATTG
Found at i:3604242 original size:3 final size:3
Alignment explanation
Indices: 3604234--3604262 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3604224 AATCAATTCA
3604234 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3604263 AGTCAATAAG
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3610763 original size:24 final size:24
Alignment explanation
Indices: 3610733--3610788 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
3610723 TAGAAGTTCG
3610733 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
3610757 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
3610781 ATTGAAGC
1 ATTGAAGC
3610789 GAAAGAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (24 bp):
ATTGAAGCCTAAAATTTGAGCTCA
Found at i:3620680 original size:20 final size:20
Alignment explanation
Indices: 3620654--3620704 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
3620644 CATTCATTTA
*
3620654 TTAGCTCATGTCATGTTATTC
1 TTAGCTCATGACATGTT-TTC
3620675 -TAGCTCAT-ACATGTTTTC
1 TTAGCTCATGACATGTTTTC
3620693 TTAAGCTCATGA
1 TT-AGCTCATGA
3620705 ACGTCCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 3 0.12
19 7 0.27
20 15 0.58
21 1 0.04
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.43
Consensus pattern (20 bp):
TTAGCTCATGACATGTTTTC
Found at i:3621479 original size:19 final size:20
Alignment explanation
Indices: 3621447--3621499 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
3621437 GGGCCAAGAG
* *
3621447 CATGTATATGCATT-AAAAT
1 CATGTATTTTCATTAAAAAT
3621466 CATGTATTTTCATTAACAAAAT
1 CATGTATTTTCATT-A-AAAAT
3621488 CATGTATTTTCA
1 CATGTATTTTCA
3621500 AAGGGGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 12 0.41
22 17 0.59
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.42
Consensus pattern (20 bp):
CATGTATTTTCATTAAAAAT
Found at i:3621887 original size:22 final size:21
Alignment explanation
Indices: 3621855--3621895 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
3621845 CCATTTCCAA
3621855 TTCATCATCAACACCATCAAC
1 TTCATCATCAACACCATCAAC
*
3621876 TTCATCCATCAAGACCATCA
1 TTCAT-CATCAACACCATCA
3621896 TTTCCGCAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.37, C:0.37, G:0.02, T:0.24
Consensus pattern (21 bp):
TTCATCATCAACACCATCAAC
Found at i:3622226 original size:21 final size:22
Alignment explanation
Indices: 3622202--3622252 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
3622192 GAAAAGATAA
3622202 AAAAAAAGAAGAAA-AATTT-AG
1 AAAAAAAGAA-AAAGAATTTCAG
3622223 AAAAGAAA-AAAAAGAATTTCAG
1 AAAA-AAAGAAAAAGAATTTCAG
*
3622245 AAAGAAAG
1 AAAAAAAG
3622253 CAAAGCCAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 3 0.12
21 14 0.56
22 8 0.32
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.12
Consensus pattern (22 bp):
AAAAAAAGAAAAAGAATTTCAG
Found at i:3625917 original size:22 final size:21
Alignment explanation
Indices: 3625885--3625925 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
3625875 CCATTTCCAG
3625885 TTCATCATCAACACCATCAAC
1 TTCATCATCAACACCATCAAC
*
3625906 TTCATCCATCAAGACCATCA
1 TTCAT-CATCAACACCATCA
3625926 TTTCTGCAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.37, C:0.37, G:0.02, T:0.24
Consensus pattern (21 bp):
TTCATCATCAACACCATCAAC
Found at i:3626451 original size:20 final size:22
Alignment explanation
Indices: 3626422--3626476 Score: 78
Period size: 20 Copynumber: 2.5 Consensus size: 22
3626412 TGACTTTTTG
*
3626422 GGTCATAGTCAATGGTCAA-C-
1 GGTCAAAGTCAATGGTCAACCT
3626442 GGTCAAAGTCAATGGTCAACTCT
1 GGTCAAAGTCAATGGTCAAC-CT
3626465 GGTCAAAGTCAA
1 GGTCAAAGTCAA
3626477 CAGGTTGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 18 0.58
22 1 0.03
23 12 0.39
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (22 bp):
GGTCAAAGTCAATGGTCAACCT
Found at i:3631964 original size:24 final size:23
Alignment explanation
Indices: 3631922--3631975 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
3631912 AAATTTAAAA
*
3631922 TAAAATATTCAAAAGATAAATCC
1 TAAAATAATCAAAAGATAAATCC
*
3631945 TAAATATAATCAAAATATAAATCC
1 TAAA-ATAATCAAAAGATAAATCC
3631969 TAAAATA
1 TAAAATA
3631976 TTTTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.28
Consensus pattern (23 bp):
TAAAATAATCAAAAGATAAATCC
Found at i:3634555 original size:35 final size:35
Alignment explanation
Indices: 3634509--3634583 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
3634499 AAAATACTTT
3634509 AATTTAGGGTTTAGAATATAATTAAAGTATTTTGG
1 AATTTAGGGTTTAGAATATAATTAAAGTATTTTGG
* * * *
3634544 AATTTGGGGTTTAGAATGTAATTGAAGTGTTTTGG
1 AATTTAGGGTTTAGAATATAATTAAAGTATTTTGG
3634579 AATTT
1 AATTT
3634584 TAAACATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (35 bp):
AATTTAGGGTTTAGAATATAATTAAAGTATTTTGG
Found at i:3637763 original size:23 final size:24
Alignment explanation
Indices: 3637733--3637782 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
3637723 ATTATTTTTC
3637733 TTTATATAAACTAAACTATA-TAA
1 TTTATATAAACTAAACTATATTAA
*
3637756 TTTATATAAATTAAACTATATTAA
1 TTTATATAAACTAAACTATATTAA
3637780 TTT
1 TTT
3637783 TCTTTTGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTATATAAACTAAACTATATTAA
Found at i:3638060 original size:16 final size:15
Alignment explanation
Indices: 3638039--3638089 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 15
3638029 CGGATAATTT
3638039 ACAGGTCAGATTAAAA
1 ACAGGTCAG-TTAAAA
3638055 ACAGGTCAGGTTAAAA
1 ACAGGTCA-GTTAAAA
3638071 ACAGGTCATGTTAAAA
1 ACAGGTCA-GTTAAAA
3638087 ACA
1 ACA
3638090 AGTCGGGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
16 32 0.97
17 1 0.03
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.20
Consensus pattern (15 bp):
ACAGGTCAGTTAAAA
Found at i:3639269 original size:11 final size:11
Alignment explanation
Indices: 3639243--3639508 Score: 77
Period size: 11 Copynumber: 25.6 Consensus size: 11
3639233 AAATTGAAAC
3639243 AACTATA-ATA
1 AACTATATATA
* *
3639253 TA-TATATATG
1 AACTATATATA
3639263 AACTATATATA
1 AACTATATATA
* * *
3639274 TATTATTTATA
1 AACTATATATA
*
3639285 AACTATATAGTT
1 AACTATATA-TA
* *
3639297 TATTA-ATATA
1 AACTATATATA
3639307 AACTATATATA
1 AACTATATATA
3639318 AACTATATAGT-
1 AACTATATA-TA
* *
3639329 --TTATATTTA
1 AACTATATATA
* *
3639338 TATTA-ATATA
1 AACTATATATA
* *
3639348 TATTATATATA
1 AACTATATATA
3639359 AACTATATAT-
1 AACTATATATA
* *
3639369 -ATTATGTATA
1 AACTATATATA
3639379 AACTATATAT-
1 AACTATATATA
* *
3639389 -ACCATGTATA
1 AACTATATATA
3639399 AACTATATAGT-
1 AACTATATA-TA
* *
3639410 --TTATATATG
1 AACTATATATA
*
3639419 AAC--TAT-TG
1 AACTATATATA
3639427 AACTATATATA
1 AACTATATATA
* *
3639438 AACTACATAGTT
1 AACTATATA-TA
* *
3639450 TATTA-ATATA
1 AACTATATATA
3639460 AA-T-TATATA
1 AACTATATATA
***
3639469 GTTTATATATA
1 AACTATATATA
* *
3639480 AATTATATATG
1 AACTATATATA
*
3639491 AATTATATATA
1 AACTATATATA
3639502 AACTATA
1 AACTATA
3639509 CAATTTATAT
Statistics
Matches: 187, Mismatches: 45, Indels: 47
0.67 0.16 0.17
Matches are distributed among these distances:
8 7 0.04
9 38 0.20
10 23 0.12
11 109 0.58
12 10 0.05
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (11 bp):
AACTATATATA
Found at i:3639288 original size:22 final size:22
Alignment explanation
Indices: 3639243--3639326 Score: 93
Period size: 22 Copynumber: 3.9 Consensus size: 22
3639233 AAATTGAAAC
*
3639243 AACTATA-ATATA-TATATATG
1 AACTATATATATATTATATATA
*
3639263 AACTATATATATATTATTTATA
1 AACTATATATATATTATATATA
*
3639285 AACTATATAGTTTATTA-ATATA
1 AACTATATA-TATATTATATATA
* *
3639307 AACTATATATAAACTATATA
1 AACTATATATATATTATATA
3639327 GTTTATATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
20 7 0.13
21 9 0.17
22 31 0.58
23 6 0.11
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (22 bp):
AACTATATATATATTATATATA
Found at i:3639293 original size:20 final size:20
Alignment explanation
Indices: 3639243--3639508 Score: 173
Period size: 20 Copynumber: 13.3 Consensus size: 20
3639233 AAATTGAAAC
*
3639243 AACTATA-ATATATATATATG
1 AACTATATATAT-TATATATA
*
3639263 AACTATATATATATTATTTATA
1 AAC--TATATATATTATATATA
*
3639285 AACTATATA-GTT-TAT-T-
1 AACTATATATATTATATATA
*
3639301 AA-TATA-A-ACTATATATA
1 AACTATATATATTATATATA
*
3639318 AACTATATAGT-TTATATTTA
1 AACTATATA-TATTATATATA
* *
3639338 TATTAATATATATTATATATA
1 AACT-ATATATATTATATATA
*
3639359 AACTATATATATTATGTATA
1 AACTATATATATTATATATA
** *
3639379 AACTATATATACCATGTATA
1 AACTATATATATTATATATA
*
3639399 AACTATATAGT-TTATATATG
1 AACTATATA-TATTATATATA
*
3639419 AACTAT-TGA-ACTATATATA
1 AACTATAT-ATATTATATATA
*
3639438 AACTACATAGT-TTATTAATATA
1 AACTATATA-TATTA-T-ATATA
*
3639460 AATTATATAGT-TTATATATA
1 AACTATATA-TATTATATATA
*
3639480 AATTATATATGAATTATATATA
1 AACTATATAT--ATTATATATA
3639502 AACTATA
1 AACTATA
3639509 CAATTTATAT
Statistics
Matches: 196, Mismatches: 27, Indels: 44
0.73 0.10 0.16
Matches are distributed among these distances:
14 2 0.01
15 7 0.04
16 3 0.02
17 3 0.02
18 6 0.03
19 18 0.09
20 90 0.46
21 18 0.09
22 45 0.23
23 4 0.02
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (20 bp):
AACTATATATATTATATATA
Found at i:3639407 original size:2 final size:2
Alignment explanation
Indices: 3639246--3639389 Score: 54
Period size: 2 Copynumber: 72.0 Consensus size: 2
3639236 TTGAAACAAC
* *
3639246 TA TA -A TA TA TA TA TA TGA -A CTA TA TA TA TA T- TA TT TA TA AA
1 TA TA TA TA TA TA TA TA T-A TA -TA TA TA TA TA TA TA TA TA TA TA
* * * *
3639287 CTA TA TA GTT TA T- TA -A TA TA AA CTA TA TA TA AA CTA TA TA GTT
1 -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA -TA
* *
3639330 TA TA TT TA TA T- TA -A TA TA TA T- TA TA TA TA AA CTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* *
3639370 T- TA TG TA TA AA CTA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA
3639390 CCATGTATAA
Statistics
Matches: 104, Mismatches: 20, Indels: 36
0.65 0.12 0.22
Matches are distributed among these distances:
1 9 0.09
2 86 0.83
3 9 0.09
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:3639460 original size:81 final size:73
Alignment explanation
Indices: 3639269--3639468 Score: 181
Period size: 74 Copynumber: 2.6 Consensus size: 73
3639259 TATGAACTAT
* * * * *
3639269 ATATATATTATTTATAAACTATATAGTTTATTAATATAAACTATATATAAACTATATAGTTTATA
1 ATATATACTATATATAAACTA-ATAGTTTATTAATATAAACTATATATAAACTATAAACTATATA
3639334 TTTATATTA
65 TTTATATTA
* * * **
3639343 ATATATATTATATATAAACT-ATA-TATATTATGTATAAACTATATATACCATGTATAAACTATA
1 ATATATACTATATATAAACTAATAGTTTATTA-ATATAAACTATATATA--AACTATAAACTATA
3639406 TAGTTTATATATGA
63 TA-TTTATAT-T-A
*
3639420 ACTAT-TGAACTATATATAAACTACATAGTTTATTAATATAAATTATATA
1 A-TATAT--ACTATATATAAACTA-ATAGTTTATTAATATAAACTATATA
3639469 GTTTATATAT
Statistics
Matches: 102, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
71 6 0.06
72 18 0.18
74 30 0.29
75 7 0.07
76 1 0.01
77 3 0.03
78 3 0.03
79 13 0.13
81 15 0.15
82 6 0.06
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.45
Consensus pattern (73 bp):
ATATATACTATATATAAACTAATAGTTTATTAATATAAACTATATATAAACTATAAACTATATAT
TTATATTA
Found at i:3639685 original size:22 final size:22
Alignment explanation
Indices: 3639660--3639722 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
3639650 TATAGTTTAC
* *
3639660 ATATGAACTATATGTATAAACT
1 ATATAAACTATATATATAAACT
*
3639682 ATATCAACTATATATATAAACT
1 ATATAAACTATATATATAAACT
*
3639704 ATGTAAACTATATAATATA
1 ATATAAACTATAT-ATATA
3639723 TATAGTTTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 31 0.86
23 5 0.14
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.37
Consensus pattern (22 bp):
ATATAAACTATATATATAAACT
Found at i:3639758 original size:20 final size:20
Alignment explanation
Indices: 3639733--3639774 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
3639723 TATAGTTTAG
3639733 TAGTTTACATATAAACTATA
1 TAGTTTACATATAAACTATA
* *
3639753 TAGTTTACGTATGAACTATA
1 TAGTTTACATATAAACTATA
3639773 TA
1 TA
3639775 TATAATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
TAGTTTACATATAAACTATA
Found at i:3639811 original size:2 final size:2
Alignment explanation
Indices: 3639806--3639975 Score: 55
Period size: 2 Copynumber: 81.0 Consensus size: 2
3639796 ATAAACTATT
* * * *
3639806 TA TA TA GTA TA TA CTA CA TA TA TA TA AA CTC TA TA TA TA AA CTA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA
* * *
3639850 TA TA TA TA TA TA CTC TA TA TA T- TA TA TA GTT TA CA TA TGA -A
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA T-A TA
* * * *
3639891 CTA TA TA TA AA AA CTA TA TA TA TA TA TA AA T- TA TA -A TT TA TA
1 -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
3639933 TA AA CTA TA TA CTA TA GT- TGA TA TT TA TA TA CTA TA -A TA TA TA
1 TA TA -TA TA TA -TA TA -TA T-A TA TA TA TA TA -TA TA TA TA TA TA
3639976 GTTTACATTA
Statistics
Matches: 124, Mismatches: 24, Indels: 40
0.66 0.13 0.21
Matches are distributed among these distances:
1 6 0.05
2 101 0.81
3 17 0.14
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (2 bp):
TA
Found at i:3639818 original size:7 final size:6
Alignment explanation
Indices: 3639806--3639975 Score: 55
Period size: 7 Copynumber: 27.0 Consensus size: 6
3639796 ATAAACTATT
* * * *
3639806 TATATA GTATATA CTACATA TATATA AACTCTA TATATA AACTATA TATATA
1 TATATA -TATATA -TATATA TATATA TA-TATA TATATA TA-TATA TATATA
* * * * *
3639858 TATACTC TATATA T-TATA TAGTTTA CATATGA -ACTATA TATAAA AACTATA
1 TATA-TA TATATA TATATA TA-TATA TATAT-A TA-TATA TATATA TA-TATA
* * * *
3639909 TATATA TATAAA T-TATA -ATTTA TATAAA CTATATA CTATAGT- TGATATT
1 TATATA TATATA TATATA TATATA TATATA -TATATA -TATA-TA T-ATATA
3639958 TATATA CTATA-A TATATA
1 TATATA -TATATA TATATA
3639976 GTTTACATTA
Statistics
Matches: 121, Mismatches: 25, Indels: 35
0.67 0.14 0.19
Matches are distributed among these distances:
5 15 0.12
6 49 0.40
7 56 0.46
8 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (6 bp):
TATATA
Found at i:3639827 original size:101 final size:101
Alignment explanation
Indices: 3639640--3639827 Score: 231
Period size: 101 Copynumber: 1.9 Consensus size: 101
3639630 TAGGTAAGCT
* *
3639640 ATATATAATATATAGTTTACATATGAACTATATGTATAAACTATATCAACTATATATATAAACTA
1 ATATATAATATATAGTTTACATATGAACTATATATATAAACTATATCAACGATATATATAAACTA
*
3639705 TGTAAACTATATAATATATATAGTTTAGTAGTTTAC
66 TGTAAACTATATAATACATATAGTTTAGTAGTTTAC
* * *
3639741 ATATA-AACTATATAGTTTACGTATGAACTATATATAT-AA-TTTATTAACGA-ACTATATAAAC
1 ATATATAA-TATATAGTTTACATATGAACTATATATATAAACTATATCAACGATA-TATATAAAC
* * *
3639802 TATTTATATAGTATATACTACATATA
64 TATGTA-A-ACTATATAATACATATA
3639828 TATAAACTCT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
98 1 0.01
99 22 0.30
100 5 0.07
101 46 0.62
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (101 bp):
ATATATAATATATAGTTTACATATGAACTATATATATAAACTATATCAACGATATATATAAACTA
TGTAAACTATATAATACATATAGTTTAGTAGTTTAC
Found at i:3639841 original size:15 final size:15
Alignment explanation
Indices: 3639823--3639871 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
3639813 TATATACTAC
3639823 ATATATATAAACTC-
1 ATATATATAAACTCT
*
3639837 -TATATATAAACTAT
1 ATATATATAAACTCT
*
3639851 ATATATATATACTCT
1 ATATATATAAACTCT
3639866 ATATAT
1 ATATAT
3639872 TATATAGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 12 0.40
15 18 0.60
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATATATAAACTCT
Found at i:3639850 original size:11 final size:11
Alignment explanation
Indices: 3639793--3639855 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
3639783 ATTAACGAAC
3639793 TATATAAACTA
1 TATATAAACTA
* * *
3639804 TTTATATAGTA
1 TATATAAACTA
*
3639815 TATACTACA-TA
1 TATA-TAAACTA
3639826 TATATAAACTCTA
1 TATATAAA--CTA
3639839 TATATAAACTA
1 TATATAAACTA
3639850 TATATA
1 TATATA
3639856 TATATACTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
10 3 0.07
11 26 0.62
12 3 0.07
13 10 0.24
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.41
Consensus pattern (11 bp):
TATATAAACTA
Found at i:3639925 original size:13 final size:13
Alignment explanation
Indices: 3639823--3639914 Score: 76
Period size: 13 Copynumber: 6.7 Consensus size: 13
3639813 TATATACTAC
3639823 ATATATATAAACT
1 ATATATATAAACT
*
3639836 CTATATATAAACT
1 ATATATATAAACT
3639849 ATATATATATATACTCT
1 ATATATATA-A-A--CT
* *
3639866 ATATATTATATAGT
1 ATATA-TATAAACT
* * *
3639880 TTACATATGAACT
1 ATATATATAAACT
*
3639893 ATATATAAAAACT
1 ATATATATAAACT
3639906 ATATATATA
1 ATATATATA
3639915 TATAAATTAT
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
13 42 0.70
14 5 0.08
15 1 0.02
16 1 0.02
17 7 0.12
18 4 0.07
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (13 bp):
ATATATATAAACT
Found at i:3640048 original size:18 final size:18
Alignment explanation
Indices: 3640022--3640076 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
3640012 TAATGAACTA
* *
3640022 TATAAACTATTTATATAG
1 TATATACTATATATATAG
*
3640040 TATATACTACATATATAG
1 TATATACTATATATATAG
*
3640058 TTTATA-TATACTATATAG
1 TATATACTATA-TATATAG
3640076 T
1 T
3640077 TTACTTATGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 3 0.10
18 28 0.90
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (18 bp):
TATATACTATATATATAG
Found at i:3640077 original size:18 final size:20
Alignment explanation
Indices: 3640040--3640079 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
3640030 ATTTATATAG
3640040 TATATACTACATATATAGTT
1 TATATACTACATATATAGTT
3640060 TATATA-TAC-TATATAGTT
1 TATATACTACATATATAGTT
3640078 TA
1 TA
3640080 CTTATGAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 11 0.55
19 3 0.15
20 6 0.30
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (20 bp):
TATATACTACATATATAGTT
Found at i:3640162 original size:227 final size:224
Alignment explanation
Indices: 3639757--3640170 Score: 470
Period size: 227 Copynumber: 1.8 Consensus size: 224
3639747 ACTATATAGT
*
3639757 TTACGTATGAACTATATATATAATTTATTAACGAACTATATAAACTATTTATATAGTATATACTA
1 TTACATATGAAC-ATATATATAATTTATTAACGAACTATATAAACTATTTATATAGTATATACTA
* * * *
3639822 CATATATATAAACTCTATATATAAACTATATATATATATACTCTATATATTATATAGTTTACATA
65 CATATATAT--A-TCTATATAT-AACTATATATATATATACACTATATATTATAAAATATACATA
* *
3639887 TGAACTATATATAAAAACTATATATATATATAAATTATAATTTATATAA-ACTATATACTATAGT
126 TAAACTATATATAAAAACTATATATATATATAAATTATAATATATATAACA-TATATACTATAGT
3639951 TGATATTTATATACTATAATATATAGTTTACATTA
190 TGATATTTATATACTATAATATATAGTTTACATTA
* *
3639986 TTACATATGAAC-TATATATAGTTTATTAATGAACTATATAAACTATTTATATAGTATATACTAC
1 TTACATATGAACATATATATAATTTATTAACGAACTATATAAACTATTTATATAGTATATACTAC
*
3640050 ATATATAGT-T-TATATAT-ACTATATAGTTTACTTATGA-ACTATATA-TA-AAAATATACATA
66 ATATATA-TATCTATATATAACTATATA-TATA--TAT-ACACTATATATTATAAAATATACATA
* * * *
3640109 TAAAGATTATGGTATATATAAACTATATAT-TATAT-AGTTCATTAGTATATATAACATATATA
126 T-AA-ACTA---TATATAAAAACTATATATATATATAAATT-A-TAATATATATAACATATATA
3640171 TTAATTTATT
Statistics
Matches: 158, Mismatches: 14, Indels: 28
0.79 0.07 0.14
Matches are distributed among these distances:
221 8 0.05
222 13 0.08
223 10 0.06
224 14 0.09
225 4 0.03
226 6 0.04
227 90 0.57
228 2 0.01
229 11 0.07
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.43
Consensus pattern (224 bp):
TTACATATGAACATATATATAATTTATTAACGAACTATATAAACTATTTATATAGTATATACTAC
ATATATATATCTATATATAACTATATATATATATACACTATATATTATAAAATATACATATAAAC
TATATATAAAAACTATATATATATATAAATTATAATATATATAACATATATACTATAGTTGATAT
TTATATACTATAATATATAGTTTACATTA
Found at i:3640226 original size:26 final size:26
Alignment explanation
Indices: 3640155--3640227 Score: 121
Period size: 25 Copynumber: 2.8 Consensus size: 26
3640145 GTTCATTAGT
3640155 ATATATAACATATATATTAATTTATTA
1 ATATA-AACATATATATTAATTTATTA
*
3640182 TTATAAAC-TATATATTAATTTATTA
1 ATATAAACATATATATTAATTTATTA
3640207 ATATAAACATATATATTAATT
1 ATATAAACATATATATTAATT
3640228 GAAAAAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
25 24 0.56
26 15 0.35
27 4 0.09
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (26 bp):
ATATAAACATATATATTAATTTATTA
Found at i:3642797 original size:732 final size:732
Alignment explanation
Indices: 3641393--3643593 Score: 4267
Period size: 732 Copynumber: 3.0 Consensus size: 732
3641383 TGGTCGATCG
*
3641393 ATATGGCACAAAAATCGAGGTAATACTCTACTACCCTTTTTATACTTTTCAGAACCCATTGATAA
1 ATATGGCACAAAAATCGAGGTAATACTCTACTACCCTTTGTATACTTTTCAGAACCCATTGATAA
3641458 TTGGTATGTGCATGAATTAAATTGATCGGTCCATGAGATGTATTTAATTATCATTGGACTTAGAC
66 TTGGTATGTGCATGAATTAAATTGATCGGTCCATGAGATGTATTTAATTATCATTGGACTTAGAC
* *
3641523 GTAAATTGGATTAAGGACAAAACCCTCTAAAAGGATCAGACGACTCGAAAAAGAAATAGCTAGAA
131 GTAAATTGGATTAAGGACAAAACCCTGTAAAAGGCTCAGACGACTCGAAAAAGAAATAGCTAGAA
*
3641588 TAATCGAGAATAAACCTTAGTTCAATGATTTAATAAGTAAATCAATAAATCTCAGAACGCGTAAA
196 TAACCGAGAATAAACCTTAGTTCAATGATTTAATAAGTAAATCAATAAATCTCAGAACGCGTAAA
3641653 TTCTAATTAATCTCATTAAAGGTTAAATGTTGGAAATATTTGGATATAAAATTACCAAAAAGAGC
261 TTCTAATTAATCTCATTAAAGGTTAAATGTTGGAAATATTTGGATATAAAATTACCAAAAAGAGC
3641718 ACCATAGATAAATTACGAAAATGACCTTGTACTAAAAAAGAACCAAGACTTCCCCTAGTGGTTAA
326 ACCATAGATAAATTACGAAAATGACCTTGTACTAAAAAAGAACCAAGACTTCCCCTAGTGGTTAA
3641783 ATTAACCTCCAGTGAGCAAATGAGCAAAGTACTCTAAACTTTATTGGAAATGGAATACTTTCAAG
391 ATTAACCTCCAGTGAGCAAATGAGCAAAGTACTCTAAACTTTATTGGAAATGGAATACTTTCAAG
3641848 CCTAAGTTACTCGAAGTAATGCCACTGGCAGAATTGAATGAAATAACGATAATACCTTAAAAGAG
456 CCTAAGTTACTCGAAGTAATGCCACTGGCAGAATTGAATGAAATAACGATAATACCTTAAAAGAG
3641913 TAAAAAGTAATATGGATTGTTATGATAATGGAGACGACCTGAGAAGTTATATCATGATCCATTGG
521 TAAAAAGTAATATGGATTGTTATGATAATGGAGACGACCTGAGAAGTTATATCATGATCCATTGG
* *
3641978 AATCTTGTAATAACCGATTAAACTTCTCATTTATTTAAAATGCCCCTGAAGTATAAGATGATTTA
586 AATCTTGGAATCACCGATTAAACTTCTCATTTATTTAAAATGCCCCTGAAGTATAAGATGATTTA
3642043 AAGCATGCCCAAGCACTGGAATAACTAATACCCTCAAATATGAATTGAACAAATCAACCTCGAAT
651 AAGCATGCCCAAGCACTGGAATAACTAATACCCTCAAATATGAATTGAACAAATCAACCTCGAAT
3642108 ACCAAAATAACTATATT
716 ACCAAAATAACTATATT
*
3642125 ATATGGCACAAAAATCGAGGTAATACTTTACTACCCTTTGTATACTTTTCAGAACCCATTGATAA
1 ATATGGCACAAAAATCGAGGTAATACTCTACTACCCTTTGTATACTTTTCAGAACCCATTGATAA
3642190 TTGGTATGTGCATGAATTAAATTGATCGGTCCATGAGATGTATTTAATTATCATTGGACTTAGAC
66 TTGGTATGTGCATGAATTAAATTGATCGGTCCATGAGATGTATTTAATTATCATTGGACTTAGAC
3642255 GTAAATTGGATTAAGGACAAAACCCTGTAAAAGGCTCAGACGACTCGAAAAAGAAATAGCTAGAA
131 GTAAATTGGATTAAGGACAAAACCCTGTAAAAGGCTCAGACGACTCGAAAAAGAAATAGCTAGAA
3642320 TAACCGAGAATAAACCTTAGTTCAATGATTTAATAAGTAAATCAATAAATCTCAGAACGCGTAAA
196 TAACCGAGAATAAACCTTAGTTCAATGATTTAATAAGTAAATCAATAAATCTCAGAACGCGTAAA
3642385 TTCTAATTAATCTCATTAAAGGTTAAATGTTGGAAATATTTGGATATAAAATTACCAAAAAGAGC
261 TTCTAATTAATCTCATTAAAGGTTAAATGTTGGAAATATTTGGATATAAAATTACCAAAAAGAGC
3642450 ACCATAGATAAATTACGAAAATGACCTTGTACTAAAAAAGAACCAAGACTTCCCCTAGTGGTTAA
326 ACCATAGATAAATTACGAAAATGACCTTGTACTAAAAAAGAACCAAGACTTCCCCTAGTGGTTAA
3642515 ATTAACCTCCAGTGAGCAAATGAGCAAAGTACTCTAAACTTTATTGGAAATGGAATACTTTCAAG
391 ATTAACCTCCAGTGAGCAAATGAGCAAAGTACTCTAAACTTTATTGGAAATGGAATACTTTCAAG
3642580 CCTAAGTTACTCGAAGTAATGCCACTGGCAGAATTGAATGAAATAACGATAATACCTTAAAAGAG
456 CCTAAGTTACTCGAAGTAATGCCACTGGCAGAATTGAATGAAATAACGATAATACCTTAAAAGAG
3642645 TAAAAAGTAATATGGATTGTTATGATAATGGAGACGACCTGAGAAGTTATATCATGATCCATTGG
521 TAAAAAGTAATATGGATTGTTATGATAATGGAGACGACCTGAGAAGTTATATCATGATCCATTGG
3642710 AATCTTGGAATCACCGATTAAACTTCTCATTTATTTAAAATGCCCCTGAAGTATAAGATGATTTA
586 AATCTTGGAATCACCGATTAAACTTCTCATTTATTTAAAATGCCCCTGAAGTATAAGATGATTTA
*
3642775 AAGCATGCCCAAGCATTGGAATAACTAATACCCTCAAATATGAATTGAACAAATCAACCTCGAAT
651 AAGCATGCCCAAGCACTGGAATAACTAATACCCTCAAATATGAATTGAACAAATCAACCTCGAAT
3642840 ACCAAAATAACTATATT
716 ACCAAAATAACTATATT
*
3642857 ATATGGCACAAAAATTGAGGTAATACTCTACTACCCTTTGTATACTTTTCAGAACCCATTGATAA
1 ATATGGCACAAAAATCGAGGTAATACTCTACTACCCTTTGTATACTTTTCAGAACCCATTGATAA
*
3642922 TTGGTATGTGCATGAATTAAATTGATCGGTCCATGAGATGTATTTAATTATCATTAGACTTAGAC
66 TTGGTATGTGCATGAATTAAATTGATCGGTCCATGAGATGTATTTAATTATCATTGGACTTAGAC
*
3642987 GTAAATTGGATTAAGGACAAAACCCTGTAAAAGGCTCAGACGACTCAAAAAAGAAATAGCTAGAA
131 GTAAATTGGATTAAGGACAAAACCCTGTAAAAGGCTCAGACGACTCGAAAAAGAAATAGCTAGAA
3643052 TAACCGAGAATAAACCTTAGTTCAATGATTTAATAAGTAAATCAATAAATCTCAGAACGCGTAAA
196 TAACCGAGAATAAACCTTAGTTCAATGATTTAATAAGTAAATCAATAAATCTCAGAACGCGTAAA
3643117 TTCTAATTAATCTCATTAAAGGTTAAATGTTGGAAATATTTGGATATAAAATTACCAAAAAGAGC
261 TTCTAATTAATCTCATTAAAGGTTAAATGTTGGAAATATTTGGATATAAAATTACCAAAAAGAGC
3643182 ACCATAGATAAATTACGAAAATGACCTTGTACTAAAAAAGAACCAAGACTTCCCCTAGTGGTTAA
326 ACCATAGATAAATTACGAAAATGACCTTGTACTAAAAAAGAACCAAGACTTCCCCTAGTGGTTAA
3643247 ATTAACCTCCAGTGAGCAAATGAGCAAAGTACTCTAAACTTTATTGGAAATGGAATACTTTCAAG
391 ATTAACCTCCAGTGAGCAAATGAGCAAAGTACTCTAAACTTTATTGGAAATGGAATACTTTCAAG
3643312 CCTAAGTTACTCGAAGTAATGCCACTGGCAGAATTGAATGAAATAACGATAATACCTTAAAAGAG
456 CCTAAGTTACTCGAAGTAATGCCACTGGCAGAATTGAATGAAATAACGATAATACCTTAAAAGAG
*
3643377 TAAAAAGTAATATGGATTGTTATGATAATAGAGACGACCTGAGAAGTTATATCATGATCCATTGG
521 TAAAAAGTAATATGGATTGTTATGATAATGGAGACGACCTGAGAAGTTATATCATGATCCATTGG
*
3643442 AATCTTGGAATCACCGATTAAACATCTCATTTATTTAAAATGCCCCTGAAGTATAAGATGATTTA
586 AATCTTGGAATCACCGATTAAACTTCTCATTTATTTAAAATGCCCCTGAAGTATAAGATGATTTA
* *
3643507 AAGCATGCCCAAGCACTAGAATAACTAATACCCTCAAATATGAATTGAACAAATCAACCTCAAAT
651 AAGCATGCCCAAGCACTGGAATAACTAATACCCTCAAATATGAATTGAACAAATCAACCTCGAAT
3643572 ACCAAAATAACTATATT
716 ACCAAAATAACTATATT
3643589 ATATG
1 ATATG
3643594 ACGTAAGTAC
Statistics
Matches: 1452, Mismatches: 17, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
732 1452 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (732 bp):
ATATGGCACAAAAATCGAGGTAATACTCTACTACCCTTTGTATACTTTTCAGAACCCATTGATAA
TTGGTATGTGCATGAATTAAATTGATCGGTCCATGAGATGTATTTAATTATCATTGGACTTAGAC
GTAAATTGGATTAAGGACAAAACCCTGTAAAAGGCTCAGACGACTCGAAAAAGAAATAGCTAGAA
TAACCGAGAATAAACCTTAGTTCAATGATTTAATAAGTAAATCAATAAATCTCAGAACGCGTAAA
TTCTAATTAATCTCATTAAAGGTTAAATGTTGGAAATATTTGGATATAAAATTACCAAAAAGAGC
ACCATAGATAAATTACGAAAATGACCTTGTACTAAAAAAGAACCAAGACTTCCCCTAGTGGTTAA
ATTAACCTCCAGTGAGCAAATGAGCAAAGTACTCTAAACTTTATTGGAAATGGAATACTTTCAAG
CCTAAGTTACTCGAAGTAATGCCACTGGCAGAATTGAATGAAATAACGATAATACCTTAAAAGAG
TAAAAAGTAATATGGATTGTTATGATAATGGAGACGACCTGAGAAGTTATATCATGATCCATTGG
AATCTTGGAATCACCGATTAAACTTCTCATTTATTTAAAATGCCCCTGAAGTATAAGATGATTTA
AAGCATGCCCAAGCACTGGAATAACTAATACCCTCAAATATGAATTGAACAAATCAACCTCGAAT
ACCAAAATAACTATATT
Found at i:3644648 original size:14 final size:14
Alignment explanation
Indices: 3644611--3644649 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
3644601 GTCAACTCAC
3644611 TCCGAGTCAACCCG
1 TCCGAGTCAACCCG
* *
3644625 TCTGAGTCAACTCG
1 TCCGAGTCAACCCG
*
3644639 TCCGATTCAAC
1 TCCGAGTCAAC
3644650 ACGTTGACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (14 bp):
TCCGAGTCAACCCG
Found at i:3644709 original size:13 final size:13
Alignment explanation
Indices: 3644651--3644711 Score: 68
Period size: 14 Copynumber: 4.5 Consensus size: 13
3644641 CGATTCAACA
3644651 CGTTGACTTTGAC
1 CGTTGACTTTGAC
3644664 CTGTTGACTTTGAC
1 C-GTTGACTTTGAC
* *
3644678 TCATTGACTTTGAA
1 -CGTTGACTTTGAC
* *
3644692 GGTTGACTTTGGC
1 CGTTGACTTTGAC
3644705 CGTTGAC
1 CGTTGAC
3644712 CCGAATGGAG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
13 16 0.41
14 22 0.56
15 1 0.03
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (13 bp):
CGTTGACTTTGAC
Found at i:3647722 original size:14 final size:14
Alignment explanation
Indices: 3647703--3647740 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
3647693 ACTCAACACA
*
3647703 TTGACTTTGACCTG
1 TTGACTTTGACCCG
3647717 TTGACTTTGACCCG
1 TTGACTTTGACCCG
*
3647731 TTTACTTTGA
1 TTGACTTTGA
3647741 AGGTTGACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (14 bp):
TTGACTTTGACCCG
Found at i:3650397 original size:103 final size:101
Alignment explanation
Indices: 3650218--3650420 Score: 300
Period size: 103 Copynumber: 2.0 Consensus size: 101
3650208 TTGTATTCAT
* * *
3650218 CTTTTTTCATCTGTGTTCATCCCAAAAACCCTCATTTGATCTTCACAAACACAAAAACCCAAACC
1 CTTTTTTCATCTATATTCATCCCAAAAACCCTCATTTGATCTTCACAAACACAAAAACCCAAACA
*
3650283 ATTTTGTTTTTTTCGATCAAACACCAAAACATTCAACC
66 ATTTCGTTTTTTT--ATCAAACACCAAAACATTCAACC
* *
3650321 CTTTTTTCATCTATATTCATCCCAAAAACCCTCATTTGATCTTCACAAACAC-CAAACCCATACA
1 CTTTTTTCATCTATATTCATCCCAAAAACCCTCATTTGATCTTCACAAACACAAAAACCCAAACA
* *
3650385 ATTTCGTTTTTTTTATCAAACACCTAAATATTCAAC
66 ATTTCG-TTTTTTTATCAAACACCAAAACATTCAAC
3650421 AGTTGTTCAT
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
101 20 0.22
102 14 0.15
103 57 0.63
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (101 bp):
CTTTTTTCATCTATATTCATCCCAAAAACCCTCATTTGATCTTCACAAACACAAAAACCCAAACA
ATTTCGTTTTTTTATCAAACACCAAAACATTCAACC
Found at i:3650478 original size:109 final size:111
Alignment explanation
Indices: 3650354--3650553 Score: 253
Period size: 112 Copynumber: 1.8 Consensus size: 111
3650344 AAAAACCCTC
* * * * *
3650354 ATTTGATCTTCACAAACACCAAACCCAT-ACAATTTCGT-TTTTTTT-ATCAAACACCTAAATAT
1 ATTTGATCTTCACAAAAACCAAAACCATAACAA-TTCCTATTTTTTTAATCAAACACCCAAAAAT
* * *
3650416 TCAACAGTTGTTCATCCGTATTCATCCCATTTCTTCGCCAAACCATT
65 TAAACACTTGTTCATCCATATTCATCCCATTTCTTCGCCAAACCATT
* *
3650463 ATTTGATCTTTACAAAAACCAAAACCTTAACAATTCCTATTTTTTTCAATCAAACACCCAAAAAT
1 ATTTGATCTTCACAAAAACCAAAACCATAACAATTCCTATTTTTTT-AATCAAACACCCAAAAAT
* *
3650528 TAAACCCTTGTTCATCCATGTTCATC
65 TAAACACTTGTTCATCCATATTCATC
3650554 TGTGTTCTTC
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
109 28 0.37
110 11 0.15
112 36 0.48
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (111 bp):
ATTTGATCTTCACAAAAACCAAAACCATAACAATTCCTATTTTTTTAATCAAACACCCAAAAATT
AAACACTTGTTCATCCATATTCATCCCATTTCTTCGCCAAACCATT
Found at i:3650760 original size:12 final size:12
Alignment explanation
Indices: 3650740--3650773 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3650730 CATTTTTTCT
3650740 AACCCAAACCAG
1 AACCCAAACCAG
* *
3650752 AACCTAAACCTG
1 AACCCAAACCAG
3650764 AACCCAAACC
1 AACCCAAACC
3650774 CAAACCCGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.41, G:0.06, T:0.06
Consensus pattern (12 bp):
AACCCAAACCAG
Found at i:3650791 original size:18 final size:18
Alignment explanation
Indices: 3650740--3650791 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 18
3650730 CATTTTTTCT
* * *
3650740 AACCCAAACCAGAACCTA
1 AACCCGAACCCGAACCCA
* *
3650758 AACCTGAACCCAAACCCA
1 AACCCGAACCCGAACCCA
*
3650776 AACCCGATCCCGAACC
1 AACCCGAACCCGAACC
3650792 ATAACTCAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.42, C:0.44, G:0.08, T:0.06
Consensus pattern (18 bp):
AACCCGAACCCGAACCCA
Found at i:3653322 original size:20 final size:20
Alignment explanation
Indices: 3653307--3653394 Score: 122
Period size: 20 Copynumber: 4.4 Consensus size: 20
3653297 TTGATTTTGC
3653307 TTGATATTGTTTGATTCTAT
1 TTGATATTGTTTGATTCTAT
*
3653327 TTCATATTGTTTGATTCTAT
1 TTGATATTGTTTGATTCTAT
* * *
3653347 TTTATATTGTTTGCTTCTGT
1 TTGATATTGTTTGATTCTAT
* *
3653367 TTGATATTGCTTGATTCTAC
1 TTGATATTGTTTGATTCTAT
3653387 TTGATATT
1 TTGATATT
3653395 TGTAAGCGTT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.18, C:0.09, G:0.14, T:0.59
Consensus pattern (20 bp):
TTGATATTGTTTGATTCTAT
Found at i:3653341 original size:40 final size:40
Alignment explanation
Indices: 3653294--3653394 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 40
3653284 CAATAGTTGG
* *
3653294 TGCTTGATTTTGCTTGATATTGTTTGATTCTATTTCATAT
1 TGCTTGATTCTACTTGATATTGTTTGATTCTATTTCATAT
* * * * * *
3653334 TGTTTGATTCTATTTTATATTGTTTGCTTCTGTTTGATAT
1 TGCTTGATTCTACTTGATATTGTTTGATTCTATTTCATAT
3653374 TGCTTGATTCTACTTGATATT
1 TGCTTGATTCTACTTGATATT
3653395 TGTAAGCGTT
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.17, C:0.10, G:0.15, T:0.58
Consensus pattern (40 bp):
TGCTTGATTCTACTTGATATTGTTTGATTCTATTTCATAT
Found at i:3654115 original size:27 final size:25
Alignment explanation
Indices: 3654067--3654119 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 25
3654057 GACAATAACT
3654067 AAATTTAATTTAATGATTATAAATA
1 AAATTTAATTTAATGATTATAAATA
3654092 AAATTTATATTATAA-GAATTATAAATA
1 AAATTTA-ATT-TAATG-ATTATAAATA
3654119 A
1 A
3654120 TATAAAGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 7 0.28
26 4 0.16
27 14 0.56
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
AAATTTAATTTAATGATTATAAATA
Found at i:3654129 original size:19 final size:19
Alignment explanation
Indices: 3654105--3654144 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3654095 TTTATATTAT
*
3654105 AAGAATTATAAATAATATA
1 AAGAATTAGAAATAATATA
* *
3654124 AAGAATTGGAATTAATATA
1 AAGAATTAGAAATAATATA
3654143 AA
1 AA
3654145 AACCAAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (19 bp):
AAGAATTAGAAATAATATA
Found at i:3654302 original size:16 final size:16
Alignment explanation
Indices: 3654281--3654311 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3654271 TTACTTATAG
3654281 GTCAGGTAAATATCAA
1 GTCAGGTAAATATCAA
3654297 GTCAGGTAAATATCA
1 GTCAGGTAAATATCA
3654312 CATCATTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (16 bp):
GTCAGGTAAATATCAA
Found at i:3655438 original size:15 final size:16
Alignment explanation
Indices: 3655413--3655442 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3655403 TATGCATGCA
3655413 AAAATTATTTTTGGTT
1 AAAATTATTTTTGGTT
3655429 AAAA-TATTTTTGGT
1 AAAATTATTTTTGGT
3655443 CGAGCTCCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (16 bp):
AAAATTATTTTTGGTT
Found at i:3673609 original size:14 final size:15
Alignment explanation
Indices: 3673576--3673632 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 15
3673566 AAAGACCGAA
3673576 AATTAATAATAATAT
1 AATTAATAATAATAT
3673591 AATTAA-AATAAT-T
1 AATTAATAATAATAT
3673604 ACATTAATTAA-AA-A-
1 A-ATTAA-TAATAATAT
3673618 AATTAGATAATAATA
1 AATTA-ATAATAATA
3673633 ATAACACTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
13 9 0.26
14 15 0.43
15 9 0.26
16 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
AATTAATAATAATAT
Found at i:3674307 original size:31 final size:31
Alignment explanation
Indices: 3674269--3674335 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
3674259 ATCTGTCAGT
*
3674269 AATTTGTGACGGA-TCCACATATTTCATCACA
1 AATTTGTGA-GGAGTCCACATATTCCATCACA
* *
3674300 AATTTGTGATGAGTCCATATATTCCATCACA
1 AATTTGTGAGGAGTCCACATATTCCATCACA
3674331 AATTT
1 AATTT
3674336 AAAAAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 2 0.06
31 30 0.94
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (31 bp):
AATTTGTGAGGAGTCCACATATTCCATCACA
Found at i:3675478 original size:51 final size:51
Alignment explanation
Indices: 3675396--3675504 Score: 173
Period size: 51 Copynumber: 2.1 Consensus size: 51
3675386 TATTTAATGC
* *
3675396 ATATTTTTTTATTTTCGACGGAATGGCTATTCCATCACAAATTAAATTGCT
1 ATATTTTTTTATTTCCGACGGAATGACTATTCCATCACAAATTAAATTGCT
* * *
3675447 ATATTTTTTTATTTCCGACGGAATGATTATTCCATCACAAATTAATTTGGT
1 ATATTTTTTTATTTCCGACGGAATGACTATTCCATCACAAATTAAATTGCT
3675498 ATATTTT
1 ATATTTT
3675505 AATTAAAGTT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (51 bp):
ATATTTTTTTATTTCCGACGGAATGACTATTCCATCACAAATTAAATTGCT
Found at i:3683064 original size:615 final size:608
Alignment explanation
Indices: 3681717--3683162 Score: 2073
Period size: 615 Copynumber: 2.4 Consensus size: 608
3681707 ACCAAATGGT
* * *
3681717 GACACATGGTATCATTTGATGGAAAGATTAAATTTATTTTCATTTATTAAAAGTATGACTAAATT
1 GACACATGGCATCATTTGATTGAAAGATTAAATTTATTTTAATTTATTAAAAGTATGACTAAATT
* *
3681782 AAGAGAATATGCAAATAATATGGACCAAATGTGTGAATATACCAAAATATTTAACTACCACGTCA
66 AAGAGAATATGTAAATAATATGGA-CAAATGTGTGAATATACCAAAATATTTAACTACCACATCA
* *
3681847 CCTAATTTGTTAATTGTTAACGATAGTTAACTCATGGTGACCACATCTTAATTAAATAAAAATGA
130 CCTAATCTGTTAACTGTTAACGATAGTTAACTCATGGTGACCACATCTTAATTAAATAAAAATGA
* *
3681912 AATTGACCATATATTATGTTTTTGAAATCAGTGAGAAAAAAGGGACAAAACAAAAATATAAGTGA
195 AAGTGACCATATATTATGTTTTTGAAATCAGTGAG-AAAAAGGGACAAAACAAAAATATAAGCGA
*
3681977 TCAATCATGTAATTAATCCTTTTTTAGCTTATTGATAATAAATACATTCTGCAGTCTTTAAGGGA
259 TCAATCATGTAATTAATCCTTTTTTAGCATATTGATAATAAATACATTCTGCAGTCTTTAAGGGA
3682042 AAACAACACCCTTTTTACCATTAAAATTAAGAGATAACAATATTCCTTTTACTATTAAGATCACT
324 AAACAACACCCTTTTTACCATTAAAATTAAGAGATAACAATATTCCTTTTACTATTAAGATCACT
* *
3682107 CAATATGTAACATAAAAAATAATTAATAAGAAAATAACTCATTCAATACATGCTAGGACCATCTA
389 CAATATGTAACATAAAAAATAATTAATAAAAAAACAACTCATTCAATACATGCTAGGACCATCTA
3682172 GCCCTATTACCATCTTCCTTTTGGCCCCAATTTATTTCCTTTGTTTTCTTTCAACCAGAGGGTGA
454 GCCCTATTACCATCTTCCTTTTGGCCCCAATTTATTTCCTTTGTTTTCTTTCAACC----GGTGA
** * **
3682237 CACGTGTTATTATATGATTGGTTGAAAATAAATATATTAAATTAAAATAAATTAAAAGAAAGTTA
515 -ACGTGTTACCATATAATTGAATGAAAATAAATATATTAAATTAAAATAAATTAAAAGAAAGTTA
*
3682302 ATCCTTCAACCAAATGGTGACATGTGATAC
579 ATCCTTCAACCAAATGGTGACATGTGACAC
* * * *
3682332 GACACGTGGCATCGTTTGATTGAAAGATTAAATTTATTTTAATTTATTAAAAGTATGACTTATTT
1 GACACATGGCATCATTTGATTGAAAGATTAAATTTATTTTAATTTATTAAAAGTATGACTAAATT
* *
3682397 AAGAGAATATGTAAATAATATGAACAAAATGTGTGAATATACCAAAATATTTAACTGCCACATCA
66 AAGAGAATATGTAAATAATATGGAC-AAATGTGTGAATATACCAAAATATTTAACTACCACATCA
* * * *
3682462 CCAAATCTGTTAACTGTTAATGATAGTTAACTCGTGGTGACCAAATCTTAATTAAATAAAAATGA
130 CCTAATCTGTTAACTGTTAACGATAGTTAACTCATGGTGACCACATCTTAATTAAATAAAAATGA
* * * *
3682527 AAGTGGCCATATATCATGTTTTTGAAATTAGTGAG-AAAAGTGGACAAAACACAAATATAAGCGA
195 AAGTGACCATATATTATGTTTTTGAAATCAGTGAGAAAAAG-GGACAAAACAAAAATATAAGCGA
3682591 TCAATCATGTAATTAA-CCAAATTTTTATAGCATATTGATAATAAATACATTCTGCAGTCTTTAA
259 TCAATCATGTAATTAATCC---TTTTT-TAGCATATTGATAATAAATACATTCTGCAGTCTTTAA
* *
3682655 GGGAAAACAACACCCTTTTTATCATTAAAATTAAGAGATAACAATATTTCTTTTACTATTAAGAT
320 GGGAAAACAACACCCTTTTTACCATTAAAATTAAGAGATAACAATATTCCTTTTACTATTAAGAT
* * * * *
3682720 CACTCAATATGTTAACCTAATAAATATTTAATAAAAAAACAATTCATTCAAATACAAAACATGTT
385 CACTCAATATG-TAACATAAAAAATAATTAATAAAAAAACAACTCATTC-AAT-----ACATGCT
* * *
3682785 AGGACCGTCTAGCCCTATTACCATCTTCCTTTTGGCCCCCACTTTCTTTCCTTTGTTTTCTTTCA
443 AGGACCATCTAGCCCTATTACCATCTTCCTTTTGG-CCCCAATTTATTTCCTTTGTTTTCTTTCA
* * * * * *
3682850 A-C-TTG-ACGTGTTACCCTCTAATTGAATGAAAATATATATATTAAGTTAAAATATATTAAAA-
507 ACCGGTGAACGTGTTACCATATAATTGAATGAAAATAAATATATTAAATTAAAATAAATTAAAAG
* * *
3682911 TAAGTTAGTCC-TCTAACTGAAA-GGTGACATGTGACAC
572 AAAGTTAATCCTTC-AAC-CAAATGGTGACATGTGACAC
* * *
3682948 GATACATGGCATCATTTGATTGAAATATTAAATTTATTTTAATTTATTAAAAGTATGGCTAAATT
1 GACACATGGCATCATTTGATTGAAAGATTAAATTTATTTTAATTTATTAAAAGTATGACTAAATT
* * *
3683013 -AGAGAATATGTAAATAAAAGGGACAACATGTGTGAATATACCAAAATATTTAACTACTACATCA
66 AAGAGAATATGTAAATAATATGGACAA-ATGTGTGAATATACCAAAATATTTAACTACCACATCA
* *
3683077 CCTAATCTATTAACTGTTAACGATAGTTAACTCATGGTGACGACATCTTAATTAAATAAAAATGA
130 CCTAATCTGTTAACTGTTAACGATAGTTAACTCATGGTGACCACATCTTAATTAAATAAAAATGA
*
3683142 AAGTTACCATATATTATGTTT
195 AAGTGACCATATATTATGTTT
3683163 CTCAAATTTT
Statistics
Matches: 742, Mismatches: 72, Indels: 34
0.88 0.08 0.04
Matches are distributed among these distances:
613 7 0.01
614 40 0.05
615 342 0.46
616 89 0.12
617 159 0.21
618 31 0.04
619 5 0.01
624 41 0.06
625 28 0.04
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (608 bp):
GACACATGGCATCATTTGATTGAAAGATTAAATTTATTTTAATTTATTAAAAGTATGACTAAATT
AAGAGAATATGTAAATAATATGGACAAATGTGTGAATATACCAAAATATTTAACTACCACATCAC
CTAATCTGTTAACTGTTAACGATAGTTAACTCATGGTGACCACATCTTAATTAAATAAAAATGAA
AGTGACCATATATTATGTTTTTGAAATCAGTGAGAAAAAGGGACAAAACAAAAATATAAGCGATC
AATCATGTAATTAATCCTTTTTTAGCATATTGATAATAAATACATTCTGCAGTCTTTAAGGGAAA
ACAACACCCTTTTTACCATTAAAATTAAGAGATAACAATATTCCTTTTACTATTAAGATCACTCA
ATATGTAACATAAAAAATAATTAATAAAAAAACAACTCATTCAATACATGCTAGGACCATCTAGC
CCTATTACCATCTTCCTTTTGGCCCCAATTTATTTCCTTTGTTTTCTTTCAACCGGTGAACGTGT
TACCATATAATTGAATGAAAATAAATATATTAAATTAAAATAAATTAAAAGAAAGTTAATCCTTC
AACCAAATGGTGACATGTGACAC
Found at i:3685485 original size:196 final size:197
Alignment explanation
Indices: 3685151--3685535 Score: 763
Period size: 196 Copynumber: 2.0 Consensus size: 197
3685141 TTAGAATGAC
3685151 TGGTTAGAGCCGTATTATCGAGTTTGCCTTTTCATTATGACTAGGAGGGTTTGATAGGACATTTA
1 TGGTTAGAGCCGTATTATCGAGTTTGCCTTTTCATTATGACTAGGAGGGTTTGATAGGACATTTA
3685216 TCTAACTATTTCATCTTCCATAAGTCATCTTCACCTTCCCTCATTGTTTCCGCCTATTACATAAA
66 TCTAACTATTTCATCTTCCATAAGTCATCTTCACCTTCCCTCATTGTTTCCGCCTATTACATAAA
3685281 ACCCTAGGGTTCTTGCGTCAGGCATTATATCACCGA-GGAAAATATTCAAATCATTTTTGATTAG
131 ACCCTAGGGTTCTTGCGTCAGGCATTATATCACCGAGGGAAAATATTCAAATCATTTTTGATTAG
3685345 AA
196 AA
3685347 TGGTTAGAGCCGTATTATCGAGTTTGCCTTTTCATTATGACTAGGAGGGTTTGATAGGACATTTA
1 TGGTTAGAGCCGTATTATCGAGTTTGCCTTTTCATTATGACTAGGAGGGTTTGATAGGACATTTA
3685412 TCTAACTATTTCATCTTCCATAAGTCATCTTCACCTTCCCTCATTGTTTCCGCCTATTACATAAA
66 TCTAACTATTTCATCTTCCATAAGTCATCTTCACCTTCCCTCATTGTTTCCGCCTATTACATAAA
3685477 ACCCTAGGGTTCTTGCGTCAGGCATTATATCACCGAGGGAAAATATTCAAATCATTTTT
131 ACCCTAGGGTTCTTGCGTCAGGCATTATATCACCGAGGGAAAATATTCAAATCATTTTT
3685536 CCTATCAATG
Statistics
Matches: 188, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
196 166 0.88
197 22 0.12
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (197 bp):
TGGTTAGAGCCGTATTATCGAGTTTGCCTTTTCATTATGACTAGGAGGGTTTGATAGGACATTTA
TCTAACTATTTCATCTTCCATAAGTCATCTTCACCTTCCCTCATTGTTTCCGCCTATTACATAAA
ACCCTAGGGTTCTTGCGTCAGGCATTATATCACCGAGGGAAAATATTCAAATCATTTTTGATTAG
AA
Found at i:3692454 original size:22 final size:22
Alignment explanation
Indices: 3692428--3692522 Score: 190
Period size: 22 Copynumber: 4.3 Consensus size: 22
3692418 CGGTAAATCT
3692428 AATTGAATAGAAATTTTGAGAA
1 AATTGAATAGAAATTTTGAGAA
3692450 AATTGAATAGAAATTTTGAGAA
1 AATTGAATAGAAATTTTGAGAA
3692472 AATTGAATAGAAATTTTGAGAA
1 AATTGAATAGAAATTTTGAGAA
3692494 AATTGAATAGAAATTTTGAGAA
1 AATTGAATAGAAATTTTGAGAA
3692516 AATTGAA
1 AATTGAA
3692523 GGATATTAAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 73 1.00
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.32
Consensus pattern (22 bp):
AATTGAATAGAAATTTTGAGAA
Found at i:3695408 original size:90 final size:89
Alignment explanation
Indices: 3695255--3695429 Score: 278
Period size: 90 Copynumber: 2.0 Consensus size: 89
3695245 CCTAACACAC
* * * *
3695255 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGAGATTTTATTATTTCAAATTAATTAAATCTAT
*
3695320 ATTTAATTAATTAGAATTTAATAAT
66 ATTTAATTAATT-GAAATTAATAAT
* *
3695345 CCTTTTATATCCGAGTTACCCTAATCATATCAGAGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGAGATTTTATTATTTCAAATTAATTAAATCTAT
3695410 ATTTAATTAATTGAAATTAA
66 ATTTAATTAATTGAAATTAA
3695430 ATATTCAGGA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 7 0.09
90 71 0.91
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.45
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGAGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAATAAT
Found at i:3699819 original size:14 final size:14
Alignment explanation
Indices: 3699800--3699850 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
3699790 AATGAAATAA
3699800 AATTAATAATTTAT
1 AATTAATAATTTAT
*
3699814 AATTAA-AAGCTTAT
1 AATTAATAA-TTTAT
* *
3699828 AACTAATAATTTAC
1 AATTAATAATTTAT
*
3699842 AAGTAATAA
1 AATTAATAA
3699851 AATAAAATGA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 2 0.07
14 26 0.87
15 2 0.07
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (14 bp):
AATTAATAATTTAT
Found at i:3701427 original size:17 final size:18
Alignment explanation
Indices: 3701402--3701447 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
3701392 ATGGAATTGA
* *
3701402 ATTCCAATTCC-TGACAG
1 ATTCTAATTCCTTCACAG
*
3701419 ATTCTAATTCCTTCACAT
1 ATTCTAATTCCTTCACAG
3701437 ATTCTAATTCC
1 ATTCTAATTCC
3701448 CTAAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.39
Consensus pattern (18 bp):
ATTCTAATTCCTTCACAG
Found at i:3701981 original size:21 final size:19
Alignment explanation
Indices: 3701934--3701972 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
3701924 TCAAAATTAC
3701934 ATGTTTTACCATTTTCCTT
1 ATGTTTTACCATTTTCCTT
3701953 ATGATTTTCACCATTTTCCT
1 ATG-TTTT-ACCATTTTCCT
3701973 CTTTGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 4 0.22
21 11 0.61
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.54
Consensus pattern (19 bp):
ATGTTTTACCATTTTCCTT
Found at i:3704149 original size:2 final size:2
Alignment explanation
Indices: 3704142--3704172 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3704132 AAAAATCACA
3704142 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3704173 AATACTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3708653 original size:14 final size:15
Alignment explanation
Indices: 3708614--3708667 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
3708604 TTTTATGCAC
*
3708614 ATTTAAATTTTT-TT
1 ATTTTAATTTTTATT
* *
3708628 CTTTTACTTTTTATT
1 ATTTTAATTTTTATT
3708643 -TATTTAATTTTTATT
1 AT-TTTAATTTTTATT
3708658 ATTTTAATTT
1 ATTTTAATTT
3708668 ACTATTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
14 10 0.30
15 22 0.67
16 1 0.03
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTTTAATTTTTATT
Found at i:3711661 original size:17 final size:16
Alignment explanation
Indices: 3711624--3711662 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
3711614 TAAAATTAAA
*
3711624 AAAAAATAGAAAAATC
1 AAAAAATAGAAAAAGC
*
3711640 CAAAAATGAGAAAAAGC
1 AAAAAAT-AGAAAAAGC
3711657 AAAAAA
1 AAAAAA
3711663 AAAAAACCCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.74, C:0.08, G:0.10, T:0.08
Consensus pattern (16 bp):
AAAAAATAGAAAAAGC
Found at i:3713149 original size:20 final size:20
Alignment explanation
Indices: 3713124--3713164 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
3713114 CACTCTCATT
*
3713124 TGTGCATATTTGCATTTGCA
1 TGTGCATATTTGCATTAGCA
*
3713144 TGTGCATCTTTGCATTAGCA
1 TGTGCATATTTGCATTAGCA
3713164 T
1 T
3713165 ATATACATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.44
Consensus pattern (20 bp):
TGTGCATATTTGCATTAGCA
Found at i:3718685 original size:13 final size:12
Alignment explanation
Indices: 3718658--3718682 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3718648 TTTTCCCTTT
3718658 CACTCTTTTCCC
1 CACTCTTTTCCC
3718670 CACTCTTTTCCC
1 CACTCTTTTCCC
3718682 C
1 C
3718683 CACGAACAGT
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:0.08, C:0.52, G:0.00, T:0.40
Consensus pattern (12 bp):
CACTCTTTTCCC
Found at i:3721522 original size:13 final size:13
Alignment explanation
Indices: 3721500--3721538 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3721490 TTAGATTTCG
*
3721500 ATAGTAAGGCATA
1 ATAGTGAGGCATA
3721513 ATAGTGAGGCATA
1 ATAGTGAGGCATA
3721526 ATAGTGAGGCATA
1 ATAGTGAGGCATA
3721539 CCAGGTGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.28, T:0.23
Consensus pattern (13 bp):
ATAGTGAGGCATA
Found at i:3730000 original size:36 final size:35
Alignment explanation
Indices: 3729960--3730075 Score: 108
Period size: 36 Copynumber: 3.2 Consensus size: 35
3729950 TGTCTCGTGG
* *
3729960 AAGATGAAATGTGTTTTAAGAAAAATAATAT-TAAGT
1 AAGATAAAAT-TGTTTTAAGAAAAACAATATCT-AGT
* *
3729996 AAGATAAAATTCGTTTTGAGAAAAACAATCTCTAGT
1 AAGATAAAATT-GTTTTAAGAAAAACAATATCTAGT
* * * *
3730032 GAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGT
1 AAGATAAAA-TTGTTTTAAGAAAAACAATATCTAGT
*
3730068 GAGATAAA
1 AAGATAAA
3730076 TCTTGAGTGA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
35 1 0.01
36 64 0.94
37 3 0.04
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.29
Consensus pattern (35 bp):
AAGATAAAATTGTTTTAAGAAAAACAATATCTAGT
Found at i:3730520 original size:116 final size:116
Alignment explanation
Indices: 3730400--3730706 Score: 413
Period size: 116 Copynumber: 2.7 Consensus size: 116
3730390 TCACCTTCTC
* *
3730400 CTGTGATGGATGAGTTAAGGTTGAACAATTTATTCTCATTATGAACTTATTCTCCCTCATCGGAT
1 CTGTGATGGATGAGTTAAGGTTGAACAATTTATTCTCATTAGGAACTTCTTCTCCCTCATCGGAT
* *
3730465 AAGTTTTTCTCATTATGAACCATTTCATTGGAAATGTTGACCCATCTCCTT
66 AAGTTCTTCTCATTATGAACCATTTCATTAGAAATGTTGACCCATCTCCTT
* *
3730516 CTGTGATGGACGAGTTAAGGTTGAACAAGTTT-TTCTCATTAGGAACGTCTTCTCCCTCATCGGA
1 CTGTGATGGATGAGTTAAGGTTGAACAA-TTTATTCTCATTAGGAACTTCTTCTCCCTCATCGGA
* * * * *
3730580 TGAGTTCTTCTCATTATGAACCCTTTCATTAGAAATGTTGATCTATCTCTTT
65 TAAGTTCTTCTCATTATGAACCATTTCATTAGAAATGTTGACCCATCTCCTT
*** * * * *
3730632 CTGTGATGGATGAACCAA-GTTGAACAAGTTATTCTCATTAGGAACTTCTTCTACCTAATTGGA-
1 CTGTGATGGATGAGTTAAGGTTGAACAATTTATTCTCATTAGGAACTTCTTCTCCCTCATCGGAT
3730695 AGAGTTCTTCTC
66 A-AGTTCTTCTC
3730707 GTTAGGAAAT
Statistics
Matches: 167, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
114 2 0.01
115 47 0.28
116 115 0.69
117 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.38
Consensus pattern (116 bp):
CTGTGATGGATGAGTTAAGGTTGAACAATTTATTCTCATTAGGAACTTCTTCTCCCTCATCGGAT
AAGTTCTTCTCATTATGAACCATTTCATTAGAAATGTTGACCCATCTCCTT
Found at i:3731230 original size:17 final size:17
Alignment explanation
Indices: 3731208--3731241 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3731198 TTTACTAAGT
3731208 GAGAAACTTTGGAAATC
1 GAGAAACTTTGGAAATC
3731225 GAGAAACTTTGGAAATC
1 GAGAAACTTTGGAAATC
3731242 ATTTTTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (17 bp):
GAGAAACTTTGGAAATC
Found at i:3731305 original size:21 final size:21
Alignment explanation
Indices: 3731272--3731395 Score: 62
Period size: 20 Copynumber: 6.0 Consensus size: 21
3731262 CATATGAAGA
*
3731272 CATCATGCCCGAAGGACTTAT
1 CATCATGCCCGAAAGACTTAT
* *
3731293 CATCTTGCTCGAAAGACTTAT
1 CATCATGCCCGAAAGACTTAT
* * *
3731314 -A-GATGACCCGAATGATTTAAT
1 CATCATG-CCCGAAAGACTT-AT
* * *
3731335 CATCATGCTCAAAAGATTTA-
1 CATCATGCCCGAAAGACTTAT
* *
3731355 C-TGATGGCCCGAAGGACTTA-
1 CATCAT-GCCCGAAAGACTTAT
*
3731375 CAT-ATTGCTCGAAAGACTTAT
1 CATCA-TGCCCGAAAGACTTAT
3731396 ATATGACTTG
Statistics
Matches: 76, Mismatches: 19, Indels: 16
0.68 0.17 0.14
Matches are distributed among these distances:
19 5 0.07
20 35 0.46
21 23 0.30
22 10 0.13
23 3 0.04
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (21 bp):
CATCATGCCCGAAAGACTTAT
Found at i:3731338 original size:42 final size:42
Alignment explanation
Indices: 3731279--3731484 Score: 158
Period size: 42 Copynumber: 5.0 Consensus size: 42
3731269 AGACATCATG
* * *
3731279 CCCGAAGGACTT-ATCATCTTGCTCGAAAGACTTATAGATGA
1 CCCGAAGGATTTAATCATCATGCTCAAAAGACTTATAGATGA
* * *
3731320 CCCGAATGATTTAATCATCATGCTCAAAAGATTTACT-GATGG
1 CCCGAAGGATTTAATCATCATGCTCAAAAGACTTA-TAGATGA
* * *
3731362 CCCGAAGGACTT-A-CAT-ATTGCTCGAAAGACTTATATATGA
1 CCCGAAGGATTTAATCATCA-TGCTCAAAAGACTTATAGATGA
** *
3731402 CTTGAAGGGTTTAATCATCATGCTCAAAAGACTTAATA-ATG-
1 CCCGAAGGATTTAATCATCATGCTCAAAAGACTT-ATAGATGA
* * ** *
3731443 GCCTAGAGG-TCTTAATCATCATGCTTGAAAGACTTATTGATG
1 CCCGA-AGGAT-TTAATCATCATGCTCAAAAGACTTATAGATG
3731485 GCCCAGGGGA
Statistics
Matches: 130, Mismatches: 24, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
39 2 0.02
40 27 0.21
41 16 0.12
42 80 0.62
43 5 0.04
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (42 bp):
CCCGAAGGATTTAATCATCATGCTCAAAAGACTTATAGATGA
Found at i:3731416 original size:82 final size:83
Alignment explanation
Indices: 3731278--3731484 Score: 249
Period size: 82 Copynumber: 2.5 Consensus size: 83
3731268 AAGACATCAT
* *
3731278 GCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAATGATTTAATCATCATGC
1 GCCCGAAGGACTTATCATATTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAATCATCATGC
3731343 TCAAAAGATTTACTGATG
66 TCAAAAGATTTACTGATG
* ** *
3731361 GCCCGAAGGACTTA-CATATTGCTCGAAAGACTTATATATGACTTGAAGGGTTTAATCATCATGC
1 GCCCGAAGGACTTATCATATTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAATCATCATGC
* * *
3731425 TCAAAAGACTTAATAATG
66 TCAAAAGATTTACTGATG
* * * *
3731443 G-CCTAGAGGTCTTAATCATCA-TGCTTGAAAGACTTATTGATG
1 GCCCGA-AGGACTT-ATCAT-ATTGCTCGAAAGACTTATAGATG
3731485 GCCCAGGGGA
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
81 3 0.03
82 66 0.62
83 15 0.14
84 21 0.20
85 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (83 bp):
GCCCGAAGGACTTATCATATTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAATCATCATGC
TCAAAAGATTTACTGATG
Found at i:3735086 original size:6 final size:6
Alignment explanation
Indices: 3735069--3735143 Score: 62
Period size: 6 Copynumber: 11.8 Consensus size: 6
3735059 ATGTTCAAAT
* * *
3735069 AAATGC -AATGC AAATGC AAAATGC AAATGC AAAATGC AAAGATGT GAATGT
1 AAATGC AAATGC AAATGC -AAATGC AAATGC -AAATGC -AA-ATGC AAATGC
*
3735120 AAATAC AGAATGC AAATGC AAATG
1 AAATGC A-AATGC AAATGC AAATG
3735144 GCGTTGATCC
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
5 5 0.09
6 29 0.50
7 21 0.36
8 3 0.05
ACGTcount: A:0.51, C:0.12, G:0.19, T:0.19
Consensus pattern (6 bp):
AAATGC
Found at i:3735092 original size:7 final size:7
Alignment explanation
Indices: 3735075--3735108 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
3735065 AAATAAATGC
3735075 AATGC-A
1 AATGCAA
3735081 AATGCAA
1 AATGCAA
3735088 AATGC-A
1 AATGCAA
3735094 AATGCAA
1 AATGCAA
3735101 AATGCAA
1 AATGCAA
3735108 A
1 A
3735109 GATGTGAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 11 0.42
7 15 0.58
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (7 bp):
AATGCAA
Found at i:3735093 original size:13 final size:13
Alignment explanation
Indices: 3735075--3735108 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
3735065 AAATAAATGC
3735075 AATGCAAATGCAA
1 AATGCAAATGCAA
3735088 AATGCAAATGCAA
1 AATGCAAATGCAA
3735101 AATGCAAA
1 AATGCAAA
3735109 GATGTGAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (13 bp):
AATGCAAATGCAA
Found at i:3735731 original size:16 final size:17
Alignment explanation
Indices: 3735703--3735735 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
3735693 GAAATGGGTC
3735703 CTACCCAGACATGCTTT
1 CTACCCAGACATGCTTT
3735720 CTACCC-GACATGCTTT
1 CTACCCAGACATGCTTT
3735736 ATTTCAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.30
Consensus pattern (17 bp):
CTACCCAGACATGCTTT
Found at i:3743698 original size:34 final size:32
Alignment explanation
Indices: 3743632--3743701 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
3743622 ATCTTACAAC
* *
3743632 TCCCTAGTTTTTCCGGGCTAAACTAAAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAAAACCTT
* *
3743664 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAAAACCTT
3743698 TCCC
1 TCCC
3743702 CTTTGCAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAAAACCTT
Found at i:3744146 original size:20 final size:20
Alignment explanation
Indices: 3744068--3744137 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
3744058 GCAGCCTTGG
*
3744068 TGCATGGATGCACAACAGGA
1 TGCATCGATGCACAACAGGA
3744088 TGCATCGATGCACAACAGGA
1 TGCATCGATGCACAACAGGA
*
3744108 TGCATCGATGCACAGCAGGA
1 TGCATCGATGCACAACAGGA
*
3744128 TGCATGGATG
1 TGCATCGATG
3744138 TACTGCAGGG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.31, C:0.21, G:0.30, T:0.17
Consensus pattern (20 bp):
TGCATCGATGCACAACAGGA
Found at i:3744410 original size:21 final size:21
Alignment explanation
Indices: 3744386--3744425 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3744376 ATGTTTAATG
3744386 AAAAAAATACCAATTGTTAAC
1 AAAAAAATACCAATTGTTAAC
** *
3744407 AAAATGATATCAATTGTTA
1 AAAAAAATACCAATTGTTA
3744426 CCAATTGTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (21 bp):
AAAAAAATACCAATTGTTAAC
Found at i:3746091 original size:14 final size:15
Alignment explanation
Indices: 3746074--3746102 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3746064 TCTTCTTGTT
3746074 TTTCTT-ATCTTCCC
1 TTTCTTCATCTTCCC
3746088 TTTCTTCATCTTCCC
1 TTTCTTCATCTTCCC
3746103 ATCTCATGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.07, C:0.38, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTCTTCATCTTCCC
Found at i:3750038 original size:24 final size:25
Alignment explanation
Indices: 3750011--3750102 Score: 109
Period size: 24 Copynumber: 3.8 Consensus size: 25
3750001 AAAACAAAAT
* *
3750011 AGAATTCAGATAAGATATCAAG-AC
1 AGAATTCAGATCAGAAATCAAGAAC
* *
3750035 AGAATCCAAATCAGAAATC-AGAAC
1 AGAATTCAGATCAGAAATCAAGAAC
3750059 AGAATTCAGATCAGAAATC-AGAAC
1 AGAATTCAGATCAGAAATCAAGAAC
* *
3750083 AAAATTCAAATCAGAAATCA
1 AGAATTCAGATCAGAAATCA
3750103 GATAAAATAT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
23 2 0.03
24 56 0.97
ACGTcount: A:0.53, C:0.16, G:0.13, T:0.17
Consensus pattern (25 bp):
AGAATTCAGATCAGAAATCAAGAAC
Done.